format-version: 1.2 data-version: releases/2022-03-09 subsetdef: 1_STAR "" subsetdef: 2_STAR "" subsetdef: 3_STAR "" subsetdef: abnormal_slim "" subsetdef: added_for_HCA "" subsetdef: Angiosperm "" subsetdef: Arabidopsis "" subsetdef: attribute_slim "" subsetdef: cell_quality "" subsetdef: Citrus "" subsetdef: CL "" subsetdef: cumbo "" subsetdef: developmental_classification "" subsetdef: disposition_slim "" subsetdef: early_development "" subsetdef: efo_slim "" subsetdef: emapa_ehdaa2 "" subsetdef: functional_classification "" subsetdef: gocheck_do_not_annotate "" subsetdef: gocheck_do_not_manually_annotate "" subsetdef: goslim_agr "" subsetdef: goslim_aspergillus "" subsetdef: goslim_candida "" subsetdef: goslim_chembl "" subsetdef: goslim_drosophila "" subsetdef: goslim_flybase_ribbon "" subsetdef: goslim_generic "" subsetdef: goslim_metagenomics "" subsetdef: goslim_mouse "" subsetdef: goslim_pir "" subsetdef: goslim_plant "" subsetdef: goslim_pombe "" subsetdef: goslim_synapse "" subsetdef: goslim_yeast "" subsetdef: grouping_class "" subsetdef: Gymnosperms "" subsetdef: homology_grouping "" subsetdef: http://purl.obolibrary.org/obo/valid_for_go_annotation_extension "" subsetdef: http://purl.obolibrary.org/obo/valid_for_go_gp2term "" subsetdef: http://purl.obolibrary.org/obo/valid_for_go_ontology "" subsetdef: http://purl.obolibrary.org/obo/valid_for_gocam "" subsetdef: human_reference_atlas "" subsetdef: inconsistent_with_fma "" subsetdef: Maize "" subsetdef: major_organ "" subsetdef: mpath_slim "" subsetdef: Musa "" subsetdef: non_informative "" subsetdef: organ_slim "" subsetdef: pheno_slim "" subsetdef: phenotype_rcn "" subsetdef: Poaceae "" subsetdef: Potato "" subsetdef: reference "" subsetdef: Rice "" subsetdef: ro-eco "" subsetdef: RO:0002259 "" subsetdef: scalar_slim "" subsetdef: Tomato "" subsetdef: TraitNet "" subsetdef: uberon_slim "" subsetdef: ubprop:upper_level "" subsetdef: unverified_taxonomic_grouping "" subsetdef: upper_level "" subsetdef: value_slim "" subsetdef: vertebrate_core "" remark: An ontology of core ecological entities ontology: ecocore property_value: dcterms-license https://creativecommons.org/licenses/by/3.0/ property_value: owl:versionInfo "2022-03-09" xsd:string [Term] id: BFO:0000001 name: entity property_value: BFO:0000179 "entity" xsd:string property_value: BFO:0000180 "Entity" xsd:string property_value: editor_note "BFO 2 Reference: In all areas of empirical inquiry we encounter general terms of two sorts. First are general terms which refer to universals or types:animaltuberculosissurgical procedurediseaseSecond, are general terms used to refer to groups of entities which instantiate a given universal but do not correspond to the extension of any subuniversal of that universal because there is nothing intrinsic to the entities in question by virtue of which they – and only they – are counted as belonging to the given group. Examples are: animal purchased by the Emperortuberculosis diagnosed on a Wednesdaysurgical procedure performed on a patient from Stockholmperson identified as candidate for clinical trial #2056-555person who is signatory of Form 656-PPVpainting by Leonardo da VinciSuch terms, which represent what are called ‘specializations’ in [81" xsd:string property_value: editor_note "Entity doesn't have a closure axiom because the subclasses don't necessarily exhaust all possibilites. For example Werner Ceusters 'portions of reality' include 4 sorts, entities (as BFO construes them), universals, configurations, and relations. It is an open question as to whether entities as construed in BFO will at some point also include these other portions of reality. See, for example, 'How to track absolutely everything' at http://www.referent-tracking.com/_RTU/papers/CeustersICbookRevised.pdf" xsd:string {http://purl.obolibrary.org/obo/IAO_0010000="http://purl.obolibrary.org/obo/bfo/axiom/0000004", comment="per discussion with Barry Smith", http://www.w3.org/2000/01/rdf-schema#seeAlso="http://www.referent-tracking.com/_RTU/papers/CeustersICbookRevised.pdf"} property_value: example_of_usage "Julius Caesar" xsd:string property_value: example_of_usage "the Second World War" xsd:string property_value: example_of_usage "Verdi’s Requiem" xsd:string property_value: example_of_usage "your body mass index" xsd:string property_value: IAO:0000600 "An entity is anything that exists or has existed or will exist. (axiom label in BFO2 Reference: [001-001])" xsd:string {http://purl.obolibrary.org/obo/IAO_0010000="http://purl.obolibrary.org/obo/bfo/axiom/001-001"} property_value: isDefinedBy http://purl.obolibrary.org/obo/bfo.owl [Term] id: BFO:0000002 name: continuant def: "An entity that exists in full at any time in which it exists at all, persists through time while maintaining its identity and has no temporal parts." [] is_a: BFO:0000001 ! entity disjoint_from: BFO:0000003 ! occurrent relationship: part_of BFO:0000002 ! continuant property_value: BFO:0000179 "continuant" xsd:string property_value: BFO:0000180 "Continuant" xsd:string property_value: editor_note "BFO 2 Reference: Continuant entities are entities which can be sliced to yield parts only along the spatial dimension, yielding for example the parts of your table which we call its legs, its top, its nails. ‘My desk stretches from the window to the door. It has spatial parts, and can be sliced (in space) in two. With respect to time, however, a thing is a continuant.’ [60, p. 240" xsd:string property_value: editor_note "Continuant doesn't have a closure axiom because the subclasses don't necessarily exhaust all possibilites. For example, in an expansion involving bringing in some of Ceuster's other portions of reality, questions are raised as to whether universals are continuants" xsd:string {http://purl.obolibrary.org/obo/IAO_0010000="http://purl.obolibrary.org/obo/bfo/axiom/0000007"} property_value: IAO:0000600 "A continuant is an entity that persists, endures, or continues to exist through time while maintaining its identity. (axiom label in BFO2 Reference: [008-002])" xsd:string {http://purl.obolibrary.org/obo/IAO_0010000="http://purl.obolibrary.org/obo/bfo/axiom/008-002"} property_value: IAO:0000601 "if b is a continuant and if, for some t, c has_continuant_part b at t, then c is a continuant. (axiom label in BFO2 Reference: [126-001])" xsd:string {http://purl.obolibrary.org/obo/IAO_0010000="http://purl.obolibrary.org/obo/bfo/axiom/126-001"} property_value: IAO:0000601 "if b is a continuant and if, for some t, cis continuant_part of b at t, then c is a continuant. (axiom label in BFO2 Reference: [009-002])" xsd:string {http://purl.obolibrary.org/obo/IAO_0010000="http://purl.obolibrary.org/obo/bfo/axiom/009-002"} property_value: IAO:0000601 "if b is a material entity, then there is some temporal interval (referred to below as a one-dimensional temporal region) during which b exists. (axiom label in BFO2 Reference: [011-002])" xsd:string {http://purl.obolibrary.org/obo/IAO_0010000="http://purl.obolibrary.org/obo/bfo/axiom/011-002"} property_value: IAO:0000602 "(forall (x y) (if (and (Continuant x) (exists (t) (continuantPartOfAt y x t))) (Continuant y))) // axiom label in BFO2 CLIF: [009-002] " xsd:string {http://purl.obolibrary.org/obo/IAO_0010000="http://purl.obolibrary.org/obo/bfo/axiom/009-002"} property_value: IAO:0000602 "(forall (x y) (if (and (Continuant x) (exists (t) (hasContinuantPartOfAt y x t))) (Continuant y))) // axiom label in BFO2 CLIF: [126-001] " xsd:string {http://purl.obolibrary.org/obo/IAO_0010000="http://purl.obolibrary.org/obo/bfo/axiom/126-001"} property_value: IAO:0000602 "(forall (x) (if (Continuant x) (Entity x))) // axiom label in BFO2 CLIF: [008-002] " xsd:string {http://purl.obolibrary.org/obo/IAO_0010000="http://purl.obolibrary.org/obo/bfo/axiom/008-002"} property_value: IAO:0000602 "(forall (x) (if (Material Entity x) (exists (t) (and (TemporalRegion t) (existsAt x t))))) // axiom label in BFO2 CLIF: [011-002] " xsd:string {http://purl.obolibrary.org/obo/IAO_0010000="http://purl.obolibrary.org/obo/bfo/axiom/011-002"} property_value: isDefinedBy http://purl.obolibrary.org/obo/bfo.owl [Term] id: BFO:0000003 name: occurrent def: "An entity that has temporal parts and that happens, unfolds or develops through time." [] is_a: BFO:0000001 ! entity relationship: part_of BFO:0000003 ! occurrent property_value: BFO:0000179 "occurrent" xsd:string property_value: BFO:0000180 "Occurrent" xsd:string property_value: editor_note "BFO 2 Reference: every occurrent that is not a temporal or spatiotemporal region is s-dependent on some independent continuant that is not a spatial region" xsd:string property_value: editor_note "BFO 2 Reference: s-dependence obtains between every process and its participants in the sense that, as a matter of necessity, this process could not have existed unless these or those participants existed also. A process may have a succession of participants at different phases of its unfolding. Thus there may be different players on the field at different times during the course of a football game; but the process which is the entire game s-depends_on all of these players nonetheless. Some temporal parts of this process will s-depend_on on only some of the players." xsd:string property_value: editor_note "Occurrent doesn't have a closure axiom because the subclasses don't necessarily exhaust all possibilites. An example would be the sum of a process and the process boundary of another process." xsd:string {http://purl.obolibrary.org/obo/IAO_0010000="http://purl.obolibrary.org/obo/bfo/axiom/0000006", comment="per discussion with Barry Smith"} property_value: editor_note "Simons uses different terminology for relations of occurrents to regions: Denote the spatio-temporal location of a given occurrent e by 'spn[e]' and call this region its span. We may say an occurrent is at its span, in any larger region, and covers any smaller region. Now suppose we have fixed a frame of reference so that we can speak not merely of spatio-temporal but also of spatial regions (places) and temporal regions (times). The spread of an occurrent, (relative to a frame of reference) is the space it exactly occupies, and its spell is likewise the time it exactly occupies. We write 'spr[e]' and `spl[e]' respectively for the spread and spell of e, omitting mention of the frame." xsd:string {http://purl.obolibrary.org/obo/IAO_0010000="http://purl.obolibrary.org/obo/bfo/axiom/0000012"} property_value: IAO:0000600 "An occurrent is an entity that unfolds itself in time or it is the instantaneous boundary of such an entity (for example a beginning or an ending) or it is a temporal or spatiotemporal region which such an entity occupies_temporal_region or occupies_spatiotemporal_region. (axiom label in BFO2 Reference: [077-002])" xsd:string {http://purl.obolibrary.org/obo/IAO_0010000="http://purl.obolibrary.org/obo/bfo/axiom/077-002"} property_value: IAO:0000601 "b is an occurrent entity iff b is an entity that has temporal parts. (axiom label in BFO2 Reference: [079-001])" xsd:string {http://purl.obolibrary.org/obo/IAO_0010000="http://purl.obolibrary.org/obo/bfo/axiom/079-001"} property_value: IAO:0000601 "Every occurrent occupies_spatiotemporal_region some spatiotemporal region. (axiom label in BFO2 Reference: [108-001])" xsd:string {http://purl.obolibrary.org/obo/IAO_0010000="http://purl.obolibrary.org/obo/bfo/axiom/108-001"} property_value: IAO:0000602 "(forall (x) (if (Occurrent x) (exists (r) (and (SpatioTemporalRegion r) (occupiesSpatioTemporalRegion x r))))) // axiom label in BFO2 CLIF: [108-001] " xsd:string {http://purl.obolibrary.org/obo/IAO_0010000="http://purl.obolibrary.org/obo/bfo/axiom/108-001"} property_value: IAO:0000602 "(forall (x) (iff (Occurrent x) (and (Entity x) (exists (y) (temporalPartOf y x))))) // axiom label in BFO2 CLIF: [079-001] " xsd:string {http://purl.obolibrary.org/obo/IAO_0010000="http://purl.obolibrary.org/obo/bfo/axiom/079-001"} property_value: isDefinedBy http://purl.obolibrary.org/obo/bfo.owl [Term] id: BFO:0000004 name: independent continuant def: "A continuant that is a bearer of quality and realizable entity entities, in which other entities inhere and which itself cannot inhere in anything." [] def: "b is an independent continuant = Def. b is a continuant which is such that there is no c and no t such that b s-depends_on c at t. (axiom label in BFO2 Reference: [017-002])" [] {http://purl.obolibrary.org/obo/IAO_0010000="http://purl.obolibrary.org/obo/bfo/axiom/017-002"} is_a: BFO:0000002 ! continuant disjoint_from: BFO:0000020 ! specifically dependent continuant disjoint_from: BFO:0000020 ! specifically dependent continuant disjoint_from: BFO:0000031 ! generically dependent continuant relationship: part_of BFO:0000004 ! independent continuant property_value: BFO:0000179 "ic" xsd:string property_value: BFO:0000180 "IndependentContinuant" xsd:string property_value: example_of_usage "a chair" xsd:string property_value: example_of_usage "a heart" xsd:string property_value: example_of_usage "a leg" xsd:string property_value: example_of_usage "a molecule" xsd:string property_value: example_of_usage "a spatial region" xsd:string property_value: example_of_usage "an atom" xsd:string property_value: example_of_usage "an orchestra." xsd:string property_value: example_of_usage "an organism" xsd:string property_value: example_of_usage "the bottom right portion of a human torso" xsd:string property_value: example_of_usage "the interior of your mouth" xsd:string property_value: IAO:0000601 "For any independent continuant b and any time t there is some spatial region r such that b is located_in r at t. (axiom label in BFO2 Reference: [134-001])" xsd:string {http://purl.obolibrary.org/obo/IAO_0010000="http://purl.obolibrary.org/obo/bfo/axiom/134-001"} property_value: IAO:0000601 "For every independent continuant b and time t during the region of time spanned by its life, there are entities which s-depends_on b during t. (axiom label in BFO2 Reference: [018-002])" xsd:string {http://purl.obolibrary.org/obo/IAO_0010000="http://purl.obolibrary.org/obo/bfo/axiom/018-002"} property_value: IAO:0000602 "(forall (x t) (if (and (IndependentContinuant x) (existsAt x t)) (exists (y) (and (Entity y) (specificallyDependsOnAt y x t))))) // axiom label in BFO2 CLIF: [018-002] " xsd:string {http://purl.obolibrary.org/obo/IAO_0010000="http://purl.obolibrary.org/obo/bfo/axiom/018-002"} property_value: IAO:0000602 "(forall (x t) (if (IndependentContinuant x) (exists (r) (and (SpatialRegion r) (locatedInAt x r t))))) // axiom label in BFO2 CLIF: [134-001] " xsd:string {http://purl.obolibrary.org/obo/IAO_0010000="http://purl.obolibrary.org/obo/bfo/axiom/134-001"} property_value: IAO:0000602 "(iff (IndependentContinuant a) (and (Continuant a) (not (exists (b t) (specificallyDependsOnAt a b t))))) // axiom label in BFO2 CLIF: [017-002] " xsd:string {http://purl.obolibrary.org/obo/IAO_0010000="http://purl.obolibrary.org/obo/bfo/axiom/017-002"} property_value: isDefinedBy http://purl.obolibrary.org/obo/bfo.owl [Term] id: BFO:0000006 name: spatial region is_a: BFO:0000141 ! immaterial entity property_value: BFO:0000179 "s-region" xsd:string property_value: BFO:0000180 "SpatialRegion" xsd:string property_value: editor_note "BFO 2 Reference: Spatial regions do not participate in processes." xsd:string property_value: editor_note "Spatial region doesn't have a closure axiom because the subclasses don't exhaust all possibilites. An example would be the union of a spatial point and a spatial line that doesn't overlap the point, or two spatial lines that intersect at a single point. In both cases the resultant spatial region is neither 0-dimensional, 1-dimensional, 2-dimensional, or 3-dimensional." xsd:string {http://purl.obolibrary.org/obo/IAO_0010000="http://purl.obolibrary.org/obo/bfo/axiom/0000002", comment="per discussion with Barry Smith"} property_value: IAO:0000600 "A spatial region is a continuant entity that is a continuant_part_of spaceR as defined relative to some frame R. (axiom label in BFO2 Reference: [035-001])" xsd:string {http://purl.obolibrary.org/obo/IAO_0010000="http://purl.obolibrary.org/obo/bfo/axiom/035-001"} property_value: IAO:0000601 "All continuant parts of spatial regions are spatial regions. (axiom label in BFO2 Reference: [036-001])" xsd:string {http://purl.obolibrary.org/obo/IAO_0010000="http://purl.obolibrary.org/obo/bfo/axiom/036-001"} property_value: IAO:0000602 "(forall (x y t) (if (and (SpatialRegion x) (continuantPartOfAt y x t)) (SpatialRegion y))) // axiom label in BFO2 CLIF: [036-001] " xsd:string {http://purl.obolibrary.org/obo/IAO_0010000="http://purl.obolibrary.org/obo/bfo/axiom/036-001"} property_value: IAO:0000602 "(forall (x) (if (SpatialRegion x) (Continuant x))) // axiom label in BFO2 CLIF: [035-001] " xsd:string {http://purl.obolibrary.org/obo/IAO_0010000="http://purl.obolibrary.org/obo/bfo/axiom/035-001"} property_value: isDefinedBy http://purl.obolibrary.org/obo/bfo.owl [Term] id: BFO:0000015 name: process def: "An occurrent that has temporal proper parts and for some time t, p s-depends_on some material entity at t." [] def: "p is a process = Def. p is an occurrent that has temporal proper parts and for some time t, p s-depends_on some material entity at t. (axiom label in BFO2 Reference: [083-003])" [] {http://purl.obolibrary.org/obo/IAO_0010000="http://purl.obolibrary.org/obo/bfo/axiom/083-003"} is_a: BFO:0000003 ! occurrent property_value: BFO:0000179 "process" xsd:string property_value: BFO:0000180 "Process" xsd:string property_value: editor_note "BFO 2 Reference: The realm of occurrents is less pervasively marked by the presence of natural units than is the case in the realm of independent continuants. Thus there is here no counterpart of ‘object’. In BFO 1.0 ‘process’ served as such a counterpart. In BFO 2.0 ‘process’ is, rather, the occurrent counterpart of ‘material entity’. Those natural – as contrasted with engineered, which here means: deliberately executed – units which do exist in the realm of occurrents are typically either parasitic on the existence of natural units on the continuant side, or they are fiat in nature. Thus we can count lives; we can count football games; we can count chemical reactions performed in experiments or in chemical manufacturing. We cannot count the processes taking place, for instance, in an episode of insect mating behavior.Even where natural units are identifiable, for example cycles in a cyclical process such as the beating of a heart or an organism’s sleep/wake cycle, the processes in question form a sequence with no discontinuities (temporal gaps) of the sort that we find for instance where billiard balls or zebrafish or planets are separated by clear spatial gaps. Lives of organisms are process units, but they too unfold in a continuous series from other, prior processes such as fertilization, and they unfold in turn in continuous series of post-life processes such as post-mortem decay. Clear examples of boundaries of processes are almost always of the fiat sort (midnight, a time of death as declared in an operating theater or on a death certificate, the initiation of a state of war)" xsd:string property_value: example_of_usage "a process of cell-division, \\ a beating of the heart" xsd:string property_value: example_of_usage "a process of meiosis" xsd:string property_value: example_of_usage "a process of sleeping" xsd:string property_value: example_of_usage "the course of a disease" xsd:string property_value: example_of_usage "the flight of a bird" xsd:string property_value: example_of_usage "the life of an organism" xsd:string property_value: example_of_usage "your process of aging." xsd:string property_value: IAO:0000602 "(iff (Process a) (and (Occurrent a) (exists (b) (properTemporalPartOf b a)) (exists (c t) (and (MaterialEntity c) (specificallyDependsOnAt a c t))))) // axiom label in BFO2 CLIF: [083-003] " xsd:string {http://purl.obolibrary.org/obo/IAO_0010000="http://purl.obolibrary.org/obo/bfo/axiom/083-003"} property_value: isDefinedBy http://purl.obolibrary.org/obo/bfo.owl [Term] id: BFO:0000016 name: disposition is_a: BFO:0000017 ! realizable entity disjoint_from: BFO:0000023 ! role property_value: BFO:0000179 "disposition" xsd:string property_value: BFO:0000180 "Disposition" xsd:string property_value: editor_note "BFO 2 Reference: Dispositions exist along a strength continuum. Weaker forms of disposition are realized in only a fraction of triggering cases. These forms occur in a significant number of cases of a similar type." xsd:string property_value: example_of_usage "an atom of element X has the disposition to decay to an atom of element Y" xsd:string property_value: example_of_usage "certain people have a predisposition to colon cancer" xsd:string property_value: example_of_usage "children are innately disposed to categorize objects in certain ways." xsd:string property_value: example_of_usage "the cell wall is disposed to filter chemicals in endocytosis and exocytosis" xsd:string property_value: IAO:0000600 "b is a disposition means: b is a realizable entity & b’s bearer is some material entity & b is such that if it ceases to exist, then its bearer is physically changed, & b’s realization occurs when and because this bearer is in some special physical circumstances, & this realization occurs in virtue of the bearer’s physical make-up. (axiom label in BFO2 Reference: [062-002])" xsd:string {http://purl.obolibrary.org/obo/IAO_0010000="http://purl.obolibrary.org/obo/bfo/axiom/062-002"} property_value: IAO:0000601 "If b is a realizable entity then for all t at which b exists, b s-depends_on some material entity at t. (axiom label in BFO2 Reference: [063-002])" xsd:string {http://purl.obolibrary.org/obo/IAO_0010000="http://purl.obolibrary.org/obo/bfo/axiom/063-002"} property_value: IAO:0000602 "(forall (x t) (if (and (RealizableEntity x) (existsAt x t)) (exists (y) (and (MaterialEntity y) (specificallyDepends x y t))))) // axiom label in BFO2 CLIF: [063-002] " xsd:string {http://purl.obolibrary.org/obo/IAO_0010000="http://purl.obolibrary.org/obo/bfo/axiom/063-002"} property_value: IAO:0000602 "(forall (x) (if (Disposition x) (and (RealizableEntity x) (exists (y) (and (MaterialEntity y) (bearerOfAt x y t)))))) // axiom label in BFO2 CLIF: [062-002] " xsd:string {http://purl.obolibrary.org/obo/IAO_0010000="http://purl.obolibrary.org/obo/bfo/axiom/062-002"} property_value: isDefinedBy http://purl.obolibrary.org/obo/bfo.owl [Term] id: BFO:0000017 name: realizable entity def: "A specifically dependent continuant that inheres in continuant entities and are not exhibited in full at every time in which it inheres in an entity or group of entities. The exhibition or actualization of a realizable entity is a particular manifestation, functioning or process that occurs under certain circumstances." [] is_a: BFO:0000020 ! specifically dependent continuant disjoint_from: BFO:0000019 ! quality relationship: part_of BFO:0000017 ! realizable entity property_value: BFO:0000179 "realizable" xsd:string property_value: BFO:0000180 "RealizableEntity" xsd:string property_value: example_of_usage "the disposition of this piece of metal to conduct electricity." xsd:string property_value: example_of_usage "the disposition of your blood to coagulate" xsd:string property_value: example_of_usage "the function of your reproductive organs" xsd:string property_value: example_of_usage "the role of being a doctor" xsd:string property_value: example_of_usage "the role of this boundary to delineate where Utah and Colorado meet" xsd:string property_value: IAO:0000117 https://orcid.org/0000-0001-8815-0078 xsd:string property_value: IAO:0000600 "To say that b is a realizable entity is to say that b is a specifically dependent continuant that inheres in some independent continuant which is not a spatial region and is of a type instances of which are realized in processes of a correlated type. (axiom label in BFO2 Reference: [058-002])" xsd:string {http://purl.obolibrary.org/obo/IAO_0010000="http://purl.obolibrary.org/obo/bfo/axiom/058-002"} property_value: IAO:0000601 "All realizable dependent continuants have independent continuants that are not spatial regions as their bearers. (axiom label in BFO2 Reference: [060-002])" xsd:string {http://purl.obolibrary.org/obo/IAO_0010000="http://purl.obolibrary.org/obo/bfo/axiom/060-002"} property_value: IAO:0000602 "(forall (x t) (if (RealizableEntity x) (exists (y) (and (IndependentContinuant y) (not (SpatialRegion y)) (bearerOfAt y x t))))) // axiom label in BFO2 CLIF: [060-002] " xsd:string {http://purl.obolibrary.org/obo/IAO_0010000="http://purl.obolibrary.org/obo/bfo/axiom/060-002"} property_value: IAO:0000602 "(forall (x) (if (RealizableEntity x) (and (SpecificallyDependentContinuant x) (exists (y) (and (IndependentContinuant y) (not (SpatialRegion y)) (inheresIn x y)))))) // axiom label in BFO2 CLIF: [058-002] " xsd:string {http://purl.obolibrary.org/obo/IAO_0010000="http://purl.obolibrary.org/obo/bfo/axiom/058-002"} property_value: isDefinedBy http://purl.obolibrary.org/obo/bfo.owl [Term] id: BFO:0000019 name: quality namespace: bfo is_a: BFO:0000020 ! specifically dependent continuant relationship: part_of BFO:0000019 ! quality [Term] id: BFO:0000020 name: specifically dependent continuant def: "A continuant that inheres in or is borne by other entities. Every instance of A requires some specific instance of B which must always be the same." [] def: "b is a relational specifically dependent continuant = Def. b is a specifically dependent continuant and there are n > 1 independent continuants c1, … cn which are not spatial regions are such that for all 1 i < j n, ci and cj share no common parts, are such that for each 1 i n, b s-depends_on ci at every time t during the course of b’s existence (axiom label in BFO2 Reference: [131-004])" [] def: "b is a specifically dependent continuant = Def. b is a continuant & there is some independent continuant c which is not a spatial region and which is such that b s-depends_on c at every time t during the course of b’s existence. (axiom label in BFO2 Reference: [050-003])" [] {http://purl.obolibrary.org/obo/IAO_0010000="http://purl.obolibrary.org/obo/bfo/axiom/050-003"} is_a: BFO:0000002 ! continuant disjoint_from: BFO:0000031 ! generically dependent continuant relationship: part_of BFO:0000020 ! specifically dependent continuant property_value: BFO:0000179 "sdc" xsd:string property_value: BFO:0000180 "SpecificallyDependentContinuant" xsd:string property_value: editor_note "Specifically dependent continuant doesn't have a closure axiom because the subclasses don't necessarily exhaust all possibilites. We're not sure what else will develop here, but for example there are questions such as what are promises, obligation, etc." xsd:string {http://purl.obolibrary.org/obo/IAO_0010000="http://purl.obolibrary.org/obo/bfo/axiom/0000005", comment="per discussion with Barry Smith"} property_value: example_of_usage "of one-sided specifically dependent continuants: the mass of this tomato" xsd:string property_value: example_of_usage "of relational dependent continuants (multiple bearers): John’s love for Mary, the ownership relation between John and this statue, the relation of authority between John and his subordinates." xsd:string property_value: example_of_usage "Reciprocal specifically dependent continuants: the function of this key to open this lock and the mutually dependent disposition of this lock: to be opened by this key" xsd:string property_value: example_of_usage "the disposition of this fish to decay" xsd:string property_value: example_of_usage "the function of this heart: to pump blood" xsd:string property_value: example_of_usage "the mutual dependence of proton donors and acceptors in chemical reactions [79" xsd:string property_value: example_of_usage "the mutual dependence of the role predator and the role prey as played by two organisms in a given interaction" xsd:string property_value: example_of_usage "the pink color of a medium rare piece of grilled filet mignon at its center" xsd:string property_value: example_of_usage "the role of being a doctor" xsd:string property_value: example_of_usage "the shape of this hole." xsd:string property_value: example_of_usage "the smell of this portion of mozzarella" xsd:string property_value: IAO:0000602 "(iff (SpecificallyDependentContinuant a) (and (Continuant a) (forall (t) (if (existsAt a t) (exists (b) (and (IndependentContinuant b) (not (SpatialRegion b)) (specificallyDependsOnAt a b t))))))) // axiom label in BFO2 CLIF: [050-003] " xsd:string {http://purl.obolibrary.org/obo/IAO_0010000="http://purl.obolibrary.org/obo/bfo/axiom/050-003"} property_value: isDefinedBy http://purl.obolibrary.org/obo/bfo.owl [Term] id: BFO:0000023 name: role def: "A realizable entity the manifestation of which brings about some result or end that is not essential to a continuant in virtue of the kind of thing that it is but that can be served or participated in by that kind of continuant in some kinds of natural, social or institutional contexts." [] is_a: CHEBI:50906 ! role equivalent_to: CHEBI:50906 ! role property_value: BFO:0000179 "role" xsd:string property_value: BFO:0000180 "Role" xsd:string property_value: editor_note "BFO 2 Reference: One major family of examples of non-rigid universals involves roles, and ontologies developed for corresponding administrative purposes may consist entirely of representatives of entities of this sort. Thus ‘professor’, defined as follows,b instance_of professor at t =Def. there is some c, c instance_of professor role & c inheres_in b at t.denotes a non-rigid universal and so also do ‘nurse’, ‘student’, ‘colonel’, ‘taxpayer’, and so forth. (These terms are all, in the jargon of philosophy, phase sortals.) By using role terms in definitions, we can create a BFO conformant treatment of such entities drawing on the fact that, while an instance of professor may be simultaneously an instance of trade union member, no instance of the type professor role is also (at any time) an instance of the type trade union member role (any more than any instance of the type color is at any time an instance of the type length).If an ontology of employment positions should be defined in terms of roles following the above pattern, this enables the ontology to do justice to the fact that individuals instantiate the corresponding universals – professor, sergeant, nurse – only during certain phases in their lives." xsd:string property_value: example_of_usage "John’s role of husband to Mary is dependent on Mary’s role of wife to John, and both are dependent on the object aggregate comprising John and Mary as member parts joined together through the relational quality of being married." xsd:string property_value: example_of_usage "the priest role" xsd:string property_value: example_of_usage "the role of a boundary to demarcate two neighboring administrative territories" xsd:string property_value: example_of_usage "the role of a building in serving as a military target" xsd:string property_value: example_of_usage "the role of a stone in marking a property boundary" xsd:string property_value: example_of_usage "the role of subject in a clinical trial" xsd:string property_value: example_of_usage "the student role" xsd:string property_value: IAO:0000600 "b is a role means: b is a realizable entity & b exists because there is some single bearer that is in some special physical, social, or institutional set of circumstances in which this bearer does not have to be& b is not such that, if it ceases to exist, then the physical make-up of the bearer is thereby changed. (axiom label in BFO2 Reference: [061-001])" xsd:string {http://purl.obolibrary.org/obo/IAO_0010000="http://purl.obolibrary.org/obo/bfo/axiom/061-001"} property_value: IAO:0000602 "(forall (x) (if (Role x) (RealizableEntity x))) // axiom label in BFO2 CLIF: [061-001] " xsd:string {http://purl.obolibrary.org/obo/IAO_0010000="http://purl.obolibrary.org/obo/bfo/axiom/061-001"} property_value: isDefinedBy http://purl.obolibrary.org/obo/bfo.owl [Term] id: BFO:0000024 name: fiat object name: fiat object part is_a: BFO:0000040 ! material entity [Term] id: BFO:0000027 name: object aggregate is_a: BFO:0000040 ! material entity property_value: BFO:0000179 "object-aggregate" xsd:string property_value: BFO:0000180 "ObjectAggregate" xsd:string property_value: editor_note "An entity a is an object aggregate if and only if there is a mutually exhaustive and pairwise disjoint partition of a into objects " xsd:string {http://purl.obolibrary.org/obo/IAO_0010000="http://purl.obolibrary.org/obo/bfo/axiom/0000301"} property_value: editor_note "An entity a is an object aggregate if and only if there is a mutually exhaustive and pairwise disjoint partition of a into objects " xsd:string {http://purl.obolibrary.org/obo/IAO_0010000="http://purl.obolibrary.org/obo/bfo/axiom/0000011"} property_value: editor_note "BFO 2 Reference: object aggregates may gain and lose parts while remaining numerically identical (one and the same individual) over time. This holds both for aggregates whose membership is determined naturally (the aggregate of cells in your body) and aggregates determined by fiat (a baseball team, a congressional committee)." xsd:string property_value: example_of_usage "a collection of cells in a blood biobank." xsd:string property_value: example_of_usage "a swarm of bees is an aggregate of members who are linked together through natural bonds" xsd:string property_value: example_of_usage "a symphony orchestra" xsd:string property_value: example_of_usage "an organization is an aggregate whose member parts have roles of specific types (for example in a jazz band, a chess club, a football team)" xsd:string property_value: example_of_usage "defined by fiat: the aggregate of members of an organization" xsd:string property_value: example_of_usage "defined through physical attachment: the aggregate of atoms in a lump of granite" xsd:string property_value: example_of_usage "defined through physical containment: the aggregate of molecules of carbon dioxide in a sealed container" xsd:string property_value: example_of_usage "defined via attributive delimitations such as: the patients in this hospital" xsd:string property_value: example_of_usage "the aggregate of bearings in a constant velocity axle joint" xsd:string property_value: example_of_usage "the aggregate of blood cells in your body" xsd:string property_value: example_of_usage "the nitrogen atoms in the atmosphere" xsd:string property_value: example_of_usage "the restaurants in Palo Alto" xsd:string property_value: example_of_usage "your collection of Meissen ceramic plates." xsd:string property_value: IAO:0000119 "ISBN:978-3-938793-98-5pp124-158#Thomas Bittner and Barry Smith, 'A Theory of Granular Partitions', in K. Munn and B. Smith (eds.), Applied Ontology: An Introduction, Frankfurt/Lancaster: ontos, 2008, 125-158." xsd:string {http://purl.obolibrary.org/obo/IAO_0010000="http://purl.obolibrary.org/obo/bfo/axiom/0000300"} property_value: IAO:0000600 "b is an object aggregate means: b is a material entity consisting exactly of a plurality of objects as member_parts at all times at which b exists. (axiom label in BFO2 Reference: [025-004])" xsd:string {http://purl.obolibrary.org/obo/IAO_0010000="http://purl.obolibrary.org/obo/bfo/axiom/025-004"} property_value: IAO:0000602 "(forall (x) (if (ObjectAggregate x) (and (MaterialEntity x) (forall (t) (if (existsAt x t) (exists (y z) (and (Object y) (Object z) (memberPartOfAt y x t) (memberPartOfAt z x t) (not (= y z)))))) (not (exists (w t_1) (and (memberPartOfAt w x t_1) (not (Object w)))))))) // axiom label in BFO2 CLIF: [025-004] " xsd:string {http://purl.obolibrary.org/obo/IAO_0010000="http://purl.obolibrary.org/obo/bfo/axiom/025-004"} property_value: isDefinedBy http://purl.obolibrary.org/obo/bfo.owl [Term] id: BFO:0000029 name: site is_a: BFO:0000141 ! immaterial entity [Term] id: BFO:0000030 name: object namespace: bfo is_a: BFO:0000040 ! material entity [Term] id: BFO:0000031 name: generically dependent continuant def: "A continuant that is dependent on one or other independent continuant bearers. For every instance of A requires some instance of (an independent continuant type) B but which instance of B serves can change from time to time." [] def: "b is a generically dependent continuant = Def. b is a continuant that g-depends_on one or more other entities. (axiom label in BFO2 Reference: [074-001])" [] {http://purl.obolibrary.org/obo/IAO_0010000="http://purl.obolibrary.org/obo/bfo/axiom/074-001"} is_a: BFO:0000002 ! continuant property_value: BFO:0000179 "gdc" xsd:string property_value: BFO:0000180 "GenericallyDependentContinuant" xsd:string property_value: example_of_usage "The entries in your database are patterns instantiated as quality instances in your hard drive. The database itself is an aggregate of such patterns. When you create the database you create a particular instance of the generically dependent continuant type database. Each entry in the database is an instance of the generically dependent continuant type IAO: information content entity." xsd:string property_value: example_of_usage "the pdf file on your laptop, the pdf file that is a copy thereof on my laptop" xsd:string property_value: example_of_usage "the sequence of this protein molecule; the sequence that is a copy thereof in that protein molecule." xsd:string property_value: IAO:0000602 "(iff (GenericallyDependentContinuant a) (and (Continuant a) (exists (b t) (genericallyDependsOnAt a b t)))) // axiom label in BFO2 CLIF: [074-001] " xsd:string {http://purl.obolibrary.org/obo/IAO_0010000="http://purl.obolibrary.org/obo/bfo/axiom/074-001"} property_value: isDefinedBy http://purl.obolibrary.org/obo/bfo.owl [Term] id: BFO:0000034 name: function is_a: BFO:0000016 ! disposition property_value: BFO:0000179 "function" xsd:string property_value: BFO:0000180 "Function" xsd:string property_value: editor_note "BFO 2 Reference: In the past, we have distinguished two varieties of function, artifactual function and biological function. These are not asserted subtypes of BFO:function however, since the same function – for example: to pump, to transport – can exist both in artifacts and in biological entities. The asserted subtypes of function that would be needed in order to yield a separate monoheirarchy are not artifactual function, biological function, etc., but rather transporting function, pumping function, etc." xsd:string property_value: example_of_usage "the function of a hammer to drive in nails" xsd:string property_value: example_of_usage "the function of a heart pacemaker to regulate the beating of a heart through electricity" xsd:string property_value: example_of_usage "the function of amylase in saliva to break down starch into sugar" xsd:string property_value: IAO:0000600 "A function is a disposition that exists in virtue of the bearer’s physical make-up and this physical make-up is something the bearer possesses because it came into being, either through evolution (in the case of natural biological entities) or through intentional design (in the case of artifacts), in order to realize processes of a certain sort. (axiom label in BFO2 Reference: [064-001])" xsd:string {http://purl.obolibrary.org/obo/IAO_0010000="http://purl.obolibrary.org/obo/bfo/axiom/064-001"} property_value: IAO:0000602 "(forall (x) (if (Function x) (Disposition x))) // axiom label in BFO2 CLIF: [064-001] " xsd:string {http://purl.obolibrary.org/obo/IAO_0010000="http://purl.obolibrary.org/obo/bfo/axiom/064-001"} property_value: isDefinedBy http://purl.obolibrary.org/obo/bfo.owl [Term] id: BFO:0000040 name: material entity namespace: bfo def: "An independent continuant that is spatially extended whose identity is independent of that of other entities and can be maintained through time." [] is_a: BFO:0000004 ! independent continuant disjoint_from: BFO:0000141 ! immaterial entity property_value: BFO:0000179 "material" xsd:string property_value: BFO:0000180 "MaterialEntity" xsd:string property_value: editor_note "BFO 2 Reference: Material entities (continuants) can preserve their identity even while gaining and losing material parts. Continuants are contrasted with occurrents, which unfold themselves in successive temporal parts or phases [60" xsd:string property_value: editor_note "BFO 2 Reference: Object, Fiat Object Part and Object Aggregate are not intended to be exhaustive of Material Entity. Users are invited to propose new subcategories of Material Entity." xsd:string property_value: editor_note "BFO 2 Reference: ‘Matter’ is intended to encompass both mass and energy (we will address the ontological treatment of portions of energy in a later version of BFO). A portion of matter is anything that includes elementary particles among its proper or improper parts: quarks and leptons, including electrons, as the smallest particles thus far discovered; baryons (including protons and neutrons) at a higher level of granularity; atoms and molecules at still higher levels, forming the cells, organs, organisms and other material entities studied by biologists, the portions of rock studied by geologists, the fossils studied by paleontologists, and so on.Material entities are three-dimensional entities (entities extended in three spatial dimensions), as contrasted with the processes in which they participate, which are four-dimensional entities (entities extended also along the dimension of time).According to the FMA, material entities may have immaterial entities as parts – including the entities identified below as sites; for example the interior (or ‘lumen’) of your small intestine is a part of your body. BFO 2.0 embodies a decision to follow the FMA here." xsd:string property_value: example_of_usage "a flame" xsd:string property_value: example_of_usage "a forest fire" xsd:string property_value: example_of_usage "a human being" xsd:string property_value: example_of_usage "a hurricane" xsd:string property_value: example_of_usage "a photon" xsd:string property_value: example_of_usage "a puff of smoke" xsd:string property_value: example_of_usage "a sea wave" xsd:string property_value: example_of_usage "a tornado" xsd:string property_value: example_of_usage "an aggregate of human beings." xsd:string property_value: example_of_usage "an energy wave" xsd:string property_value: example_of_usage "an epidemic" xsd:string property_value: example_of_usage "the undetached arm of a human being" xsd:string property_value: IAO:0000600 "A material entity is an independent continuant that has some portion of matter as proper or improper continuant part. (axiom label in BFO2 Reference: [019-002])" xsd:string {http://purl.obolibrary.org/obo/IAO_0010000="http://purl.obolibrary.org/obo/bfo/axiom/019-002"} property_value: IAO:0000601 "every entity of which a material entity is continuant part is also a material entity. (axiom label in BFO2 Reference: [021-002])" xsd:string {http://purl.obolibrary.org/obo/IAO_0010000="http://purl.obolibrary.org/obo/bfo/axiom/021-002"} property_value: IAO:0000601 "Every entity which has a material entity as continuant part is a material entity. (axiom label in BFO2 Reference: [020-002])" xsd:string {http://purl.obolibrary.org/obo/IAO_0010000="http://purl.obolibrary.org/obo/bfo/axiom/020-002"} property_value: IAO:0000602 "(forall (x) (if (and (Entity x) (exists (y t) (and (MaterialEntity y) (continuantPartOfAt x y t)))) (MaterialEntity x))) // axiom label in BFO2 CLIF: [021-002] " xsd:string {http://purl.obolibrary.org/obo/IAO_0010000="http://purl.obolibrary.org/obo/bfo/axiom/021-002"} property_value: IAO:0000602 "(forall (x) (if (and (Entity x) (exists (y t) (and (MaterialEntity y) (continuantPartOfAt y x t)))) (MaterialEntity x))) // axiom label in BFO2 CLIF: [020-002] " xsd:string {http://purl.obolibrary.org/obo/IAO_0010000="http://purl.obolibrary.org/obo/bfo/axiom/020-002"} property_value: IAO:0000602 "(forall (x) (if (MaterialEntity x) (IndependentContinuant x))) // axiom label in BFO2 CLIF: [019-002] " xsd:string {http://purl.obolibrary.org/obo/IAO_0010000="http://purl.obolibrary.org/obo/bfo/axiom/019-002"} property_value: isDefinedBy http://purl.obolibrary.org/obo/bfo.owl [Term] id: BFO:0000141 name: immaterial entity is_a: BFO:0000004 ! independent continuant property_value: BFO:0000179 "immaterial" xsd:string property_value: BFO:0000180 "ImmaterialEntity" xsd:string property_value: editor_note "BFO 2 Reference: Immaterial entities are divided into two subgroups:boundaries and sites, which bound, or are demarcated in relation, to material entities, and which can thus change location, shape and size and as their material hosts move or change shape or size (for example: your nasal passage; the hold of a ship; the boundary of Wales (which moves with the rotation of the Earth) [38, 7, 10" xsd:string property_value: isDefinedBy http://purl.obolibrary.org/obo/bfo.owl [Term] id: BFO:0000182 name: history is_a: BFO:0000015 ! process property_value: BFO:0000179 "history" xsd:string property_value: BFO:0000180 "History" xsd:string property_value: IAO:0000600 "A history is a process that is the sum of the totality of processes taking place in the spatiotemporal region occupied by a material entity or site, including processes on the surface of the entity or within the cavities to which it serves as host. (axiom label in BFO2 Reference: [138-001])" xsd:string {http://purl.obolibrary.org/obo/IAO_0010000="http://purl.obolibrary.org/obo/bfo/axiom/138-001"} property_value: isDefinedBy http://purl.obolibrary.org/obo/bfo.owl [Term] id: CARO:0000000 name: anatomical entity is_a: CARO:0030000 ! biological entity property_value: IAO:0000412 http://purl.obolibrary.org/obo/caro.owl [Term] id: CARO:0000003 name: connected anatomical structure is_a: CARO:0000006 ! material anatomical entity property_value: IAO:0000412 http://purl.obolibrary.org/obo/caro.owl [Term] id: CARO:0000006 name: material anatomical entity is_a: BFO:0000040 ! material entity is_a: CARO:0000000 ! anatomical entity property_value: IAO:0000412 http://purl.obolibrary.org/obo/caro.owl [Term] id: CARO:0001010 name: organism or virus or viroid def: "Material anatomical entity that is a member of an individual species or is a viral or viroid particle." [] is_a: PCO:0000031 ! organismal entity property_value: http://purl.obolibrary.org/obo/IAO_created_by "Melissa Haendel" xsd:string property_value: http://purl.obolibrary.org/obo/IAO_creation_date "9/18/11" xsd:string property_value: IAO:0000589 "organism or virus" xsd:string [Term] id: CARO:0010004 name: organism def: "An individual member of a clade." [] comment: A general term for organism that is agnostic about single cell vs multi-cellular. Note that this is a subclass of 'anatomical structure', meaning that an organism must be a connected structure. So, if I take one plant and make a rooted cutting from a it, I now have two (clonally related) organisms. is_a: CARO:0001010 ! organism or virus or viroid property_value: http://purl.obolibrary.org/obo/IAO_created_by "mah" xsd:string property_value: http://purl.obolibrary.org/obo/IAO_creation_date "7.16.2011" xsd:string property_value: IAO:0000589 "organism" xsd:string [Term] id: CARO:0030000 name: biological entity is_a: BFO:0000004 ! independent continuant [Term] id: CHEBI:10545 name: electron namespace: chebi_ontology def: "Elementary particle not affected by the strong force having a spin 1/2, a negative elementary charge and a rest mass of 0.000548579903(13) u, or 0.51099906(15) MeV." [] subset: 3_STAR synonym: "beta" RELATED [IUPAC] synonym: "beta(-)" RELATED [ChEBI] synonym: "beta-particle" RELATED [IUPAC] synonym: "e" RELATED [IUPAC] synonym: "e(-)" RELATED [UniProt] synonym: "e-" RELATED [KEGG_COMPOUND] synonym: "electron" EXACT [KEGG_COMPOUND] synonym: "electron" EXACT IUPAC_NAME [IUPAC] synonym: "electron" EXACT [ChEBI] synonym: "Elektron" RELATED [ChEBI] synonym: "negatron" RELATED [IUPAC] xref: KEGG:C05359 xref: PMID:21614077 {source="Europe PMC"} xref: Wikipedia:Electron is_a: CHEBI:36338 ! lepton property_value: http://purl.obolibrary.org/obo/chebi/charge "-1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "0.000548579903" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "0.0" xsd:string [Term] id: CHEBI:131604 name: Mycoplasma genitalium metabolite namespace: chebi_ontology def: "Any bacterial metabolite produced during a metabolic reaction in Mycoplasma genitalium." [] subset: 3_STAR synonym: "Mycoplasma genitalium metabolites" RELATED [ChEBI] is_a: CHEBI:76969 ! bacterial metabolite [Term] id: CHEBI:131605 name: dicarboxylic acid monoester(1-) namespace: chebi_ontology def: "A carboxylic acid anion resulting from the deprotonation of the carboxy group of a dicarboxylic acid monoester." [] subset: 3_STAR is_a: CHEBI:29067 ! carboxylic acid anion relationship: is_conjugate_base_of CHEBI:36244 ! dicarboxylic acid monoester [Term] id: CHEBI:131927 name: dicarboxylic acids and O-substituted derivatives namespace: chebi_ontology def: "A class of carbonyl compound encompassing dicarboxylic acids and any derivatives obtained by substitution of either one or both of the carboxy hydrogens." [] subset: 3_STAR synonym: "dicarboxylic acids and derivatives" RELATED [ChEBI] is_a: CHEBI:36586 ! carbonyl compound [Term] id: CHEBI:132153 name: hyaluronate namespace: chebi_ontology def: "A carbohydrate acid derivative anion obtained by deprotonation of the carboxy groups of hyaluronic acid; major species at pH 7.3." [] subset: 3_STAR synonym: "hyaluronan" RELATED [UniProt] synonym: "hyaluronate polyanion" RELATED [ChEBI] is_a: CHEBI:61469 ! polyanionic polymer is_a: CHEBI:63551 ! carbohydrate acid derivative anion relationship: is_conjugate_base_of CHEBI:16336 ! hyaluronic acid property_value: http://purl.obolibrary.org/obo/chebi/charge "-1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "(C14H20NO11)n.H2O" xsd:string [Term] id: CHEBI:134179 name: volatile organic compound namespace: chebi_ontology def: "Any organic compound having an initial boiling point less than or equal to 250 degreeC (482 degreeF) measured at a standard atmospheric pressure of 101.3 kPa." [] subset: 3_STAR synonym: "VOC" RELATED [ChEBI] synonym: "VOCs" RELATED [ChEBI] synonym: "volatile organic compounds" RELATED [ChEBI] xref: Wikipedia:Volatile_organic_compound is_a: CHEBI:72695 ! organic molecule [Term] id: CHEBI:138103 name: inorganic acid namespace: chebi_ontology def: "A Bronsted acid derived from one or more inorganic compounds. Inorganic acids (also known as mineral acids) form hydrons and conjugate base ions when dissolved in water." [] subset: 3_STAR synonym: "inorganic acids" RELATED [ChEBI] synonym: "mineral acid" RELATED [ChEBI] synonym: "mineral acids" RELATED [ChEBI] xref: Wikipedia:Mineral_acid is_a: CHEBI:39141 ! Bronsted acid [Term] id: CHEBI:138675 name: gas molecular entity namespace: chebi_ontology def: "Any main group molecular entity that is gaseous at standard temperature and pressure (STP; 0degreeC and 100 kPa)." [] subset: 3_STAR synonym: "gas molecular entities" RELATED [ChEBI] synonym: "gaseous molecular entities" RELATED [ChEBI] synonym: "gaseous molecular entity" RELATED [ChEBI] xref: Wikipedia:https\://en.wikipedia.org/wiki/Gas is_a: CHEBI:33579 ! main group molecular entity [Term] id: CHEBI:139291 name: chlorophyll(1-) namespace: chebi_ontology def: "A cyclic tetrapyrrole anion that is the carbanion obtained by removal of the acidic proton from position 21 of any chlorophyll. Major species at pH 7.3" [] subset: 3_STAR synonym: "a chlorophyll" RELATED [UniProt] xref: Wikipedia:Chlorophyll {source="SUBMITTER"} is_a: CHEBI:58941 ! cyclic tetrapyrrole anion relationship: is_conjugate_base_of CHEBI:28966 ! chlorophyll property_value: http://purl.obolibrary.org/obo/chebi/charge "-1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C49H57MgN4O5R4" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "806.308" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "805.41794" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "C1=2N3C(C=C4[N+]5=C(C=C6N7C8=C(C9=[N+](C(=C1)[C@H]([C@@H]9CCC(OC/C=C(/CCC[C@@H](CCC[C@@H](CCCC(C)C)C)C)\\C)=O)C)[Mg-2]735)[C-](C(C8=C6C)=O)C(=O)OC)C(=C4*)*)=C(C2*)*" xsd:string [Term] id: CHEBI:139292 name: chlorophyllide(2-) namespace: chebi_ontology def: "A cyclic tetrapyrrole anion obtained by removal of the acidic proton from position 21 as well as deprotonation of the carboxy group of any chlorophyllide. Major species at pH 7.3" [] subset: 3_STAR synonym: "a chlorophyllide" RELATED [UniProt] is_a: CHEBI:35757 ! monocarboxylic acid anion is_a: CHEBI:58941 ! cyclic tetrapyrrole anion relationship: is_conjugate_base_of CHEBI:38206 ! chlorophyllide property_value: http://purl.obolibrary.org/obo/chebi/charge "-2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C29H18MgN4O5R4" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "526.783" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "526.11276" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "C1=2N3C(C=C4[N+]5=C(C=C6N7C8=C(C9=[N+](C(=C1)[C@H]([C@@H]9CCC([O-])=O)C)[Mg-2]735)[C-](C(C8=C6C)=O)C(=O)OC)C(=C4*)*)=C(C2*)*" xsd:string [Term] id: CHEBI:13941 name: carbamate namespace: chebi_ontology subset: 3_STAR synonym: "Carbamat" RELATED [ChEBI] synonym: "carbamate" EXACT [UniProt] synonym: "carbamate" EXACT IUPAC_NAME [IUPAC] synonym: "carbamate ion" RELATED [ChemIDplus] synonym: "carbamic acid, ion(1-)" RELATED [ChemIDplus] synonym: "Karbamat" RELATED [ChEBI] xref: Beilstein:3903503 {source="Beilstein"} xref: CAS:302-11-4 {source="ChemIDplus"} xref: Gmelin:239604 {source="Gmelin"} is_a: CHEBI:37022 ! amino-acid anion relationship: is_conjugate_base_of CHEBI:28616 ! carbamic acid property_value: http://purl.obolibrary.org/obo/chebi/charge "-1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "CH2NO2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/CH3NO2/c2-1(3)4/h2H2,(H,3,4)/p-1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "KXDHJXZQYSOELW-UHFFFAOYSA-M" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "60.03212" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "60.00910" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "NC([O-])=O" xsd:string [Term] id: CHEBI:15339 name: acceptor namespace: chebi_ontology alt_id: CHEBI:13699 alt_id: CHEBI:2377 def: "A molecular entity that can accept an electron, a pair of electrons, an atom or a group from another molecular entity." [] subset: 3_STAR synonym: "A" RELATED [KEGG_COMPOUND] synonym: "accepteur" RELATED [ChEBI] synonym: "Acceptor" EXACT [KEGG_COMPOUND] synonym: "Akzeptor" RELATED [ChEBI] synonym: "Hydrogen-acceptor" RELATED [KEGG_COMPOUND] synonym: "Oxidized donor" RELATED [KEGG_COMPOUND] xref: KEGG:C00028 xref: KEGG:C16722 is_a: CHEBI:51086 ! chemical role [Term] id: CHEBI:15379 name: dioxygen namespace: chebi_ontology alt_id: CHEBI:10745 alt_id: CHEBI:13416 alt_id: CHEBI:23833 alt_id: CHEBI:25366 alt_id: CHEBI:30491 alt_id: CHEBI:44742 alt_id: CHEBI:7860 subset: 3_STAR synonym: "[OO]" RELATED [MolBase] synonym: "dioxygen" EXACT IUPAC_NAME [IUPAC] synonym: "dioxygene" RELATED [ChEBI] synonym: "Disauerstoff" RELATED [ChEBI] synonym: "E 948" RELATED [ChEBI] synonym: "E-948" RELATED [ChEBI] synonym: "E948" RELATED [ChEBI] synonym: "molecular oxygen" RELATED [ChEBI] synonym: "O2" RELATED [UniProt] synonym: "O2" RELATED [IUPAC] synonym: "O2" RELATED [KEGG_COMPOUND] synonym: "Oxygen" RELATED [KEGG_COMPOUND] synonym: "OXYGEN MOLECULE" RELATED [PDBeChem] xref: CAS:7782-44-7 {source="NIST Chemistry WebBook"} xref: CAS:7782-44-7 {source="ChemIDplus"} xref: CAS:7782-44-7 {source="KEGG COMPOUND"} xref: Gmelin:485 {source="Gmelin"} xref: HMDB:HMDB0001377 xref: KEGG:C00007 xref: KEGG:D00003 xref: MetaCyc:OXYGEN-MOLECULE xref: MolBase:750 xref: PDBeChem:OXY xref: PMID:10906528 {source="Europe PMC"} xref: PMID:16977326 {source="Europe PMC"} xref: PMID:18210929 {source="Europe PMC"} xref: PMID:18638417 {source="Europe PMC"} xref: PMID:19840863 {source="Europe PMC"} xref: PMID:7710549 {source="Europe PMC"} xref: PMID:9463773 {source="Europe PMC"} xref: Wikipedia:Oxygen is_a: CHEBI:138675 ! gas molecular entity is_a: CHEBI:25362 ! elemental molecule is_a: CHEBI:33263 ! diatomic oxygen relationship: has_role CHEBI:27027 ! micronutrient relationship: has_role CHEBI:33893 ! reagent relationship: has_role CHEBI:35472 ! anti-inflammatory drug relationship: has_role CHEBI:63248 ! oxidising agent relationship: has_role CHEBI:75772 ! Saccharomyces cerevisiae metabolite relationship: has_role CHEBI:77746 ! human metabolite relationship: has_role CHEBI:77974 ! food packaging gas relationship: is_conjugate_base_of CHEBI:29793 ! hydridodioxygen(1+) property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "O2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/O2/c1-2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "MYMOFIZGZYHOMD-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "31.99880" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "31.98983" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "O=O" xsd:string [Term] id: CHEBI:15734 name: primary alcohol namespace: chebi_ontology alt_id: CHEBI:13676 alt_id: CHEBI:14887 alt_id: CHEBI:26262 alt_id: CHEBI:57489 alt_id: CHEBI:8406 def: "A primary alcohol is a compound in which a hydroxy group, -OH, is attached to a saturated carbon atom which has either three hydrogen atoms attached to it or only one other carbon atom and two hydrogen atoms attached to it." [] subset: 3_STAR synonym: "1-Alcohol" RELATED [KEGG_COMPOUND] synonym: "a primary alcohol" RELATED [UniProt] synonym: "Primary alcohol" EXACT [KEGG_COMPOUND] synonym: "primary alcohols" RELATED [ChEBI] xref: KEGG:C00226 is_a: CHEBI:30879 ! alcohol property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "CH3OR" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "31.034" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "31.01839" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "*C(O)([H])[H]" xsd:string [Term] id: CHEBI:15841 name: polypeptide namespace: chebi_ontology alt_id: CHEBI:14860 alt_id: CHEBI:8314 def: "A peptide containing ten or more amino acid residues." [] subset: 3_STAR synonym: "polipeptido" RELATED [ChEBI] synonym: "Polypeptid" RELATED [ChEBI] synonym: "Polypeptide" EXACT [KEGG_COMPOUND] synonym: "polypeptides" EXACT IUPAC_NAME [IUPAC] xref: KEGG:C00403 is_a: CHEBI:16670 ! peptide is_a: CHEBI:33839 ! macromolecule property_value: http://purl.obolibrary.org/obo/chebi/formula "C4H6N2O3R2(C2H2NOR)n" xsd:string [Term] id: CHEBI:15986 name: polynucleotide namespace: chebi_ontology alt_id: CHEBI:13672 alt_id: CHEBI:14859 alt_id: CHEBI:8312 def: "A nucleobase-containing molecular entity with a polymeric structure comprised of a linear sequence of 13 or more nucleotide residues." [] subset: 3_STAR synonym: "Polynucleotide" EXACT [KEGG_COMPOUND] synonym: "polynucleotides" RELATED [ChEBI] xref: KEGG:C00419 is_a: CHEBI:33695 ! information biomacromolecule is_a: CHEBI:61120 ! nucleobase-containing molecular entity relationship: has_part CHEBI:50319 ! nucleotide residue property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "(C5H8O6PR)n.C10H17O10PR2" xsd:string [Term] id: CHEBI:16134 name: ammonia namespace: chebi_ontology alt_id: CHEBI:13405 alt_id: CHEBI:13406 alt_id: CHEBI:13407 alt_id: CHEBI:13771 alt_id: CHEBI:22533 alt_id: CHEBI:44269 alt_id: CHEBI:44284 alt_id: CHEBI:44404 alt_id: CHEBI:7434 def: "An azane that consists of a single nitrogen atom covelently bonded to three hydrogen atoms." [] subset: 3_STAR synonym: "[NH3]" RELATED [MolBase] synonym: "AMMONIA" EXACT [PDBeChem] synonym: "Ammonia" EXACT [KEGG_COMPOUND] synonym: "ammonia" EXACT IUPAC_NAME [IUPAC] synonym: "ammoniac" RELATED [ChEBI] synonym: "Ammoniak" RELATED [ChemIDplus] synonym: "amoniaco" RELATED [ChEBI] synonym: "azane" EXACT IUPAC_NAME [IUPAC] synonym: "NH3" RELATED [KEGG_COMPOUND] synonym: "NH3" RELATED [UniProt] synonym: "NH3" RELATED [IUPAC] synonym: "R-717" RELATED [ChEBI] synonym: "spirit of hartshorn" RELATED [ChemIDplus] xref: Beilstein:3587154 {source="Beilstein"} xref: CAS:7664-41-7 {source="ChemIDplus"} xref: CAS:7664-41-7 {source="NIST Chemistry WebBook"} xref: CAS:7664-41-7 {source="KEGG COMPOUND"} xref: Drug_Central:4625 {source="DrugCentral"} xref: Gmelin:79 {source="Gmelin"} xref: HMDB:HMDB0000051 xref: KEGG:C00014 xref: KEGG:D02916 xref: KNApSAcK:C00007267 xref: MetaCyc:AMMONIA xref: MolBase:930 xref: PDBeChem:NH3 xref: PMID:110589 {source="Europe PMC"} xref: PMID:11139349 {source="Europe PMC"} xref: PMID:11540049 {source="Europe PMC"} xref: PMID:11746427 {source="Europe PMC"} xref: PMID:11783653 {source="Europe PMC"} xref: PMID:13753780 {source="Europe PMC"} xref: PMID:14663195 {source="Europe PMC"} xref: PMID:15092448 {source="Europe PMC"} xref: PMID:15094021 {source="Europe PMC"} xref: PMID:15554424 {source="Europe PMC"} xref: PMID:15969015 {source="Europe PMC"} xref: PMID:16008360 {source="Europe PMC"} xref: PMID:16050680 {source="Europe PMC"} xref: PMID:16348008 {source="Europe PMC"} xref: PMID:16349403 {source="Europe PMC"} xref: PMID:16614889 {source="Europe PMC"} xref: PMID:16664306 {source="Europe PMC"} xref: PMID:16842901 {source="Europe PMC"} xref: PMID:17025297 {source="Europe PMC"} xref: PMID:17439666 {source="Europe PMC"} xref: PMID:17569513 {source="Europe PMC"} xref: PMID:17737668 {source="Europe PMC"} xref: PMID:18670398 {source="Europe PMC"} xref: PMID:22002069 {source="Europe PMC"} xref: PMID:22081570 {source="Europe PMC"} xref: PMID:22088435 {source="Europe PMC"} xref: PMID:22100291 {source="Europe PMC"} xref: PMID:22130175 {source="Europe PMC"} xref: PMID:22150211 {source="Europe PMC"} xref: PMID:22240068 {source="Europe PMC"} xref: PMID:22290316 {source="Europe PMC"} xref: PMID:22342082 {source="Europe PMC"} xref: PMID:22385337 {source="Europe PMC"} xref: PMID:22443779 {source="Europe PMC"} xref: PMID:22560242 {source="Europe PMC"} xref: Reaxys:3587154 {source="Reaxys"} xref: Wikipedia:Ammonia is_a: CHEBI:138675 ! gas molecular entity is_a: CHEBI:35107 ! azane is_a: CHEBI:37176 ! mononuclear parent hydride relationship: has_role CHEBI:50910 ! neurotoxin relationship: has_role CHEBI:59740 ! nucleophilic reagent relationship: has_role CHEBI:75771 ! mouse metabolite relationship: has_role CHEBI:77941 ! EC 3.5.1.4 (amidase) inhibitor relationship: has_role CHEBI:78433 ! refrigerant relationship: is_conjugate_acid_of CHEBI:29337 ! azanide relationship: is_conjugate_base_of CHEBI:28938 ! ammonium property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "H3N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/H3N/h1H3" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "QGZKDVFQNNGYKY-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "17.03056" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "17.02655" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[H]N([H])[H]" xsd:string [Term] id: CHEBI:16183 name: methane namespace: chebi_ontology alt_id: CHEBI:14585 alt_id: CHEBI:25220 alt_id: CHEBI:6811 def: "A one-carbon compound in which the carbon is attached by single bonds to four hydrogen atoms. It is a colourless, odourless, non-toxic but flammable gas (b.p. -161degreeC)." [] subset: 3_STAR synonym: "CH4" RELATED [IUPAC] synonym: "marsh gas" RELATED [NIST_Chemistry_WebBook] synonym: "metano" RELATED [ChEBI] synonym: "Methan" RELATED [ChEBI] synonym: "Methane" EXACT [KEGG_COMPOUND] synonym: "methane" EXACT IUPAC_NAME [IUPAC] synonym: "methane" EXACT [UniProt] synonym: "methane" EXACT [ChEBI] synonym: "methyl hydride" RELATED [ChemIDplus] synonym: "tetrahydridocarbon" EXACT IUPAC_NAME [IUPAC] xref: Beilstein:1718732 {source="ChemIDplus"} xref: CAS:74-82-8 {source="NIST Chemistry WebBook"} xref: CAS:74-82-8 {source="ChemIDplus"} xref: CAS:74-82-8 {source="KEGG COMPOUND"} xref: Gmelin:59 {source="Gmelin"} xref: HMDB:HMDB0002714 xref: KEGG:C01438 xref: MetaCyc:CH4 xref: Patent:FR994032 xref: Patent:US2583090 xref: PMID:17791569 {source="Europe PMC"} xref: PMID:23104415 {source="Europe PMC"} xref: PMID:23353606 {source="Europe PMC"} xref: PMID:23376302 {source="Europe PMC"} xref: PMID:23397538 {source="Europe PMC"} xref: PMID:23718889 {source="Europe PMC"} xref: PMID:23739479 {source="Europe PMC"} xref: PMID:23742231 {source="Europe PMC"} xref: PMID:23756351 {source="Europe PMC"} xref: PMID:24132456 {source="Europe PMC"} xref: PMID:24161402 {source="Europe PMC"} xref: PMID:24259373 {source="Europe PMC"} xref: Reaxys:1718732 {source="Reaxys"} xref: UM-BBD_compID:c0095 {source="UM-BBD"} xref: Wikipedia:Methane is_a: CHEBI:138675 ! gas molecular entity is_a: CHEBI:18310 ! alkane is_a: CHEBI:37176 ! mononuclear parent hydride is_a: CHEBI:64708 ! one-carbon compound relationship: has_role CHEBI:35230 ! fossil fuel relationship: has_role CHEBI:76413 ! greenhouse gas relationship: has_role CHEBI:76969 ! bacterial metabolite relationship: is_conjugate_acid_of CHEBI:29438 ! methanide property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "CH4" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/CH4/h1H4" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "VNWKTOKETHGBQD-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "16.04246" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "16.03130" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[H]C([H])([H])[H]" xsd:string [Term] id: CHEBI:16189 name: sulfate namespace: chebi_ontology alt_id: CHEBI:15135 alt_id: CHEBI:45687 alt_id: CHEBI:9335 def: "A sulfur oxoanion obtained by deprotonation of both OH groups of sulfuric acid." [] subset: 3_STAR synonym: "[SO4](2-)" RELATED [IUPAC] synonym: "SO4(2-)" RELATED [IUPAC] synonym: "Sulfate" EXACT [KEGG_COMPOUND] synonym: "sulfate" EXACT [UniProt] synonym: "sulfate" EXACT IUPAC_NAME [IUPAC] synonym: "Sulfate anion(2-)" RELATED [HMDB] synonym: "Sulfate dianion" RELATED [HMDB] synonym: "SULFATE ION" RELATED [PDBeChem] synonym: "Sulfate(2-)" RELATED [HMDB] synonym: "Sulfuric acid ion(2-)" RELATED [HMDB] synonym: "sulphate" RELATED [ChEBI] synonym: "sulphate ion" RELATED [ChEBI] synonym: "tetraoxidosulfate(2-)" EXACT IUPAC_NAME [IUPAC] synonym: "tetraoxosulfate(2-)" EXACT IUPAC_NAME [IUPAC] synonym: "tetraoxosulfate(VI)" EXACT IUPAC_NAME [IUPAC] xref: Beilstein:3648446 {source="Beilstein"} xref: CAS:14808-79-8 {source="ChemIDplus"} xref: CAS:14808-79-8 {source="NIST Chemistry WebBook"} xref: Gmelin:2120 {source="Gmelin"} xref: HMDB:HMDB0001448 xref: KEGG:C00059 xref: KEGG:D05963 xref: MetaCyc:SULFATE xref: PDBeChem:SO4 xref: PMID:11200094 {source="Europe PMC"} xref: PMID:11452993 {source="Europe PMC"} xref: PMID:11581495 {source="Europe PMC"} xref: PMID:11798107 {source="Europe PMC"} xref: PMID:12166931 {source="Europe PMC"} xref: PMID:12668033 {source="Europe PMC"} xref: PMID:14597181 {source="Europe PMC"} xref: PMID:15093386 {source="Europe PMC"} xref: PMID:15984785 {source="Europe PMC"} xref: PMID:16186560 {source="Europe PMC"} xref: PMID:16345535 {source="Europe PMC"} xref: PMID:16347366 {source="Europe PMC"} xref: PMID:16348007 {source="Europe PMC"} xref: PMID:16483812 {source="Europe PMC"} xref: PMID:16534979 {source="Europe PMC"} xref: PMID:16656509 {source="Europe PMC"} xref: PMID:16742508 {source="Europe PMC"} xref: PMID:16742518 {source="Europe PMC"} xref: PMID:17120760 {source="Europe PMC"} xref: PMID:17420092 {source="Europe PMC"} xref: PMID:17439666 {source="Europe PMC"} xref: PMID:17709180 {source="Europe PMC"} xref: PMID:18398178 {source="Europe PMC"} xref: PMID:18815700 {source="Europe PMC"} xref: PMID:18846414 {source="Europe PMC"} xref: PMID:19047345 {source="Europe PMC"} xref: PMID:19244483 {source="Europe PMC"} xref: PMID:19544990 {source="Europe PMC"} xref: PMID:19628332 {source="Europe PMC"} xref: PMID:19812358 {source="Europe PMC"} xref: PMID:30398859 {source="Europe PMC"} xref: Reaxys:3648446 {source="Reaxys"} xref: Wikipedia:Sulfate is_a: CHEBI:33482 ! sulfur oxoanion is_a: CHEBI:48154 ! sulfur oxide is_a: CHEBI:79388 ! divalent inorganic anion relationship: has_role CHEBI:23357 ! cofactor relationship: has_role CHEBI:75772 ! Saccharomyces cerevisiae metabolite relationship: has_role CHEBI:77746 ! human metabolite relationship: is_conjugate_base_of CHEBI:45696 ! hydrogensulfate property_value: http://purl.obolibrary.org/obo/chebi/charge "-2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "O4S" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/H2O4S/c1-5(2,3)4/h(H2,1,2,3,4)/p-2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "QAOWNCQODCNURD-UHFFFAOYSA-L" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "96.06360" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "95.95283" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[O-]S([O-])(=O)=O" xsd:string [Term] id: CHEBI:16336 name: hyaluronic acid namespace: chebi_ontology alt_id: CHEBI:14412 alt_id: CHEBI:24622 alt_id: CHEBI:24623 alt_id: CHEBI:5772 def: "A mucopolysaccharide composed of N-acetylglucosamine and glucuronic acid subunits. It is found in the connective tissues of vertebrates. A principal constituent of the extracellular matrix (ECM), it mediates the growth and metastasis of tumour cells." [] subset: 3_STAR synonym: "[beta-D-glucopyranuronosyl-(1->3)-2-(acetylamino)-2-deoxy-beta-D-glucopyranosyl-(1->4)]n" RELATED [ChEBI] synonym: "[beta-N-Acetyl-D-glucosaminyl(1,4)beta-D-glucuronosyl(1,3)]n" RELATED [KEGG_COMPOUND] synonym: "acide hyaluronique" RELATED [ChEBI] synonym: "acido hialuronico" RELATED [ChEBI] synonym: "hyaluronan" RELATED [ChEBI] synonym: "Hyaluronic acid" EXACT [KEGG_COMPOUND] synonym: "Hyaluronsaeure" RELATED [ChEBI] xref: Beilstein:8538277 {source="Beilstein"} xref: CAS:9004-61-9 {source="KEGG COMPOUND"} xref: CAS:9004-61-9 {source="ChemIDplus"} xref: HMDB:HMDB0010366 xref: KEGG:C00518 xref: KEGG:D08043 xref: KEGG:G10505 xref: PMID:11122186 {source="Europe PMC"} xref: PMID:18056362 {source="Europe PMC"} xref: PMID:18290544 {source="Europe PMC"} xref: Reaxys:8187837 {source="Reaxys"} xref: Wikipedia:Hyaluronan is_a: CHEBI:37395 ! mucopolysaccharide is_a: CHEBI:72813 ! exopolysaccharide relationship: has_role CHEBI:77746 ! human metabolite relationship: is_conjugate_acid_of CHEBI:132153 ! hyaluronate property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "(C14H21NO12)n" xsd:string [Term] id: CHEBI:16526 name: carbon dioxide namespace: chebi_ontology alt_id: CHEBI:13282 alt_id: CHEBI:13283 alt_id: CHEBI:13284 alt_id: CHEBI:13285 alt_id: CHEBI:23011 alt_id: CHEBI:3283 alt_id: CHEBI:48829 def: "A one-carbon compound with formula CO2 in which the carbon is attached to each oxygen atom by a double bond. A colourless, odourless gas under normal conditions, it is produced during respiration by all animals, fungi and microorganisms that depend directly or indirectly on living or decaying plants for food." [] subset: 3_STAR synonym: "[CO2]" RELATED [MolBase] synonym: "CARBON DIOXIDE" EXACT [PDBeChem] synonym: "Carbon dioxide" EXACT [KEGG_COMPOUND] synonym: "carbon dioxide" EXACT IUPAC_NAME [IUPAC] synonym: "carbonic anhydride" RELATED [UM-BBD] synonym: "CO2" RELATED [UniProt] synonym: "CO2" RELATED [KEGG_COMPOUND] synonym: "dioxidocarbon" EXACT IUPAC_NAME [IUPAC] synonym: "E 290" RELATED [ChEBI] synonym: "E-290" RELATED [ChEBI] synonym: "E290" RELATED [ChEBI] synonym: "methanedione" EXACT IUPAC_NAME [IUPAC] synonym: "R-744" RELATED [ChEBI] xref: Beilstein:1900390 {source="Beilstein"} xref: CAS:124-38-9 {source="ChemIDplus"} xref: CAS:124-38-9 {source="NIST Chemistry WebBook"} xref: CAS:124-38-9 {source="KEGG COMPOUND"} xref: Drug_Central:4256 {source="DrugCentral"} xref: Gmelin:989 {source="Gmelin"} xref: HMDB:HMDB0001967 xref: KEGG:C00011 xref: KEGG:D00004 xref: MetaCyc:CARBON-DIOXIDE xref: MolBase:752 xref: PDBeChem:CO2 xref: PMID:10826146 {source="Europe PMC"} xref: PMID:11094503 {source="Europe PMC"} xref: PMID:11584085 {source="Europe PMC"} xref: PMID:11802652 {source="Europe PMC"} xref: PMID:14639145 {source="Europe PMC"} xref: PMID:15050588 {source="Europe PMC"} xref: PMID:16591971 {source="Europe PMC"} xref: PMID:16656478 {source="Europe PMC"} xref: PMID:16659660 {source="Europe PMC"} xref: PMID:17190796 {source="Europe PMC"} xref: PMID:17448243 {source="Europe PMC"} xref: PMID:17878298 {source="Europe PMC"} xref: PMID:17884085 {source="Europe PMC"} xref: PMID:19043767 {source="Europe PMC"} xref: PMID:19259576 {source="Europe PMC"} xref: PMID:19854893 {source="Europe PMC"} xref: PMID:23384758 {source="Europe PMC"} xref: PMID:23828359 {source="Europe PMC"} xref: PMID:24258718 {source="Europe PMC"} xref: PMID:8482095 {source="Europe PMC"} xref: PMID:8818713 {source="Europe PMC"} xref: PMID:8869828 {source="Europe PMC"} xref: PMID:9611769 {source="Europe PMC"} xref: PMID:9730350 {source="Europe PMC"} xref: PPDB:119 xref: Reaxys:1900390 {source="Reaxys"} xref: UM-BBD_compID:c0131 {source="UM-BBD"} xref: Wikipedia:Carbon_dioxide is_a: CHEBI:138675 ! gas molecular entity is_a: CHEBI:23014 ! carbon oxide is_a: CHEBI:64708 ! one-carbon compound relationship: has_role CHEBI:35620 ! vasodilator agent relationship: has_role CHEBI:38867 ! anaesthetic relationship: has_role CHEBI:46787 ! solvent relationship: has_role CHEBI:48706 ! antagonist relationship: has_role CHEBI:75771 ! mouse metabolite relationship: has_role CHEBI:75772 ! Saccharomyces cerevisiae metabolite relationship: has_role CHEBI:76413 ! greenhouse gas relationship: has_role CHEBI:76971 ! Escherichia coli metabolite relationship: has_role CHEBI:77746 ! human metabolite relationship: has_role CHEBI:77974 ! food packaging gas relationship: has_role CHEBI:78017 ! food propellant relationship: has_role CHEBI:78433 ! refrigerant property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "CO2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/CO2/c2-1-3" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "CURLTUGMZLYLDI-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "44.010" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "43.98983" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "O=C=O" xsd:string [Term] id: CHEBI:16541 name: protein polypeptide chain namespace: chebi_ontology alt_id: CHEBI:8526 def: "A naturally occurring polypeptide synthesized at the ribosome." [] subset: 3_STAR synonym: "polypeptide chain" RELATED [ChEBI] synonym: "Protein" RELATED [KEGG_COMPOUND] synonym: "protein polypeptide chains" RELATED [ChEBI] xref: KEGG:C00017 is_a: CHEBI:15841 ! polypeptide relationship: has_part CHEBI:33700 ! proteinogenic amino-acid residue [Term] id: CHEBI:16646 name: carbohydrate namespace: chebi_ontology alt_id: CHEBI:15131 alt_id: CHEBI:23008 alt_id: CHEBI:9318 def: "Any member of the class of organooxygen compounds that is a polyhydroxy-aldehyde or -ketone or a lactol resulting from their intramolecular condensation (monosaccharides); substances derived from these by reduction of the carbonyl group (alditols), by oxidation of one or more hydroxy groups to afford the corresponding aldehydes, ketones, or carboxylic acids, or by replacement of one or more hydroxy group(s) by a hydrogen atom; and polymeric products arising by intermolecular acetal formation between two or more such molecules (disaccharides, polysaccharides and oligosaccharides). Carbohydrates contain only carbon, hydrogen and oxygen atoms; prior to any oxidation or reduction, most have the empirical formula Cm(H2O)n. Compounds obtained from carbohydrates by substitution, etc., are known as carbohydrate derivatives and may contain other elements. Cyclitols are generally not regarded as carbohydrates." [] subset: 3_STAR synonym: "a carbohydrate" RELATED [UniProt] synonym: "carbohidrato" RELATED [IUPAC] synonym: "carbohidratos" RELATED [IUPAC] synonym: "carbohydrate" EXACT IUPAC_NAME [IUPAC] synonym: "carbohydrates" EXACT IUPAC_NAME [IUPAC] synonym: "glucide" RELATED [ChEBI] synonym: "glucides" RELATED [ChEBI] synonym: "glucido" RELATED [ChEBI] synonym: "glucidos" RELATED [ChEBI] synonym: "hydrates de carbone" RELATED [ChEBI] synonym: "Kohlenhydrat" RELATED [ChEBI] synonym: "Kohlenhydrate" RELATED [ChEBI] synonym: "saccharide" RELATED [IUPAC] synonym: "saccharides" RELATED [IUPAC] synonym: "saccharidum" RELATED [ChEBI] xref: Wikipedia:Carbohydrate is_a: CHEBI:78616 ! carbohydrates and carbohydrate derivatives [Term] id: CHEBI:16670 name: peptide namespace: chebi_ontology alt_id: CHEBI:14753 alt_id: CHEBI:25906 alt_id: CHEBI:7990 def: "Amide derived from two or more amino carboxylic acid molecules (the same or different) by formation of a covalent bond from the carbonyl carbon of one to the nitrogen atom of another with formal loss of water. The term is usually applied to structures formed from alpha-amino acids, but it includes those derived from any amino carboxylic acid. X = OH, OR, NH2, NHR, etc." [] subset: 3_STAR synonym: "Peptid" RELATED [ChEBI] synonym: "Peptide" EXACT [KEGG_COMPOUND] synonym: "peptides" EXACT IUPAC_NAME [IUPAC] synonym: "peptido" RELATED [ChEBI] synonym: "peptidos" RELATED [ChEBI] xref: KEGG:C00012 is_a: CHEBI:37622 ! carboxamide is_a: CHEBI:50047 ! organic amino compound relationship: has_part CHEBI:33708 ! amino-acid residue relationship: is_tautomer_of CHEBI:60466 ! peptide zwitterion property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "(C2H2NOR)nC2H3NOR" xsd:string [Term] id: CHEBI:166902 name: noradrenaline(1+) namespace: chebi_ontology subset: 2_STAR synonym: "noradrenaline" RELATED [UniProt] is_a: CHEBI:25697 ! organic cation is_a: CHEBI:35274 ! ammonium ion derivative relationship: is_conjugate_acid_of CHEBI:33569 ! noradrenaline property_value: http://purl.obolibrary.org/obo/chebi/charge "+1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C8H12NO3" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C8H11NO3/c9-4-8(12)5-1-2-6(10)7(11)3-5/h1-3,8,10-12H,4,9H2/p+1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "SFLSHLFXELFNJZ-UHFFFAOYSA-O" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "170.187" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "170.08117" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "C1=CC(=CC(=C1O)O)C(C[NH3+])O" xsd:string [Term] id: CHEBI:167559 name: glycan namespace: chebi_ontology def: "Any oligosaccharide, polysaccharide or their derivatives consisting of monosaccharides or monosaccharide derivatives linked by glycosidic bonds. See also http://www.ontobee.org/ontology/GNO?iri=http://purl.obolibrary.org/obo/GNO_00000001." [] subset: 3_STAR synonym: "glycans" RELATED [ChEBI] is_a: CHEBI:78616 ! carbohydrates and carbohydrate derivatives [Term] id: CHEBI:16765 name: tryptamine namespace: chebi_ontology alt_id: CHEBI:15274 alt_id: CHEBI:27161 alt_id: CHEBI:46157 alt_id: CHEBI:9767 def: "An aminoalkylindole consisting of indole having a 2-aminoethyl group at the 3-position." [] subset: 3_STAR synonym: "1H-indole-3-ethanamine" RELATED [NIST_Chemistry_WebBook] synonym: "2-(1H-INDOL-3-YL)ETHANAMINE" RELATED [PDBeChem] synonym: "2-(1H-indol-3-yl)ethanamine" EXACT IUPAC_NAME [IUPAC] synonym: "2-(3-indolyl)ethylamine" RELATED [ChemIDplus] synonym: "3-(2-Aminoethyl)indole" RELATED [KEGG_COMPOUND] synonym: "Tryptamine" EXACT [KEGG_COMPOUND] xref: Beilstein:125513 {source="Beilstein"} xref: CAS:61-54-1 {source="ChemIDplus"} xref: CAS:61-54-1 {source="NIST Chemistry WebBook"} xref: CAS:61-54-1 {source="KEGG COMPOUND"} xref: DrugBank:DB08653 xref: Gmelin:603448 {source="Gmelin"} xref: HMDB:HMDB0000303 xref: KEGG:C00398 xref: KNApSAcK:C00001434 xref: MetaCyc:TRYPTAMINE xref: PDBeChem:TSS xref: PMID:16126914 {source="Europe PMC"} xref: PMID:22770225 {source="Europe PMC"} xref: PMID:24345948 {source="Europe PMC"} xref: PMID:24558969 {source="Europe PMC"} xref: Reaxys:125513 {source="Reaxys"} xref: Wikipedia:Tryptamine is_a: CHEBI:27162 ! tryptamines is_a: CHEBI:38631 ! aminoalkylindole is_a: CHEBI:38958 ! indole alkaloid is_a: CHEBI:64365 ! aralkylamino compound relationship: has_role CHEBI:75771 ! mouse metabolite relationship: has_role CHEBI:76924 ! plant metabolite relationship: has_role CHEBI:77746 ! human metabolite relationship: is_conjugate_base_of CHEBI:57887 ! tryptaminium property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C10H12N2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C10H12N2/c11-6-5-8-7-12-10-4-2-1-3-9(8)10/h1-4,7,12H,5-6,11H2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "APJYDQYYACXCRM-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "160.21570" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "160.10005" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "NCCc1c[nH]c2ccccc12" xsd:string [Term] id: CHEBI:16900 name: chlorophyllide a namespace: chebi_ontology alt_id: CHEBI:13976 alt_id: CHEBI:13977 alt_id: CHEBI:23159 alt_id: CHEBI:3633 subset: 3_STAR synonym: "Chlorophyllid a" RELATED [ChEBI] synonym: "Chlorophyllide a" EXACT [KEGG_COMPOUND] xref: Beilstein:5801116 {source="Beilstein"} xref: CAS:14897-06-4 {source="ChemIDplus"} xref: CAS:14897-06-4 {source="KEGG COMPOUND"} xref: KEGG:C02139 xref: KNApSAcK:C00007316 is_a: CHEBI:25248 ! methyl ester is_a: CHEBI:36244 ! dicarboxylic acid monoester is_a: CHEBI:38206 ! chlorophyllide relationship: is_conjugate_acid_of CHEBI:57942 ! chlorophyllide a(1-) property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C35H34MgN4O5" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C35H36N4O5.Mg/c1-8-19-15(3)22-12-24-17(5)21(10-11-28(40)41)32(38-24)30-31(35(43)44-7)34(42)29-18(6)25(39-33(29)30)14-27-20(9-2)16(4)23(37-27)13-26(19)36-22;/h8,12-14,17,21,31H,1,9-11H2,2-7H3,(H3,36,37,38,39,40,41,42);/q;+2/p-2/t17-,21-,31+;/m0./s1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "ANWUQYTXRXCEMZ-NYABAGMLSA-L" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "614.97300" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "614.23796" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "CCC1=C(C)C2=Cc3c(C=C)c(C)c4C=C5[C@@H](C)[C@H](CCC(O)=O)C6=[N+]5[Mg--]5(n34)n3c(=CC1=[N+]25)c(C)c1C(=O)[C@H](C(=O)OC)C6=c31" xsd:string [Term] id: CHEBI:16991 name: deoxyribonucleic acid namespace: chebi_ontology alt_id: CHEBI:13302 alt_id: CHEBI:21123 alt_id: CHEBI:33698 alt_id: CHEBI:4291 def: "High molecular weight, linear polymers, composed of nucleotides containing deoxyribose and linked by phosphodiester bonds; DNA contain the genetic information of organisms." [] subset: 3_STAR synonym: "(Deoxyribonucleotide)m" RELATED [KEGG_COMPOUND] synonym: "(Deoxyribonucleotide)n" RELATED [KEGG_COMPOUND] synonym: "(Deoxyribonucleotide)n+m" RELATED [KEGG_COMPOUND] synonym: "Deoxyribonucleic acid" EXACT [KEGG_COMPOUND] synonym: "deoxyribonucleic acids" EXACT IUPAC_NAME [IUPAC] synonym: "deoxyribonucleic acids" RELATED [ChEBI] synonym: "Desoxyribonukleinsaeure" RELATED [ChEBI] synonym: "desoxyribose nucleic acid" RELATED [ChemIDplus] synonym: "DNA" RELATED [KEGG_COMPOUND] synonym: "DNA" RELATED [IUPAC] synonym: "DNAn" RELATED [KEGG_COMPOUND] synonym: "DNAn+1" RELATED [KEGG_COMPOUND] synonym: "DNS" RELATED [ChEBI] synonym: "thymus nucleic acid" RELATED [ChEBI] xref: CAS:9007-49-2 {source="ChemIDplus"} xref: CAS:9007-49-2 {source="KEGG COMPOUND"} xref: KEGG:C00039 is_a: CHEBI:33696 ! nucleic acid relationship: has_part CHEBI:33793 ! canonical deoxyribonucleoside residue relationship: has_part CHEBI:50298 ! canonical deoxyribonucleotide residue relationship: has_role CHEBI:75771 ! mouse metabolite relationship: has_role CHEBI:77746 ! human metabolite [Term] id: CHEBI:17087 name: ketone namespace: chebi_ontology alt_id: CHEBI:13427 alt_id: CHEBI:13646 alt_id: CHEBI:24974 alt_id: CHEBI:6127 alt_id: CHEBI:8742 def: "A compound in which a carbonyl group is bonded to two carbon atoms: R2C=O (neither R may be H)." [] subset: 3_STAR synonym: "a ketone" RELATED [UniProt] synonym: "cetone" RELATED [ChEBI] synonym: "Keton" RELATED [ChEBI] synonym: "Ketone" EXACT [KEGG_COMPOUND] synonym: "ketones" EXACT IUPAC_NAME [IUPAC] synonym: "ketones" RELATED [ChEBI] synonym: "R-CO-R'" RELATED [KEGG_COMPOUND] xref: KEGG:C01450 xref: Wikipedia:Ketone is_a: CHEBI:36586 ! carbonyl compound property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "COR2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "28.010" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "27.99491" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[*]C([*])=O" xsd:string [Term] id: CHEBI:17089 name: glycoprotein namespace: chebi_ontology alt_id: CHEBI:14349 alt_id: CHEBI:5481 alt_id: CHEBI:5493 def: "A compound in which a carbohydrate component is covalently bound to a protein component." [] subset: 3_STAR synonym: "glicoproteina" RELATED [ChEBI] synonym: "glicoproteinas" RELATED [ChEBI] synonym: "Glycoprotein" EXACT [KEGG_COMPOUND] synonym: "glycoproteine" RELATED [ChEBI] synonym: "glycoproteines" RELATED [ChEBI] synonym: "glycoproteins" EXACT IUPAC_NAME [IUPAC] synonym: "Glykoprotein" RELATED [ChEBI] synonym: "Glykoproteine" RELATED [ChEBI] xref: KEGG:C00326 is_a: CHEBI:33837 ! conjugated protein is_a: CHEBI:63299 ! carbohydrate derivative [Term] id: CHEBI:17245 name: carbon monoxide namespace: chebi_ontology alt_id: CHEBI:13281 alt_id: CHEBI:23013 alt_id: CHEBI:3282 alt_id: CHEBI:41526 def: "A one-carbon compound in which the carbon is joined only to a single oxygen. It is a colourless, odourless, tasteless, toxic gas." [] subset: 3_STAR synonym: "[CO]" RELATED [MolBase] synonym: "C#O" RELATED [ChEBI] synonym: "carbon monooxide" EXACT IUPAC_NAME [IUPAC] synonym: "CARBON MONOXIDE" EXACT [PDBeChem] synonym: "Carbon monoxide" EXACT [KEGG_COMPOUND] synonym: "carbon monoxide" EXACT IUPAC_NAME [IUPAC] synonym: "carbon(II) oxide" EXACT IUPAC_NAME [IUPAC] synonym: "CO" RELATED [UniProt] synonym: "CO" RELATED [KEGG_COMPOUND] xref: Beilstein:1900508 {source="Beilstein"} xref: Beilstein:3535285 {source="Beilstein"} xref: Beilstein:3587264 {source="Beilstein"} xref: CAS:630-08-0 {source="KEGG COMPOUND"} xref: CAS:630-08-0 {source="ChemIDplus"} xref: CAS:630-08-0 {source="NIST Chemistry WebBook"} xref: Gmelin:421 {source="Gmelin"} xref: HMDB:HMDB0001361 xref: KEGG:C00237 xref: KEGG:D09706 xref: MetaCyc:CARBON-MONOXIDE xref: MolBase:753 xref: PDBeChem:CMO xref: PMID:10085152 {source="Europe PMC"} xref: PMID:10679539 {source="Europe PMC"} xref: PMID:11572959 {source="Europe PMC"} xref: PMID:14527438 {source="Europe PMC"} xref: PMID:14563665 {source="Europe PMC"} xref: PMID:15127883 {source="Europe PMC"} xref: PMID:15598489 {source="Europe PMC"} xref: PMID:16371440 {source="Europe PMC"} xref: PMID:16520836 {source="Europe PMC"} xref: PMID:17041734 {source="Europe PMC"} xref: PMID:18094356 {source="Europe PMC"} xref: PMID:19909254 {source="Europe PMC"} xref: PMID:23762709 {source="Europe PMC"} xref: PMID:7022476 {source="Europe PMC"} xref: PMID:8240252 {source="Europe PMC"} xref: PMID:8620577 {source="Europe PMC"} xref: UM-BBD_compID:c0369 {source="UM-BBD"} xref: Wikipedia:Carbon_monoxide is_a: CHEBI:138675 ! gas molecular entity is_a: CHEBI:23014 ! carbon oxide is_a: CHEBI:64708 ! one-carbon compound relationship: has_role CHEBI:25512 ! neurotransmitter relationship: has_role CHEBI:35620 ! vasodilator agent relationship: has_role CHEBI:38500 ! EC 1.9.3.1 (cytochrome c oxidase) inhibitor relationship: has_role CHEBI:50183 ! P450 inhibitor relationship: has_role CHEBI:50406 ! probe relationship: has_role CHEBI:50910 ! neurotoxin relationship: has_role CHEBI:52214 ! ligand relationship: has_role CHEBI:59163 ! biomarker relationship: has_role CHEBI:62488 ! signalling molecule relationship: has_role CHEBI:75771 ! mouse metabolite relationship: has_role CHEBI:77746 ! human metabolite relationship: is_conjugate_base_of CHEBI:58072 ! carbon monoxide(1+) property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "CO" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/CO/c1-2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "UGFAIRIUMAVXCW-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "28.01010" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "27.99491" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[C-]#[O+]" xsd:string [Term] id: CHEBI:17632 name: nitrate namespace: chebi_ontology alt_id: CHEBI:14654 alt_id: CHEBI:44487 alt_id: CHEBI:71263 def: "A nitrogen oxoanion formed by loss of a proton from nitric acid. Principal species present at pH 7.3." [] subset: 3_STAR synonym: "[NO3](-)" RELATED [IUPAC] synonym: "nitrate" EXACT [UniProt] synonym: "nitrate" EXACT IUPAC_NAME [IUPAC] synonym: "NITRATE ION" RELATED [PDBeChem] synonym: "nitrate(1-)" RELATED [ChemIDplus] synonym: "NO3" RELATED [ChEBI] synonym: "NO3(-)" RELATED [IUPAC] synonym: "trioxidonitrate(1-)" EXACT IUPAC_NAME [IUPAC] synonym: "trioxonitrate(1-)" EXACT IUPAC_NAME [IUPAC] synonym: "trioxonitrate(V)" EXACT IUPAC_NAME [IUPAC] xref: Beilstein:3587575 {source="Beilstein"} xref: CAS:14797-55-8 {source="ChemIDplus"} xref: CAS:14797-55-8 {source="NIST Chemistry WebBook"} xref: Gmelin:1574 {source="Gmelin"} xref: MetaCyc:NITRATE {source="SUBMITTER"} xref: PDBeChem:NO3 xref: Wikipedia:Nitrate is_a: CHEBI:33458 ! nitrogen oxoanion is_a: CHEBI:62764 ! reactive nitrogen species is_a: CHEBI:79389 ! monovalent inorganic anion relationship: is_conjugate_base_of CHEBI:48107 ! nitric acid property_value: http://purl.obolibrary.org/obo/chebi/charge "-1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "NO3" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/NO3/c2-1(3)4/q-1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "NHNBFGGVMKEFGY-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "62.00490" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "61.98837" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[O-][N+]([O-])=O" xsd:string [Term] id: CHEBI:17790 name: methanol namespace: chebi_ontology alt_id: CHEBI:14588 alt_id: CHEBI:25227 alt_id: CHEBI:44080 alt_id: CHEBI:44553 alt_id: CHEBI:6816 def: "The primary alcohol that is the simplest aliphatic alcohol, comprising a methyl and an alcohol group." [] subset: 3_STAR synonym: "carbinol" RELATED [ChemIDplus] synonym: "CH3OH" RELATED [ChEBI] synonym: "MeOH" RELATED [ChEBI] synonym: "METHANOL" EXACT [PDBeChem] synonym: "Methanol" EXACT [KEGG_COMPOUND] synonym: "methanol" EXACT [UniProt] synonym: "methanol" EXACT IUPAC_NAME [IUPAC] synonym: "Methyl alcohol" RELATED [KEGG_COMPOUND] synonym: "Methylalkohol" RELATED [NIST_Chemistry_WebBook] synonym: "spirit of wood" RELATED [HMDB] synonym: "wood alcohol" RELATED [ChemIDplus] synonym: "wood naphtha" RELATED [ChemIDplus] synonym: "wood spirit" RELATED [NIST_Chemistry_WebBook] xref: Beilstein:1098229 {source="Beilstein"} xref: CAS:67-56-1 {source="KEGG COMPOUND"} xref: CAS:67-56-1 {source="NIST Chemistry WebBook"} xref: CAS:67-56-1 {source="ChemIDplus"} xref: Gmelin:449 {source="Gmelin"} xref: HMDB:HMDB0001875 xref: KEGG:C00132 xref: KEGG:D02309 xref: MetaCyc:METOH xref: PDBeChem:MOH xref: PMID:11141607 {source="Europe PMC"} xref: PMID:11430978 {source="Europe PMC"} xref: PMID:11489599 {source="Europe PMC"} xref: PMID:11680737 {source="Europe PMC"} xref: PMID:11684179 {source="Europe PMC"} xref: PMID:14012711 {source="Europe PMC"} xref: PMID:14678513 {source="Europe PMC"} xref: PMID:14760634 {source="Europe PMC"} xref: PMID:15172721 {source="Europe PMC"} xref: PMID:15906011 {source="Europe PMC"} xref: PMID:16705261 {source="Europe PMC"} xref: PMID:17451998 {source="Europe PMC"} xref: PMID:17733096 {source="Europe PMC"} xref: PMID:19064074 {source="Europe PMC"} xref: PMID:19850112 {source="Europe PMC"} xref: PMID:20314698 {source="Europe PMC"} xref: Reaxys:1098229 {source="Reaxys"} xref: UM-BBD_compID:c0132 {source="UM-BBD"} xref: Wikipedia:Methanol is_a: CHEBI:134179 ! volatile organic compound is_a: CHEBI:15734 ! primary alcohol is_a: CHEBI:50584 ! alkyl alcohol is_a: CHEBI:64708 ! one-carbon compound relationship: has_role CHEBI:131604 ! Mycoplasma genitalium metabolite relationship: has_role CHEBI:33292 ! fuel relationship: has_role CHEBI:48360 ! amphiprotic solvent relationship: has_role CHEBI:75771 ! mouse metabolite relationship: has_role CHEBI:76971 ! Escherichia coli metabolite relationship: has_role CHEBI:77746 ! human metabolite relationship: is_conjugate_acid_of CHEBI:52090 ! methoxide property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "CH4O" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/CH4O/c1-2/h2H,1H3" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "OKKJLVBELUTLKV-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "32.04186" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "32.02621" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "CO" xsd:string [Term] id: CHEBI:17891 name: donor namespace: chebi_ontology alt_id: CHEBI:14202 alt_id: CHEBI:4697 def: "A molecular entity that can transfer (\"donate\") an electron, a pair of electrons, an atom or a group to another molecular entity." [] subset: 3_STAR synonym: "Donator" RELATED [ChEBI] synonym: "donneur" RELATED [ChEBI] synonym: "Donor" EXACT [KEGG_COMPOUND] xref: KEGG:C01351 is_a: CHEBI:51086 ! chemical role [Term] id: CHEBI:18059 name: lipid namespace: chebi_ontology alt_id: CHEBI:14517 alt_id: CHEBI:25054 alt_id: CHEBI:6486 def: "'Lipids' is a loosely defined term for substances of biological origin that are soluble in nonpolar solvents. They consist of saponifiable lipids, such as glycerides (fats and oils) and phospholipids, as well as nonsaponifiable lipids, principally steroids." [] subset: 3_STAR synonym: "Lipid" EXACT [KEGG_COMPOUND] synonym: "lipids" EXACT IUPAC_NAME [IUPAC] xref: KEGG:C01356 is_a: CHEBI:50860 ! organic molecular entity [Term] id: CHEBI:18085 name: glycosaminoglycan namespace: chebi_ontology alt_id: CHEBI:14361 alt_id: CHEBI:24398 alt_id: CHEBI:5495 def: "Any polysaccharide containing a substantial proportion of aminomonosaccharide residues." [] subset: 3_STAR synonym: "glicosaminoglicano" RELATED [IUPAC] synonym: "Glycosaminoglycan" EXACT [KEGG_COMPOUND] synonym: "glycosaminoglycan" EXACT IUPAC_NAME [IUPAC] synonym: "glycosaminoglycane" RELATED [IUPAC] synonym: "glycosaminoglycans" RELATED [ChEBI] synonym: "Glykosaminoglykan" RELATED [ChEBI] xref: KEGG:C02545 xref: Wikipedia:Glycosaminoglycan is_a: CHEBI:22506 ! aminoglycan [Term] id: CHEBI:18154 name: polysaccharide namespace: chebi_ontology alt_id: CHEBI:14864 alt_id: CHEBI:26205 alt_id: CHEBI:8322 def: "A biomacromolecule consisting of large numbers of monosaccharide residues linked glycosidically. This term is commonly used only for those containing more than ten monosaccharide residues." [] subset: 3_STAR synonym: "Glycan" RELATED [KEGG_COMPOUND] synonym: "Glycane" RELATED [ChEBI] synonym: "glycans" RELATED [IUPAC] synonym: "Glykan" RELATED [ChEBI] synonym: "Glykane" RELATED [ChEBI] synonym: "polisacarido" RELATED [ChEBI] synonym: "polisacaridos" RELATED [IUPAC] synonym: "Polysaccharide" EXACT [KEGG_COMPOUND] synonym: "polysaccharides" EXACT IUPAC_NAME [IUPAC] xref: KEGG:C00420 is_a: CHEBI:16646 ! carbohydrate is_a: CHEBI:167559 ! glycan is_a: CHEBI:33694 ! biomacromolecule [Term] id: CHEBI:18230 name: chlorophyll a namespace: chebi_ontology alt_id: CHEBI:13974 alt_id: CHEBI:23157 alt_id: CHEBI:3631 alt_id: CHEBI:48807 subset: 3_STAR synonym: "(SP-4-2)-((2E,7R,11R)-3,7,11,15-tetramethyl-2-hexadecenyl (3S,4S,21R)-9-ethenyl-14-ethyl-21-(methoxycarbonyl)-4,8,13,18-tetramethyl-20-oxo-3-phorbinepropanoato(2-)-kappaN(23),kappaN(24),kappaN(25),kappaN(26))-magnesium" RELATED [ChemIDplus] synonym: "[(2E,7R,11R)-3,7,11,15-tetramethylhexadec-2-en-1-yl (2(2)R,17S,18S)-7-ethyl-2(1),2(2),17,18-tetrahydro-2(2)-(methoxycarbonyl)-3,8,13,17-tetramethyl-2(1)-oxo-12-ethenylcyclopenta[at]porphyrin-18-propanoato(2-)]magnesium" EXACT IUPAC_NAME [IUPAC] synonym: "Chlorophyll" RELATED [ChemIDplus] synonym: "CHLOROPHYLL A" EXACT [PDBeChem] synonym: "Chlorophyll a" EXACT [KEGG_COMPOUND] xref: Beilstein:1208847 {source="Beilstein"} xref: Beilstein:4651978 {source="Beilstein"} xref: CAS:479-61-8 {source="KEGG COMPOUND"} xref: CAS:479-61-8 {source="ChemIDplus"} xref: COMe:MOL000003 xref: DrugBank:DB02133 xref: Gmelin:475109 {source="Gmelin"} xref: KEGG:C05306 xref: KNApSAcK:C00001528 xref: PDBeChem:CLA is_a: CHEBI:25248 ! methyl ester is_a: CHEBI:28966 ! chlorophyll relationship: has_functional_parent CHEBI:16900 ! chlorophyllide a relationship: is_conjugate_acid_of CHEBI:58416 ! chlorophyll a(1-) property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C55H72MgN4O5" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C55H73N4O5.Mg/c1-13-39-35(8)42-28-44-37(10)41(24-25-48(60)64-27-26-34(7)23-17-22-33(6)21-16-20-32(5)19-15-18-31(3)4)52(58-44)50-51(55(62)63-12)54(61)49-38(11)45(59-53(49)50)30-47-40(14-2)36(9)43(57-47)29-46(39)56-42;/h13,26,28-33,37,41,51H,1,14-25,27H2,2-12H3,(H-,56,57,58,59,61);/q-1;+2/p-1/b34-26+;/t32-,33-,37+,41+,51-;/m1./s1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "ATNHDLDRLWWWCB-AENOIHSZSA-M" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "893.48900" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "892.53531" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "CCC1=C(C)C2=Cc3c(C=C)c(C)c4C=C5[C@@H](C)[C@H](CCC(=O)OC\\C=C(/C)CCC[C@H](C)CCC[C@H](C)CCCC(C)C)C6=[N+]5[Mg--]5(n34)n3c(=CC1=[N+]25)c(C)c1C(=O)[C@H](C(=O)OC)C6=c31" xsd:string [Term] id: CHEBI:18282 name: nucleobase namespace: chebi_ontology alt_id: CHEBI:13873 alt_id: CHEBI:25598 alt_id: CHEBI:2995 def: "That part of DNA or RNA that may be involved in pairing." [] subset: 3_STAR synonym: "Base" RELATED [KEGG_COMPOUND] synonym: "nucleobases" RELATED [ChEBI] xref: KEGG:C00701 xref: Wikipedia:Nucleobase is_a: CHEBI:38101 ! organonitrogen heterocyclic compound [Term] id: CHEBI:18310 name: alkane namespace: chebi_ontology alt_id: CHEBI:13435 alt_id: CHEBI:22317 alt_id: CHEBI:2576 def: "An acyclic branched or unbranched hydrocarbon having the general formula CnH2n+2, and therefore consisting entirely of hydrogen atoms and saturated carbon atoms." [] subset: 3_STAR synonym: "alcane" RELATED [IUPAC] synonym: "alcanes" RELATED [IUPAC] synonym: "alcano" RELATED [IUPAC] synonym: "alcanos" RELATED [IUPAC] synonym: "Alkan" RELATED [ChEBI] synonym: "Alkane" EXACT [KEGG_COMPOUND] synonym: "alkane" EXACT IUPAC_NAME [IUPAC] synonym: "alkanes" EXACT IUPAC_NAME [IUPAC] synonym: "an alkane" RELATED [UniProt] synonym: "RH" RELATED [KEGG_COMPOUND] xref: KEGG:C01371 is_a: CHEBI:24632 ! hydrocarbon is_a: CHEBI:33653 ! aliphatic compound property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "CH3R" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "15.035" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "15.02348" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "C[*]" xsd:string [Term] id: CHEBI:18367 name: phosphate(3-) namespace: chebi_ontology alt_id: CHEBI:14791 alt_id: CHEBI:45024 alt_id: CHEBI:7793 def: "A phosphate ion that is the conjugate base of hydrogenphosphate." [] subset: 3_STAR synonym: "[PO4](3-)" RELATED [IUPAC] synonym: "Orthophosphate" RELATED [KEGG_COMPOUND] synonym: "Phosphate" RELATED [KEGG_COMPOUND] synonym: "phosphate" EXACT IUPAC_NAME [IUPAC] synonym: "PHOSPHATE ION" RELATED [PDBeChem] synonym: "PO4(3-)" RELATED [IUPAC] synonym: "tetraoxidophosphate(3-)" EXACT IUPAC_NAME [IUPAC] synonym: "tetraoxophosphate(3-)" EXACT IUPAC_NAME [IUPAC] synonym: "tetraoxophosphate(V)" EXACT IUPAC_NAME [IUPAC] xref: Beilstein:3903772 {source="Beilstein"} xref: CAS:14265-44-2 {source="KEGG COMPOUND"} xref: CAS:14265-44-2 {source="ChemIDplus"} xref: Gmelin:1997 {source="Gmelin"} xref: KEGG:C00009 xref: PDBeChem:PO4 {source="ChEBI"} xref: Reaxys:3903772 {source="Reaxys"} is_a: CHEBI:35780 ! phosphate ion is_a: CHEBI:79387 ! trivalent inorganic anion relationship: is_conjugate_base_of CHEBI:43474 ! hydrogenphosphate property_value: http://purl.obolibrary.org/obo/chebi/charge "-3" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "O4P" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/H3O4P/c1-5(2,3)4/h(H3,1,2,3,4)/p-3" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "NBIIXXVUZAFLBC-UHFFFAOYSA-K" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "94.97136" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "94.95507" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[O-]P([O-])([O-])=O" xsd:string [Term] id: CHEBI:22221 name: acyl group namespace: chebi_ontology def: "An organic group formed by removing one or more hydroxy groups from an oxoacid that has the general structure RkE(=O)l(OH)m (l =/= 0). Although the term is almost always applied to organic compounds, with carboxylic acid as the oxoacid, acyl groups can in principle be derived from other types of acids such as sulfonic acids or phosphonic acids." [] subset: 3_STAR synonym: "acyl group" EXACT [IUPAC] synonym: "acyl groups" RELATED [ChEBI] synonym: "alkanoyl" EXACT IUPAC_NAME [IUPAC] synonym: "alkanoyl group" RELATED [ChEBI] synonym: "groupe acyle" RELATED [IUPAC] is_a: CHEBI:33247 ! organic group [Term] id: CHEBI:22313 name: alkaline earth metal atom namespace: chebi_ontology subset: 3_STAR synonym: "alkaline earth metal" RELATED [ChEBI] synonym: "alkaline earth metals" EXACT IUPAC_NAME [IUPAC] synonym: "alkaline-earth metal" RELATED [ChEBI] synonym: "alkaline-earth metals" RELATED [ChEBI] synonym: "Erdalkalimetall" RELATED [ChEBI] synonym: "Erdalkalimetalle" RELATED [ChEBI] synonym: "metal alcalino-terreux" RELATED [ChEBI] synonym: "metal alcalinoterreo" RELATED [ChEBI] synonym: "metales alcalinoterreos" RELATED [ChEBI] synonym: "metaux alcalino-terreux" RELATED [ChEBI] is_a: CHEBI:33318 ! main group element atom is_a: CHEBI:33521 ! metal atom is_a: CHEBI:33559 ! s-block element atom [Term] id: CHEBI:22315 name: alkaloid namespace: chebi_ontology def: "Any of the naturally occurring, basic nitrogen compounds (mostly heterocyclic) occurring mostly in the plant kingdom, but also found in bacteria, fungi, and animals. By extension, certain neutral compounds biogenetically related to basic alkaloids are also classed as alkaloids. Amino acids, peptides, proteins, nucleotides, nucleic acids, amino sugars and antibiotics are not normally regarded as alkaloids. Compounds in which the nitrogen is exocyclic (dopamine, mescaline, serotonin, etc.) are usually classed as amines rather than alkaloids." [] subset: 3_STAR synonym: "alcaloide" RELATED [ChEBI] synonym: "alcaloides" RELATED [ChEBI] synonym: "Alkaloid" EXACT [ChEBI] synonym: "Alkaloide" RELATED [ChEBI] synonym: "alkaloids" EXACT IUPAC_NAME [IUPAC] xref: Wikipedia:Alkaloid is_a: CHEBI:35352 ! organonitrogen compound relationship: has_role CHEBI:25212 ! metabolite [Term] id: CHEBI:22506 name: aminoglycan namespace: chebi_ontology subset: 3_STAR synonym: "aminoglycans" RELATED [ChEBI] is_a: CHEBI:35352 ! organonitrogen compound is_a: CHEBI:65212 ! polysaccharide derivative [Term] id: CHEBI:22563 name: anion namespace: chebi_ontology def: "A monoatomic or polyatomic species having one or more elementary charges of the electron." [] subset: 3_STAR synonym: "Anion" EXACT [ChEBI] synonym: "anion" EXACT IUPAC_NAME [IUPAC] synonym: "anion" EXACT [ChEBI] synonym: "Anionen" RELATED [ChEBI] synonym: "aniones" RELATED [ChEBI] synonym: "anions" RELATED [IUPAC] is_a: CHEBI:24870 ! ion [Term] id: CHEBI:22695 name: base namespace: chebi_ontology def: "A molecular entity having an available pair of electrons capable of forming a covalent bond with a hydron (Bronsted base) or with the vacant orbital of some other molecular entity (Lewis base)." [] subset: 3_STAR synonym: "Base" EXACT [ChEBI] synonym: "base" EXACT [ChEBI] synonym: "base" EXACT IUPAC_NAME [IUPAC] synonym: "Base1" RELATED [KEGG_COMPOUND] synonym: "Base2" RELATED [KEGG_COMPOUND] synonym: "Basen" RELATED [ChEBI] synonym: "bases" RELATED [ChEBI] synonym: "Nucleobase" RELATED [KEGG_COMPOUND] xref: KEGG:C00701 is_a: CHEBI:51086 ! chemical role [Term] id: CHEBI:22728 name: benzopyrrole namespace: chebi_ontology subset: 3_STAR synonym: "benzopyrroles" RELATED [ChEBI] is_a: CHEBI:27171 ! organic heterobicyclic compound is_a: CHEBI:38101 ! organonitrogen heterocyclic compound is_a: CHEBI:38180 ! polycyclic heteroarene [Term] id: CHEBI:23004 name: carbamoyl group namespace: chebi_ontology def: "The univalent carboacyl group formed by loss of -OH from the carboxy group of carbamic acid." [] subset: 3_STAR synonym: "-C(O)NH2" RELATED [ChEBI] synonym: "-CONH2" RELATED [IUPAC] synonym: "aminocarbonyl" RELATED [IUPAC] synonym: "carbamoyl" EXACT IUPAC_NAME [IUPAC] synonym: "carbamyl" RELATED [ChEBI] synonym: "carbamyl group" RELATED [ChEBI] synonym: "carboxamide" RELATED [IUPAC] xref: PMID:24168430 {source="Europe PMC"} is_a: CHEBI:27207 ! univalent carboacyl group relationship: is_substituent_group_from CHEBI:28616 ! carbamic acid property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "CH2NO" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "44.03272" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "44.01364" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "*C(N)=O" xsd:string [Term] id: CHEBI:23014 name: carbon oxide namespace: chebi_ontology subset: 3_STAR synonym: "carbon oxides" RELATED [ChEBI] synonym: "oxides of carbon" RELATED [ChEBI] is_a: CHEBI:25701 ! organic oxide is_a: CHEBI:36963 ! organooxygen compound [Term] id: CHEBI:23019 name: carbonyl group namespace: chebi_ontology subset: 3_STAR synonym: ">C=O" RELATED [IUPAC] synonym: "carbonyl" EXACT IUPAC_NAME [IUPAC] synonym: "carbonyl group" EXACT [ChEBI] synonym: "carbonyl group" EXACT [UniProt] is_a: CHEBI:51422 ! organodiyl group property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "CO" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "28.01010" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "27.99491" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "O=C(*)*" xsd:string [Term] id: CHEBI:23357 name: cofactor namespace: chebi_ontology def: "An organic molecule or ion (usually a metal ion) that is required by an enzyme for its activity. It may be attached either loosely (coenzyme) or tightly (prosthetic group)." [] subset: 3_STAR synonym: "cofactor" EXACT [IUPAC] synonym: "cofactors" EXACT IUPAC_NAME [IUPAC] xref: Wikipedia:Cofactor_(biochemistry) is_a: CHEBI:52206 ! biochemical role [Term] id: CHEBI:23367 name: molecular entity namespace: chebi_ontology def: "Any constitutionally or isotopically distinct atom, molecule, ion, ion pair, radical, radical ion, complex, conformer etc., identifiable as a separately distinguishable entity." [fake:2] subset: 3_STAR synonym: "entidad molecular" RELATED [IUPAC] synonym: "entidades moleculares" RELATED [IUPAC] synonym: "entite moleculaire" RELATED [IUPAC] synonym: "molecular entities" RELATED [IUPAC] synonym: "molecular entity" EXACT IUPAC_NAME [IUPAC] synonym: "molekulare Entitaet" RELATED [ChEBI] is_a: CHEBI:24431 ! chemical entity [Term] id: CHEBI:23449 name: cyclic peptide namespace: chebi_ontology subset: 3_STAR synonym: "cyclic peptides" RELATED [ChEBI] synonym: "Cyclopeptid" RELATED [ChEBI] synonym: "peptide cyclique" RELATED [IUPAC] synonym: "peptido ciclico" RELATED [IUPAC] synonym: "Zyklopeptid" RELATED [ChEBI] is_a: CHEBI:16670 ! peptide [Term] id: CHEBI:23888 name: drug namespace: chebi_ontology def: "Any substance which when absorbed into a living organism may modify one or more of its functions. The term is generally accepted for a substance taken for a therapeutic purpose, but is also commonly used for abused substances." [] subset: 3_STAR synonym: "drugs" RELATED [ChEBI] synonym: "medicine" RELATED [ChEBI] is_a: CHEBI:52217 ! pharmaceutical [Term] id: CHEBI:23924 name: enzyme inhibitor namespace: chebi_ontology def: "A compound or agent that combines with an enzyme in such a manner as to prevent the normal substrate-enzyme combination and the catalytic reaction." [] subset: 3_STAR synonym: "enzyme inhibitor" EXACT IUPAC_NAME [IUPAC] synonym: "enzyme inhibitors" RELATED [ChEBI] synonym: "inhibidor enzimatico" RELATED [ChEBI] synonym: "inhibidores enzimaticos" RELATED [ChEBI] synonym: "inhibiteur enzymatique" RELATED [ChEBI] synonym: "inhibiteurs enzymatiques" RELATED [ChEBI] is_a: CHEBI:35222 ! inhibitor is_a: CHEBI:52206 ! biochemical role [Term] id: CHEBI:24431 name: chemical entity namespace: chebi_ontology def: "A chemical entity is a physical entity of interest in chemistry including molecular entities, parts thereof, and chemical substances." [] subset: 3_STAR synonym: "chemical entity" EXACT [UniProt] is_a: BFO:0000030 ! object [Term] id: CHEBI:24432 name: biological role namespace: chebi_ontology def: "A role played by the molecular entity or part thereof within a biological context." [] subset: 3_STAR synonym: "biological function" RELATED [ChEBI] is_a: BFO:0000023 ! role is_a: CHEBI:50906 ! role [Term] id: CHEBI:24433 name: group namespace: chebi_ontology def: "A defined linked collection of atoms or a single atom within a molecular entity." [] subset: 3_STAR synonym: "group" EXACT IUPAC_NAME [IUPAC] synonym: "groupe" RELATED [IUPAC] synonym: "grupo" RELATED [IUPAC] synonym: "grupos" RELATED [IUPAC] synonym: "Gruppe" RELATED [ChEBI] synonym: "Rest" RELATED [ChEBI] is_a: CHEBI:24431 ! chemical entity relationship: has_part CHEBI:33250 ! atom [Term] id: CHEBI:24532 name: organic heterocyclic compound namespace: chebi_ontology def: "A cyclic compound having as ring members atoms of carbon and at least of one other element." [] subset: 3_STAR synonym: "organic heterocycle" RELATED [ChEBI] synonym: "organic heterocyclic compounds" RELATED [ChEBI] is_a: CHEBI:33285 ! heteroorganic entity is_a: CHEBI:33832 ! organic cyclic compound is_a: CHEBI:5686 ! heterocyclic compound [Term] id: CHEBI:24533 name: heterodetic cyclic peptide namespace: chebi_ontology def: "A heterodetic cyclic peptide is a peptide consisting only of amino-acid residues, but in which the linkages forming the ring are not solely peptide bonds; one or more is an isopeptide, disulfide, ester, or other bond." [] subset: 3_STAR synonym: "heterodetic cyclic peptide" EXACT IUPAC_NAME [IUPAC] synonym: "heterodetic cyclic peptides" RELATED [ChEBI] synonym: "peptide cyclique heterodetique" RELATED [IUPAC] synonym: "peptido ciclico heterodetico" RELATED [IUPAC] is_a: CHEBI:23449 ! cyclic peptide [Term] id: CHEBI:24621 name: hormone namespace: chebi_ontology def: "Originally referring to an endogenous compound that is formed in specialized organ or group of cells and carried to another organ or group of cells, in the same organism, upon which it has a specific regulatory function, the term is now commonly used to include non-endogenous, semi-synthetic and fully synthetic analogues of such compounds." [] subset: 3_STAR synonym: "endocrine" RELATED [ChEBI] synonym: "hormones" RELATED [ChEBI] is_a: CHEBI:33280 ! molecular messenger is_a: CHEBI:48705 ! agonist [Term] id: CHEBI:24632 name: hydrocarbon namespace: chebi_ontology def: "A compound consisting of carbon and hydrogen only." [] subset: 3_STAR synonym: "hidrocarburo" RELATED [IUPAC] synonym: "hidrocarburos" RELATED [IUPAC] synonym: "hydrocarbon" EXACT IUPAC_NAME [IUPAC] synonym: "hydrocarbons" EXACT IUPAC_NAME [IUPAC] synonym: "hydrocarbure" RELATED [IUPAC] synonym: "Kohlenwasserstoff" RELATED [ChEBI] synonym: "Kohlenwasserstoffe" RELATED [ChEBI] is_a: CHEBI:33245 ! organic fundamental parent [Term] id: CHEBI:24651 name: hydroxides namespace: chebi_ontology def: "Hydroxides are chemical compounds containing a hydroxy group or salts containing hydroxide (OH(-))." [] subset: 3_STAR is_a: CHEBI:25806 ! oxygen molecular entity is_a: CHEBI:33608 ! hydrogen molecular entity is_a: CHEBI:37577 ! heteroatomic molecular entity relationship: has_part CHEBI:43176 ! hydroxy group [Term] id: CHEBI:24828 name: indoles namespace: chebi_ontology def: "Any compound containing an indole skeleton." [] subset: 3_STAR is_a: CHEBI:22728 ! benzopyrrole [Term] id: CHEBI:24833 name: oxoacid namespace: chebi_ontology def: "A compound which contains oxygen, at least one other element, and at least one hydrogen bound to oxygen, and which produces a conjugate base by loss of positive hydrogen ion(s) (hydrons)." [] subset: 3_STAR synonym: "oxacids" RELATED [ChEBI] synonym: "oxiacids" RELATED [ChEBI] synonym: "oxo acid" RELATED [ChEBI] synonym: "oxoacid" EXACT IUPAC_NAME [IUPAC] synonym: "oxoacids" EXACT IUPAC_NAME [IUPAC] synonym: "oxy-acids" RELATED [ChEBI] synonym: "oxyacids" RELATED [ChEBI] is_a: CHEBI:24651 ! hydroxides relationship: has_role CHEBI:39141 ! Bronsted acid [Term] id: CHEBI:24834 name: inorganic anion namespace: chebi_ontology subset: 3_STAR synonym: "inorganic anions" RELATED [ChEBI] is_a: CHEBI:22563 ! anion is_a: CHEBI:36914 ! inorganic ion [Term] id: CHEBI:24835 name: inorganic molecular entity namespace: chebi_ontology def: "A molecular entity that contains no carbon." [] subset: 3_STAR synonym: "anorganische Verbindungen" RELATED [ChEBI] synonym: "inorganic compounds" RELATED [ChEBI] synonym: "inorganic entity" RELATED [ChEBI] synonym: "inorganic molecular entities" RELATED [ChEBI] synonym: "inorganics" RELATED [ChEBI] is_a: CHEBI:23367 ! molecular entity [Term] id: CHEBI:24836 name: inorganic oxide namespace: chebi_ontology subset: 3_STAR synonym: "inorganic oxides" RELATED [ChEBI] is_a: CHEBI:24835 ! inorganic molecular entity is_a: CHEBI:25741 ! oxide [Term] id: CHEBI:24870 name: ion namespace: chebi_ontology def: "A molecular entity having a net electric charge." [] subset: 3_STAR synonym: "Ion" EXACT [ChEBI] synonym: "ion" EXACT IUPAC_NAME [IUPAC] synonym: "ion" EXACT [ChEBI] synonym: "Ionen" RELATED [ChEBI] synonym: "iones" RELATED [ChEBI] synonym: "ions" RELATED [ChEBI] is_a: CHEBI:23367 ! molecular entity [Term] id: CHEBI:25107 name: magnesium atom namespace: chebi_ontology subset: 3_STAR synonym: "12Mg" RELATED [IUPAC] synonym: "magnesio" RELATED [ChEBI] synonym: "Magnesium" RELATED [ChEBI] synonym: "magnesium" EXACT IUPAC_NAME [IUPAC] synonym: "magnesium" RELATED [ChEBI] synonym: "Mg" RELATED [IUPAC] synonym: "Mg" RELATED [UniProt] xref: CAS:7439-95-4 {source="ChemIDplus"} xref: DrugBank:DB01378 xref: Gmelin:16207 {source="Gmelin"} xref: KEGG:C00305 xref: WebElements:Mg is_a: CHEBI:22313 ! alkaline earth metal atom relationship: has_role CHEBI:33937 ! macronutrient property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "Mg" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/Mg" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "FYYHWMGAXLPEAU-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "24.30500" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "23.98504" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[Mg]" xsd:string [Term] id: CHEBI:25108 name: magnesium molecular entity namespace: chebi_ontology subset: 3_STAR synonym: "magnesium compounds" RELATED [ChEBI] synonym: "magnesium molecular entities" RELATED [ChEBI] synonym: "magnesium molecular entity" EXACT [ChEBI] is_a: CHEBI:33299 ! alkaline earth molecular entity relationship: has_part CHEBI:25107 ! magnesium atom [Term] id: CHEBI:25111 name: magnesium porphyrin namespace: chebi_ontology subset: 3_STAR synonym: "magnesium porphyrins" RELATED [ChEBI] is_a: CHEBI:25216 ! metalloporphyrin is_a: CHEBI:38251 ! magnesium tetrapyrrole [Term] id: CHEBI:25212 name: metabolite namespace: chebi_ontology alt_id: CHEBI:26619 alt_id: CHEBI:35220 def: "Any intermediate or product resulting from metabolism. The term 'metabolite' subsumes the classes commonly known as primary and secondary metabolites." [] subset: 3_STAR synonym: "metabolite" EXACT IUPAC_NAME [IUPAC] synonym: "metabolites" RELATED [ChEBI] synonym: "primary metabolites" RELATED [ChEBI] synonym: "secondary metabolites" RELATED [ChEBI] is_a: CHEBI:52206 ! biochemical role [Term] id: CHEBI:25216 name: metalloporphyrin namespace: chebi_ontology subset: 3_STAR synonym: "metalloporphyrins" RELATED [ChEBI] synonym: "metaloporphyrins" RELATED [ChEBI] is_a: CHEBI:26214 ! porphyrins is_a: CHEBI:33240 ! coordination entity is_a: CHEBI:33909 ! metallotetrapyrrole [Term] id: CHEBI:25248 name: methyl ester namespace: chebi_ontology def: "Any carboxylic ester resulting from the formal condensation of a carboxy group with methanol." [] subset: 3_STAR synonym: "carboxylic acid methyl ester" RELATED [ChEBI] synonym: "carboxylic acid methyl esters" RELATED [ChEBI] is_a: CHEBI:33308 ! carboxylic ester relationship: has_functional_parent CHEBI:17790 ! methanol property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C2H3O2R" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "59.044" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "59.01330" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "COC([*])=O" xsd:string [Term] id: CHEBI:25355 name: mitochondrial respiratory-chain inhibitor namespace: chebi_ontology subset: 3_STAR synonym: "mitochondrial electron transport chain inhibitors" RELATED [ChEBI] synonym: "mitochondrial electron-transport chain inhibitor" RELATED [ChEBI] synonym: "mitochondrial respiratory chain inhibitors" RELATED [ChEBI] is_a: CHEBI:38497 ! respiratory-chain inhibitor [Term] id: CHEBI:25362 name: elemental molecule namespace: chebi_ontology def: "A molecule all atoms of which have the same atomic number." [] subset: 3_STAR synonym: "homoatomic molecule" RELATED [ChEBI] synonym: "homoatomic molecules" RELATED [ChEBI] is_a: CHEBI:25367 ! molecule is_a: CHEBI:33259 ! elemental molecular entity [Term] id: CHEBI:25367 name: molecule namespace: chebi_ontology def: "Any polyatomic entity that is an electrically neutral entity consisting of more than one atom." [] subset: 3_STAR synonym: "molecula" RELATED [IUPAC] synonym: "molecule" EXACT [IUPAC] synonym: "molecules" RELATED [IUPAC] synonym: "Molekuel" RELATED [ChEBI] synonym: "neutral molecular compounds" RELATED [IUPAC] is_a: CHEBI:36357 ! polyatomic entity [Term] id: CHEBI:25375 name: monoamine molecular messenger namespace: chebi_ontology def: "A group of neurotransmitters and neuromodulators that contain one amino group that is connected to an aromatic ring by ethylene group (-CH2-CH2-). Monoamines are derived from the aromatic amino acids phenylalanine, tyrosine, histidine and tryptophan." [] subset: 3_STAR synonym: "monamines" RELATED [ChEBI] synonym: "monoamines" RELATED [ChEBI] is_a: CHEBI:63534 ! monoamine relationship: has_role CHEBI:33280 ! molecular messenger [Term] id: CHEBI:25384 name: monocarboxylic acid namespace: chebi_ontology def: "An oxoacid containing a single carboxy group." [] subset: 3_STAR synonym: "monocarboxylic acids" RELATED [ChEBI] is_a: CHEBI:33575 ! carboxylic acid relationship: is_conjugate_acid_of CHEBI:35757 ! monocarboxylic acid anion [Term] id: CHEBI:25512 name: neurotransmitter namespace: chebi_ontology def: "An endogenous compound that is used to transmit information across the synapse between a neuron and another cell." [] subset: 3_STAR synonym: "neurotransmitters" RELATED [ChEBI] xref: Wikipedia:Neurotransmitter is_a: CHEBI:33280 ! molecular messenger [Term] id: CHEBI:25555 name: nitrogen atom namespace: chebi_ontology subset: 3_STAR synonym: "7N" RELATED [IUPAC] synonym: "azote" RELATED [IUPAC] synonym: "N" RELATED [IUPAC] synonym: "nitrogen" EXACT IUPAC_NAME [IUPAC] synonym: "nitrogen" RELATED [ChEBI] synonym: "nitrogeno" RELATED [ChEBI] synonym: "Stickstoff" RELATED [ChEBI] xref: WebElements:N is_a: CHEBI:25585 ! nonmetal atom is_a: CHEBI:33300 ! pnictogen relationship: has_role CHEBI:33937 ! macronutrient property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "14.007" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "14.00307" xsd:string [Term] id: CHEBI:25585 name: nonmetal atom namespace: chebi_ontology subset: 3_STAR synonym: "Nichtmetall" RELATED [ChEBI] synonym: "Nichtmetalle" RELATED [ChEBI] synonym: "no metal" RELATED [ChEBI] synonym: "no metales" RELATED [ChEBI] synonym: "non-metal" RELATED [ChEBI] synonym: "non-metaux" RELATED [ChEBI] synonym: "nonmetal" EXACT IUPAC_NAME [IUPAC] synonym: "nonmetal" RELATED [ChEBI] synonym: "nonmetals" RELATED [ChEBI] is_a: CHEBI:33250 ! atom [Term] id: CHEBI:25696 name: organic anion namespace: chebi_ontology def: "Any organic ion with a net negative charge." [] subset: 3_STAR synonym: "organic anions" RELATED [ChEBI] is_a: CHEBI:22563 ! anion is_a: CHEBI:25699 ! organic ion [Term] id: CHEBI:25697 name: organic cation namespace: chebi_ontology def: "Any organic ion with a net positive charge." [] subset: 3_STAR synonym: "organic cations" RELATED [ChEBI] is_a: CHEBI:25699 ! organic ion is_a: CHEBI:36916 ! cation [Term] id: CHEBI:25699 name: organic ion namespace: chebi_ontology subset: 3_STAR synonym: "organic ions" RELATED [ChEBI] is_a: CHEBI:24870 ! ion is_a: CHEBI:50860 ! organic molecular entity [Term] id: CHEBI:25701 name: organic oxide namespace: chebi_ontology def: "An oxide in which the oxygen atom is bonded to a carbon atom." [] subset: 3_STAR synonym: "organic oxides" RELATED [ChEBI] is_a: CHEBI:25741 ! oxide is_a: CHEBI:72695 ! organic molecule [Term] id: CHEBI:25704 name: organic sulfate namespace: chebi_ontology def: "Compounds of the general formula SO3HOR where R is an organyl group" [] subset: 3_STAR synonym: "organic sulfates" RELATED [ChEBI] is_a: CHEBI:26820 ! sulfates relationship: is_conjugate_acid_of CHEBI:58958 ! organosulfate oxoanion [Term] id: CHEBI:2571 name: aliphatic alcohol namespace: chebi_ontology def: "An alcohol derived from an aliphatic compound." [] subset: 3_STAR synonym: "Aliphatic alcohol" EXACT [KEGG_COMPOUND] synonym: "aliphatic alcohols" RELATED [ChEBI] synonym: "an aliphatic alcohol" RELATED [UniProt] xref: KEGG:C02525 is_a: CHEBI:30879 ! alcohol property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "HOR" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "17.007" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "17.00274" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "O*" xsd:string [Term] id: CHEBI:25741 name: oxide namespace: chebi_ontology def: "An oxide is a chemical compound of oxygen with other chemical elements." [] subset: 3_STAR synonym: "oxide" EXACT [ChEBI] synonym: "oxides" RELATED [ChEBI] is_a: CHEBI:25806 ! oxygen molecular entity is_a: CHEBI:37577 ! heteroatomic molecular entity [Term] id: CHEBI:25805 name: oxygen atom namespace: chebi_ontology subset: 3_STAR synonym: "8O" RELATED [IUPAC] synonym: "O" RELATED [IUPAC] synonym: "oxigeno" RELATED [ChEBI] synonym: "oxygen" EXACT IUPAC_NAME [IUPAC] synonym: "oxygen" RELATED [ChEBI] synonym: "oxygene" RELATED [ChEBI] synonym: "Sauerstoff" RELATED [ChEBI] xref: KEGG:C00007 xref: WebElements:O is_a: CHEBI:25585 ! nonmetal atom is_a: CHEBI:33303 ! chalcogen relationship: has_role CHEBI:33937 ! macronutrient property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "O" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/O" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "QVGXLLKOCUKJST-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "15.99940" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "15.99491" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[O]" xsd:string [Term] id: CHEBI:25806 name: oxygen molecular entity namespace: chebi_ontology subset: 3_STAR synonym: "oxygen molecular entities" RELATED [ChEBI] synonym: "oxygen molecular entity" EXACT [ChEBI] is_a: CHEBI:33304 ! chalcogen molecular entity relationship: has_part CHEBI:25805 ! oxygen atom [Term] id: CHEBI:25905 name: peptide hormone namespace: chebi_ontology def: "Any peptide with hormonal activity in animals, whether endocrine, neuroendocrine, or paracrine." [] subset: 3_STAR synonym: "peptide hormones" RELATED [ChEBI] synonym: "polypeptide hormone" RELATED [ChEBI] is_a: CHEBI:16670 ! peptide relationship: has_role CHEBI:24621 ! hormone [Term] id: CHEBI:26020 name: phosphate namespace: chebi_ontology def: "Salts and esters of phosphoric and oligophosphoric acids and their chalcogen analogues. In inorganic chemistry, the term is also used to describe anionic coordination entities with phosphorus as central atom." [] subset: 3_STAR synonym: "phosphates" EXACT IUPAC_NAME [IUPAC] synonym: "phosphates" RELATED [ChEBI] is_a: CHEBI:26079 ! phosphoric acid derivative [Term] id: CHEBI:26078 name: phosphoric acid namespace: chebi_ontology def: "A phosphorus oxoacid that consists of one oxo and three hydroxy groups joined covalently to a central phosphorus atom." [] subset: 3_STAR synonym: "[PO(OH)3]" RELATED [IUPAC] synonym: "acide phosphorique" RELATED [ChEBI] synonym: "acidum phosphoricum" RELATED [ChEBI] synonym: "H3PO4" RELATED [IUPAC] synonym: "Orthophosphoric acid" RELATED [KEGG_COMPOUND] synonym: "orthophosphoric acid" RELATED [NIST_Chemistry_WebBook] synonym: "Phosphate" RELATED [KEGG_COMPOUND] synonym: "Phosphoric acid" EXACT [KEGG_COMPOUND] synonym: "phosphoric acid" EXACT [IUPAC] synonym: "Phosphorsaeure" RELATED [ChEBI] synonym: "Phosphorsaeureloesungen" RELATED [ChEBI] synonym: "tetraoxophosphoric acid" EXACT IUPAC_NAME [IUPAC] synonym: "trihydrogen tetraoxophosphate(3-)" EXACT IUPAC_NAME [IUPAC] synonym: "trihydroxidooxidophosphorus" EXACT IUPAC_NAME [IUPAC] xref: Beilstein:1921286 {source="Beilstein"} xref: CAS:7664-38-2 {source="NIST Chemistry WebBook"} xref: CAS:7664-38-2 {source="KEGG COMPOUND"} xref: CAS:7664-38-2 {source="ChemIDplus"} xref: Drug_Central:4478 {source="DrugCentral"} xref: Gmelin:2000 {source="Gmelin"} xref: HMDB:HMDB0002142 xref: KEGG:C00009 xref: KEGG:D05467 xref: KNApSAcK:C00007408 xref: PMID:11455380 {source="Europe PMC"} xref: PMID:15630224 {source="Europe PMC"} xref: PMID:17439666 {source="Europe PMC"} xref: PMID:17518491 {source="Europe PMC"} xref: PMID:22282755 {source="Europe PMC"} xref: PMID:22333268 {source="Europe PMC"} xref: PMID:22381614 {source="Europe PMC"} xref: PMID:22401268 {source="Europe PMC"} xref: Reaxys:1921286 {source="Reaxys"} xref: Wikipedia:Phosphoric_Acid is_a: CHEBI:59698 ! phosphoric acids relationship: has_role CHEBI:33287 ! fertilizer relationship: has_role CHEBI:46787 ! solvent relationship: has_role CHEBI:77746 ! human metabolite relationship: has_role CHEBI:84735 ! algal metabolite relationship: is_conjugate_acid_of CHEBI:39745 ! dihydrogenphosphate property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "H3O4P" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/H3O4P/c1-5(2,3)4/h(H3,1,2,3,4)" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "NBIIXXVUZAFLBC-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "97.99520" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "97.97690" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[H]OP(=O)(O[H])O[H]" xsd:string [Term] id: CHEBI:26079 name: phosphoric acid derivative namespace: chebi_ontology subset: 1_STAR is_a: CHEBI:36359 ! phosphorus oxoacid derivative relationship: has_functional_parent CHEBI:26078 ! phosphoric acid [Term] id: CHEBI:26082 name: phosphorus molecular entity namespace: chebi_ontology subset: 3_STAR synonym: "phosphorus molecular entities" RELATED [ChEBI] is_a: CHEBI:33302 ! pnictogen molecular entity relationship: has_part CHEBI:28659 ! phosphorus atom [Term] id: CHEBI:26214 name: porphyrins namespace: chebi_ontology def: "Natural pigments containing a fundamental skeleton of four pyrrole nuclei united through the alpha-positions by four methine groups to form a macrocyclic structure." [] subset: 3_STAR synonym: "porphyrins" EXACT IUPAC_NAME [IUPAC] xref: Wikipedia:Porphyrin is_a: CHEBI:36309 ! cyclic tetrapyrrole relationship: has_role CHEBI:23357 ! cofactor [Term] id: CHEBI:26764 name: steroid hormone namespace: chebi_ontology def: "Any steroid that acts as hormone." [] subset: 3_STAR synonym: "hormona esteroide" RELATED [ChEBI] synonym: "hormonas esteroideas" RELATED [ChEBI] synonym: "hormone steroide" RELATED [ChEBI] synonym: "hormones steroides" RELATED [ChEBI] synonym: "steroid hormones" RELATED [ChEBI] synonym: "Steroidhormon" RELATED [ChEBI] synonym: "Steroidhormone" RELATED [ChEBI] is_a: CHEBI:35341 ! steroid relationship: has_role CHEBI:24621 ! hormone [Term] id: CHEBI:26819 name: sulfuric ester namespace: chebi_ontology def: "An ester of an alcohol and sulfuric acid." [] subset: 3_STAR synonym: "sulfate ester" RELATED [ChEBI] synonym: "sulfuric acid ester" RELATED [ChEBI] synonym: "sulfuric acid esters" RELATED [ChEBI] is_a: CHEBI:35701 ! ester is_a: CHEBI:37826 ! sulfuric acid derivative property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "O4SR2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "96.06300" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "95.95173" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[*]OS(=O)(=O)O[*]" xsd:string [Term] id: CHEBI:26820 name: sulfates namespace: chebi_ontology def: "Salts and esters of sulfuric acid" [] subset: 3_STAR synonym: "sulfates" EXACT [ChEBI] synonym: "sulfuric acid derivative" RELATED [ChEBI] synonym: "sulphates" RELATED [ChEBI] is_a: CHEBI:37826 ! sulfuric acid derivative [Term] id: CHEBI:26833 name: sulfur atom namespace: chebi_ontology subset: 3_STAR synonym: "16S" RELATED [IUPAC] synonym: "azufre" RELATED [ChEBI] synonym: "Elemental sulfur" RELATED [KEGG_COMPOUND] synonym: "S" RELATED [KEGG_COMPOUND] synonym: "S" RELATED [IUPAC] synonym: "Schwefel" RELATED [ChEBI] synonym: "soufre" RELATED [ChEBI] synonym: "sulfur" EXACT IUPAC_NAME [IUPAC] synonym: "sulfur" RELATED [ChEBI] synonym: "sulfur" RELATED [UniProt] synonym: "sulphur" RELATED [ChEBI] synonym: "theion" RELATED [IUPAC] xref: CAS:7704-34-9 {source="ChemIDplus"} xref: CAS:7704-34-9 {source="NIST Chemistry WebBook"} xref: KEGG:C00087 xref: KEGG:D06527 xref: PPDB:605 xref: WebElements:S is_a: CHEBI:25585 ! nonmetal atom is_a: CHEBI:33303 ! chalcogen relationship: has_role CHEBI:33937 ! macronutrient property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "S" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/S" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "NINIDFKCEFEMDL-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "32.06600" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "31.97207" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[S]" xsd:string [Term] id: CHEBI:26835 name: sulfur molecular entity namespace: chebi_ontology subset: 3_STAR synonym: "sulfur molecular entities" RELATED [ChEBI] synonym: "sulfur molecular entity" EXACT [ChEBI] is_a: CHEBI:33304 ! chalcogen molecular entity relationship: has_part CHEBI:26833 ! sulfur atom [Term] id: CHEBI:26836 name: sulfuric acid namespace: chebi_ontology def: "A sulfur oxoacid that consists of two oxo and two hydroxy groups joined covalently to a central sulfur atom." [] subset: 3_STAR synonym: "[S(OH)2O2]" RELATED [MolBase] synonym: "[SO2(OH)2]" RELATED [IUPAC] synonym: "Acide sulfurique" RELATED [ChemIDplus] synonym: "Acido sulfurico" RELATED [ChemIDplus] synonym: "Acidum sulfuricum" RELATED [ChemIDplus] synonym: "dihydrogen tetraoxosulfate" EXACT IUPAC_NAME [IUPAC] synonym: "dihydroxidodioxidosulfur" EXACT IUPAC_NAME [IUPAC] synonym: "H2SO4" RELATED [IUPAC] synonym: "hydrogen tetraoxosulfate(2-)" EXACT IUPAC_NAME [IUPAC] synonym: "hydrogen tetraoxosulfate(VI)" EXACT IUPAC_NAME [IUPAC] synonym: "Schwefelsaeureloesungen" RELATED [ChemIDplus] synonym: "Sulfuric acid" EXACT [KEGG_COMPOUND] synonym: "sulfuric acid" EXACT IUPAC_NAME [IUPAC] synonym: "sulfuric acid" EXACT [ChEBI] synonym: "sulphuric acid" RELATED [MolBase] synonym: "tetraoxosulfuric acid" EXACT IUPAC_NAME [IUPAC] xref: CAS:7664-93-9 {source="ChemIDplus"} xref: CAS:7664-93-9 {source="KEGG COMPOUND"} xref: CAS:7664-93-9 {source="NIST Chemistry WebBook"} xref: Gmelin:2122 {source="Gmelin"} xref: KEGG:C00059 xref: KEGG:D05963 xref: KNApSAcK:C00007530 xref: MolBase:4 xref: PMID:13568755 {source="Europe PMC"} xref: PMID:16122922 {source="Europe PMC"} xref: PMID:19397353 {source="Europe PMC"} xref: PMID:22047659 {source="Europe PMC"} xref: PMID:22136045 {source="Europe PMC"} xref: PMID:22204399 {source="Europe PMC"} xref: PMID:22267186 {source="Europe PMC"} xref: PMID:22296037 {source="Europe PMC"} xref: PMID:22364556 {source="Europe PMC"} xref: PMID:22435616 {source="Europe PMC"} xref: PPDB:606 xref: Reaxys:2037554 {source="Reaxys"} xref: Wikipedia:Sulfuric_acid is_a: CHEBI:33402 ! sulfur oxoacid relationship: has_role CHEBI:35223 ! catalyst relationship: is_conjugate_acid_of CHEBI:45696 ! hydrogensulfate property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "H2O4S" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/H2O4S/c1-5(2,3)4/h(H2,1,2,3,4)" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "QAOWNCQODCNURD-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "98.07948" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "97.96738" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[H]OS(=O)(=O)O[H]" xsd:string [Term] id: CHEBI:26932 name: tetrapyrrole namespace: chebi_ontology def: "A natural pigment containing four pyrrole rings joined by one-carbon units linking position 2 of one pyrrole ring to position 5 of the next." [] subset: 3_STAR synonym: "a tetrapyrrole" RELATED [UniProt] synonym: "tetrapyrrole" EXACT IUPAC_NAME [IUPAC] synonym: "tetrapyrroles" EXACT IUPAC_NAME [IUPAC] is_a: CHEBI:33833 ! heteroarene is_a: CHEBI:38077 ! polypyrrole [Term] id: CHEBI:27027 name: micronutrient namespace: chebi_ontology def: "Any nutrient required in small quantities by organisms throughout their life in order to orchestrate a range of physiological functions." [] subset: 3_STAR synonym: "micronutrients" RELATED [ChEBI] synonym: "trace elements" RELATED [ChEBI] xref: Wikipedia:Micronutrient is_a: CHEBI:33284 ! nutrient [Term] id: CHEBI:27162 name: tryptamines namespace: chebi_ontology def: "Tryptamine and its substitution derivatives." [] subset: 3_STAR is_a: CHEBI:24828 ! indoles [Term] id: CHEBI:27171 name: organic heterobicyclic compound namespace: chebi_ontology subset: 3_STAR synonym: "heterobicyclic compounds" RELATED [ChEBI] synonym: "organic heterobicyclic compounds" RELATED [ChEBI] is_a: CHEBI:33672 ! heterobicyclic compound is_a: CHEBI:38166 ! organic heteropolycyclic compound [Term] id: CHEBI:27207 name: univalent carboacyl group namespace: chebi_ontology def: "A univalent carboacyl group is a group formed by loss of OH from the carboxy group of a carboxylic acid." [] subset: 3_STAR synonym: "univalent acyl group" RELATED [ChEBI] synonym: "univalent carboacyl groups" RELATED [ChEBI] synonym: "univalent carboxylic acyl groups" RELATED [ChEBI] is_a: CHEBI:37838 ! carboacyl group [Term] id: CHEBI:27369 name: zwitterion namespace: chebi_ontology def: "A neutral compound having formal unit electrical charges of opposite sign on non-adjacent atoms. Sometimes referred to as inner salts, dipolar ions (a misnomer)." [] subset: 3_STAR synonym: "compose zwitterionique" RELATED [IUPAC] synonym: "compuestos zwitterionicos" RELATED [IUPAC] synonym: "zwitterion" EXACT IUPAC_NAME [IUPAC] synonym: "zwitteriones" RELATED [IUPAC] synonym: "zwitterionic compounds" RELATED [IUPAC] synonym: "zwitterions" EXACT IUPAC_NAME [IUPAC] is_a: CHEBI:51151 ! dipolar compound [Term] id: CHEBI:27594 name: carbon atom namespace: chebi_ontology alt_id: CHEBI:23009 alt_id: CHEBI:3399 subset: 3_STAR synonym: "6C" RELATED [IUPAC] synonym: "C" RELATED [KEGG_COMPOUND] synonym: "C" RELATED [IUPAC] synonym: "Carbon" RELATED [KEGG_COMPOUND] synonym: "carbon" EXACT IUPAC_NAME [IUPAC] synonym: "carbon" RELATED [ChEBI] synonym: "carbone" RELATED [ChEBI] synonym: "carbonium" RELATED [ChEBI] synonym: "carbono" RELATED [ChEBI] synonym: "Kohlenstoff" RELATED [ChEBI] xref: CAS:7440-44-0 {source="ChemIDplus"} xref: CAS:7440-44-0 {source="KEGG COMPOUND"} xref: KEGG:C06265 xref: WebElements:C is_a: CHEBI:25585 ! nonmetal atom is_a: CHEBI:33306 ! carbon group element atom relationship: has_role CHEBI:33937 ! macronutrient property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "OKTJSMMVPCPJKN-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "12.01070" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "12.00000" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[C]" xsd:string [Term] id: CHEBI:28616 name: carbamic acid namespace: chebi_ontology alt_id: CHEBI:22504 alt_id: CHEBI:23002 alt_id: CHEBI:3386 alt_id: CHEBI:44573 def: "A one-carbon compound that is ammonia in which one of the hydrogens is replaced by a carboxy group. Although carbamic acid derivatives are common, carbamic acid itself has never been synthesised." [] subset: 3_STAR synonym: "Aminoameisensaeure" RELATED [ChEBI] synonym: "Aminoformic acid" RELATED [KEGG_COMPOUND] synonym: "Carbamate" RELATED [KEGG_COMPOUND] synonym: "CARBAMIC ACID" EXACT [PDBeChem] synonym: "Carbamic acid" EXACT [KEGG_COMPOUND] synonym: "carbamic acid" EXACT IUPAC_NAME [IUPAC] synonym: "Carbamidsaeure" RELATED [ChEBI] xref: Beilstein:1734754 {source="Beilstein"} xref: CAS:463-77-4 {source="KEGG COMPOUND"} xref: CAS:463-77-4 {source="ChemIDplus"} xref: DrugBank:DB04261 xref: Gmelin:130345 {source="Gmelin"} xref: KEGG:C01563 xref: PDBeChem:OUT xref: Wikipedia:Carbamic_acid is_a: CHEBI:35352 ! organonitrogen compound is_a: CHEBI:35605 ! carbon oxoacid is_a: CHEBI:64708 ! one-carbon compound relationship: has_role CHEBI:76971 ! Escherichia coli metabolite relationship: is_conjugate_acid_of CHEBI:13941 ! carbamate property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "CH3NO2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/CH3NO2/c2-1(3)4/h2H2,(H,3,4)" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "KXDHJXZQYSOELW-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "61.04006" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "61.01638" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "NC(O)=O" xsd:string [Term] id: CHEBI:28659 name: phosphorus atom namespace: chebi_ontology alt_id: CHEBI:26080 alt_id: CHEBI:8168 subset: 3_STAR synonym: "15P" RELATED [IUPAC] synonym: "fosforo" RELATED [ChEBI] synonym: "P" RELATED [IUPAC] synonym: "P" RELATED [KEGG_COMPOUND] synonym: "Phosphor" RELATED [ChEBI] synonym: "phosphore" RELATED [ChEBI] synonym: "Phosphorus" RELATED [KEGG_COMPOUND] synonym: "phosphorus" EXACT IUPAC_NAME [IUPAC] synonym: "phosphorus" RELATED [ChEBI] xref: CAS:7723-14-0 {source="ChemIDplus"} xref: CAS:7723-14-0 {source="KEGG COMPOUND"} xref: Gmelin:16235 {source="Gmelin"} xref: KEGG:C06262 xref: WebElements:P is_a: CHEBI:25585 ! nonmetal atom is_a: CHEBI:33300 ! pnictogen relationship: has_role CHEBI:33937 ! macronutrient property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "P" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/P" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "OAICVXFJPJFONN-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "30.97376" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "30.97376" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[P]" xsd:string [Term] id: CHEBI:28790 name: serotonin namespace: chebi_ontology alt_id: CHEBI:1420 alt_id: CHEBI:26652 alt_id: CHEBI:49894 def: "A primary amino compound that is the 5-hydroxy derivative of tryptamine." [] subset: 3_STAR synonym: "3-(2-Aminoethyl)-1H-indol-5-ol" RELATED [KEGG_COMPOUND] synonym: "3-(2-aminoethyl)-1H-indol-5-ol" EXACT IUPAC_NAME [IUPAC] synonym: "5-HT" RELATED [IUPHAR] synonym: "5-Hydroxytryptamine" RELATED [KEGG_COMPOUND] synonym: "Enteramine" RELATED [KEGG_COMPOUND] synonym: "SEROTONIN" EXACT [PDBeChem] synonym: "Serotonin" EXACT [KEGG_COMPOUND] synonym: "serotonine" RELATED [ChEBI] synonym: "thrombocytin" RELATED [ChemIDplus] synonym: "thrombotonin" RELATED [ChemIDplus] xref: Beilstein:143524 {source="Beilstein"} xref: CAS:50-67-9 {source="KEGG COMPOUND"} xref: CAS:50-67-9 {source="ChemIDplus"} xref: Gmelin:1861995 {source="Gmelin"} xref: HMDB:HMDB0000259 xref: KEGG:C00780 xref: KNApSAcK:C00001429 xref: LINCS:LSM-6589 xref: MetaCyc:SEROTONIN xref: PDBeChem:SRO xref: PMID:18593914 {source="Europe PMC"} xref: PMID:22770225 {source="Europe PMC"} xref: PMID:24136337 {source="Europe PMC"} xref: Reaxys:143524 {source="Reaxys"} xref: Wikipedia:Serotonin is_a: CHEBI:25375 ! monoamine molecular messenger is_a: CHEBI:27162 ! tryptamines is_a: CHEBI:33853 ! phenols is_a: CHEBI:50994 ! primary amino compound is_a: CHEBI:84729 ! hydroxyindoles relationship: has_functional_parent CHEBI:16765 ! tryptamine relationship: has_role CHEBI:25512 ! neurotransmitter relationship: has_role CHEBI:75771 ! mouse metabolite relationship: has_role CHEBI:77746 ! human metabolite relationship: is_conjugate_base_of CHEBI:350546 ! serotonin(1+) property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C10H12N2O" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C10H12N2O/c11-4-3-7-6-12-10-2-1-8(13)5-9(7)10/h1-2,5-6,12-13H,3-4,11H2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "QZAYGJVTTNCVMB-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "176.215" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "176.09496" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "C1=CC(=CC=2C(=CNC12)CCN)O" xsd:string [Term] id: CHEBI:28938 name: ammonium namespace: chebi_ontology alt_id: CHEBI:22534 alt_id: CHEBI:49783 alt_id: CHEBI:7435 def: "An onium cation obtained by protonation of ammonia." [] subset: 3_STAR synonym: "[NH4](+)" RELATED [MolBase] synonym: "ammonium" EXACT IUPAC_NAME [IUPAC] synonym: "ammonium" EXACT [ChEBI] synonym: "ammonium cation" RELATED [ChemIDplus] synonym: "ammonium ion" RELATED [PDBeChem] synonym: "Ammonium(1+)" RELATED [ChemIDplus] synonym: "azanium" EXACT IUPAC_NAME [IUPAC] synonym: "NH4(+)" RELATED [UniProt] synonym: "NH4(+)" RELATED [IUPAC] synonym: "NH4+" RELATED [KEGG_COMPOUND] xref: CAS:14798-03-9 {source="NIST Chemistry WebBook"} xref: CAS:14798-03-9 {source="ChemIDplus"} xref: Gmelin:84 {source="Gmelin"} xref: KEGG:C01342 xref: MetaCyc:AMMONIUM xref: MolBase:929 xref: PDBeChem:NH4 xref: PMID:11319011 {source="Europe PMC"} xref: PMID:11341317 {source="Europe PMC"} xref: PMID:12096804 {source="Europe PMC"} xref: PMID:14512268 {source="Europe PMC"} xref: PMID:14879753 {source="Europe PMC"} xref: PMID:16345391 {source="Europe PMC"} xref: PMID:16903292 {source="Europe PMC"} xref: PMID:17392693 {source="Europe PMC"} xref: PMID:18515490 {source="Europe PMC"} xref: PMID:19199063 {source="Europe PMC"} xref: PMID:19596600 {source="Europe PMC"} xref: PMID:19682559 {source="Europe PMC"} xref: PMID:19716251 {source="Europe PMC"} xref: PMID:21993530 {source="Europe PMC"} xref: PMID:22265469 {source="Europe PMC"} xref: PMID:22524020 {source="Europe PMC"} xref: PMID:22562341 {source="Europe PMC"} xref: PMID:22631217 {source="Europe PMC"} xref: Reaxys:16093784 {source="Reaxys"} xref: Wikipedia:Ammonium is_a: CHEBI:35106 ! nitrogen hydride is_a: CHEBI:50313 ! onium cation is_a: CHEBI:60242 ! monovalent inorganic cation relationship: has_role CHEBI:23357 ! cofactor relationship: has_role CHEBI:75772 ! Saccharomyces cerevisiae metabolite relationship: has_role CHEBI:76971 ! Escherichia coli metabolite relationship: has_role CHEBI:77746 ! human metabolite relationship: is_conjugate_acid_of CHEBI:16134 ! ammonia property_value: http://purl.obolibrary.org/obo/chebi/charge "+1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "H4N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/H3N/h1H3/p+1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "QGZKDVFQNNGYKY-UHFFFAOYSA-O" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "18.03850" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "18.03383" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[H][N+]([H])([H])[H]" xsd:string [Term] id: CHEBI:28966 name: chlorophyll namespace: chebi_ontology alt_id: CHEBI:13973 alt_id: CHEBI:23161 alt_id: CHEBI:3630 alt_id: CHEBI:3635 def: "A family of magnesium porphyrins, defined by the presence of a fifth ring beyond the four pyrrole-like rings. The rings can have various side chains which usually include a long phytol chain." [] subset: 3_STAR synonym: "Chlorophyll" EXACT [KEGG_COMPOUND] synonym: "chlorophyll" EXACT [JCBN] synonym: "chlorophylls" EXACT IUPAC_NAME [IUPAC] xref: CAS:1406-65-1 {source="KEGG COMPOUND"} xref: CAS:1406-65-1 {source="ChemIDplus"} xref: COMe:MOL000012 xref: KEGG:C01793 xref: PMID:29286160 {source="Europe PMC"} is_a: CHEBI:25111 ! magnesium porphyrin relationship: is_conjugate_acid_of CHEBI:139291 ! chlorophyll(1-) property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C49H58MgN4O5R4" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "807.316" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "806.42576" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "C1=2N3C(C=C4[N+]5=C(C=C6N7C8=C(C9=[N+](C(=C1)[C@H]([C@@H]9CCC(OC/C=C(/CCC[C@@H](CCC[C@@H](CCCC(C)C)C)C)\\C)=O)C)[Mg-2]735)[C@H](C(C8=C6C)=O)C(=O)OC)C(=C4*)*)=C(C2*)*" xsd:string [Term] id: CHEBI:29067 name: carboxylic acid anion namespace: chebi_ontology alt_id: CHEBI:13626 alt_id: CHEBI:13945 alt_id: CHEBI:23026 alt_id: CHEBI:58657 def: "The conjugate base formed when the carboxy group of a carboxylic acid is deprotonated." [] subset: 3_STAR synonym: "a carboxylate" RELATED [UniProt] synonym: "carboxylic acid anions" RELATED [ChEBI] synonym: "carboxylic anions" RELATED [ChEBI] is_a: CHEBI:25696 ! organic anion is_a: CHEBI:35406 ! oxoanion relationship: is_conjugate_base_of CHEBI:33575 ! carboxylic acid property_value: http://purl.obolibrary.org/obo/chebi/charge "-1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "CO2R" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "44.00950" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "43.98983" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[O-]C([*])=O" xsd:string [Term] id: CHEBI:29337 name: azanide namespace: chebi_ontology subset: 3_STAR synonym: "amide" EXACT IUPAC_NAME [IUPAC] synonym: "azanide" EXACT IUPAC_NAME [IUPAC] synonym: "dihydridonitrate(1-)" EXACT IUPAC_NAME [IUPAC] synonym: "NH2(-)" RELATED [IUPAC] is_a: CHEBI:35106 ! nitrogen hydride is_a: CHEBI:79389 ! monovalent inorganic anion relationship: is_conjugate_acid_of CHEBI:29340 ! hydridonitrate(2-) relationship: is_conjugate_base_of CHEBI:16134 ! ammonia property_value: http://purl.obolibrary.org/obo/chebi/charge "-1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "H2N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/H2N/h1H2/q-1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "HYGWNUKOUCZBND-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "16.02262" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "16.01927" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[H][N-][H]" xsd:string [Term] id: CHEBI:29340 name: hydridonitrate(2-) namespace: chebi_ontology def: "A divalent inorganic anion resulting from the removal of two protons from ammonia." [] subset: 3_STAR synonym: "azanediide" EXACT IUPAC_NAME [IUPAC] synonym: "hydridonitrate(2-)" EXACT IUPAC_NAME [IUPAC] synonym: "imide" RELATED [IUPAC] synonym: "NH(2-)" RELATED [IUPAC] is_a: CHEBI:35106 ! nitrogen hydride is_a: CHEBI:79388 ! divalent inorganic anion relationship: is_conjugate_base_of CHEBI:29337 ! azanide property_value: http://purl.obolibrary.org/obo/chebi/charge "-2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "HN" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/HN/h1H/q-2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "DZQYTNGKSBCIOE-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "15.01468" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "15.01200" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[N--][H]" xsd:string [Term] id: CHEBI:29360 name: methanediide namespace: chebi_ontology subset: 3_STAR synonym: "[CH2](2-)" RELATED [ChEBI] synonym: "CH2(2-)" RELATED [IUPAC] synonym: "dihydridocarbonate(2-)" EXACT IUPAC_NAME [IUPAC] synonym: "methanediide" EXACT IUPAC_NAME [IUPAC] xref: Beilstein:5915711 {source="Beilstein"} xref: Gmelin:322698 {source="Gmelin"} is_a: CHEBI:38222 ! hydrocarbyl anion relationship: is_conjugate_base_of CHEBI:29438 ! methanide property_value: http://purl.obolibrary.org/obo/chebi/charge "-2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "CH2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/CH2/h1H2/q-2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "PZPOWPOFQLSNJO-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "14.02658" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "14.01675" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[H][C--][H]" xsd:string [Term] id: CHEBI:29438 name: methanide namespace: chebi_ontology subset: 3_STAR synonym: "[CH3](-)" RELATED [ChEBI] synonym: "CH3(-)" RELATED [IUPAC] synonym: "lambda(2)-methanuide" RELATED [IUPAC] synonym: "methanide" EXACT IUPAC_NAME [IUPAC] synonym: "methyl anion" RELATED [IUPAC] synonym: "trihydridocarbonate(1-)" EXACT IUPAC_NAME [IUPAC] xref: Beilstein:1813938 {source="Beilstein"} xref: CAS:15194-58-8 {source="NIST Chemistry WebBook"} xref: Gmelin:259263 {source="Gmelin"} is_a: CHEBI:38222 ! hydrocarbyl anion relationship: is_conjugate_acid_of CHEBI:29360 ! methanediide relationship: is_conjugate_base_of CHEBI:16183 ! methane property_value: http://purl.obolibrary.org/obo/chebi/charge "-1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "CH3" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/CH3/h1H3/q-1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "LGRLWUINFJPLSH-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "15.03452" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "15.02402" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[H][C-]([H])[H]" xsd:string [Term] id: CHEBI:29793 name: hydridodioxygen(1+) namespace: chebi_ontology subset: 3_STAR synonym: "[HO2](+)" RELATED [ChEBI] synonym: "dioxidenium" EXACT IUPAC_NAME [IUPAC] synonym: "HO2(+)" RELATED [IUPAC] synonym: "HOO(+)" RELATED [ChEBI] synonym: "hydridodioxygen(1+)" EXACT IUPAC_NAME [IUPAC] xref: Gmelin:508 {source="Gmelin"} is_a: CHEBI:33693 ! oxygen hydride relationship: is_conjugate_acid_of CHEBI:15379 ! dioxygen property_value: http://purl.obolibrary.org/obo/chebi/charge "+1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "HO2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/O2/c1-2/p+1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "MYMOFIZGZYHOMD-UHFFFAOYSA-O" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "33.00674" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "32.99711" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[H][O+]=O" xsd:string [Term] id: CHEBI:30212 name: photon namespace: chebi_ontology alt_id: CHEBI:10581 alt_id: CHEBI:14383 def: "Particle of zero charge, zero rest mass, spin quantum number 1, energy hnu and momentum hnu/c (h is the Planck constant, nu the frequency of radiation and c the speed of light), carrier of electromagnetic force." [] subset: 3_STAR synonym: "foton" RELATED [ChEBI] synonym: "gamma" RELATED [IUPAC] synonym: "hnu" RELATED [IUPAC] synonym: "hnu" RELATED [UniProt] synonym: "Lichtquant" RELATED [ChEBI] synonym: "Light" RELATED [KEGG_COMPOUND] synonym: "light quantum" RELATED [ChEBI] synonym: "photon" EXACT IUPAC_NAME [IUPAC] xref: KEGG:C00205 is_a: CHEBI:36341 ! boson property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "0.0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "0.0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "*" xsd:string [Term] id: CHEBI:30879 name: alcohol namespace: chebi_ontology alt_id: CHEBI:13804 alt_id: CHEBI:22288 alt_id: CHEBI:2553 def: "A compound in which a hydroxy group, -OH, is attached to a saturated carbon atom." [] subset: 3_STAR synonym: "Alcohol" EXACT [KEGG_COMPOUND] synonym: "alcohols" EXACT IUPAC_NAME [IUPAC] synonym: "an alcohol" RELATED [UniProt] xref: KEGG:C00069 is_a: CHEBI:33822 ! organic hydroxy compound property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "HOR" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "17.007" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "17.00274" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "O[*]" xsd:string [Term] id: CHEBI:32952 name: amine namespace: chebi_ontology alt_id: CHEBI:13814 alt_id: CHEBI:22474 alt_id: CHEBI:2641 def: "A compound formally derived from ammonia by replacing one, two or three hydrogen atoms by hydrocarbyl groups." [] subset: 3_STAR synonym: "Amin" RELATED [ChEBI] synonym: "Amine" EXACT [KEGG_COMPOUND] synonym: "amines" EXACT IUPAC_NAME [IUPAC] synonym: "Substituted amine" RELATED [KEGG_COMPOUND] xref: KEGG:C00706 is_a: CHEBI:50047 ! organic amino compound [Term] id: CHEBI:32988 name: amide namespace: chebi_ontology alt_id: CHEBI:22473 alt_id: CHEBI:2633 def: "An amide is a derivative of an oxoacid RkE(=O)l(OH)m (l =/= 0) in which an acidic hydroxy group has been replaced by an amino or substituted amino group." [] subset: 3_STAR synonym: "Amide" EXACT [KEGG_COMPOUND] synonym: "amides" EXACT IUPAC_NAME [IUPAC] xref: KEGG:C00241 is_a: CHEBI:51143 ! nitrogen molecular entity [Term] id: CHEBI:33232 name: application namespace: chebi_ontology def: "Intended use of the molecular entity or part thereof by humans." [] subset: 3_STAR is_a: BFO:0000023 ! role is_a: CHEBI:50906 ! role [Term] id: CHEBI:33233 name: fundamental particle namespace: chebi_ontology def: "A particle not known to have substructure." [] subset: 3_STAR synonym: "elementary particle" EXACT IUPAC_NAME [IUPAC] synonym: "elementary particles" RELATED [ChEBI] is_a: CHEBI:36342 ! subatomic particle [Term] id: CHEBI:33240 name: coordination entity namespace: chebi_ontology def: "An assembly consisting of a central atom (usually metallic) to which is attached a surrounding array of other groups of atoms (ligands)." [] subset: 3_STAR synonym: "coordination compounds" RELATED [ChEBI] synonym: "coordination entities" EXACT IUPAC_NAME [IUPAC] synonym: "coordination entity" EXACT IUPAC_NAME [IUPAC] is_a: CHEBI:37577 ! heteroatomic molecular entity [Term] id: CHEBI:33241 name: oxoacid derivative namespace: chebi_ontology subset: 3_STAR synonym: "oxoacid derivatives" RELATED [ChEBI] is_a: CHEBI:37577 ! heteroatomic molecular entity relationship: has_functional_parent CHEBI:24833 ! oxoacid [Term] id: CHEBI:33242 name: inorganic hydride namespace: chebi_ontology subset: 3_STAR synonym: "inorganic hydrides" RELATED [ChEBI] is_a: CHEBI:24835 ! inorganic molecular entity is_a: CHEBI:33692 ! hydrides [Term] id: CHEBI:33245 name: organic fundamental parent namespace: chebi_ontology def: "An organic fundamental parent is a structure used as a basis for substitutive names in organic nomenclature, containing, in addition to one or more hydrogen atoms, a single atom of an element, a number of atoms (alike or different) linked together to form an unbranched chain, a monocyclic or polycyclic ring system, or a ring assembly or ring/chain system." [] subset: 3_STAR synonym: "organic fundamental parents" RELATED [ChEBI] synonym: "organic parent hydrides" RELATED [ChEBI] is_a: CHEBI:37175 ! organic hydride is_a: CHEBI:50860 ! organic molecular entity [Term] id: CHEBI:33246 name: inorganic group namespace: chebi_ontology def: "Any substituent group which does not contain carbon." [] subset: 3_STAR synonym: "inorganic groups" RELATED [ChEBI] is_a: CHEBI:24433 ! group [Term] id: CHEBI:33247 name: organic group namespace: chebi_ontology def: "Any substituent group or skeleton containing carbon." [] subset: 3_STAR synonym: "organic groups" RELATED [ChEBI] is_a: CHEBI:23367 ! molecular entity is_a: CHEBI:24433 ! group relationship: is_substituent_group_from CHEBI:50860 ! organic molecular entity [Term] id: CHEBI:33249 name: organyl group namespace: chebi_ontology def: "Any organic substituent group, regardless of functional type, having one free valence at a carbon atom." [] subset: 3_STAR synonym: "groupe organyle" RELATED [IUPAC] synonym: "grupo organilo" RELATED [IUPAC] synonym: "grupos organilo" RELATED [IUPAC] synonym: "organyl group" EXACT IUPAC_NAME [IUPAC] synonym: "organyl groups" EXACT IUPAC_NAME [IUPAC] is_a: CHEBI:51447 ! organic univalent group [Term] id: CHEBI:33250 name: atom namespace: chebi_ontology alt_id: CHEBI:22671 alt_id: CHEBI:23907 def: "A chemical entity constituting the smallest component of an element having the chemical properties of the element." [] subset: 3_STAR synonym: "atom" EXACT IUPAC_NAME [IUPAC] synonym: "atome" RELATED [IUPAC] synonym: "atomo" RELATED [IUPAC] synonym: "atoms" RELATED [ChEBI] synonym: "atomus" RELATED [ChEBI] synonym: "element" RELATED [ChEBI] synonym: "elements" RELATED [ChEBI] is_a: CHEBI:24431 ! chemical entity relationship: has_part CHEBI:10545 ! electron relationship: has_part CHEBI:33252 ! atomic nucleus [Term] id: CHEBI:33252 name: atomic nucleus namespace: chebi_ontology def: "A nucleus is the positively charged central portion of an atom, excluding the orbital electrons." [] subset: 3_STAR synonym: "Atomkern" RELATED [ChEBI] synonym: "Kern" RELATED [ChEBI] synonym: "noyau" RELATED [IUPAC] synonym: "noyau atomique" RELATED [ChEBI] synonym: "nuclei" RELATED [ChEBI] synonym: "nucleo" RELATED [IUPAC] synonym: "nucleo atomico" RELATED [ChEBI] synonym: "nucleus" EXACT IUPAC_NAME [IUPAC] synonym: "nucleus atomi" RELATED [ChEBI] is_a: CHEBI:36347 ! nuclear particle relationship: has_part CHEBI:33253 ! nucleon [Term] id: CHEBI:33253 name: nucleon namespace: chebi_ontology def: "Heavy nuclear particle: proton or neutron." [] subset: 3_STAR synonym: "nucleon" EXACT [IUPAC] synonym: "nucleon" EXACT IUPAC_NAME [IUPAC] synonym: "nucleons" RELATED [ChEBI] synonym: "Nukleon" RELATED [ChEBI] synonym: "Nukleonen" RELATED [ChEBI] is_a: CHEBI:36339 ! baryon is_a: CHEBI:36347 ! nuclear particle [Term] id: CHEBI:33256 name: primary amide namespace: chebi_ontology def: "A derivative of an oxoacid RkE(=O)l(OH)m (l =/= 0) in which an acidic hydroxy group has been replaced by an amino or substituted amino group." [] subset: 3_STAR synonym: "primary amide" EXACT [IUPAC] synonym: "primary amides" EXACT IUPAC_NAME [IUPAC] is_a: CHEBI:32988 ! amide [Term] id: CHEBI:33259 name: elemental molecular entity namespace: chebi_ontology def: "A molecular entity all atoms of which have the same atomic number." [] subset: 3_STAR synonym: "homoatomic entity" RELATED [ChEBI] synonym: "homoatomic molecular entities" RELATED [ChEBI] synonym: "homoatomic molecular entity" RELATED [ChEBI] is_a: CHEBI:23367 ! molecular entity [Term] id: CHEBI:33262 name: elemental oxygen namespace: chebi_ontology subset: 3_STAR is_a: CHEBI:24835 ! inorganic molecular entity is_a: CHEBI:25806 ! oxygen molecular entity is_a: CHEBI:33259 ! elemental molecular entity [Term] id: CHEBI:33263 name: diatomic oxygen namespace: chebi_ontology subset: 3_STAR is_a: CHEBI:33262 ! elemental oxygen property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "O2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "31.999" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "31.98983" xsd:string [Term] id: CHEBI:33273 name: polyatomic anion namespace: chebi_ontology def: "An anion consisting of more than one atom." [] subset: 3_STAR synonym: "polyatomic anions" RELATED [ChEBI] is_a: CHEBI:22563 ! anion is_a: CHEBI:36358 ! polyatomic ion [Term] id: CHEBI:33280 name: molecular messenger namespace: chebi_ontology subset: 3_STAR synonym: "chemical messenger" RELATED [ChEBI] is_a: CHEBI:24432 ! biological role [Term] id: CHEBI:33284 name: nutrient namespace: chebi_ontology def: "A nutrient is a food component that an organism uses to survive and grow." [] subset: 3_STAR synonym: "nutrients" RELATED [ChEBI] is_a: CHEBI:78295 ! food component [Term] id: CHEBI:33285 name: heteroorganic entity namespace: chebi_ontology def: "A heteroorganic entity is an organic molecular entity in which carbon atoms or organic groups are bonded directly to one or more heteroatoms." [] subset: 3_STAR synonym: "heteroorganic entities" RELATED [ChEBI] synonym: "organoelement compounds" RELATED [ChEBI] is_a: CHEBI:50860 ! organic molecular entity [Term] id: CHEBI:33286 name: agrochemical namespace: chebi_ontology def: "An agrochemical is a substance that is used in agriculture or horticulture." [] subset: 3_STAR synonym: "agrichemical" RELATED [ChEBI] synonym: "agrichemicals" RELATED [ChEBI] synonym: "agricultural chemicals" RELATED [ChEBI] synonym: "agrochemicals" RELATED [ChEBI] xref: Wikipedia:Agrochemical is_a: CHEBI:33232 ! application [Term] id: CHEBI:33287 name: fertilizer namespace: chebi_ontology def: "A fertilizer is any substance that is added to soil or water to assist the growth of plants." [] subset: 3_STAR synonym: "fertiliser" RELATED [ChEBI] synonym: "fertilizers" RELATED [ChEBI] is_a: CHEBI:33286 ! agrochemical [Term] id: CHEBI:33290 name: food namespace: chebi_ontology def: "Any material that can be ingested by an organism." [] subset: 3_STAR synonym: "food material" RELATED [ChEBI] synonym: "food materials" RELATED [ChEBI] synonym: "food role" RELATED [ChEBI] synonym: "foods" RELATED [ChEBI] synonym: "foodstuff" RELATED [ChEBI] synonym: "foodstuffs" RELATED [ChEBI] is_a: CHEBI:52211 ! physiological role relationship: has_part CHEBI:78295 ! food component [Term] id: CHEBI:33292 name: fuel namespace: chebi_ontology def: "An energy-rich substance that can be transformed with release of usable energy." [] subset: 3_STAR is_a: CHEBI:33232 ! application [Term] id: CHEBI:33299 name: alkaline earth molecular entity namespace: chebi_ontology def: "An alkaline earth molecular entity is a molecular entity containing one or more atoms of an alkaline earth metal." [] subset: 3_STAR synonym: "alkaline earth compounds" RELATED [ChEBI] synonym: "alkaline earth molecular entities" RELATED [ChEBI] synonym: "alkaline earth molecular entity" EXACT [ChEBI] synonym: "alkaline-earth compounds" RELATED [ChEBI] is_a: CHEBI:33674 ! s-block molecular entity relationship: has_part CHEBI:22313 ! alkaline earth metal atom [Term] id: CHEBI:33300 name: pnictogen namespace: chebi_ontology def: "Any p-block element atom that is in group 15 of the periodic table: nitrogen, phosphorus, arsenic, antimony and bismuth." [] subset: 3_STAR synonym: "group 15 elements" RELATED [ChEBI] synonym: "group V elements" RELATED [ChEBI] synonym: "nitrogenoideos" RELATED [ChEBI] synonym: "nitrogenoides" RELATED [ChEBI] synonym: "pnictogene" RELATED [ChEBI] synonym: "pnictogenes" RELATED [ChEBI] synonym: "pnictogens" EXACT IUPAC_NAME [IUPAC] is_a: CHEBI:33560 ! p-block element atom [Term] id: CHEBI:33302 name: pnictogen molecular entity namespace: chebi_ontology def: "A p-block molecular entity containing any pnictogen." [] subset: 3_STAR synonym: "pnictogen molecular entities" RELATED [ChEBI] synonym: "pnictogen molecular entity" EXACT [ChEBI] is_a: CHEBI:33675 ! p-block molecular entity relationship: has_part CHEBI:33300 ! pnictogen [Term] id: CHEBI:33303 name: chalcogen namespace: chebi_ontology def: "Any p-block element belonging to the group 16 family of the periodic table." [] subset: 3_STAR synonym: "anfigeno" RELATED [ChEBI] synonym: "anfigenos" RELATED [ChEBI] synonym: "calcogeno" RELATED [ChEBI] synonym: "calcogenos" RELATED [ChEBI] synonym: "chalcogen" EXACT IUPAC_NAME [IUPAC] synonym: "chalcogene" RELATED [ChEBI] synonym: "chalcogenes" RELATED [ChEBI] synonym: "chalcogens" EXACT IUPAC_NAME [IUPAC] synonym: "Chalkogen" RELATED [ChEBI] synonym: "Chalkogene" RELATED [ChEBI] synonym: "group 16 elements" RELATED [ChEBI] synonym: "group VI elements" RELATED [ChEBI] xref: PMID:17084588 {source="Europe PMC"} is_a: CHEBI:33560 ! p-block element atom [Term] id: CHEBI:33304 name: chalcogen molecular entity namespace: chebi_ontology def: "Any p-block molecular entity containing a chalcogen." [] subset: 3_STAR synonym: "chalcogen compounds" RELATED [ChEBI] synonym: "chalcogen molecular entities" RELATED [ChEBI] synonym: "chalcogen molecular entity" EXACT [ChEBI] is_a: CHEBI:33675 ! p-block molecular entity relationship: has_part CHEBI:33303 ! chalcogen [Term] id: CHEBI:33306 name: carbon group element atom namespace: chebi_ontology subset: 3_STAR synonym: "carbon group element" RELATED [ChEBI] synonym: "carbon group elements" RELATED [ChEBI] synonym: "carbonoides" RELATED [ChEBI] synonym: "cristallogene" RELATED [ChEBI] synonym: "cristallogenes" RELATED [ChEBI] synonym: "group 14 elements" EXACT IUPAC_NAME [IUPAC] synonym: "group IV elements" RELATED [ChEBI] is_a: CHEBI:33560 ! p-block element atom [Term] id: CHEBI:33308 name: carboxylic ester namespace: chebi_ontology alt_id: CHEBI:13204 alt_id: CHEBI:23028 alt_id: CHEBI:3408 def: "An ester of a carboxylic acid, R(1)C(=O)OR(2), where R(1) = H or organyl and R(2) = organyl." [] subset: 3_STAR synonym: "a carboxylic ester" RELATED [UniProt] synonym: "carboxylic acid esters" RELATED [ChEBI] synonym: "Carboxylic ester" EXACT [KEGG_COMPOUND] synonym: "carboxylic esters" EXACT IUPAC_NAME [IUPAC] xref: KEGG:C02391 xref: Wikipedia:Ester is_a: CHEBI:35701 ! ester is_a: CHEBI:36586 ! carbonyl compound property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "CO2R2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "44.010" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "43.98983" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[*]C(=O)O[*]" xsd:string [Term] id: CHEBI:33318 name: main group element atom namespace: chebi_ontology def: "An atom belonging to one of the main groups (found in the s- and p- blocks) of the periodic table." [] subset: 3_STAR synonym: "Hauptgruppenelement" RELATED [ChEBI] synonym: "Hauptgruppenelemente" RELATED [ChEBI] synonym: "main group element" RELATED [ChEBI] synonym: "main group elements" EXACT IUPAC_NAME [IUPAC] is_a: CHEBI:33250 ! atom [Term] id: CHEBI:33402 name: sulfur oxoacid namespace: chebi_ontology subset: 3_STAR synonym: "oxoacids of sulfur" RELATED [ChEBI] synonym: "sulfur oxoacids" RELATED [ChEBI] is_a: CHEBI:26835 ! sulfur molecular entity is_a: CHEBI:33484 ! chalcogen oxoacid [Term] id: CHEBI:33408 name: pnictogen oxoacid namespace: chebi_ontology subset: 3_STAR synonym: "pnictogen oxoacids" RELATED [ChEBI] is_a: CHEBI:24833 ! oxoacid is_a: CHEBI:33302 ! pnictogen molecular entity relationship: has_role CHEBI:138103 ! inorganic acid [Term] id: CHEBI:33424 name: sulfur oxoacid derivative namespace: chebi_ontology subset: 3_STAR synonym: "sulfur oxoacid derivative" EXACT [ChEBI] synonym: "sulfur oxoacid derivatives" RELATED [ChEBI] is_a: CHEBI:26835 ! sulfur molecular entity is_a: CHEBI:33241 ! oxoacid derivative [Term] id: CHEBI:33455 name: nitrogen oxoacid namespace: chebi_ontology subset: 3_STAR synonym: "nitrogen oxoacids" RELATED [ChEBI] synonym: "oxoacids of nitrogen" RELATED [ChEBI] is_a: CHEBI:33408 ! pnictogen oxoacid is_a: CHEBI:51143 ! nitrogen molecular entity [Term] id: CHEBI:33457 name: phosphorus oxoacid namespace: chebi_ontology def: "A pnictogen oxoacid which contains phosphorus and oxygen, at least one hydrogen atom bound to oxygen, and forms an ion by the loss of one or more protons." [] subset: 3_STAR synonym: "oxoacids of phosphorus" RELATED [ChEBI] synonym: "Oxosaeure des Phosphors" RELATED [ChEBI] synonym: "phosphorus oxoacid" EXACT [ChEBI] synonym: "phosphorus oxoacids" RELATED [ChEBI] is_a: CHEBI:33408 ! pnictogen oxoacid is_a: CHEBI:36360 ! phosphorus oxoacids and derivatives [Term] id: CHEBI:33458 name: nitrogen oxoanion namespace: chebi_ontology subset: 3_STAR synonym: "nitrogen oxoanion" EXACT [ChEBI] synonym: "nitrogen oxoanions" RELATED [ChEBI] synonym: "oxoanions of nitrogen" RELATED [ChEBI] is_a: CHEBI:33459 ! pnictogen oxoanion is_a: CHEBI:51143 ! nitrogen molecular entity [Term] id: CHEBI:33459 name: pnictogen oxoanion namespace: chebi_ontology subset: 3_STAR synonym: "pnictogen oxoanion" EXACT [ChEBI] synonym: "pnictogen oxoanions" RELATED [ChEBI] is_a: CHEBI:33302 ! pnictogen molecular entity is_a: CHEBI:35406 ! oxoanion [Term] id: CHEBI:33461 name: phosphorus oxoanion namespace: chebi_ontology subset: 3_STAR synonym: "oxoanions of phosphorus" RELATED [ChEBI] synonym: "phosphorus oxoanion" EXACT [ChEBI] synonym: "phosphorus oxoanions" RELATED [ChEBI] is_a: CHEBI:24834 ! inorganic anion is_a: CHEBI:26082 ! phosphorus molecular entity is_a: CHEBI:33459 ! pnictogen oxoanion [Term] id: CHEBI:33482 name: sulfur oxoanion namespace: chebi_ontology subset: 3_STAR synonym: "oxoanions of sulfur" RELATED [ChEBI] synonym: "sulfur oxoanion" EXACT [ChEBI] synonym: "sulfur oxoanions" RELATED [ChEBI] is_a: CHEBI:26835 ! sulfur molecular entity is_a: CHEBI:33485 ! chalcogen oxoanion [Term] id: CHEBI:33484 name: chalcogen oxoacid namespace: chebi_ontology subset: 3_STAR synonym: "chalcogen oxoacid" EXACT [ChEBI] synonym: "chalcogen oxoacids" RELATED [ChEBI] is_a: CHEBI:24833 ! oxoacid relationship: has_role CHEBI:138103 ! inorganic acid [Term] id: CHEBI:33485 name: chalcogen oxoanion namespace: chebi_ontology subset: 3_STAR synonym: "chalcogen oxoanion" EXACT [ChEBI] synonym: "chalcogen oxoanions" RELATED [ChEBI] is_a: CHEBI:35406 ! oxoanion [Term] id: CHEBI:33521 name: metal atom namespace: chebi_ontology alt_id: CHEBI:25217 alt_id: CHEBI:6788 def: "An atom of an element that exhibits typical metallic properties, being typically shiny, with high electrical and thermal conductivity." [] subset: 3_STAR synonym: "elemental metal" RELATED [ChEBI] synonym: "elemental metals" RELATED [ChEBI] synonym: "metal element" RELATED [ChEBI] synonym: "metal elements" RELATED [ChEBI] synonym: "metals" RELATED [ChEBI] xref: KEGG:C00050 xref: PMID:21784043 {source="Europe PMC"} xref: Wikipedia:Metal is_a: CHEBI:33250 ! atom [Term] id: CHEBI:33558 name: alpha-amino-acid anion namespace: chebi_ontology def: "An amino-acid anion obtained by deprotonation of any alpha-amino acid." [] subset: 3_STAR synonym: "alpha-amino acid anions" RELATED [ChEBI] synonym: "alpha-amino-acid anion" EXACT [ChEBI] synonym: "alpha-amino-acid anions" RELATED [ChEBI] is_a: CHEBI:37022 ! amino-acid anion relationship: is_conjugate_base_of CHEBI:33704 ! alpha-amino acid [Term] id: CHEBI:33559 name: s-block element atom namespace: chebi_ontology subset: 3_STAR synonym: "s-block element" RELATED [ChEBI] synonym: "s-block elements" RELATED [ChEBI] is_a: CHEBI:33250 ! atom [Term] id: CHEBI:33560 name: p-block element atom namespace: chebi_ontology def: "Any main group element atom belonging to the p-block of the periodic table." [] subset: 3_STAR synonym: "p-block element" RELATED [ChEBI] synonym: "p-block elements" RELATED [ChEBI] is_a: CHEBI:33318 ! main group element atom [Term] id: CHEBI:33566 name: catechols namespace: chebi_ontology alt_id: CHEBI:134187 alt_id: CHEBI:13628 alt_id: CHEBI:18862 def: "Any compound containing an o-diphenol component." [] subset: 3_STAR synonym: "1,2-benzenediols" RELATED [ChEBI] synonym: "a catechol" RELATED [UniProt] synonym: "benzene-1,2-diols" RELATED [ChEBI] xref: KEGG:C15571 is_a: CHEBI:33570 ! benzenediols property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C6H2O2R4" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "106.079" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "106.00548" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "OC1=C(O)C(*)=C(*)C(*)=C1*" xsd:string [Term] id: CHEBI:33567 name: catecholamine namespace: chebi_ontology alt_id: CHEBI:23056 alt_id: CHEBI:3468 def: "4-(2-Aminoethyl)pyrocatechol [4-(2-aminoethyl)benzene-1,2-diol] and derivatives formed by substitution." [] subset: 3_STAR synonym: "Catecholamine" EXACT [KEGG_COMPOUND] synonym: "catecholamines" EXACT IUPAC_NAME [IUPAC] synonym: "catecholamines" RELATED [ChEBI] xref: KEGG:C02012 is_a: CHEBI:25375 ! monoamine molecular messenger is_a: CHEBI:33566 ! catechols property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C8H9NO2R2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "151.163" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "151.06333" xsd:string [Term] id: CHEBI:33569 name: noradrenaline namespace: chebi_ontology def: "A catecholamine in which C-1 of the aminoethyl side-chain is hydroxy-substituted." [] subset: 3_STAR synonym: "4-(2-amino-1-hydroxyethyl)benzene-1,2-diol" EXACT IUPAC_NAME [IUPAC] synonym: "noradrenalina" RELATED [ChEBI] synonym: "norepinephrine" RELATED [ChEBI] xref: Beilstein:2210994 {source="Beilstein"} xref: CAS:138-65-8 {source="NIST Chemistry WebBook"} xref: CAS:138-65-8 {source="ChemIDplus"} xref: Gmelin:863925 {source="Gmelin"} xref: LINCS:LSM-5181 is_a: CHEBI:33567 ! catecholamine relationship: has_role CHEBI:76967 ! human xenobiotic metabolite relationship: is_conjugate_base_of CHEBI:166902 ! noradrenaline(1+) property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C8H11NO3" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C8H11NO3/c9-4-8(12)5-1-2-6(10)7(11)3-5/h1-3,8,10-12H,4,9H2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "SFLSHLFXELFNJZ-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "169.17788" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "169.07389" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "NCC(O)c1ccc(O)c(O)c1" xsd:string [Term] id: CHEBI:33570 name: benzenediols namespace: chebi_ontology alt_id: CHEBI:22705 alt_id: CHEBI:22711 subset: 3_STAR is_a: CHEBI:33853 ! phenols [Term] id: CHEBI:33575 name: carboxylic acid namespace: chebi_ontology alt_id: CHEBI:13428 alt_id: CHEBI:13627 alt_id: CHEBI:23027 def: "A carbon oxoacid acid carrying at least one -C(=O)OH group and having the structure RC(=O)OH, where R is any any monovalent functional group. Carboxylic acids are the most common type of organic acid." [] subset: 3_STAR synonym: "acide carboxylique" RELATED [IUPAC] synonym: "acides carboxyliques" RELATED [IUPAC] synonym: "acido carboxilico" RELATED [IUPAC] synonym: "acidos carboxilicos" RELATED [IUPAC] synonym: "Carbonsaeure" RELATED [ChEBI] synonym: "Carbonsaeuren" RELATED [ChEBI] synonym: "carboxylic acid" EXACT IUPAC_NAME [IUPAC] synonym: "carboxylic acids" EXACT IUPAC_NAME [IUPAC] synonym: "Karbonsaeure" RELATED [ChEBI] synonym: "RC(=O)OH" RELATED [IUPAC] xref: PMID:17147560 {source="Europe PMC"} xref: PMID:18433345 {source="Europe PMC"} xref: Wikipedia:Carboxylic_acid is_a: CHEBI:35605 ! carbon oxoacid is_a: CHEBI:36586 ! carbonyl compound is_a: CHEBI:64709 ! organic acid relationship: has_part CHEBI:46883 ! carboxy group relationship: is_conjugate_acid_of CHEBI:29067 ! carboxylic acid anion property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "CHO2R" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "45.01740" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "44.99765" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "OC([*])=O" xsd:string [Term] id: CHEBI:33579 name: main group molecular entity namespace: chebi_ontology def: "A molecular entity containing one or more atoms from any of groups 1, 2, 13, 14, 15, 16, 17, and 18 of the periodic table." [] subset: 3_STAR synonym: "main group compounds" RELATED [ChEBI] synonym: "main group molecular entities" RELATED [ChEBI] is_a: CHEBI:23367 ! molecular entity relationship: has_part CHEBI:33318 ! main group element atom [Term] id: CHEBI:33582 name: carbon group molecular entity namespace: chebi_ontology subset: 3_STAR synonym: "carbon group molecular entities" RELATED [ChEBI] synonym: "carbon group molecular entity" EXACT [ChEBI] is_a: CHEBI:33675 ! p-block molecular entity relationship: has_part CHEBI:33306 ! carbon group element atom [Term] id: CHEBI:33595 name: cyclic compound namespace: chebi_ontology def: "Any molecule that consists of a series of atoms joined together to form a ring." [] subset: 3_STAR synonym: "cyclic compounds" RELATED [ChEBI] xref: Wikipedia:Cyclic_compound is_a: CHEBI:25367 ! molecule [Term] id: CHEBI:33608 name: hydrogen molecular entity namespace: chebi_ontology subset: 3_STAR synonym: "hydrogen compounds" RELATED [ChEBI] synonym: "hydrogen molecular entities" RELATED [ChEBI] is_a: CHEBI:33674 ! s-block molecular entity relationship: has_part CHEBI:49637 ! hydrogen atom [Term] id: CHEBI:33635 name: polycyclic compound namespace: chebi_ontology subset: 3_STAR synonym: "polycyclic compounds" RELATED [ChEBI] is_a: CHEBI:33595 ! cyclic compound [Term] id: CHEBI:33636 name: bicyclic compound namespace: chebi_ontology def: "A molecule that features two fused rings." [] subset: 3_STAR synonym: "bicyclic compounds" RELATED [ChEBI] is_a: CHEBI:33595 ! cyclic compound [Term] id: CHEBI:33653 name: aliphatic compound namespace: chebi_ontology def: "Any acyclic or cyclic, saturated or unsaturated carbon compound, excluding aromatic compounds." [] subset: 3_STAR synonym: "aliphatic compounds" EXACT IUPAC_NAME [IUPAC] is_a: CHEBI:50860 ! organic molecular entity [Term] id: CHEBI:33655 name: aromatic compound namespace: chebi_ontology def: "A cyclically conjugated molecular entity with a stability (due to delocalization) significantly greater than that of a hypothetical localized structure (e.g. Kekule structure) is said to possess aromatic character." [] subset: 3_STAR synonym: "aromatic compounds" EXACT IUPAC_NAME [IUPAC] synonym: "aromatic molecular entity" EXACT IUPAC_NAME [IUPAC] synonym: "aromatics" RELATED [ChEBI] synonym: "aromatische Verbindungen" RELATED [ChEBI] is_a: CHEBI:33595 ! cyclic compound [Term] id: CHEBI:33659 name: organic aromatic compound namespace: chebi_ontology subset: 3_STAR synonym: "organic aromatic compounds" RELATED [ChEBI] is_a: CHEBI:33655 ! aromatic compound is_a: CHEBI:33832 ! organic cyclic compound [Term] id: CHEBI:33671 name: heteropolycyclic compound namespace: chebi_ontology def: "A polycyclic compound in which at least one of the rings contains at least one non-carbon atom." [] subset: 3_STAR synonym: "heteropolycyclic compounds" EXACT IUPAC_NAME [IUPAC] synonym: "polyheterocyclic compounds" RELATED [ChEBI] is_a: CHEBI:33635 ! polycyclic compound is_a: CHEBI:5686 ! heterocyclic compound [Term] id: CHEBI:33672 name: heterobicyclic compound namespace: chebi_ontology def: "A bicyclic compound in which at least one of the rings contains at least one skeletal heteroatom." [] subset: 3_STAR synonym: "heterobicyclic compounds" EXACT IUPAC_NAME [IUPAC] is_a: CHEBI:33636 ! bicyclic compound is_a: CHEBI:5686 ! heterocyclic compound [Term] id: CHEBI:33674 name: s-block molecular entity namespace: chebi_ontology def: "An s-block molecular entity is a molecular entity containing one or more atoms of an s-block element." [] subset: 3_STAR synonym: "s-block compounds" RELATED [ChEBI] synonym: "s-block molecular entities" RELATED [ChEBI] synonym: "s-block molecular entity" EXACT [ChEBI] is_a: CHEBI:33579 ! main group molecular entity relationship: has_part CHEBI:33559 ! s-block element atom [Term] id: CHEBI:33675 name: p-block molecular entity namespace: chebi_ontology def: "A main group molecular entity that contains one or more atoms of a p-block element." [] subset: 3_STAR synonym: "p-block compounds" RELATED [ChEBI] synonym: "p-block molecular entities" RELATED [ChEBI] synonym: "p-block molecular entitiy" RELATED [ChEBI] is_a: CHEBI:33579 ! main group molecular entity relationship: has_part CHEBI:33560 ! p-block element atom [Term] id: CHEBI:33692 name: hydrides namespace: chebi_ontology def: "Hydrides are chemical compounds of hydrogen with other chemical elements." [] subset: 3_STAR is_a: CHEBI:33608 ! hydrogen molecular entity is_a: CHEBI:37577 ! heteroatomic molecular entity [Term] id: CHEBI:33693 name: oxygen hydride namespace: chebi_ontology subset: 3_STAR synonym: "hydrides of oxygen" RELATED [ChEBI] synonym: "oxygen hydride" EXACT [ChEBI] synonym: "oxygen hydrides" RELATED [ChEBI] is_a: CHEBI:36902 ! chalcogen hydride [Term] id: CHEBI:33694 name: biomacromolecule namespace: chebi_ontology def: "A macromolecule formed by a living organism." [] subset: 3_STAR synonym: "biomacromolecules" RELATED [ChEBI] synonym: "biopolymer" EXACT IUPAC_NAME [IUPAC] synonym: "Biopolymere" RELATED [ChEBI] synonym: "biopolymers" RELATED [ChEBI] is_a: CHEBI:33839 ! macromolecule is_a: CHEBI:50860 ! organic molecular entity [Term] id: CHEBI:33695 name: information biomacromolecule namespace: chebi_ontology subset: 3_STAR synonym: "genetically encoded biomacromolecules" RELATED [ChEBI] synonym: "genetically encoded biopolymers" RELATED [ChEBI] synonym: "information biomacromolecules" RELATED [ChEBI] synonym: "information biopolymers" RELATED [ChEBI] synonym: "information macromolecule" RELATED [ChEBI] synonym: "information macromolecules" RELATED [ChEBI] is_a: CHEBI:33694 ! biomacromolecule [Term] id: CHEBI:33696 name: nucleic acid namespace: chebi_ontology def: "A macromolecule made up of nucleotide units and hydrolysable into certain pyrimidine or purine bases (usually adenine, cytosine, guanine, thymine, uracil), D-ribose or 2-deoxy-D-ribose and phosphoric acid." [] subset: 3_STAR synonym: "acide nucleique" RELATED [ChEBI] synonym: "acides nucleiques" RELATED [ChEBI] synonym: "acido nucleico" RELATED [ChEBI] synonym: "acidos nucleicos" RELATED [ChEBI] synonym: "NA" RELATED [ChEBI] synonym: "nucleic acids" EXACT IUPAC_NAME [IUPAC] synonym: "Nukleinsaeure" RELATED [ChEBI] synonym: "Nukleinsaeuren" RELATED [ChEBI] is_a: CHEBI:15986 ! polynucleotide relationship: has_part CHEBI:33791 ! canonical nucleoside residue relationship: has_part CHEBI:50297 ! canonical nucleotide residue [Term] id: CHEBI:33697 name: ribonucleic acid namespace: chebi_ontology def: "High molecular weight, linear polymers, composed of nucleotides containing ribose and linked by phosphodiester bonds; RNA is central to the synthesis of proteins." [] subset: 3_STAR synonym: "pentosenucleic acids" RELATED [ChemIDplus] synonym: "ribonucleic acid" EXACT [IUPAC] synonym: "ribonucleic acids" EXACT IUPAC_NAME [IUPAC] synonym: "ribonucleic acids" RELATED [ChEBI] synonym: "Ribonukleinsaeure" RELATED [ChEBI] synonym: "ribose nucleic acid" RELATED [ChEBI] synonym: "RNA" RELATED [IUPAC] synonym: "RNS" RELATED [ChEBI] synonym: "yeast nucleic acid" RELATED [ChEBI] xref: CAS:63231-63-0 {source="ChemIDplus"} is_a: CHEBI:33696 ! nucleic acid relationship: has_part CHEBI:33792 ! canonical ribonucleoside residue relationship: has_part CHEBI:50299 ! canonical ribonucleotide residue [Term] id: CHEBI:33700 name: proteinogenic amino-acid residue namespace: chebi_ontology subset: 3_STAR synonym: "canonical amino-acid residue" RELATED [ChEBI] synonym: "canonical amino-acid residues" RELATED [ChEBI] synonym: "common amino acid residues" RELATED [ChEBI] synonym: "proteinogenic amino-acid residues" RELATED [ChEBI] synonym: "standard amino acid residues" RELATED [ChEBI] synonym: "standard amino-acid residues" RELATED [ChEBI] is_a: CHEBI:33710 ! alpha-amino-acid residue [Term] id: CHEBI:33702 name: polyatomic cation namespace: chebi_ontology def: "A cation consisting of more than one atom." [] subset: 3_STAR synonym: "polyatomic cations" RELATED [ChEBI] is_a: CHEBI:36358 ! polyatomic ion is_a: CHEBI:36916 ! cation [Term] id: CHEBI:33704 name: alpha-amino acid namespace: chebi_ontology alt_id: CHEBI:10208 alt_id: CHEBI:13779 alt_id: CHEBI:22442 alt_id: CHEBI:2642 def: "An amino acid in which the amino group is located on the carbon atom at the position alpha to the carboxy group." [] subset: 3_STAR synonym: "alpha-amino acid" EXACT IUPAC_NAME [IUPAC] synonym: "alpha-amino acids" RELATED [JCBN] synonym: "alpha-amino acids" RELATED [ChEBI] synonym: "alpha-amino carboxylic acids" RELATED [IUPAC] synonym: "Amino acid" RELATED [KEGG_COMPOUND] synonym: "Amino acids" RELATED [KEGG_COMPOUND] xref: KEGG:C00045 xref: KEGG:C05167 is_a: CHEBI:33709 ! amino acid relationship: is_conjugate_acid_of CHEBI:33558 ! alpha-amino-acid anion relationship: is_tautomer_of CHEBI:78608 ! alpha-amino acid zwitterion property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C2H4NO2R" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "74.05870" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "74.02420" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "NC([*])C(O)=O" xsd:string [Term] id: CHEBI:33708 name: amino-acid residue namespace: chebi_ontology def: "When two or more amino acids combine to form a peptide, the elements of water are removed, and what remains of each amino acid is called an amino-acid residue." [Dummy:dummy] subset: 3_STAR synonym: "amino acid residue" EXACT [] synonym: "amino acid residue" RELATED [ChEBI] synonym: "amino-acid residue" EXACT IUPAC_NAME [IUPAC] synonym: "amino-acid residues" RELATED [JCBN] synonym: "protein residue" NARROW [PRO:DAN] is_a: CHEBI:33247 ! organic group relationship: is_substituent_group_from CHEBI:33709 ! amino acid [Term] id: CHEBI:33709 name: amino acid namespace: chebi_ontology alt_id: CHEBI:13815 alt_id: CHEBI:22477 def: "A carboxylic acid containing one or more amino groups." [] subset: 3_STAR synonym: "amino acids" RELATED [ChEBI] synonym: "Aminocarbonsaeure" RELATED [ChEBI] synonym: "Aminokarbonsaeure" RELATED [ChEBI] synonym: "Aminosaeure" RELATED [ChEBI] xref: Wikipedia:Amino_acid is_a: CHEBI:33575 ! carboxylic acid is_a: CHEBI:50047 ! organic amino compound relationship: is_conjugate_acid_of CHEBI:37022 ! amino-acid anion [Term] id: CHEBI:33710 name: alpha-amino-acid residue namespace: chebi_ontology subset: 3_STAR synonym: "alpha-amino-acid residues" RELATED [ChEBI] is_a: CHEBI:33708 ! amino-acid residue relationship: is_substituent_group_from CHEBI:33704 ! alpha-amino acid [Term] id: CHEBI:33720 name: carbohydrate acid namespace: chebi_ontology subset: 3_STAR synonym: "carbohydrate acid" EXACT [ChEBI] synonym: "carbohydrate acids" RELATED [ChEBI] is_a: CHEBI:16646 ! carbohydrate is_a: CHEBI:33575 ! carboxylic acid relationship: is_conjugate_acid_of CHEBI:33721 ! carbohydrate acid anion [Term] id: CHEBI:33721 name: carbohydrate acid anion namespace: chebi_ontology subset: 3_STAR synonym: "carbohydrate acid anion" EXACT [ChEBI] synonym: "carbohydrate acid anions" RELATED [ChEBI] is_a: CHEBI:29067 ! carboxylic acid anion relationship: is_conjugate_base_of CHEBI:33720 ! carbohydrate acid [Term] id: CHEBI:33791 name: canonical nucleoside residue namespace: chebi_ontology subset: 3_STAR synonym: "canonical nucleoside residues" RELATED [ChEBI] synonym: "common nucleoside residues" RELATED [CBN] synonym: "nucleoside residue" RELATED [CBN] synonym: "standard nucleoside residues" RELATED [ChEBI] is_a: CHEBI:50320 ! nucleoside residue [Term] id: CHEBI:33792 name: canonical ribonucleoside residue namespace: chebi_ontology subset: 3_STAR synonym: "canonical ribonucleoside residues" RELATED [ChEBI] synonym: "common ribonucleoside residue" RELATED [CBN] synonym: "common ribonucleoside residues" RELATED [CBN] synonym: "N" RELATED [CBN] synonym: "Nuc" RELATED [CBN] synonym: "standard ribonucleoside residues" RELATED [ChEBI] is_a: CHEBI:33791 ! canonical nucleoside residue [Term] id: CHEBI:33793 name: canonical deoxyribonucleoside residue namespace: chebi_ontology subset: 3_STAR synonym: "canonical deoxyribonucleoside residues" RELATED [ChEBI] synonym: "common 2'-deoxyribonucleoside residue" RELATED [CBN] synonym: "common 2'-deoxyribonucleoside residues" RELATED [CBN] synonym: "dN" RELATED [CBN] synonym: "dNuc" RELATED [CBN] synonym: "standard deoxyribonucleoside residues" RELATED [ChEBI] is_a: CHEBI:33791 ! canonical nucleoside residue [Term] id: CHEBI:33822 name: organic hydroxy compound namespace: chebi_ontology alt_id: CHEBI:64710 def: "An organic compound having at least one hydroxy group attached to a carbon atom." [] subset: 3_STAR synonym: "hydroxy compounds" EXACT IUPAC_NAME [IUPAC] synonym: "organic alcohol" RELATED [ChEBI] synonym: "organic hydroxy compounds" RELATED [ChEBI] is_a: CHEBI:24651 ! hydroxides is_a: CHEBI:50860 ! organic molecular entity [Term] id: CHEBI:33832 name: organic cyclic compound namespace: chebi_ontology def: "Any organic molecule that consists of atoms connected in the form of a ring." [] subset: 3_STAR synonym: "organic cyclic compounds" RELATED [ChEBI] is_a: CHEBI:33595 ! cyclic compound is_a: CHEBI:72695 ! organic molecule [Term] id: CHEBI:33833 name: heteroarene namespace: chebi_ontology def: "A heterocyclic compound formally derived from an arene by replacement of one or more methine (-C=) and/or vinylene (-CH=CH-) groups by trivalent or divalent heteroatoms, respectively, in such a way as to maintain the continuous pi-electron system characteristic of aromatic systems and a number of out-of-plane pi-electrons corresponding to the Hueckel rule (4n+2)." [] subset: 3_STAR synonym: "hetarenes" RELATED [IUPAC] synonym: "heteroarenes" EXACT IUPAC_NAME [IUPAC] is_a: CHEBI:24532 ! organic heterocyclic compound is_a: CHEBI:33659 ! organic aromatic compound [Term] id: CHEBI:33837 name: conjugated protein namespace: chebi_ontology def: "Conjugated protein is a protein that contains a non-peptide component, usually in stoichiometric proportion." [] subset: 3_STAR synonym: "complex protein" RELATED [COMe] synonym: "conjugated proteins" EXACT IUPAC_NAME [IUPAC] xref: COMe:PRX000001 is_a: CHEBI:36080 ! protein is_a: PR:000000001 ! protein [Term] id: CHEBI:33839 name: macromolecule namespace: chebi_ontology def: "A macromolecule is a molecule of high relative molecular mass, the structure of which essentially comprises the multiple repetition of units derived, actually or conceptually, from molecules of low relative molecular mass." [] subset: 3_STAR synonym: "macromolecule" EXACT IUPAC_NAME [IUPAC] synonym: "macromolecules" RELATED [ChEBI] synonym: "polymer" RELATED [ChEBI] synonym: "polymer molecule" RELATED [IUPAC] synonym: "polymers" RELATED [ChEBI] xref: Wikipedia:Macromolecule is_a: CHEBI:36357 ! polyatomic entity [Term] id: CHEBI:33853 name: phenols namespace: chebi_ontology alt_id: CHEBI:13664 alt_id: CHEBI:13825 alt_id: CHEBI:25969 alt_id: CHEBI:2857 def: "Organic aromatic compounds having one or more hydroxy groups attached to a benzene or other arene ring." [] subset: 3_STAR synonym: "a phenol" RELATED [UniProt] synonym: "arenols" RELATED [IUPAC] synonym: "Aryl alcohol" RELATED [KEGG_COMPOUND] synonym: "phenols" EXACT IUPAC_NAME [IUPAC] xref: KEGG:C15584 xref: MetaCyc:Phenols xref: Wikipedia:Phenols is_a: CHEBI:33659 ! organic aromatic compound is_a: CHEBI:33822 ! organic hydroxy compound property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C6HOR5" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "89.072" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "89.00274" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "C1(=C(C(=C(C(=C1*)*)*)*)*)O" xsd:string [Term] id: CHEBI:33893 name: reagent namespace: chebi_ontology def: "A substance used in a chemical reaction to detect, measure, examine, or produce other substances." [] subset: 3_STAR synonym: "reactif" RELATED [IUPAC] synonym: "reactivo" RELATED [IUPAC] synonym: "reagent" EXACT IUPAC_NAME [IUPAC] synonym: "reagents" RELATED [ChEBI] is_a: CHEBI:33232 ! application [Term] id: CHEBI:33909 name: metallotetrapyrrole namespace: chebi_ontology subset: 3_STAR synonym: "metal-tetrapyrrole" RELATED [ChEBI] synonym: "metal-tetrapyrrole complex" RELATED [ChEBI] synonym: "metallotetrapyrroles" RELATED [ChEBI] is_a: CHEBI:36309 ! cyclic tetrapyrrole [Term] id: CHEBI:33937 name: macronutrient namespace: chebi_ontology def: "Any nutrient required in large quantities by organisms throughout their life in order to orchestrate a range of physiological functions. Macronutrients are usually chemical elements (carbon, hydrogen, nitrogen, oxygen, phosphorus and sulfur) that humans consume in the largest quantities. Calcium, sodium, magnesium and potassium are sometimes included as macronutrients because they are required in relatively large quantities compared with other vitamins and minerals." [] subset: 3_STAR synonym: "macronutrients" RELATED [ChEBI] is_a: CHEBI:33284 ! nutrient [Term] id: CHEBI:33976 name: magnesium coordination entity namespace: chebi_ontology subset: 3_STAR synonym: "magnesium coordination compounds" RELATED [ChEBI] synonym: "magnesium coordination entities" RELATED [ChEBI] synonym: "magnesium coordination entity" EXACT [ChEBI] is_a: CHEBI:25108 ! magnesium molecular entity is_a: CHEBI:35217 ! alkaline earth coordination entity [Term] id: CHEBI:350546 name: serotonin(1+) namespace: chebi_ontology def: "An ammonium ion that is the conjugate acid of serotonin; major species at pH 7.3." [] subset: 3_STAR synonym: "2-(5-hydroxy-1H-indol-3-yl)ethanaminium" EXACT IUPAC_NAME [IUPAC] synonym: "serotonin" RELATED [UniProt] synonym: "serotonin cation" RELATED [ChEBI] is_a: CHEBI:35274 ! ammonium ion derivative relationship: has_role CHEBI:77746 ! human metabolite relationship: is_conjugate_acid_of CHEBI:28790 ! serotonin property_value: http://purl.obolibrary.org/obo/chebi/charge "+1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C10H13N2O" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C10H12N2O/c11-4-3-7-6-12-10-2-1-8(13)5-9(7)10/h1-2,5-6,12-13H,3-4,11H2/p+1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "QZAYGJVTTNCVMB-UHFFFAOYSA-O" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "177.22250" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "177.10224" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[NH3+]CCc1c[nH]c2ccc(O)cc12" xsd:string [Term] id: CHEBI:35106 name: nitrogen hydride namespace: chebi_ontology subset: 3_STAR synonym: "nitrogen hydrides" RELATED [ChEBI] is_a: CHEBI:35881 ! pnictogen hydride is_a: CHEBI:51143 ! nitrogen molecular entity [Term] id: CHEBI:35107 name: azane namespace: chebi_ontology def: "Saturated acyclic nitrogen hydrides having the general formula NnHn+2." [] subset: 3_STAR synonym: "azanes" RELATED [ChEBI] is_a: CHEBI:35106 ! nitrogen hydride [Term] id: CHEBI:35217 name: alkaline earth coordination entity namespace: chebi_ontology subset: 3_STAR synonym: "alkaline earth coordination compounds" RELATED [ChEBI] synonym: "alkaline earth coordination entities" RELATED [ChEBI] synonym: "alkaline earth coordination entity" EXACT [ChEBI] is_a: CHEBI:33299 ! alkaline earth molecular entity is_a: CHEBI:36562 ! main-group coordination entity [Term] id: CHEBI:35222 name: inhibitor namespace: chebi_ontology def: "A substance that diminishes the rate of a chemical reaction." [] subset: 3_STAR synonym: "inhibidor" RELATED [ChEBI] synonym: "inhibiteur" RELATED [ChEBI] synonym: "inhibitor" EXACT IUPAC_NAME [IUPAC] synonym: "inhibitors" RELATED [ChEBI] is_a: CHEBI:24432 ! biological role [Term] id: CHEBI:35223 name: catalyst namespace: chebi_ontology def: "A substance that increases the rate of a reaction without modifying the overall standard Gibbs energy change in the reaction." [] subset: 3_STAR synonym: "catalizador" RELATED [ChEBI] synonym: "catalyseur" RELATED [ChEBI] synonym: "catalyst" EXACT IUPAC_NAME [IUPAC] synonym: "Katalysator" RELATED [ChEBI] is_a: CHEBI:51086 ! chemical role [Term] id: CHEBI:35230 name: fossil fuel namespace: chebi_ontology def: "A fuel such as coal, oil and natural gas which has formed over many years through the decomposition of deposited vegetation which was under extreme pressure of an overburden of earth." [] subset: 3_STAR synonym: "fossil fuel" EXACT IUPAC_NAME [IUPAC] is_a: CHEBI:33292 ! fuel [Term] id: CHEBI:35238 name: amino acid zwitterion namespace: chebi_ontology def: "The zwitterionic form of an amino acid having a negatively charged carboxyl group and a positively charged amino group." [] subset: 3_STAR synonym: "amino acid zwitterion" EXACT [ChEBI] is_a: CHEBI:27369 ! zwitterion [Term] id: CHEBI:35274 name: ammonium ion derivative namespace: chebi_ontology def: "A derivative of ammonium, NH4(+), in which one (or more) of the hydrogens bonded to the nitrogen have been replaced with univalent organyl groups. The substituting carbon of the organyl group must not itself be directly attached to a heteroatom (thereby excluding protonated amides, hemiaminals, etc)." [] subset: 3_STAR synonym: "ammonium ion derivatives" RELATED [ChEBI] synonym: "azanium ion derivative" RELATED [ChEBI] synonym: "azanium ion derivatives" RELATED [ChEBI] is_a: CHEBI:33702 ! polyatomic cation is_a: CHEBI:51143 ! nitrogen molecular entity relationship: has_parent_hydride CHEBI:28938 ! ammonium [Term] id: CHEBI:35341 name: steroid namespace: chebi_ontology alt_id: CHEBI:13687 alt_id: CHEBI:26768 alt_id: CHEBI:9263 def: "Any of naturally occurring compounds and synthetic analogues, based on the cyclopenta[a]phenanthrene carbon skeleton, partially or completely hydrogenated; there are usually methyl groups at C-10 and C-13, and often an alkyl group at C-17. By extension, one or more bond scissions, ring expansions and/or ring contractions of the skeleton may have occurred. Natural steroids are derived biogenetically from squalene which is a triterpene." [] subset: 3_STAR synonym: "a steroid" RELATED [UniProt] synonym: "Steroid" EXACT [KEGG_COMPOUND] synonym: "steroids" EXACT IUPAC_NAME [IUPAC] xref: KEGG:C00377 xref: MetaCyc:Steroids is_a: CHEBI:18059 ! lipid is_a: CHEBI:51958 ! organic polycyclic compound property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C19H31R" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "259.450" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "259.24258" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "C12C(C3C(C(CC3)*)(C)CC1)CCC4C2(CCCC4)C" xsd:string [Term] id: CHEBI:35352 name: organonitrogen compound namespace: chebi_ontology def: "Any heteroorganic entity containing at least one carbon-nitrogen bond." [] subset: 3_STAR synonym: "organonitrogen compounds" EXACT IUPAC_NAME [IUPAC] synonym: "organonitrogens" RELATED [ChEBI] is_a: CHEBI:33285 ! heteroorganic entity is_a: CHEBI:51143 ! nitrogen molecular entity [Term] id: CHEBI:35406 name: oxoanion namespace: chebi_ontology alt_id: CHEBI:33274 alt_id: CHEBI:33436 def: "An oxoanion is an anion derived from an oxoacid by loss of hydron(s) bound to oxygen." [] subset: 3_STAR synonym: "oxoacid anions" RELATED [ChEBI] synonym: "oxoanion" EXACT [ChEBI] synonym: "oxoanions" RELATED [ChEBI] is_a: CHEBI:25741 ! oxide is_a: CHEBI:33273 ! polyatomic anion [Term] id: CHEBI:35472 name: anti-inflammatory drug namespace: chebi_ontology def: "A substance that reduces or suppresses inflammation." [] subset: 3_STAR synonym: "anti-inflammatory drugs" RELATED [ChEBI] synonym: "antiinflammatory agent" RELATED [ChEBI] synonym: "antiinflammatory drug" RELATED [ChEBI] synonym: "antiinflammatory drugs" RELATED [ChEBI] is_a: CHEBI:23888 ! drug is_a: CHEBI:67079 ! anti-inflammatory agent [Term] id: CHEBI:35554 name: cardiovascular drug namespace: chebi_ontology def: "A drug that affects the rate or intensity of cardiac contraction, blood vessel diameter or blood volume." [] subset: 3_STAR synonym: "cardiovascular agent" RELATED [ChEBI] synonym: "cardiovascular drugs" RELATED [ChEBI] is_a: CHEBI:23888 ! drug [Term] id: CHEBI:35605 name: carbon oxoacid namespace: chebi_ontology subset: 3_STAR synonym: "carbon oxoacids" RELATED [ChEBI] synonym: "oxoacids of carbon" RELATED [ChEBI] is_a: CHEBI:24833 ! oxoacid is_a: CHEBI:36963 ! organooxygen compound [Term] id: CHEBI:35620 name: vasodilator agent namespace: chebi_ontology def: "A drug used to cause dilation of the blood vessels." [] subset: 3_STAR synonym: "vasodilator" RELATED [ChEBI] synonym: "vasodilator agents" RELATED [ChEBI] is_a: CHEBI:35554 ! cardiovascular drug [Term] id: CHEBI:35701 name: ester namespace: chebi_ontology alt_id: CHEBI:23960 alt_id: CHEBI:4859 def: "A compound formally derived from an oxoacid RkE(=O)l(OH)m (l > 0) and an alcohol, phenol, heteroarenol, or enol by linking with formal loss of water from an acidic hydroxy group of the former and a hydroxy group of the latter." [] subset: 3_STAR synonym: "Ester" EXACT [KEGG_COMPOUND] synonym: "esters" RELATED [ChEBI] xref: KEGG:C00287 xref: Wikipedia:Ester is_a: CHEBI:36963 ! organooxygen compound [Term] id: CHEBI:35722 name: sulfated glycosaminoglycan namespace: chebi_ontology subset: 3_STAR synonym: "glycosaminoglycan sulfate" RELATED [ChEBI] synonym: "glycosaminoglycan sulfates" RELATED [ChEBI] synonym: "sulfated glycosaminoglycans" RELATED [ChEBI] is_a: CHEBI:18085 ! glycosaminoglycan is_a: CHEBI:35724 ! carbohydrate sulfate [Term] id: CHEBI:35724 name: carbohydrate sulfate namespace: chebi_ontology subset: 3_STAR synonym: "carbohydrate sulfates" RELATED [ChEBI] synonym: "carbohydrate sulphates" RELATED [ChEBI] is_a: CHEBI:25704 ! organic sulfate is_a: CHEBI:26819 ! sulfuric ester is_a: CHEBI:63299 ! carbohydrate derivative [Term] id: CHEBI:35757 name: monocarboxylic acid anion namespace: chebi_ontology alt_id: CHEBI:13657 alt_id: CHEBI:25382 alt_id: CHEBI:3407 def: "A carboxylic acid anion formed when the carboxy group of a monocarboxylic acid is deprotonated." [] subset: 3_STAR synonym: "a monocarboxylate" RELATED [UniProt] synonym: "Carboxylate" RELATED [KEGG_COMPOUND] synonym: "Monocarboxylate" RELATED [KEGG_COMPOUND] synonym: "monocarboxylates" RELATED [ChEBI] synonym: "monocarboxylic acid anions" RELATED [ChEBI] xref: KEGG:C00060 is_a: CHEBI:29067 ! carboxylic acid anion relationship: is_conjugate_base_of CHEBI:25384 ! monocarboxylic acid property_value: http://purl.obolibrary.org/obo/chebi/charge "-1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "CO2R" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "44.01000" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "43.98983" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[O-]C([*])=O" xsd:string [Term] id: CHEBI:35780 name: phosphate ion namespace: chebi_ontology def: "A phosphorus oxoanion that is the conjugate base of phosphoric acid." [] subset: 3_STAR synonym: "phosphate" RELATED [ChEBI] synonym: "phosphate ions" RELATED [ChEBI] synonym: "Pi" RELATED [ChEBI] is_a: CHEBI:33461 ! phosphorus oxoanion relationship: has_role CHEBI:77746 ! human metabolite relationship: is_conjugate_base_of CHEBI:26078 ! phosphoric acid [Term] id: CHEBI:35881 name: pnictogen hydride namespace: chebi_ontology subset: 3_STAR synonym: "pnictogen hydride" EXACT [ChEBI] synonym: "pnictogen hydrides" RELATED [ChEBI] is_a: CHEBI:33242 ! inorganic hydride is_a: CHEBI:33302 ! pnictogen molecular entity [Term] id: CHEBI:36080 name: protein namespace: chebi_ontology alt_id: CHEBI:13677 alt_id: CHEBI:14911 def: "A biological macromolecule minimally consisting of one polypeptide chain synthesized at the ribosome." [] subset: 3_STAR synonym: "proteins" EXACT IUPAC_NAME [IUPAC] is_a: PR:000000001 ! protein equivalent_to: PR:000000001 ! protein [Term] id: CHEBI:36244 name: dicarboxylic acid monoester namespace: chebi_ontology def: "A monoester of a dicarboxylic acid." [] subset: 3_STAR synonym: "dicarboxylic acid monoesters" RELATED [ChEBI] is_a: CHEBI:131927 ! dicarboxylic acids and O-substituted derivatives is_a: CHEBI:33308 ! carboxylic ester is_a: CHEBI:33575 ! carboxylic acid relationship: is_conjugate_acid_of CHEBI:131605 ! dicarboxylic acid monoester(1-) [Term] id: CHEBI:36309 name: cyclic tetrapyrrole namespace: chebi_ontology subset: 3_STAR synonym: "cyclic tetrapyrroles" RELATED [ChEBI] synonym: "macrocyclic tetrapyrrole" RELATED [ChEBI] synonym: "macrocyclic tetrapyrroles" EXACT IUPAC_NAME [IUPAC] is_a: CHEBI:26932 ! tetrapyrrole is_a: CHEBI:47882 ! cyclic polypyrrole [Term] id: CHEBI:36338 name: lepton namespace: chebi_ontology def: "Lepton is a fermion that does not experience the strong force (strong interaction). The term is derived from the Greek lambdaepsilonpitauomicronsigma (small, thin)." [] subset: 3_STAR synonym: "leptons" RELATED [ChEBI] is_a: CHEBI:33233 ! fundamental particle is_a: CHEBI:36340 ! fermion [Term] id: CHEBI:36339 name: baryon namespace: chebi_ontology def: "Baryon is a fermion that does experience the strong force (strong interaction). The term is derived from the Greek betaalpharhoupsilonsigma (heavy)." [] subset: 3_STAR synonym: "baryons" RELATED [ChEBI] is_a: CHEBI:36340 ! fermion is_a: CHEBI:36344 ! hadron [Term] id: CHEBI:36340 name: fermion namespace: chebi_ontology def: "Particle of half-integer spin quantum number following Fermi-Dirac statistics. Fermions are named after Enrico Fermi." [] subset: 3_STAR synonym: "fermion" EXACT IUPAC_NAME [IUPAC] synonym: "fermions" RELATED [ChEBI] is_a: CHEBI:36342 ! subatomic particle [Term] id: CHEBI:36341 name: boson namespace: chebi_ontology def: "Particle of integer spin quantum number following Bose-Einstein statistics. Bosons are named after Satyendra Nath Bose." [] subset: 3_STAR synonym: "boson" EXACT IUPAC_NAME [IUPAC] synonym: "bosons" RELATED [ChEBI] is_a: CHEBI:36342 ! subatomic particle [Term] id: CHEBI:36342 name: subatomic particle namespace: chebi_ontology def: "A particle smaller than an atom." [] subset: 3_STAR synonym: "subatomic particles" RELATED [ChEBI] xref: Wikipedia:Subatomic_particle is_a: BFO:0000040 ! material entity [Term] id: CHEBI:36343 name: composite particle namespace: chebi_ontology def: "A subatomic particle known to have substructure (i.e. consisting of smaller particles)." [] subset: 3_STAR synonym: "composite particles" RELATED [ChEBI] is_a: CHEBI:36342 ! subatomic particle [Term] id: CHEBI:36344 name: hadron namespace: chebi_ontology def: "Hadron is a subatomic particle which experiences the strong force." [] subset: 3_STAR synonym: "hadrons" RELATED [ChEBI] is_a: CHEBI:36343 ! composite particle [Term] id: CHEBI:36347 name: nuclear particle namespace: chebi_ontology def: "A nucleus or any of its constituents in any of their energy states." [] subset: 3_STAR synonym: "nuclear particle" EXACT IUPAC_NAME [IUPAC] is_a: CHEBI:36342 ! subatomic particle [Term] id: CHEBI:36357 name: polyatomic entity namespace: chebi_ontology def: "Any molecular entity consisting of more than one atom." [] subset: 3_STAR synonym: "polyatomic entities" RELATED [ChEBI] is_a: CHEBI:23367 ! molecular entity relationship: has_part CHEBI:24433 ! group [Term] id: CHEBI:36358 name: polyatomic ion namespace: chebi_ontology def: "An ion consisting of more than one atom." [] subset: 3_STAR synonym: "polyatomic ions" RELATED [ChEBI] is_a: CHEBI:24870 ! ion is_a: CHEBI:36357 ! polyatomic entity [Term] id: CHEBI:36359 name: phosphorus oxoacid derivative namespace: chebi_ontology subset: 3_STAR synonym: "phosphorus oxoacid derivative" EXACT [ChEBI] is_a: CHEBI:33241 ! oxoacid derivative is_a: CHEBI:36360 ! phosphorus oxoacids and derivatives relationship: has_functional_parent CHEBI:33457 ! phosphorus oxoacid [Term] id: CHEBI:36360 name: phosphorus oxoacids and derivatives namespace: chebi_ontology subset: 1_STAR is_a: CHEBI:26082 ! phosphorus molecular entity [Term] id: CHEBI:36562 name: main-group coordination entity namespace: chebi_ontology def: "A coordination entity in which the central atom to which the ligands are attached comes from groups 1, 2, 13, 14, 15, 16, 17, or 18 of the periodic table." [] subset: 3_STAR synonym: "main group coordination compounds" RELATED [ChEBI] synonym: "main-group coordination entities" RELATED [ChEBI] is_a: CHEBI:33240 ! coordination entity is_a: CHEBI:33579 ! main group molecular entity [Term] id: CHEBI:36586 name: carbonyl compound namespace: chebi_ontology def: "Any compound containing the carbonyl group, C=O. The term is commonly used in the restricted sense of aldehydes and ketones, although it actually includes carboxylic acids and derivatives." [] subset: 3_STAR synonym: "carbonyl compounds" EXACT IUPAC_NAME [IUPAC] is_a: CHEBI:36587 ! organic oxo compound is_a: CHEBI:36963 ! organooxygen compound relationship: has_part CHEBI:23019 ! carbonyl group [Term] id: CHEBI:36587 name: organic oxo compound namespace: chebi_ontology def: "Organic compounds containing an oxygen atom, =O, doubly bonded to carbon or another element." [] subset: 3_STAR synonym: "organic oxo compounds" RELATED [ChEBI] synonym: "oxo compounds" EXACT IUPAC_NAME [IUPAC] is_a: CHEBI:72695 ! organic molecule relationship: has_part CHEBI:46629 ! oxo group [Term] id: CHEBI:36902 name: chalcogen hydride namespace: chebi_ontology subset: 3_STAR synonym: "chalcogen hydride" EXACT [ChEBI] synonym: "chalcogen hydrides" RELATED [ChEBI] is_a: CHEBI:33242 ! inorganic hydride is_a: CHEBI:33304 ! chalcogen molecular entity [Term] id: CHEBI:36914 name: inorganic ion namespace: chebi_ontology subset: 3_STAR synonym: "inorganic ions" RELATED [ChEBI] is_a: CHEBI:24835 ! inorganic molecular entity is_a: CHEBI:24870 ! ion [Term] id: CHEBI:36915 name: inorganic cation namespace: chebi_ontology subset: 3_STAR synonym: "inorganic cations" RELATED [ChEBI] is_a: CHEBI:36914 ! inorganic ion is_a: CHEBI:36916 ! cation [Term] id: CHEBI:36916 name: cation namespace: chebi_ontology alt_id: CHEBI:23058 alt_id: CHEBI:3473 def: "A monoatomic or polyatomic species having one or more elementary charges of the proton." [] subset: 3_STAR synonym: "Cation" EXACT [KEGG_COMPOUND] synonym: "cation" EXACT IUPAC_NAME [IUPAC] synonym: "cation" EXACT [ChEBI] synonym: "cationes" RELATED [ChEBI] synonym: "cations" RELATED [ChEBI] synonym: "Kation" RELATED [ChEBI] synonym: "Kationen" RELATED [ChEBI] xref: KEGG:C01373 is_a: CHEBI:24870 ! ion [Term] id: CHEBI:36962 name: organochalcogen compound namespace: chebi_ontology def: "An organochalcogen compound is a compound containing at least one carbon-chalcogen bond." [] subset: 3_STAR synonym: "organochalcogen compound" EXACT [ChEBI] synonym: "organochalcogen compounds" RELATED [ChEBI] is_a: CHEBI:33285 ! heteroorganic entity is_a: CHEBI:33304 ! chalcogen molecular entity [Term] id: CHEBI:36963 name: organooxygen compound namespace: chebi_ontology def: "An organochalcogen compound containing at least one carbon-oxygen bond." [] subset: 3_STAR synonym: "organooxygen compound" EXACT [ChEBI] synonym: "organooxygen compounds" RELATED [ChEBI] xref: PMID:17586126 {source="Europe PMC"} is_a: CHEBI:25806 ! oxygen molecular entity is_a: CHEBI:36962 ! organochalcogen compound [Term] id: CHEBI:37022 name: amino-acid anion namespace: chebi_ontology subset: 3_STAR synonym: "amino acid anions" RELATED [ChEBI] synonym: "amino-acid anion" EXACT [ChEBI] synonym: "amino-acid anions" RELATED [ChEBI] is_a: CHEBI:29067 ! carboxylic acid anion is_a: CHEBI:35352 ! organonitrogen compound relationship: is_conjugate_base_of CHEBI:33709 ! amino acid [Term] id: CHEBI:37175 name: organic hydride namespace: chebi_ontology subset: 3_STAR synonym: "organic hydrides" RELATED [ChEBI] is_a: CHEBI:33692 ! hydrides [Term] id: CHEBI:37176 name: mononuclear parent hydride namespace: chebi_ontology subset: 3_STAR synonym: "mononuclear hydride" RELATED [ChEBI] synonym: "mononuclear hydrides" RELATED [IUPAC] synonym: "mononuclear parent hydrides" EXACT IUPAC_NAME [IUPAC] is_a: CHEBI:33692 ! hydrides [Term] id: CHEBI:37395 name: mucopolysaccharide namespace: chebi_ontology alt_id: CHEBI:25425 alt_id: CHEBI:7011 def: "Any of the group of polysaccharides composed of alternating units from uronic acids and glycosamines, and commonly partially esterified with sulfuric acid." [] subset: 3_STAR synonym: "mucopolisacarido" RELATED [ChEBI] synonym: "mucopolisacaridos" RELATED [IUPAC] synonym: "Mucopolysaccharid" RELATED [ChEBI] synonym: "Mucopolysaccharide" EXACT [KEGG_COMPOUND] synonym: "mucopolysaccharides" EXACT IUPAC_NAME [IUPAC] synonym: "Mukopolysaccharid" RELATED [ChEBI] xref: KEGG:C05114 is_a: CHEBI:18085 ! glycosaminoglycan [Term] id: CHEBI:37527 name: acid namespace: chebi_ontology alt_id: CHEBI:13800 alt_id: CHEBI:13801 alt_id: CHEBI:22209 alt_id: CHEBI:2426 def: "An acid is a molecular entity capable of donating a hydron (Bronsted acid) or capable of forming a covalent bond with an electron pair (Lewis acid)." [] subset: 3_STAR synonym: "Acid" EXACT [KEGG_COMPOUND] synonym: "acid" EXACT IUPAC_NAME [IUPAC] synonym: "acide" RELATED [IUPAC] synonym: "acido" RELATED [ChEBI] synonym: "acids" RELATED [ChEBI] synonym: "Saeure" RELATED [ChEBI] synonym: "Saeuren" RELATED [ChEBI] xref: KEGG:C00174 is_a: CHEBI:51086 ! chemical role [Term] id: CHEBI:37577 name: heteroatomic molecular entity namespace: chebi_ontology def: "A molecular entity consisting of two or more chemical elements." [] subset: 3_STAR synonym: "chemical compound" RELATED [ChEBI] synonym: "heteroatomic molecular entities" RELATED [ChEBI] is_a: CHEBI:36357 ! polyatomic entity [Term] id: CHEBI:37622 name: carboxamide namespace: chebi_ontology alt_id: CHEBI:35354 alt_id: CHEBI:35355 def: "An amide of a carboxylic acid, having the structure RC(=O)NR2. The term is used as a suffix in systematic name formation to denote the -C(=O)NH2 group including its carbon atom." [] subset: 3_STAR synonym: "carboxamides" EXACT IUPAC_NAME [IUPAC] synonym: "carboxamides" RELATED [ChEBI] synonym: "primary carboxamide" RELATED [ChEBI] is_a: CHEBI:33256 ! primary amide is_a: CHEBI:35352 ! organonitrogen compound is_a: CHEBI:36963 ! organooxygen compound relationship: has_part CHEBI:23004 ! carbamoyl group property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "CNOR3" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "42.01680" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "41.99799" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[*]C(=O)N([*])[*]" xsd:string [Term] id: CHEBI:37826 name: sulfuric acid derivative namespace: chebi_ontology subset: 3_STAR synonym: "sulfuric acid derivative" EXACT [ChEBI] synonym: "sulfuric acid derivatives" RELATED [ChEBI] is_a: CHEBI:33424 ! sulfur oxoacid derivative relationship: has_functional_parent CHEBI:26836 ! sulfuric acid [Term] id: CHEBI:37838 name: carboacyl group namespace: chebi_ontology def: "A carboacyl group is a group formed by loss of at least one OH from the carboxy group of a carboxylic acid." [] subset: 3_STAR synonym: "carboacyl groups" EXACT IUPAC_NAME [IUPAC] synonym: "carboxylic acyl group" EXACT IUPAC_NAME [IUPAC] synonym: "carboxylic acyl groups" RELATED [IUPAC] is_a: CHEBI:22221 ! acyl group relationship: is_substituent_group_from CHEBI:33575 ! carboxylic acid [Term] id: CHEBI:38077 name: polypyrrole namespace: chebi_ontology def: "A compound composed of two or more pyrrole units." [] subset: 3_STAR synonym: "poly(pyrrole)s" RELATED [ChEBI] synonym: "polypyrroles" RELATED [ChEBI] synonym: "PPys" RELATED [ChEBI] xref: Beilstein:8538310 {source="Beilstein"} is_a: CHEBI:38101 ! organonitrogen heterocyclic compound [Term] id: CHEBI:38101 name: organonitrogen heterocyclic compound namespace: chebi_ontology def: "Any organonitrogen compound containing a cyclic component with nitrogen and at least one other element as ring member atoms." [] subset: 3_STAR synonym: "heterocyclic organonitrogen compounds" RELATED [ChEBI] synonym: "organonitrogen heterocyclic compounds" RELATED [ChEBI] is_a: CHEBI:24532 ! organic heterocyclic compound is_a: CHEBI:35352 ! organonitrogen compound [Term] id: CHEBI:38166 name: organic heteropolycyclic compound namespace: chebi_ontology alt_id: CHEBI:25429 alt_id: CHEBI:38075 subset: 3_STAR synonym: "organic heteropolycyclic compounds" RELATED [ChEBI] is_a: CHEBI:24532 ! organic heterocyclic compound is_a: CHEBI:33671 ! heteropolycyclic compound [Term] id: CHEBI:38180 name: polycyclic heteroarene namespace: chebi_ontology subset: 3_STAR synonym: "polycyclic heteroarenes" RELATED [ChEBI] is_a: CHEBI:33833 ! heteroarene [Term] id: CHEBI:38206 name: chlorophyllide namespace: chebi_ontology alt_id: CHEBI:13975 alt_id: CHEBI:23160 alt_id: CHEBI:3634 def: "Chlorophylls lacking the terpenoid side chain such as phytyl or farnesyl." [] subset: 3_STAR synonym: "Chlorophyllid" RELATED [ChEBI] synonym: "chlorophyllides" RELATED [ChEBI] is_a: CHEBI:28966 ! chlorophyll relationship: is_conjugate_acid_of CHEBI:139292 ! chlorophyllide(2-) [Term] id: CHEBI:38222 name: hydrocarbyl anion namespace: chebi_ontology subset: 1_STAR is_a: CHEBI:25696 ! organic anion [Term] id: CHEBI:38251 name: magnesium tetrapyrrole namespace: chebi_ontology subset: 3_STAR synonym: "magnesium tetrapyrroles" RELATED [ChEBI] is_a: CHEBI:33909 ! metallotetrapyrrole is_a: CHEBI:33976 ! magnesium coordination entity [Term] id: CHEBI:38496 name: electron-transport chain inhibitor namespace: chebi_ontology subset: 1_STAR is_a: CHEBI:76932 ! pathway inhibitor [Term] id: CHEBI:38497 name: respiratory-chain inhibitor namespace: chebi_ontology subset: 1_STAR is_a: CHEBI:38496 ! electron-transport chain inhibitor [Term] id: CHEBI:38500 name: EC 1.9.3.1 (cytochrome c oxidase) inhibitor namespace: chebi_ontology alt_id: CHEBI:38501 alt_id: CHEBI:62966 def: "An EC 1.9.3.* (oxidoreductase acting on donor heme group, oxygen as acceptor) inhibitor that interferes with the action of cytochrome c oxidase (EC 1.9.3.1)." [] subset: 3_STAR synonym: "CcO inhibitor" RELATED [ChEBI] synonym: "complex IV (mitochondrial electron transport) inhibitor" RELATED [ChEBI] synonym: "complex IV (mitochondrial electron transport) inhibitors" RELATED [ChEBI] synonym: "cytochrome a3 inhibitor" RELATED [ChEBI] synonym: "cytochrome a3 inhibitors" RELATED [ChEBI] synonym: "cytochrome aa3 inhibitor" RELATED [ChEBI] synonym: "cytochrome aa3 inhibitors" RELATED [ChEBI] synonym: "cytochrome c oxidase (EC 1.9.3.1) inhibitor" RELATED [ChEBI] synonym: "cytochrome c oxidase (EC 1.9.3.1) inhibitors" RELATED [ChEBI] synonym: "cytochrome c oxidase inhibitor" RELATED [ChEBI] synonym: "cytochrome c oxidase inhibitors" RELATED [ChEBI] synonym: "cytochrome oxidase inhibitor" RELATED [ChEBI] synonym: "cytochrome oxidase inhibitors" RELATED [ChEBI] synonym: "cytochrome-c oxidase inhibitor" RELATED [ChEBI] synonym: "cytochrome-c oxidase inhibitors" RELATED [ChEBI] synonym: "EC 1.9.3.1 (cytochrome c oxidase) inhibitors" RELATED [ChEBI] synonym: "EC 1.9.3.1 inhibitor" RELATED [ChEBI] synonym: "EC 1.9.3.1 inhibitors" RELATED [ChEBI] synonym: "ferrocytochrome c oxidase inhibitor" RELATED [ChEBI] synonym: "ferrocytochrome c oxidase inhibitors" RELATED [ChEBI] synonym: "ferrocytochrome-c:oxygen oxidoreductase inhibitor" RELATED [ChEBI] synonym: "ferrocytochrome-c:oxygen oxidoreductase inhibitors" RELATED [ChEBI] synonym: "indophenol oxidase inhibitor" RELATED [ChEBI] synonym: "indophenol oxidase inhibitors" RELATED [ChEBI] synonym: "indophenolase inhibitor" RELATED [ChEBI] synonym: "indophenolase inhibitors" RELATED [ChEBI] synonym: "mitochondrial complex IV inhibitor" RELATED [ChEBI] synonym: "mitochondrial complex IV inhibitors" RELATED [ChEBI] synonym: "mitochondrial cytochrome-c oxidase inhibitors" RELATED [ChEBI] synonym: "NADH cytochrome c oxidase inhibitor" RELATED [ChEBI] synonym: "NADH cytochrome c oxidase inhibitors" RELATED [ChEBI] synonym: "Warburg's respiratory enzyme inhibitor" RELATED [ChEBI] synonym: "Warburg's respiratory enzyme inhibitors" RELATED [ChEBI] xref: PMID:12969439 {source="Europe PMC"} xref: Wikipedia:Cytochrome_c_oxidase is_a: CHEBI:25355 ! mitochondrial respiratory-chain inhibitor is_a: CHEBI:76870 ! EC 1.9.3.* (oxidoreductase acting on donor heme group, oxygen as acceptor) inhibitor [Term] id: CHEBI:38631 name: aminoalkylindole namespace: chebi_ontology alt_id: CHEBI:22503 alt_id: CHEBI:24792 subset: 3_STAR synonym: "aminoalkylindoles" RELATED [ChEBI] is_a: CHEBI:24828 ! indoles [Term] id: CHEBI:38867 name: anaesthetic namespace: chebi_ontology def: "Substance which produces loss of feeling or sensation." [] subset: 3_STAR synonym: "anaesthetic" EXACT IUPAC_NAME [IUPAC] synonym: "anaesthetics" RELATED [ChEBI] synonym: "Anaesthetika" RELATED [ChEBI] synonym: "Anaesthetikum" RELATED [ChEBI] synonym: "anesthetic agent" RELATED [ChEBI] synonym: "anesthetic drug" RELATED [ChEBI] synonym: "anesthetics" RELATED [ChEBI] is_a: CHEBI:23888 ! drug [Term] id: CHEBI:38958 name: indole alkaloid namespace: chebi_ontology alt_id: CHEBI:24795 alt_id: CHEBI:5901 def: "An alkaloid containing an indole skeleton." [] subset: 3_STAR synonym: "Indole alkaloid" EXACT [KEGG_COMPOUND] synonym: "indole alkaloids" RELATED [ChEBI] xref: KEGG:C06073 xref: Wikipedia:Indole_alkaloid is_a: CHEBI:22315 ! alkaloid relationship: has_part CHEBI:73398 ! indole skeleton [Term] id: CHEBI:39141 name: Bronsted acid namespace: chebi_ontology def: "A molecular entity capable of donating a hydron to an acceptor (Bronsted base)." [] subset: 3_STAR synonym: "acide de Bronsted" RELATED [IUPAC] synonym: "Bronsted acid" EXACT IUPAC_NAME [IUPAC] synonym: "Bronsted-Saeure" RELATED [ChEBI] synonym: "donneur d'hydron" RELATED [IUPAC] synonym: "hydron donor" RELATED [IUPAC] is_a: CHEBI:17891 ! donor is_a: CHEBI:37527 ! acid [Term] id: CHEBI:39142 name: Bronsted base namespace: chebi_ontology def: "A molecular entity capable of accepting a hydron from a donor (Bronsted acid)." [] subset: 3_STAR synonym: "accepteur d'hydron" RELATED [IUPAC] synonym: "base de Bronsted" RELATED [IUPAC] synonym: "Bronsted base" EXACT IUPAC_NAME [IUPAC] synonym: "Bronsted-Base" RELATED [ChEBI] synonym: "hydron acceptor" RELATED [IUPAC] is_a: CHEBI:15339 ! acceptor is_a: CHEBI:22695 ! base [Term] id: CHEBI:39144 name: Lewis base namespace: chebi_ontology def: "A molecular entity able to provide a pair of electrons and thus capable of forming a covalent bond with an electron-pair acceptor (Lewis acid), thereby producing a Lewis adduct." [] subset: 3_STAR synonym: "base de Lewis" RELATED [IUPAC] synonym: "donneur d'une paire d'electrons" RELATED [ChEBI] synonym: "electron donor" RELATED [ChEBI] synonym: "Lewis base" EXACT IUPAC_NAME [IUPAC] synonym: "Lewis-Base" RELATED [ChEBI] is_a: CHEBI:17891 ! donor is_a: CHEBI:22695 ! base [Term] id: CHEBI:39745 name: dihydrogenphosphate namespace: chebi_ontology alt_id: CHEBI:29137 alt_id: CHEBI:39739 def: "A monovalent inorganic anion that consists of phosphoric acid in which one of the three OH groups has been deprotonated." [] subset: 3_STAR synonym: "[PO2(OH)2](-)" RELATED [IUPAC] synonym: "dihydrogen(tetraoxidophosphate)(1-)" EXACT IUPAC_NAME [IUPAC] synonym: "dihydrogenphosphate" EXACT IUPAC_NAME [IUPAC] synonym: "DIHYDROGENPHOSPHATE ION" RELATED [PDBeChem] synonym: "dihydrogentetraoxophosphate(1-)" EXACT IUPAC_NAME [IUPAC] synonym: "dihydrogentetraoxophosphate(V)" EXACT IUPAC_NAME [IUPAC] synonym: "dihydroxidodioxidophosphate(1-)" EXACT IUPAC_NAME [IUPAC] synonym: "H2PO4(-)" RELATED [IUPAC] xref: DrugBank:DB02831 xref: Gmelin:1999 {source="Gmelin"} xref: PDBeChem:2HP is_a: CHEBI:35780 ! phosphate ion is_a: CHEBI:79389 ! monovalent inorganic anion relationship: is_conjugate_acid_of CHEBI:43474 ! hydrogenphosphate property_value: http://purl.obolibrary.org/obo/chebi/charge "-1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "H2O4P" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/H3O4P/c1-5(2,3)4/h(H3,1,2,3,4)/p-1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "NBIIXXVUZAFLBC-UHFFFAOYSA-M" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "96.98724" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "96.96962" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[H]OP([O-])(=O)O[H]" xsd:string [Term] id: CHEBI:43176 name: hydroxy group namespace: chebi_ontology alt_id: CHEBI:24706 alt_id: CHEBI:43171 subset: 3_STAR synonym: "-OH" RELATED [IUPAC] synonym: "hydroxy" EXACT IUPAC_NAME [IUPAC] synonym: "HYDROXY GROUP" EXACT [PDBeChem] synonym: "hydroxy group" EXACT [UniProt] synonym: "hydroxyl" RELATED [ChEBI] synonym: "hydroxyl group" RELATED [ChEBI] xref: PDBeChem:OH is_a: CHEBI:33246 ! inorganic group property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "HO" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "17.00734" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "17.00274" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "*O[H]" xsd:string [Term] id: CHEBI:43474 name: hydrogenphosphate namespace: chebi_ontology alt_id: CHEBI:29139 alt_id: CHEBI:43470 def: "A phosphate ion that is the conjugate base of dihydrogenphosphate." [] subset: 3_STAR synonym: "[P(OH)O3](2-)" RELATED [MolBase] synonym: "[PO3(OH)](2-)" RELATED [IUPAC] synonym: "HPO4(2-)" RELATED [IUPAC] synonym: "hydrogen phosphate" RELATED [ChEBI] synonym: "hydrogen(tetraoxidophosphate)(2-)" EXACT IUPAC_NAME [IUPAC] synonym: "hydrogenphosphate" EXACT IUPAC_NAME [IUPAC] synonym: "HYDROGENPHOSPHATE ION" RELATED [PDBeChem] synonym: "hydrogentetraoxophosphate(2-)" EXACT IUPAC_NAME [IUPAC] synonym: "hydrogentetraoxophosphate(V)" EXACT IUPAC_NAME [IUPAC] synonym: "hydroxidotrioxidophosphate(2-)" EXACT IUPAC_NAME [IUPAC] synonym: "INORGANIC PHOSPHATE GROUP" RELATED [PDBeChem] synonym: "phosphate" RELATED [UniProt] xref: Gmelin:1998 {source="Gmelin"} xref: MolBase:1628 xref: PDBeChem:PI xref: PDBeChem:PO4 is_a: CHEBI:35780 ! phosphate ion is_a: CHEBI:79388 ! divalent inorganic anion relationship: has_role CHEBI:23357 ! cofactor relationship: has_role CHEBI:75772 ! Saccharomyces cerevisiae metabolite relationship: is_conjugate_acid_of CHEBI:18367 ! phosphate(3-) relationship: is_conjugate_base_of CHEBI:39745 ! dihydrogenphosphate property_value: http://purl.obolibrary.org/obo/chebi/charge "-2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "HO4P" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/H3O4P/c1-5(2,3)4/h(H3,1,2,3,4)/p-2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "NBIIXXVUZAFLBC-UHFFFAOYSA-L" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "95.97930" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "95.96234" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "OP([O-])([O-])=O" xsd:string [Term] id: CHEBI:45696 name: hydrogensulfate namespace: chebi_ontology alt_id: CHEBI:29199 alt_id: CHEBI:45693 subset: 3_STAR synonym: "[SO3(OH)](-)" RELATED [IUPAC] synonym: "HSO4(-)" RELATED [IUPAC] synonym: "HYDROGEN SULFATE" RELATED [PDBeChem] synonym: "hydrogen(tetraoxidosulfate)(1-)" EXACT IUPAC_NAME [IUPAC] synonym: "hydrogensulfate" EXACT [IUPAC] synonym: "hydrogensulfate(1-)" EXACT IUPAC_NAME [IUPAC] synonym: "hydrogentetraoxosulfate(1-)" EXACT IUPAC_NAME [IUPAC] synonym: "hydrogentetraoxosulfate(VI)" EXACT IUPAC_NAME [IUPAC] synonym: "hydroxidotrioxidosulfate(1-)" EXACT IUPAC_NAME [IUPAC] xref: Gmelin:2121 {source="Gmelin"} is_a: CHEBI:33482 ! sulfur oxoanion relationship: is_conjugate_acid_of CHEBI:16189 ! sulfate relationship: is_conjugate_base_of CHEBI:26836 ! sulfuric acid property_value: http://purl.obolibrary.org/obo/chebi/charge "-1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "HO4S" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/H2O4S/c1-5(2,3)4/h(H2,1,2,3,4)/p-1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "QAOWNCQODCNURD-UHFFFAOYSA-M" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "97.07154" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "96.96010" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[H]OS([O-])(=O)=O" xsd:string [Term] id: CHEBI:46629 name: oxo group namespace: chebi_ontology alt_id: CHEBI:29353 alt_id: CHEBI:44607 subset: 3_STAR synonym: "=O" RELATED [IUPAC] synonym: "oxo" EXACT IUPAC_NAME [IUPAC] synonym: "OXO GROUP" EXACT [PDBeChem] xref: PDBeChem:O is_a: CHEBI:33246 ! inorganic group property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "O" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "15.99940" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "15.99491" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "O=*" xsd:string [Term] id: CHEBI:46787 name: solvent namespace: chebi_ontology def: "A liquid that can dissolve other substances (solutes) without any change in their chemical composition." [] subset: 3_STAR synonym: "Loesungsmittel" RELATED [ChEBI] synonym: "solvant" RELATED [ChEBI] synonym: "solvents" RELATED [ChEBI] xref: Wikipedia:Solvent is_a: CHEBI:33232 ! application is_a: CHEBI:51086 ! chemical role [Term] id: CHEBI:46883 name: carboxy group namespace: chebi_ontology alt_id: CHEBI:23025 alt_id: CHEBI:41420 subset: 3_STAR synonym: "-C(O)OH" RELATED [IUPAC] synonym: "-CO2H" RELATED [ChEBI] synonym: "-COOH" RELATED [IUPAC] synonym: "carboxy" EXACT IUPAC_NAME [IUPAC] synonym: "CARBOXY GROUP" EXACT [PDBeChem] synonym: "carboxyl group" RELATED [ChEBI] xref: PDBeChem:FMT is_a: CHEBI:33249 ! organyl group property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "CHO2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "45.01744" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "44.99765" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "*C(=O)O" xsd:string [Term] id: CHEBI:47867 name: indicator namespace: chebi_ontology def: "Anything used in a scientific experiment to indicate the presence of a substance or quality, change in a body, etc." [] subset: 3_STAR synonym: "Indikator" RELATED [ChEBI] is_a: CHEBI:33232 ! application [Term] id: CHEBI:47882 name: cyclic polypyrrole namespace: chebi_ontology subset: 3_STAR synonym: "cyclic polypyrroles" RELATED [ChEBI] synonym: "macrocyclic polypyrroles" EXACT IUPAC_NAME [IUPAC] synonym: "polypyrrole macrocycles" RELATED [ChEBI] is_a: CHEBI:38077 ! polypyrrole [Term] id: CHEBI:48107 name: nitric acid namespace: chebi_ontology alt_id: CHEBI:25545 alt_id: CHEBI:7580 def: "A nitrogen oxoacid of formula HNO3 in which the nitrogen atom is bonded to a hydroxy group and by equivalent bonds to the remaining two oxygen atoms." [] subset: 3_STAR synonym: "[NO2(OH)]" RELATED [IUPAC] synonym: "acide azotique" RELATED [ChEBI] synonym: "acide nitrique" RELATED [ChemIDplus] synonym: "azotic acid" RELATED [ChemIDplus] synonym: "HNO3" RELATED [IUPAC] synonym: "HONO2" RELATED [NIST_Chemistry_WebBook] synonym: "hydrogen nitrate" RELATED [NIST_Chemistry_WebBook] synonym: "hydrogen trioxonitrate(1-)" EXACT IUPAC_NAME [IUPAC] synonym: "hydroxidodioxidonitrogen" EXACT IUPAC_NAME [IUPAC] synonym: "Nitric acid" EXACT [KEGG_COMPOUND] synonym: "Salpetersaeure" RELATED [ChemIDplus] synonym: "trioxonitric acid" EXACT IUPAC_NAME [IUPAC] xref: CAS:7697-37-2 {source="ChemIDplus"} xref: CAS:7697-37-2 {source="NIST Chemistry WebBook"} xref: Gmelin:1576 {source="Gmelin"} xref: KEGG:C00244 xref: KEGG:D02313 xref: MetaCyc:CPD-15028 xref: PMID:22285512 {source="Europe PMC"} xref: PMID:23402861 {source="Europe PMC"} xref: Reaxys:3587310 {source="Reaxys"} xref: Wikipedia:Nitric_acid is_a: CHEBI:33455 ! nitrogen oxoacid relationship: has_role CHEBI:33893 ! reagent relationship: has_role CHEBI:48356 ! protic solvent relationship: is_conjugate_acid_of CHEBI:17632 ! nitrate property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "HNO3" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/HNO3/c2-1(3)4/h(H,2,3,4)" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "GRYLNZFGIOXLOG-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "63.01280" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "62.99564" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "O[N+]([O-])=O" xsd:string [Term] id: CHEBI:48154 name: sulfur oxide namespace: chebi_ontology subset: 3_STAR synonym: "oxides of sulfur" RELATED [ChEBI] synonym: "Schwefeloxide" RELATED [ChEBI] synonym: "sulfur oxides" RELATED [ChEBI] is_a: CHEBI:24836 ! inorganic oxide is_a: CHEBI:26835 ! sulfur molecular entity [Term] id: CHEBI:48354 name: polar solvent namespace: chebi_ontology def: "A solvent that is composed of polar molecules. Polar solvents can dissolve ionic compounds or ionisable covalent compounds." [] subset: 3_STAR synonym: "polar solvent" EXACT IUPAC_NAME [IUPAC] synonym: "polar solvents" RELATED [ChEBI] is_a: CHEBI:46787 ! solvent [Term] id: CHEBI:48356 name: protic solvent namespace: chebi_ontology def: "A polar solvent that is capable of acting as a hydron (proton) donor." [] subset: 3_STAR synonym: "protogenic solvent" EXACT IUPAC_NAME [IUPAC] is_a: CHEBI:39141 ! Bronsted acid is_a: CHEBI:48354 ! polar solvent [Term] id: CHEBI:48359 name: protophilic solvent namespace: chebi_ontology def: "Solvent that is capable of acting as a hydron (proton) acceptor." [] subset: 3_STAR synonym: "HBA solvent" RELATED [ChEBI] synonym: "hydrogen bond acceptor solvent" RELATED [ChEBI] synonym: "protophilic solvent" EXACT IUPAC_NAME [IUPAC] is_a: CHEBI:39142 ! Bronsted base is_a: CHEBI:48354 ! polar solvent [Term] id: CHEBI:48360 name: amphiprotic solvent namespace: chebi_ontology def: "Self-ionizing solvent possessing both characteristics of Bronsted acids and bases." [] subset: 3_STAR synonym: "amphiprotic solvent" EXACT IUPAC_NAME [IUPAC] is_a: CHEBI:48356 ! protic solvent is_a: CHEBI:48359 ! protophilic solvent [Term] id: CHEBI:48705 name: agonist namespace: chebi_ontology def: "Substance which binds to cell receptors normally responding to naturally occurring substances and which produces a response of its own." [] subset: 3_STAR synonym: "agonist" EXACT IUPAC_NAME [IUPAC] synonym: "agonista" RELATED [ChEBI] synonym: "agoniste" RELATED [ChEBI] synonym: "agonists" RELATED [ChEBI] is_a: CHEBI:52210 ! pharmacological role [Term] id: CHEBI:48706 name: antagonist namespace: chebi_ontology def: "Substance that attaches to and blocks cell receptors that normally bind naturally occurring substances." [] subset: 3_STAR synonym: "antagonist" EXACT IUPAC_NAME [IUPAC] synonym: "antagonista" RELATED [ChEBI] synonym: "antagoniste" RELATED [ChEBI] synonym: "antagonists" RELATED [ChEBI] is_a: CHEBI:52210 ! pharmacological role [Term] id: CHEBI:49637 name: hydrogen atom namespace: chebi_ontology alt_id: CHEBI:24634 alt_id: CHEBI:49636 subset: 3_STAR synonym: "1H" RELATED [IUPAC] synonym: "H" RELATED [IUPAC] synonym: "hidrogeno" RELATED [ChEBI] synonym: "hydrogen" EXACT IUPAC_NAME [IUPAC] synonym: "hydrogen" RELATED [ChEBI] synonym: "hydrogene" RELATED [ChEBI] synonym: "Wasserstoff" RELATED [ChEBI] xref: WebElements:H is_a: CHEBI:24835 ! inorganic molecular entity is_a: CHEBI:25585 ! nonmetal atom is_a: CHEBI:33559 ! s-block element atom relationship: has_role CHEBI:33937 ! macronutrient property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "H" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/H" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "YZCKVEUIGOORGS-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "1.00794" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "1.00783" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[H]" xsd:string [Term] id: CHEBI:50047 name: organic amino compound namespace: chebi_ontology def: "A compound formally derived from ammonia by replacing one, two or three hydrogen atoms by organyl groups." [] subset: 3_STAR synonym: "organic amino compounds" RELATED [ChEBI] is_a: CHEBI:35352 ! organonitrogen compound relationship: has_parent_hydride CHEBI:16134 ! ammonia relationship: has_role CHEBI:39142 ! Bronsted base [Term] id: CHEBI:50183 name: P450 inhibitor namespace: chebi_ontology def: "An enzyme inhibitor that interferes with the activity of cytochrome P450 involved in catalysis of organic substances." [] subset: 3_STAR synonym: "CYP2D6 inhibitor" RELATED [ChEBI] synonym: "CYP2D6 inhibitors" RELATED [ChEBI] synonym: "cytochrome P450 inhibitor" RELATED [ChEBI] synonym: "cytochrome P450 inhibitors" RELATED [ChEBI] synonym: "P450 inhibitors" RELATED [ChEBI] is_a: CHEBI:76898 ! EC 1.14.14.1 (unspecific monooxygenase) inhibitor [Term] id: CHEBI:50297 name: canonical nucleotide residue namespace: chebi_ontology subset: 3_STAR synonym: "canonical nucleotide residues" RELATED [ChEBI] is_a: CHEBI:50319 ! nucleotide residue [Term] id: CHEBI:50298 name: canonical deoxyribonucleotide residue namespace: chebi_ontology subset: 3_STAR synonym: "canonical deoxyribonucleotide residues" RELATED [ChEBI] is_a: CHEBI:50297 ! canonical nucleotide residue [Term] id: CHEBI:50299 name: canonical ribonucleotide residue namespace: chebi_ontology subset: 3_STAR synonym: "canonical ribonucleotide residues" RELATED [ChEBI] is_a: CHEBI:50297 ! canonical nucleotide residue [Term] id: CHEBI:50312 name: onium compound namespace: chebi_ontology subset: 1_STAR is_a: CHEBI:37577 ! heteroatomic molecular entity [Term] id: CHEBI:50313 name: onium cation namespace: chebi_ontology def: "Mononuclear cations derived by addition of a hydron to a mononuclear parent hydride of the pnictogen, chalcogen and halogen families." [] subset: 3_STAR synonym: "onium cations" EXACT IUPAC_NAME [IUPAC] synonym: "onium cations" RELATED [ChEBI] synonym: "onium ion" RELATED [ChEBI] synonym: "onium ions" RELATED [ChEBI] is_a: CHEBI:50312 ! onium compound [Term] id: CHEBI:50319 name: nucleotide residue namespace: chebi_ontology subset: 3_STAR synonym: "nucleotide residues" RELATED [ChEBI] is_a: CHEBI:33247 ! organic group [Term] id: CHEBI:50320 name: nucleoside residue namespace: chebi_ontology subset: 3_STAR synonym: "nucleoside residues" RELATED [ChEBI] is_a: CHEBI:33247 ! organic group [Term] id: CHEBI:50406 name: probe namespace: chebi_ontology def: "A role played by a molecular entity used to study the microscopic environment." [] subset: 3_STAR is_a: CHEBI:33232 ! application [Term] id: CHEBI:50584 name: alkyl alcohol namespace: chebi_ontology alt_id: CHEBI:22937 alt_id: CHEBI:50581 def: "An aliphatic alcohol in which the aliphatic alkane chain is substituted by a hydroxy group at unspecified position." [] subset: 3_STAR synonym: "alkyl alcohols" RELATED [ChEBI] synonym: "hydroxyalkane" RELATED [ChEBI] synonym: "hydroxyalkanes" RELATED [ChEBI] is_a: CHEBI:2571 ! aliphatic alcohol [Term] id: CHEBI:50860 name: organic molecular entity namespace: chebi_ontology alt_id: CHEBI:25700 alt_id: CHEBI:33244 def: "Any molecular entity that contains carbon." [] subset: 3_STAR synonym: "organic compounds" RELATED [ChEBI] synonym: "organic entity" RELATED [ChEBI] synonym: "organic molecular entities" RELATED [ChEBI] is_a: CHEBI:33582 ! carbon group molecular entity relationship: has_part CHEBI:27594 ! carbon atom [Term] id: CHEBI:50906 name: role namespace: chebi_ontology def: "A role is particular behaviour which a material entity may exhibit." [] subset: 3_STAR is_a: BFO:0000023 ! role [Term] id: CHEBI:50910 name: neurotoxin namespace: chebi_ontology alt_id: CHEBI:50911 def: "A poison that interferes with the functions of the nervous system." [] subset: 3_STAR synonym: "agente neurotoxico" RELATED [ChEBI] synonym: "nerve poison" RELATED [ChEBI] synonym: "nerve poisons" RELATED [ChEBI] synonym: "neurotoxic agent" RELATED [ChEBI] synonym: "neurotoxic agents" RELATED [ChEBI] synonym: "neurotoxicant" RELATED [ChEBI] synonym: "neurotoxins" RELATED [ChEBI] xref: Wikipedia:Neurotoxin is_a: CHEBI:52209 ! aetiopathogenetic role is_a: CHEBI:64909 ! poison [Term] id: CHEBI:50994 name: primary amino compound namespace: chebi_ontology def: "A compound formally derived from ammonia by replacing one hydrogen atom by an organyl group." [] subset: 3_STAR synonym: "primary amino compounds" RELATED [ChEBI] is_a: CHEBI:50047 ! organic amino compound relationship: is_conjugate_base_of CHEBI:65296 ! primary ammonium ion [Term] id: CHEBI:51086 name: chemical role namespace: chebi_ontology def: "A role played by the molecular entity or part thereof within a chemical context." [] subset: 3_STAR is_a: BFO:0000023 ! role is_a: CHEBI:50906 ! role [Term] id: CHEBI:51143 name: nitrogen molecular entity namespace: chebi_ontology alt_id: CHEBI:25556 alt_id: CHEBI:7594 subset: 3_STAR synonym: "nitrogen compounds" RELATED [ChEBI] synonym: "nitrogen molecular entities" RELATED [ChEBI] synonym: "Nitrogenous compounds" RELATED [KEGG_COMPOUND] xref: KEGG:C06061 is_a: CHEBI:33302 ! pnictogen molecular entity relationship: has_part CHEBI:25555 ! nitrogen atom [Term] id: CHEBI:51151 name: dipolar compound namespace: chebi_ontology def: "An organic molecule that is electrically neutral carrying a positive and a negative charge in one of its major canonical descriptions. In most dipolar compounds the charges are delocalized; however the term is also applied to species where this is not the case." [] subset: 3_STAR synonym: "dipolar compounds" RELATED [ChEBI] is_a: CHEBI:72695 ! organic molecule [Term] id: CHEBI:51422 name: organodiyl group namespace: chebi_ontology def: "Any organic substituent group, regardless of functional type, having two free valences at carbon atom(s)." [] subset: 3_STAR synonym: "organodiyl groups" RELATED [ChEBI] is_a: CHEBI:51446 ! organic divalent group [Term] id: CHEBI:51446 name: organic divalent group namespace: chebi_ontology subset: 1_STAR is_a: CHEBI:33247 ! organic group [Term] id: CHEBI:51447 name: organic univalent group namespace: chebi_ontology subset: 1_STAR is_a: CHEBI:33247 ! organic group [Term] id: CHEBI:51958 name: organic polycyclic compound namespace: chebi_ontology subset: 3_STAR synonym: "organic polycyclic compounds" RELATED [ChEBI] is_a: CHEBI:33635 ! polycyclic compound is_a: CHEBI:33832 ! organic cyclic compound [Term] id: CHEBI:52090 name: methoxide namespace: chebi_ontology def: "An organic anion that is the conjugate base of methanol." [] subset: 3_STAR synonym: "methoxide ion" RELATED [ChEBI] xref: Reaxys:1839368 {source="Reaxys"} is_a: CHEBI:25696 ! organic anion relationship: has_role CHEBI:77746 ! human metabolite relationship: is_conjugate_base_of CHEBI:17790 ! methanol property_value: http://purl.obolibrary.org/obo/chebi/charge "-1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "CH3O" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/CH3O/c1-2/h1H3/q-1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "NBTOZLQBSIZIKS-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "31.03390" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "31.01894" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "C[O-]" xsd:string [Term] id: CHEBI:52206 name: biochemical role namespace: chebi_ontology def: "A biological role played by the molecular entity or part thereof within a biochemical context." [] subset: 3_STAR is_a: CHEBI:24432 ! biological role [Term] id: CHEBI:52209 name: aetiopathogenetic role namespace: chebi_ontology def: "A role played by the molecular entity or part thereof which causes the development of a pathological process." [] subset: 3_STAR synonym: "etiopathogenetic agent" RELATED [ChEBI] synonym: "etiopathogenetic role" RELATED [ChEBI] is_a: CHEBI:24432 ! biological role [Term] id: CHEBI:52210 name: pharmacological role namespace: chebi_ontology def: "A biological role which describes how a drug interacts within a biological system and how the interactions affect its medicinal properties." [] subset: 3_STAR is_a: CHEBI:24432 ! biological role [Term] id: CHEBI:52211 name: physiological role namespace: chebi_ontology subset: 1_STAR is_a: CHEBI:24432 ! biological role [Term] id: CHEBI:52214 name: ligand namespace: chebi_ontology def: "Any molecule or ion capable of binding to a central metal atom to form coordination complexes." [] subset: 3_STAR synonym: "ligands" RELATED [ChEBI] xref: Wikipedia:Ligand is_a: CHEBI:51086 ! chemical role [Term] id: CHEBI:52217 name: pharmaceutical namespace: chebi_ontology alt_id: CHEBI:33293 alt_id: CHEBI:33294 def: "Any substance introduced into a living organism with therapeutic or diagnostic purpose." [] subset: 3_STAR synonym: "farmaco" RELATED [ChEBI] synonym: "medicament" RELATED [ChEBI] synonym: "pharmaceuticals" RELATED [ChEBI] is_a: CHEBI:33232 ! application [Term] id: CHEBI:52845 name: cyclic organic group namespace: chebi_ontology def: "An organic group that consists of a closed ring. It may be a substituent or a skeleton." [] subset: 3_STAR synonym: "cyclic organic groups" RELATED [ChEBI] is_a: CHEBI:33247 ! organic group [Term] id: CHEBI:53309 name: polyanionic macromolecule namespace: chebi_ontology def: "A polymer carrying multiple negative charges." [] subset: 3_STAR synonym: "polyanion" RELATED [ChEBI] synonym: "polyanions" RELATED [SUBMITTER] is_a: CHEBI:53368 ! ionic macromolecule [Term] id: CHEBI:53368 name: ionic macromolecule namespace: chebi_ontology def: "A macromolecule containing ionic groups." [] subset: 3_STAR synonym: "ionic polymer" RELATED [ChEBI] synonym: "polyionic macromolecule" RELATED [ChEBI] is_a: CHEBI:33839 ! macromolecule [Term] id: CHEBI:5391 name: glucagon namespace: chebi_ontology def: "A 29-amino acid peptide hormone consisting of His, Ser, Gln, Gly, Thr, Phe, Thr, Ser, Asp, Tyr, Ser, Lys, Tyr, Leu, Asp, Ser, Arg, Arg, Ala, Gln, Asp, Phe, Val, Gln, Trp, Leu, Met, Asn and Thr residues joined in sequence." [] subset: 3_STAR synonym: "Glucagon" EXACT [KEGG_COMPOUND] synonym: "glucagon" RELATED INN [ChemIDplus] synonym: "Glucagone" RELATED [ChemIDplus] synonym: "glucagonum" RELATED INN [ChemIDplus] synonym: "His-Ser-Gln-Gly-Thr-Phe-Thr-Ser-Asp-Tyr-Ser-Lys-Tyr-Leu-Asp-Ser-Arg-Arg-Ala-Gln-Asp-Phe-Val-Gln-Trp-Leu-Met-Asn-Thr" RELATED [ChEBI] synonym: "His-ser-glu(nh2)-gly-thr-phe-thr-ser-asp-tyr-ser-lys-tyr-leu-asp-ser-arg-arg-ala-glu(NH2)-asp-phe-val-glu(NH2)-trp-leu-met-asp(NH2)-thr" RELATED [ChemIDplus] synonym: "HSQGTFTSDYSKYLDSRRAQDFVQWLMNT" RELATED [ChEBI] synonym: "L-histidyl-L-seryl-L-glutaminylglycyl-L-threonyl-L-phenylalanyl-L-threonyl-L-seryl-L-alpha-aspartyl-L-tyrosyl-L-seryl-L-lysyl-L-tyrosyl-L-leucyl-L-alpha-aspartyl-L-seryl-L-arginyl-L-arginyl-L-alanyl-L-glutaminyl-L-alpha-aspartyl-L-phenylalanyl-L-valyl-L-glutaminyl-L-tryptophyl-L-leucyl-L-methionyl-L-asparaginyl-L-threonine" EXACT IUPAC_NAME [IUPAC] xref: CAS:16941-32-5 {source="ChemIDplus"} xref: CAS:9007-92-5 {source="KEGG COMPOUND"} xref: CAS:9007-92-5 {source="ChemIDplus"} xref: Drug_Central:2994 {source="DrugCentral"} xref: DrugBank:DB00040 xref: KEGG:C01501 xref: KEGG:D00116 xref: PMID:21940356 {source="Europe PMC"} xref: PMID:22014161 {source="Europe PMC"} xref: PMID:22154917 {source="Europe PMC"} xref: PMID:22166985 {source="Europe PMC"} xref: PMID:22167521 {source="Europe PMC"} xref: PMID:22214853 {source="Europe PMC"} xref: PMID:22227186 {source="Europe PMC"} xref: PMID:22286080 {source="Europe PMC"} xref: PMID:22294753 {source="Europe PMC"} xref: PMID:22318544 {source="Europe PMC"} xref: PMID:22334714 {source="Europe PMC"} xref: PMID:22399501 {source="Europe PMC"} xref: PMID:22438981 {source="Europe PMC"} xref: PMID:22454291 {source="Europe PMC"} xref: Reaxys:13191924 {source="Reaxys"} xref: Wikipedia:Glucagon is_a: CHEBI:25905 ! peptide hormone property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C153H225N43O49S" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C153H225N43O49S/c1-72(2)52-97(133(226)176-96(47-51-246-11)132(225)184-104(60-115(159)209)143(236)196-123(78(10)203)151(244)245)179-137(230)103(58-83-64-167-89-29-19-18-28-87(83)89)183-131(224)95(43-46-114(158)208)177-148(241)120(74(5)6)194-141(234)101(54-79-24-14-12-15-25-79)182-138(231)105(61-117(211)212)185-130(223)94(42-45-113(157)207)171-124(217)75(7)170-127(220)91(31-22-49-165-152(160)161)172-128(221)92(32-23-50-166-153(162)163)174-146(239)110(69-199)191-140(233)107(63-119(215)216)186-134(227)98(53-73(3)4)178-135(228)99(56-81-33-37-85(204)38-34-81)180-129(222)90(30-20-21-48-154)173-145(238)109(68-198)190-136(229)100(57-82-35-39-86(205)40-36-82)181-139(232)106(62-118(213)214)187-147(240)111(70-200)192-150(243)122(77(9)202)195-142(235)102(55-80-26-16-13-17-27-80)188-149(242)121(76(8)201)193-116(210)66-168-126(219)93(41-44-112(156)206)175-144(237)108(67-197)189-125(218)88(155)59-84-65-164-71-169-84/h12-19,24-29,33-40,64-65,71-78,88,90-111,120-123,167,197-205H,20-23,30-32,41-63,66-70,154-155H2,1-11H3,(H2,156,206)(H2,157,207)(H2,158,208)(H2,159,209)(H,164,169)(H,168,219)(H,170,220)(H,171,217)(H,172,221)(H,173,238)(H,174,239)(H,175,237)(H,176,226)(H,177,241)(H,178,228)(H,179,230)(H,180,222)(H,181,232)(H,182,231)(H,183,224)(H,184,225)(H,185,223)(H,186,227)(H,187,240)(H,188,242)(H,189,218)(H,190,229)(H,191,233)(H,192,243)(H,193,210)(H,194,234)(H,195,235)(H,196,236)(H,211,212)(H,213,214)(H,215,216)(H,244,245)(H4,160,161,165)(H4,162,163,166)/t75-,76+,77+,78+,88-,90-,91-,92-,93-,94-,95-,96-,97-,98-,99-,100-,101-,102-,103-,104-,105-,106-,107-,108-,109-,110-,111-,120-,121-,122-,123-/m0/s1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "MASNOZXLGMXCHN-ZLPAWPGGSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "3482.74700" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "3480.61570" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "CSCC[C@H](NC(=O)[C@H](CC(C)C)NC(=O)[C@H](Cc1c[nH]c2ccccc12)NC(=O)[C@H](CCC(N)=O)NC(=O)[C@@H](NC(=O)[C@H](Cc1ccccc1)NC(=O)[C@H](CC(O)=O)NC(=O)[C@H](CCC(N)=O)NC(=O)[C@H](C)NC(=O)[C@H](CCCNC(N)=N)NC(=O)[C@H](CCCNC(N)=N)NC(=O)[C@H](CO)NC(=O)[C@H](CC(O)=O)NC(=O)[C@H](CC(C)C)NC(=O)[C@H](Cc1ccc(O)cc1)NC(=O)[C@H](CCCCN)NC(=O)[C@H](CO)NC(=O)[C@H](Cc1ccc(O)cc1)NC(=O)[C@H](CC(O)=O)NC(=O)[C@H](CO)NC(=O)[C@@H](NC(=O)[C@H](Cc1ccccc1)NC(=O)[C@@H](NC(=O)CNC(=O)[C@H](CCC(N)=O)NC(=O)[C@H](CO)NC(=O)[C@@H](N)Cc1cnc[nH]1)[C@@H](C)O)[C@@H](C)O)C(C)C)C(=O)N[C@@H](CC(N)=O)C(=O)N[C@@H]([C@@H](C)O)C(O)=O" xsd:string [Term] id: CHEBI:5686 name: heterocyclic compound namespace: chebi_ontology def: "A cyclic compound having as ring members atoms of at least two different elements." [] subset: 3_STAR synonym: "compuesto heterociclico" RELATED [IUPAC] synonym: "compuestos heterociclicos" RELATED [IUPAC] synonym: "heterocycle" RELATED [ChEBI] synonym: "Heterocyclic compound" EXACT [KEGG_COMPOUND] synonym: "heterocyclic compounds" RELATED [ChEBI] is_a: CHEBI:33595 ! cyclic compound [Term] id: CHEBI:57887 name: tryptaminium namespace: chebi_ontology def: "An ammonium ion that is the conjugate acid of tryptamine arising from protonation of the primary amino group; major species at pH 7.3." [] subset: 3_STAR synonym: "2-(1H-indol-3-yl)ethanaminium" EXACT IUPAC_NAME [IUPAC] synonym: "tryptamine" RELATED [UniProt] synonym: "tryptaminium cation" RELATED [ChEBI] synonym: "tryptaminium(1+)" RELATED [ChEBI] xref: Gmelin:533978 {source="Gmelin"} is_a: CHEBI:35274 ! ammonium ion derivative relationship: has_role CHEBI:75771 ! mouse metabolite relationship: has_role CHEBI:76924 ! plant metabolite relationship: has_role CHEBI:77746 ! human metabolite relationship: is_conjugate_acid_of CHEBI:16765 ! tryptamine property_value: http://purl.obolibrary.org/obo/chebi/charge "+1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C10H13N2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C10H12N2/c11-6-5-8-7-12-10-4-2-1-3-9(8)10/h1-4,7,12H,5-6,11H2/p+1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "APJYDQYYACXCRM-UHFFFAOYSA-O" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "161.22310" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "161.10732" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[NH3+]CCc1c[nH]c2ccccc12" xsd:string [Term] id: CHEBI:57942 name: chlorophyllide a(1-) namespace: chebi_ontology def: "A cyclic tetrapyrrole anion that is the conjugate base of chlorophyllide a arising from deprotonation of the carboxy group; major species at pH 7.3." [] subset: 3_STAR synonym: "chlorophyllide a anion" RELATED [ChEBI] is_a: CHEBI:58941 ! cyclic tetrapyrrole anion relationship: is_conjugate_acid_of CHEBI:83348 ! chlorophyllide a(2-) relationship: is_conjugate_base_of CHEBI:16900 ! chlorophyllide a property_value: http://purl.obolibrary.org/obo/chebi/charge "-1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C35H33MgN4O5" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C35H36N4O5.Mg/c1-8-19-15(3)22-12-24-17(5)21(10-11-28(40)41)32(38-24)30-31(35(43)44-7)34(42)29-18(6)25(39-33(29)30)14-27-20(9-2)16(4)23(37-27)13-26(19)36-22;/h8,12-14,17,21,31H,1,9-11H2,2-7H3,(H3,36,37,38,39,40,41,42);/q;+2/p-3/t17-,21-,31+;/m0./s1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "ANWUQYTXRXCEMZ-NYABAGMLSA-K" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "613.96600" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "613.23069" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "CCC1=C(C)C2=[N+]3C1=Cc1c(C)c4C(=O)[C@H](C(=O)OC)C5=C6[C@@H](CCC([O-])=O)[C@H](C)C7=[N+]6[Mg--]3(n1c45)n1c(=C7)c(C)c(C=C)c1=C2" xsd:string [Term] id: CHEBI:58072 name: carbon monoxide(1+) namespace: chebi_ontology def: "Conjugate acid of carbon monoxide arising from protonation of the carbon; major species at pH 7.3." [] subset: 3_STAR synonym: "CO(1+)" RELATED [ChEBI] synonym: "methylidyneoxidanium" RELATED [ChEBI] synonym: "methylidyneoxonium" EXACT IUPAC_NAME [IUPAC] is_a: CHEBI:25697 ! organic cation relationship: is_conjugate_acid_of CHEBI:17245 ! carbon monoxide property_value: http://purl.obolibrary.org/obo/chebi/charge "+1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "CHO" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/CHO/c1-2/h1H/q+1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "XPRMKTHGXOVKEH-UHFFFAOYSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "29.01800" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "29.00219" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "C#[O+]" xsd:string [Term] id: CHEBI:58416 name: chlorophyll a(1-) namespace: chebi_ontology def: "A cyclic tetrapyrrole anion arising from deprotonation at the 21-position of chlorophyll a." [] subset: 3_STAR synonym: "chlorophyll a" RELATED [UniProt] is_a: CHEBI:139291 ! chlorophyll(1-) relationship: has_role CHEBI:23357 ! cofactor relationship: is_conjugate_base_of CHEBI:18230 ! chlorophyll a property_value: http://purl.obolibrary.org/obo/chebi/charge "-1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C55H71MgN4O5" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C55H72N4O5.Mg/c1-13-39-35(8)42-28-44-37(10)41(24-25-48(60)64-27-26-34(7)23-17-22-33(6)21-16-20-32(5)19-15-18-31(3)4)52(58-44)50-51(55(62)63-12)54(61)49-38(11)45(59-53(49)50)30-47-40(14-2)36(9)43(57-47)29-46(39)56-42;/h13,26,28-33,37,41H,1,14-25,27H2,2-12H3,(H-,56,57,58,59,61);/q-2;+2/p-1/b34-26+;/t32-,33-,37+,41+;/m1./s1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "VSRAJQZEEBBURZ-ONWAGYJKSA-M" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "892.48100" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "891.52804" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "CCC1=C(C)C2=Cc3c(C=C)c(C)c4C=C5[C@@H](C)[C@H](CCC(=O)OC\\C=C(/C)CCC[C@H](C)CCC[C@H](C)CCCC(C)C)C6=[N+]5[Mg--]5(n34)n3c(=CC1=[N+]25)c(C)c1C(=O)[C-](C(=O)OC)C6=c31" xsd:string [Term] id: CHEBI:58941 name: cyclic tetrapyrrole anion namespace: chebi_ontology def: "An organic anion arising from deprotonation of a cyclic tetrapyrrole compound." [] subset: 3_STAR synonym: "cyclic tetrapyrrole anions" RELATED [ChEBI] is_a: CHEBI:25696 ! organic anion [Term] id: CHEBI:58958 name: organosulfate oxoanion namespace: chebi_ontology def: "An organic anion of general formula RS(=O)2O(-) where R is an organyl group." [] subset: 3_STAR synonym: "organosulfate oxoanions" RELATED [ChEBI] is_a: CHEBI:25696 ! organic anion is_a: CHEBI:33482 ! sulfur oxoanion relationship: has_functional_parent CHEBI:16189 ! sulfate relationship: is_conjugate_base_of CHEBI:25704 ! organic sulfate property_value: http://purl.obolibrary.org/obo/chebi/charge "-1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "O4SR" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "96.06300" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "95.95173" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[O-]S(=O)(=O)O[*]" xsd:string [Term] id: CHEBI:59163 name: biomarker namespace: chebi_ontology def: "A substance used as an indicator of a biological state." [] subset: 3_STAR synonym: "biological marker" RELATED [ChEBI] is_a: CHEBI:47867 ! indicator [Term] id: CHEBI:59698 name: phosphoric acids namespace: chebi_ontology def: "Compounds containing one or more phosphoric acid units." [] subset: 3_STAR is_a: CHEBI:33457 ! phosphorus oxoacid [Term] id: CHEBI:59740 name: nucleophilic reagent namespace: chebi_ontology def: "A reagent that forms a bond to its reaction partner (the electrophile) by donating both bonding electrons." [] subset: 3_STAR synonym: "nucleophile" RELATED [ChEBI] synonym: "nucleophiles" RELATED [ChEBI] synonym: "nucleophilic reagents" RELATED [ChEBI] is_a: CHEBI:33893 ! reagent is_a: CHEBI:39144 ! Lewis base [Term] id: CHEBI:59999 name: chemical substance namespace: chebi_ontology def: "A chemical substance is a portion of matter of constant composition, composed of molecular entities of the same type or of different types." [] subset: 3_STAR synonym: "Chemische Substanz" RELATED [ChEBI] is_a: CHEBI:24431 ! chemical entity [Term] id: CHEBI:60004 name: mixture namespace: chebi_ontology def: "A mixture is a chemical substance composed of multiple molecules, at least two of which are of a different kind." [] subset: 3_STAR synonym: "Mischung" RELATED [ChEBI] is_a: CHEBI:59999 ! chemical substance [Term] id: CHEBI:60027 name: polymer namespace: chebi_ontology def: "A polymer is a mixture, which is composed of macromolecules of different kinds and which may be differentiated by composition, length, degree of branching etc.." [] subset: 3_STAR synonym: "Kunststoff" RELATED [ChEBI] synonym: "Polymer" EXACT [ChEBI] xref: Wikipedia:Polymer is_a: CHEBI:60004 ! mixture relationship: has_part CHEBI:33839 ! macromolecule [Term] id: CHEBI:60164 name: ionic polymer namespace: chebi_ontology def: "An ionic polymer is a polymer, composed of ionic macromolecules." [] subset: 3_STAR synonym: "polyionic polymer" RELATED [ChEBI] is_a: CHEBI:60027 ! polymer relationship: has_part CHEBI:53368 ! ionic macromolecule [Term] id: CHEBI:60242 name: monovalent inorganic cation namespace: chebi_ontology def: "An atom or small molecule with a positive charge that does not contain carbon in covalent linkage, with a valency of one." [] subset: 3_STAR synonym: "a monovalent cation" RELATED [UniProt] is_a: CHEBI:36915 ! inorganic cation [Term] id: CHEBI:60466 name: peptide zwitterion namespace: chebi_ontology def: "Zwitterionic form of any peptide where, in general, the amino terminus is positively charged and the carboxy terminus is negatively charged." [] subset: 3_STAR synonym: "a peptide" RELATED [UniProt] synonym: "peptide zwitterions" RELATED [ChEBI] is_a: CHEBI:27369 ! zwitterion relationship: is_tautomer_of CHEBI:16670 ! peptide property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C2H4NO2R(C2H2NOR)n" xsd:string [Term] id: CHEBI:61120 name: nucleobase-containing molecular entity namespace: chebi_ontology def: "Any compound that has a nucleobase as a part." [] subset: 3_STAR synonym: "nucleobase-containing compound" RELATED [SUBMITTER] synonym: "nucleobase-containing compounds" RELATED [ChEBI] synonym: "nucleobase-containing molecular entities" RELATED [ChEBI] is_a: CHEBI:33833 ! heteroarene is_a: CHEBI:51143 ! nitrogen molecular entity relationship: has_functional_parent CHEBI:18282 ! nucleobase [Term] id: CHEBI:61469 name: polyanionic polymer namespace: chebi_ontology def: "A polymer, composed of polyanion macromolecules." [] subset: 3_STAR synonym: "polyanion" RELATED [ChEBI] synonym: "polyanions" RELATED [ChEBI] is_a: CHEBI:60164 ! ionic polymer relationship: has_part CHEBI:53309 ! polyanionic macromolecule [Term] id: CHEBI:62488 name: signalling molecule namespace: chebi_ontology def: "A molecular messenger in which the molecule is specifically involved in transmitting information between cells. Such molecules are released from the cell sending the signal, cross over the gap between cells by diffusion, and interact with specific receptors in another cell, triggering a response in that cell by activating a series of enzyme controlled reactions which lead to changes inside the cell." [] subset: 3_STAR synonym: "signal molecule" RELATED [ChEBI] synonym: "signal molecules" RELATED [ChEBI] synonym: "signaling molecule" RELATED [ChEBI] synonym: "signaling molecules" RELATED [ChEBI] synonym: "signalling molecules" RELATED [ChEBI] is_a: CHEBI:33280 ! molecular messenger [Term] id: CHEBI:62764 name: reactive nitrogen species namespace: chebi_ontology def: "A family of nitrogen molecular entities which are highly reactive and derived from nitric oxide (.NO) and superoxide (O2.(-)) produced via the enzymatic activity of inducible nitric oxide synthase 2 (NOS2) and NADPH oxidase respectively." [] subset: 3_STAR synonym: "RNI" RELATED [SUBMITTER] synonym: "RNS" RELATED [SUBMITTER] xref: PMID:12076975 {source="SUBMITTER"} xref: PMID:17667957 {source="SUBMITTER"} xref: PMID:9741578 {source="SUBMITTER"} xref: Wikipedia:Reactive_nitrogen_species is_a: CHEBI:51143 ! nitrogen molecular entity [Term] id: CHEBI:63248 name: oxidising agent namespace: chebi_ontology def: "A substance that removes electrons from another reactant in a redox reaction." [] subset: 3_STAR synonym: "oxidant" RELATED [ChEBI] synonym: "oxidants" RELATED [ChEBI] synonym: "oxidiser" RELATED [ChEBI] synonym: "oxidisers" RELATED [ChEBI] synonym: "oxidising agents" RELATED [ChEBI] synonym: "oxidizer" RELATED [ChEBI] synonym: "oxidizers" RELATED [ChEBI] synonym: "oxidizing agent" RELATED [ChEBI] synonym: "oxidizing agents" RELATED [ChEBI] is_a: CHEBI:51086 ! chemical role [Term] id: CHEBI:63299 name: carbohydrate derivative namespace: chebi_ontology def: "Any organooxygen compound derived from a carbohydrate by replacement of one or more hydroxy group(s) by an amino group, a thiol group or similar heteroatomic groups. The term also includes derivatives of these compounds." [] subset: 3_STAR synonym: "carbohydrate derivatives" RELATED [ChEBI] synonym: "derivatised carbohydrate" RELATED [ChEBI] synonym: "derivatised carbohydrates" RELATED [ChEBI] synonym: "derivatized carbohydrate" RELATED [ChEBI] synonym: "derivatized carbohydrates" RELATED [ChEBI] is_a: CHEBI:78616 ! carbohydrates and carbohydrate derivatives relationship: has_functional_parent CHEBI:16646 ! carbohydrate [Term] id: CHEBI:63436 name: carbohydrate acid derivative namespace: chebi_ontology def: "A carbohydrate derivative that is formally obtained from a carbohydrate acid." [] subset: 3_STAR synonym: "carbohydrate acid derivatives" RELATED [ChEBI] is_a: CHEBI:63299 ! carbohydrate derivative relationship: has_functional_parent CHEBI:33720 ! carbohydrate acid relationship: is_conjugate_acid_of CHEBI:63551 ! carbohydrate acid derivative anion [Term] id: CHEBI:63534 name: monoamine namespace: chebi_ontology def: "An aralylamino compound which contains one amino group connected to an aromatic ring by a two-carbon chain. Monoamines are derived from aromatic amino acids like phenylalanine, tyrosine, tryptophan, and the thyroid hormones by the action of aromatic amino acid decarboxylase enzymes." [] subset: 3_STAR synonym: "monoamines" RELATED [ChEBI] synonym: "naturally occurring monoamine" RELATED [ChEBI] synonym: "naturally occurring monoamines" RELATED [ChEBI] xref: PMID:21822758 {source="Europe PMC"} xref: PMID:21993877 {source="Europe PMC"} xref: PMID:22005599 {source="Europe PMC"} xref: PMID:22082101 {source="Europe PMC"} xref: PMID:22153577 {source="Europe PMC"} xref: PMID:22213370 {source="Europe PMC"} xref: PMID:22218931 {source="Europe PMC"} xref: PMID:22342987 {source="Europe PMC"} xref: PMID:22371656 {source="Europe PMC"} is_a: CHEBI:64365 ! aralkylamino compound [Term] id: CHEBI:63551 name: carbohydrate acid derivative anion namespace: chebi_ontology def: "A carboxylic acid anion resulting from the deprotonation of the carboxy group of a carbohydrate acid derivative." [] subset: 3_STAR synonym: "carbohydrate acid anion derivative" RELATED [ChEBI] synonym: "carbohydrate acid anion derivatives" RELATED [ChEBI] synonym: "carbohydrate acid derivative anions" RELATED [ChEBI] is_a: CHEBI:29067 ! carboxylic acid anion relationship: has_functional_parent CHEBI:33721 ! carbohydrate acid anion relationship: is_conjugate_base_of CHEBI:63436 ! carbohydrate acid derivative [Term] id: CHEBI:64047 name: food additive namespace: chebi_ontology def: "Any substance which is added to food to preserve or enhance its flavour and/or appearance." [] subset: 3_STAR synonym: "food additives" RELATED [ChEBI] xref: Wikipedia:Food_additive is_a: CHEBI:33232 ! application is_a: CHEBI:78295 ! food component [Term] id: CHEBI:64365 name: aralkylamino compound namespace: chebi_ontology def: "An organic amino compound in which an aminoalkyl group is linked to an arene." [] subset: 3_STAR synonym: "aralkylamino compounds" RELATED [ChEBI] is_a: CHEBI:50047 ! organic amino compound [Term] id: CHEBI:64628 name: somatostatin namespace: chebi_ontology def: "A fourteen-membered heterodetic cyclic peptide comprising the sequence Ala-Gly-Cys-Lys-Asn-Phe-Phe-Trp-Lys-Thr-Phe-Thr-Ser-Cys cyclised by a disulfide bridge between the two Cys residues at positions 3 and 14." [] subset: 3_STAR synonym: "Ala-Gly-cyclo-[Cys-Lys-Asn-Phe-Phe-Trp-Lys-Thr-Phe-Thr-Ser-Cys]" RELATED [ChEBI] synonym: "L-alanyl-N-[(4R,7S,10S,13S,16S,19S,22S,25S,28S,31S,34S,37R)-19,34-bis(4-aminobutyl)-31-(2-amino-2-oxoethyl)-13,25,28-tribenzyl-4-carboxy-10,16-bis[(1R)-1-hydroxyethyl]-7-(hydroxymethyl)-22-(1H-indol-3-ylmethyl)-6,9,12,15,18,21,24,27,30,33,36-undecaoxo-1,2-dithia-5,8,11,14,17,20,23,26,29,32,35-undecaazacyclooctatriacontan-37-yl]glycinamide" EXACT IUPAC_NAME [IUPAC] synonym: "L-alanylglycyl-L-cysteinyl-L-lysyl-L-asparaginyl-L-phenylalanyl-L-phenylalanyl-L-tryptophyl-L-lysyl-L-threonyl-L-phenylalanyl-L-threonyl-L-seryl-L-cysteine cyclic (3-14) disulfide" RELATED [ChemIDplus] synonym: "somatostatin" RELATED INN [KEGG_DRUG] synonym: "Somatostatin-1" RELATED [KEGG_COMPOUND] synonym: "Somatostatin-14" RELATED [KEGG_COMPOUND] synonym: "somatostatina" RELATED INN [ChemIDplus] synonym: "somatostatine" RELATED INN [ChemIDplus] synonym: "somatostatinum" RELATED INN [ChemIDplus] synonym: "Synthetic growth hormone release-inhibiting hormone" RELATED [ChemIDplus] xref: CAS:38916-34-6 {source="KEGG DRUG"} xref: CAS:38916-34-6 {source="ChemIDplus"} xref: Drug_Central:2997 {source="DrugCentral"} xref: HMDB:HMDB0013072 xref: KEGG:C16022 xref: KEGG:D07431 xref: LINCS:LSM-5326 xref: PMID:21922516 {source="Europe PMC"} xref: PMID:22129035 {source="Europe PMC"} xref: PMID:22147011 {source="Europe PMC"} xref: PMID:22251942 {source="Europe PMC"} xref: PMID:22483686 {source="Europe PMC"} xref: PMID:22509294 {source="Europe PMC"} xref: Reaxys:10148626 {source="Reaxys"} xref: Wikipedia:Somatostatin is_a: CHEBI:24533 ! heterodetic cyclic peptide is_a: CHEBI:25905 ! peptide hormone property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C76H104N18O19S2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C76H104N18O19S2/c1-41(79)64(100)82-37-61(99)83-58-39-114-115-40-59(76(112)113)92-72(108)57(38-95)91-75(111)63(43(3)97)94-71(107)54(33-46-23-11-6-12-24-46)90-74(110)62(42(2)96)93-66(102)51(28-16-18-30-78)84-69(105)55(34-47-36-81-49-26-14-13-25-48(47)49)88-68(104)53(32-45-21-9-5-10-22-45)86-67(103)52(31-44-19-7-4-8-20-44)87-70(106)56(35-60(80)98)89-65(101)50(85-73(58)109)27-15-17-29-77/h4-14,19-26,36,41-43,50-59,62-63,81,95-97H,15-18,27-35,37-40,77-79H2,1-3H3,(H2,80,98)(H,82,100)(H,83,99)(H,84,105)(H,85,109)(H,86,103)(H,87,106)(H,88,104)(H,89,101)(H,90,110)(H,91,111)(H,92,108)(H,93,102)(H,94,107)(H,112,113)/t41-,42+,43+,50-,51-,52-,53-,54-,55-,56-,57-,58-,59-,62-,63-/m0/s1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "NHXLMOGPVYXJNR-ATOGVRKGSA-N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "1637.87800" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "1636.71666" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "C[C@@H](O)[C@@H]1NC(=O)[C@H](CCCCN)NC(=O)[C@H](Cc2c[nH]c3ccccc23)NC(=O)[C@H](Cc2ccccc2)NC(=O)[C@H](Cc2ccccc2)NC(=O)[C@H](CC(N)=O)NC(=O)[C@H](CCCCN)NC(=O)[C@H](CSSC[C@H](NC(=O)[C@H](CO)NC(=O)[C@@H](NC(=O)[C@H](Cc2ccccc2)NC1=O)[C@@H](C)O)C(O)=O)NC(=O)CNC(=O)[C@H](C)N" xsd:string [Term] id: CHEBI:64708 name: one-carbon compound namespace: chebi_ontology def: "An organic molecular entity containing a single carbon atom (C1)." [] subset: 3_STAR synonym: "one-carbon compounds" RELATED [ChEBI] is_a: CHEBI:50860 ! organic molecular entity [Term] id: CHEBI:64709 name: organic acid namespace: chebi_ontology def: "Any organic molecular entity that is acidic and contains carbon in covalent linkage." [] subset: 3_STAR synonym: "organic acids" RELATED [ChEBI] is_a: CHEBI:50860 ! organic molecular entity [Term] id: CHEBI:64909 name: poison namespace: chebi_ontology def: "Any substance that causes disturbance to organisms by chemical reaction or other activity on the molecular scale, when a sufficient quantity is absorbed by the organism." [] subset: 3_STAR synonym: "poisonous agent" RELATED [ChEBI] synonym: "poisonous agents" RELATED [ChEBI] synonym: "poisonous substance" RELATED [ChEBI] synonym: "poisonous substances" RELATED [ChEBI] synonym: "poisons" RELATED [ChEBI] synonym: "toxic agent" RELATED [ChEBI] synonym: "toxic agents" RELATED [ChEBI] synonym: "toxic substance" RELATED [ChEBI] synonym: "toxic substances" RELATED [ChEBI] xref: Wikipedia:Poison is_a: CHEBI:24432 ! biological role [Term] id: CHEBI:65212 name: polysaccharide derivative namespace: chebi_ontology def: "A carbohydrate derivative that is any derivative of a polysaccharide." [] subset: 3_STAR synonym: "polysaccharide derivatives" RELATED [ChEBI] is_a: CHEBI:167559 ! glycan is_a: CHEBI:33694 ! biomacromolecule is_a: CHEBI:63299 ! carbohydrate derivative relationship: has_functional_parent CHEBI:18154 ! polysaccharide [Term] id: CHEBI:65296 name: primary ammonium ion namespace: chebi_ontology def: "An ammonium ion derivative resulting from the protonation of the nitrogen atom of a primary amino compound. Major species at pH 7.3." [] subset: 3_STAR synonym: "a primary amine" RELATED [UniProt] synonym: "substituted ammonium" RELATED [ChEBI] is_a: CHEBI:25697 ! organic cation is_a: CHEBI:35274 ! ammonium ion derivative relationship: is_conjugate_acid_of CHEBI:50994 ! primary amino compound property_value: http://purl.obolibrary.org/obo/chebi/charge "+1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "H3NR" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "17.031" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "17.02655" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[NH3+][*]" xsd:string [Term] id: CHEBI:67079 name: anti-inflammatory agent namespace: chebi_ontology def: "Any compound that has anti-inflammatory effects." [] subset: 3_STAR synonym: "anti-inflammatory agents" RELATED [ChEBI] synonym: "antiinflammatory agent" RELATED [ChEBI] synonym: "antiinflammatory agents" RELATED [ChEBI] is_a: CHEBI:33232 ! application [Term] id: CHEBI:72695 name: organic molecule namespace: chebi_ontology def: "Any molecule that consists of at least one carbon atom as part of the electrically neutral entity." [] subset: 3_STAR synonym: "organic compound" RELATED [ChEBI] synonym: "organic compounds" RELATED [ChEBI] synonym: "organic molecules" RELATED [ChEBI] is_a: CHEBI:25367 ! molecule is_a: CHEBI:50860 ! organic molecular entity [Term] id: CHEBI:72813 name: exopolysaccharide namespace: chebi_ontology def: "A biomacromolecule composed of carbohydrate residues which is secreted by a microorganism into the surrounding environment." [] subset: 3_STAR synonym: "exopolysaccharides" RELATED [ChEBI] synonym: "extracellular polymeric substance" RELATED [ChEBI] synonym: "extracellular polymeric substances" RELATED [ChEBI] xref: MetaCyc:Exopolysaccharides xref: PMID:11160795 {source="Europe PMC"} xref: PMID:11785425 {source="Europe PMC"} xref: PMID:1444258 {source="Europe PMC"} xref: PMID:15738217 {source="Europe PMC"} xref: PMID:16075348 {source="Europe PMC"} xref: PMID:17440912 {source="Europe PMC"} xref: PMID:18097339 {source="Europe PMC"} xref: PMID:19453747 {source="Europe PMC"} xref: PMID:20172021 {source="Europe PMC"} xref: PMID:20631870 {source="Europe PMC"} xref: PMID:20718297 {source="Europe PMC"} xref: PMID:2688547 {source="Europe PMC"} xref: PMID:6354590 {source="Europe PMC"} xref: Wikipedia:Exopolysaccharide xref: Wikipedia:Extracellular_polymeric_substance is_a: CHEBI:33694 ! biomacromolecule [Term] id: CHEBI:73398 name: indole skeleton namespace: chebi_ontology def: "A mancude heterobicyclic organic group consisting of a benzene ring fused to a pyrrole ring." [] subset: 3_STAR is_a: CHEBI:73541 ! organic heterobicyclic ring property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C8N" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "110.09230" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "110.00307" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "C1(=C(C(=C2C(=C1*)N(C(=C2*)*)*)*)*)*" xsd:string [Term] id: CHEBI:73541 name: organic heterobicyclic ring namespace: chebi_ontology def: "A bicyclic organic group that contains both carbon and hetero atoms." [] subset: 3_STAR synonym: "organic heterobicyclic rings" RELATED [ChEBI] is_a: CHEBI:52845 ! cyclic organic group [Term] id: CHEBI:75763 name: eukaryotic metabolite namespace: chebi_ontology def: "Any metabolite produced during a metabolic reaction in eukaryotes, the taxon that include members of the fungi, plantae and animalia kingdoms." [] subset: 3_STAR synonym: "eukaryotic metabolites" RELATED [ChEBI] is_a: CHEBI:25212 ! metabolite [Term] id: CHEBI:75767 name: animal metabolite namespace: chebi_ontology alt_id: CHEBI:77721 alt_id: CHEBI:77743 def: "Any eukaryotic metabolite produced during a metabolic reaction in animals that include diverse creatures from sponges, insects to mammals." [] subset: 3_STAR synonym: "animal metabolites" RELATED [ChEBI] is_a: CHEBI:75763 ! eukaryotic metabolite [Term] id: CHEBI:75768 name: mammalian metabolite namespace: chebi_ontology alt_id: CHEBI:77464 alt_id: CHEBI:77744 def: "Any animal metabolite produced during a metabolic reaction in mammals." [] subset: 3_STAR synonym: "mammalian metabolites" RELATED [ChEBI] is_a: CHEBI:75767 ! animal metabolite [Term] id: CHEBI:75771 name: mouse metabolite namespace: chebi_ontology def: "Any mammalian metabolite produced during a metabolic reaction in a mouse (Mus musculus)." [] subset: 3_STAR synonym: "mouse metabolites" RELATED [ChEBI] synonym: "Mus musculus metabolite" RELATED [ChEBI] synonym: "Mus musculus metabolites" RELATED [ChEBI] is_a: CHEBI:75768 ! mammalian metabolite [Term] id: CHEBI:75772 name: Saccharomyces cerevisiae metabolite namespace: chebi_ontology alt_id: CHEBI:76949 alt_id: CHEBI:76951 def: "Any fungal metabolite produced during a metabolic reaction in Baker's yeast (Saccharomyces cerevisiae)." [] subset: 3_STAR synonym: "baker's yeast metabolite" RELATED [ChEBI] synonym: "baker's yeast metabolites" RELATED [ChEBI] synonym: "baker's yeast secondary metabolite" RELATED [ChEBI] synonym: "baker's yeast secondary metabolites" RELATED [ChEBI] synonym: "S. cerevisiae metabolite" RELATED [ChEBI] synonym: "S. cerevisiae metabolites" RELATED [ChEBI] synonym: "S. cerevisiae secondary metabolite" RELATED [ChEBI] synonym: "S. cerevisiae secondary metabolites" RELATED [ChEBI] synonym: "Saccharomyces cerevisiae metabolites" RELATED [ChEBI] synonym: "Saccharomyces cerevisiae secondary metabolites" RELATED [ChEBI] is_a: CHEBI:76946 ! fungal metabolite [Term] id: CHEBI:75787 name: prokaryotic metabolite namespace: chebi_ontology def: "Any metabolite produced during a metabolic reaction in prokaryotes, the taxon that include members of domains such as the bacteria and archaea." [] subset: 3_STAR synonym: "prokaryotic metabolites" RELATED [ChEBI] is_a: CHEBI:25212 ! metabolite [Term] id: CHEBI:76206 name: xenobiotic metabolite namespace: chebi_ontology def: "Any metabolite produced by metabolism of a xenobiotic compound." [] subset: 3_STAR synonym: "xenobiotic metabolites" RELATED [ChEBI] is_a: CHEBI:25212 ! metabolite [Term] id: CHEBI:76413 name: greenhouse gas namespace: chebi_ontology def: "A gas in an atmosphere that absorbs and emits radiation within the thermal infrared range, so contributing to the 'greenhouse effect'." [] subset: 3_STAR synonym: "greenhouse gases" RELATED [ChEBI] xref: Wikipedia:Greenhouse_gas is_a: CHEBI:51086 ! chemical role [Term] id: CHEBI:76414 name: propellant namespace: chebi_ontology def: "A compressed gas or liquid with a boiling point lower than room temperature which to used to propel and dispense liquids such as deodorants, insecticides, paints, etc. from aerosol cans." [] subset: 3_STAR synonym: "propellants" RELATED [ChEBI] xref: PMID:22519407 {source="Europe PMC"} xref: PMID:24001847 {source="Europe PMC"} is_a: CHEBI:33232 ! application [Term] id: CHEBI:76725 name: EC 1.* (oxidoreductase) inhibitor namespace: chebi_ontology def: "An enzyme inhibitor which interferes with the action of an oxidoreductase (EC 1.*.*.*)." [] subset: 3_STAR synonym: "EC 1.* (oxidoreductase) inhibitors" RELATED [ChEBI] synonym: "EC 1.* inhibitor" RELATED [ChEBI] synonym: "EC 1.* inhibitors" RELATED [ChEBI] synonym: "oxidoreductase (EC 1.*) inhibitor" RELATED [ChEBI] synonym: "oxidoreductase (EC 1.*) inhibitors" RELATED [ChEBI] synonym: "oxidoreductase inhibitor" RELATED [ChEBI] synonym: "oxidoreductase inhibitors" RELATED [ChEBI] xref: Wikipedia:Oxidoreductase is_a: CHEBI:23924 ! enzyme inhibitor [Term] id: CHEBI:76736 name: EC 1.9.* (oxidoreductase acting on donor heme group) inhibitor namespace: chebi_ontology def: "An oxidoreductase inhibitor which interferes with the action of an oxidoreductase acting on a heme group of donors (EC 1.9.*.*)." [] subset: 3_STAR synonym: "EC 1.9.* (oxidoreductase acting on a heme group of donors) inhibitor" RELATED [ChEBI] synonym: "EC 1.9.* (oxidoreductase acting on a heme group of donors) inhibitors" RELATED [ChEBI] synonym: "EC 1.9.* (oxidoreductase acting on donor heme group) inhibitors" RELATED [ChEBI] synonym: "EC 1.9.* inhibitor" RELATED [ChEBI] synonym: "EC 1.9.* inhibitors" RELATED [ChEBI] synonym: "oxidoreductase acting on a heme group of donors (EC 1.9.*) inhibitor" RELATED [ChEBI] synonym: "oxidoreductase acting on a heme group of donors (EC 1.9.*) inhibitors" RELATED [ChEBI] is_a: CHEBI:76725 ! EC 1.* (oxidoreductase) inhibitor [Term] id: CHEBI:76741 name: EC 1.14.* (oxidoreductase acting on paired donors, with incorporation or reduction of molecular oxygen) inhibitor namespace: chebi_ontology def: "An oxidoreductase inhibitor which interferes with the action of an oxidoreductase acting on hydrogen as donors (EC 1.14.*.*)." [] subset: 3_STAR synonym: "EC 1.14.* (oxidoreductase acting on paired donors, with incorporation or reduction of molecular oxygen) inhibitors" RELATED [ChEBI] synonym: "EC 1.14.* inhibitor" RELATED [ChEBI] synonym: "EC 1.14.* inhibitors" RELATED [ChEBI] synonym: "inhibitor of oxidoreductase acting on paired donors, with incorporation or reduction of molecular oxygen (EC 1.14.*)" RELATED [ChEBI] synonym: "inhibitor of oxidoreductases acting on paired donors, with incorporation or reduction of molecular oxygen (EC 1.14.*)" RELATED [ChEBI] synonym: "inhibitors of oxidoreductase acting on paired donors, with incorporation or reduction of molecular oxygen (EC 1.14.*)" RELATED [ChEBI] synonym: "inhibitors of oxidoreductases acting on paired donors, with incorporation or reduction of molecular oxygen (EC 1.14.*)" RELATED [ChEBI] synonym: "oxidoreductase acting on paired donors, with incorporation or reduction of molecular oxygen (EC 1.14.*) inhibitor" RELATED [ChEBI] synonym: "oxidoreductase acting on paired donors, with incorporation or reduction of molecular oxygen (EC 1.14.*) inhibitors" RELATED [ChEBI] synonym: "oxidoreductase acting on paired donors, with incorporation or reduction of molecular oxygen inhibitor" RELATED [ChEBI] synonym: "oxidoreductase acting on paired donors, with incorporation or reduction of molecular oxygen inhibitors" RELATED [ChEBI] is_a: CHEBI:76725 ! EC 1.* (oxidoreductase) inhibitor [Term] id: CHEBI:76759 name: EC 3.* (hydrolase) inhibitor namespace: chebi_ontology def: "Any enzyme inhibitor that interferes with the action of a hydrolase (EC 3.*.*.*)." [] subset: 3_STAR synonym: "EC 3.* (hydrolase) inhibitors" RELATED [ChEBI] synonym: "EC 3.* inhibitor" RELATED [ChEBI] synonym: "EC 3.* inhibitors" RELATED [ChEBI] synonym: "EC 3.*.*.* inhibitor" RELATED [ChEBI] synonym: "EC 3.*.*.* inhibitors" RELATED [ChEBI] synonym: "hydrolase (EC 3.*) inhibitor" RELATED [ChEBI] synonym: "hydrolase (EC 3.*) inhibitors" RELATED [ChEBI] synonym: "hydrolase inhibitor" RELATED [ChEBI] synonym: "hydrolase inhibitors" RELATED [ChEBI] xref: Wikipedia:Hydrolase is_a: CHEBI:23924 ! enzyme inhibitor [Term] id: CHEBI:76764 name: EC 3.5.* (hydrolases acting on non-peptide C-N bonds) inhibitor namespace: chebi_ontology def: "Any hydrolase inhibitor that interferes with the action of a hydrolase acting on C-N bonds, other than peptide bonds (EC 3.5.*.*)." [] subset: 3_STAR synonym: "EC 3.5.* (hydrolase acting on non-peptide C-N bond) inhibitor" RELATED [ChEBI] synonym: "EC 3.5.* (hydrolase acting on non-peptide C-N bond) inhibitors" RELATED [ChEBI] synonym: "EC 3.5.* (hydrolases acting on C-N bonds, other than peptide bonds) inhibitor" RELATED [ChEBI] synonym: "EC 3.5.* (hydrolases acting on C-N bonds, other than peptide bonds) inhibitors" RELATED [ChEBI] synonym: "EC 3.5.* (hydrolases acting on non-peptide C-N bonds) inhibitors" RELATED [ChEBI] synonym: "EC 3.5.* inhibitor" RELATED [ChEBI] synonym: "EC 3.5.* inhibitors" RELATED [ChEBI] is_a: CHEBI:76759 ! EC 3.* (hydrolase) inhibitor [Term] id: CHEBI:76807 name: EC 3.5.1.* (non-peptide linear amide C-N hydrolase) inhibitor namespace: chebi_ontology def: "An EC 3.5.* (hydrolases acting on non-peptide C-N bonds) inhibitor that interferes with the action of any non-peptide linear amide C-N hydrolase (EC 3.5.1.*)." [] subset: 3_STAR synonym: "EC 3.5.1.* (non-peptide linear amide C-N hydrolase) inhibitors" RELATED [ChEBI] synonym: "EC 3.5.1.* inhibitor" RELATED [ChEBI] synonym: "EC 3.5.1.* inhibitors" RELATED [ChEBI] synonym: "non-peptide linear amide C-N hydrolase (EC 3.5.1.*) inhibitor" RELATED [ChEBI] synonym: "non-peptide linear amide C-N hydrolase (EC 3.5.1.*) inhibitors" RELATED [ChEBI] is_a: CHEBI:76764 ! EC 3.5.* (hydrolases acting on non-peptide C-N bonds) inhibitor [Term] id: CHEBI:76838 name: EC 1.14.14.* (oxidoreductase acting on paired donors, incorporating of 1 atom of oxygen, with reduced flavin or flavoprotein as one donor) inhibitor namespace: chebi_ontology def: "An EC 1.14.* (oxidoreductase acting on paired donors, with incorporation or reduction of molecular oxygen) inhibitor that interferes with the action of any such enzyme incorporating one atom of oxygen and using reduced flavin or flavoprotein as donor (EC 1.14.14.*)." [] subset: 3_STAR synonym: "EC 1.14.14.* (oxidoreductase acting on paired donors, incorporating of 1 atom of oxygen, with reduced flavin or flavoprotein as one donor) inhibitors" RELATED [ChEBI] synonym: "EC 1.14.14.* (oxidoreductase acting on paired donors, with incorporation of 1 atom of oxygen, with reduced flavin or flavoprotein as one donor) inhibitor" RELATED [ChEBI] synonym: "EC 1.14.14.* (oxidoreductase acting on paired donors, with incorporation of 1 atom of oxygen, with reduced flavin or flavoprotein as one donor) inhibitors" RELATED [ChEBI] synonym: "EC 1.14.14.* inhibitor" RELATED [ChEBI] synonym: "EC 1.14.14.* inhibitors" RELATED [ChEBI] synonym: "oxidoreductase acting on paired donors, with incorporation of 1 atom of oxygen, with reduced flavin or flavoprotein as one donor (EC 1.14.14.*) inhibitor" RELATED [ChEBI] synonym: "oxidoreductase acting on paired donors, with incorporation of 1 atom of oxygen, with reduced flavin or flavoprotein as one donor (EC 1.14.14.*) inhibitors" RELATED [ChEBI] is_a: CHEBI:76741 ! EC 1.14.* (oxidoreductase acting on paired donors, with incorporation or reduction of molecular oxygen) inhibitor [Term] id: CHEBI:76870 name: EC 1.9.3.* (oxidoreductase acting on donor heme group, oxygen as acceptor) inhibitor namespace: chebi_ontology def: "An EC 1.9.* (oxidoreductase acting on donor heme group) inhibitor that interferes with the action of any such enzyme using oxygen as acceptor (EC 1.9.3.*)." [] subset: 3_STAR synonym: "EC 1.9.3.* (oxidoreductase acting on donor heme group, oxygen as acceptor) inhibitors" RELATED [ChEBI] synonym: "EC 1.9.3.* inhibitor" RELATED [ChEBI] synonym: "EC 1.9.3.* inhibitors" RELATED [ChEBI] synonym: "oxidoreductase acting on donor heme group, oxygen as acceptor (EC 1.9.3.*) inhibitor" RELATED [ChEBI] synonym: "oxidoreductase acting on donor heme group, oxygen as acceptor (EC 1.9.3.*) inhibitors" RELATED [ChEBI] is_a: CHEBI:76736 ! EC 1.9.* (oxidoreductase acting on donor heme group) inhibitor [Term] id: CHEBI:76898 name: EC 1.14.14.1 (unspecific monooxygenase) inhibitor namespace: chebi_ontology def: "An EC 1.14.14.* (oxidoreductase acting on paired donors, incorporating of 1 atom of oxygen, with reduced flavin or flavoprotein as one donor) inhibitor that interferes with the action of an unspecified monooxygenase (EC 1.14.14.1)." [] subset: 3_STAR synonym: "aryl hydrocarbon hydroxylase inhibitor" RELATED [ChEBI] synonym: "aryl hydrocarbon hydroxylase inhibitors" RELATED [ChEBI] synonym: "aryl-4-monooxygenase inhibitor" RELATED [ChEBI] synonym: "aryl-4-monooxygenase inhibitors" RELATED [ChEBI] synonym: "EC 1.14.14.1 (unspecific monooxygenase) inhibitors" RELATED [ChEBI] synonym: "EC 1.14.14.1 inhibitor" RELATED [ChEBI] synonym: "EC 1.14.14.1 inhibitors" RELATED [ChEBI] synonym: "flavoprotein monooxygenase inhibitor" RELATED [ChEBI] synonym: "flavoprotein monooxygenase inhibitors" RELATED [ChEBI] synonym: "flavoprotein-linked monooxygenase inhibitor" RELATED [ChEBI] synonym: "flavoprotein-linked monooxygenase inhibitors" RELATED [ChEBI] synonym: "microsomal monooxygenase inhibitor" RELATED [ChEBI] synonym: "microsomal monooxygenase inhibitors" RELATED [ChEBI] synonym: "microsomal P-450 inhibitor" RELATED [ChEBI] synonym: "microsomal P-450 inhibitors" RELATED [ChEBI] synonym: "substrate,reduced-flavoprotein:oxygen oxidoreductase (RH-hydroxylating or -epoxidising) inhibitor" RELATED [ChEBI] synonym: "substrate,reduced-flavoprotein:oxygen oxidoreductase (RH-hydroxylating or -epoxidising) inhibitors" RELATED [ChEBI] synonym: "unspecific monooxygenase (EC 1.14.14.1) inhibitor" RELATED [ChEBI] synonym: "unspecific monooxygenase (EC 1.14.14.1) inhibitors" RELATED [ChEBI] synonym: "unspecific monooxygenase inhibitor" RELATED [ChEBI] synonym: "unspecific monooxygenase inhibitors" RELATED [ChEBI] synonym: "xenobiotic monooxygenase inhibitor" RELATED [ChEBI] synonym: "xenobiotic monooxygenase inhibitors" RELATED [ChEBI] is_a: CHEBI:76838 ! EC 1.14.14.* (oxidoreductase acting on paired donors, incorporating of 1 atom of oxygen, with reduced flavin or flavoprotein as one donor) inhibitor [Term] id: CHEBI:76924 name: plant metabolite namespace: chebi_ontology alt_id: CHEBI:75766 alt_id: CHEBI:76925 def: "Any eukaryotic metabolite produced during a metabolic reaction in plants, the kingdom that include flowering plants, conifers and other gymnosperms." [] subset: 3_STAR synonym: "plant metabolites" RELATED [ChEBI] synonym: "plant secondary metabolites" RELATED [ChEBI] is_a: CHEBI:75763 ! eukaryotic metabolite [Term] id: CHEBI:76932 name: pathway inhibitor namespace: chebi_ontology def: "An enzyme inhibitor that interferes with one or more steps in a metabolic pathway." [] subset: 3_STAR synonym: "metabolic pathway inhibitor" RELATED [ChEBI] synonym: "metabolic pathway inhibitors" RELATED [ChEBI] synonym: "pathway inhibitors" RELATED [ChEBI] is_a: CHEBI:23924 ! enzyme inhibitor [Term] id: CHEBI:76946 name: fungal metabolite namespace: chebi_ontology alt_id: CHEBI:75765 alt_id: CHEBI:76947 def: "Any eukaryotic metabolite produced during a metabolic reaction in fungi, the kingdom that includes microorganisms such as the yeasts and moulds." [] subset: 3_STAR synonym: "fungal metabolites" RELATED [ChEBI] is_a: CHEBI:75763 ! eukaryotic metabolite [Term] id: CHEBI:76967 name: human xenobiotic metabolite namespace: chebi_ontology def: "Any human metabolite produced by metabolism of a xenobiotic compound in humans." [] subset: 3_STAR synonym: "human xenobiotic metabolites" RELATED [ChEBI] is_a: CHEBI:76206 ! xenobiotic metabolite is_a: CHEBI:77746 ! human metabolite [Term] id: CHEBI:76969 name: bacterial metabolite namespace: chebi_ontology alt_id: CHEBI:75760 alt_id: CHEBI:76970 def: "Any prokaryotic metabolite produced during a metabolic reaction in bacteria." [] subset: 3_STAR is_a: CHEBI:75787 ! prokaryotic metabolite [Term] id: CHEBI:76971 name: Escherichia coli metabolite namespace: chebi_ontology def: "Any bacterial metabolite produced during a metabolic reaction in Escherichia coli." [] subset: 3_STAR synonym: "E.coli metabolite" RELATED [ChEBI] synonym: "E.coli metabolites" RELATED [ChEBI] synonym: "Escherichia coli metabolites" RELATED [ChEBI] is_a: CHEBI:76969 ! bacterial metabolite [Term] id: CHEBI:77746 name: human metabolite namespace: chebi_ontology alt_id: CHEBI:75770 alt_id: CHEBI:77123 def: "Any mammalian metabolite produced during a metabolic reaction in humans (Homo sapiens)." [] subset: 3_STAR synonym: "H. sapiens metabolite" RELATED [ChEBI] synonym: "H. sapiens metabolites" RELATED [ChEBI] synonym: "Homo sapiens metabolite" RELATED [ChEBI] synonym: "Homo sapiens metabolites" RELATED [ChEBI] is_a: CHEBI:75768 ! mammalian metabolite [Term] id: CHEBI:77941 name: EC 3.5.1.4 (amidase) inhibitor namespace: chebi_ontology def: "An EC 3.5.1.* (non-peptide linear amide C-N hydrolase) inhibitor that interferes with the action of amidase (EC 3.5.1.4)." [] subset: 3_STAR synonym: "acylamidase inhibitor" RELATED [ChEBI] synonym: "acylamidase inhibitors" RELATED [ChEBI] synonym: "acylamide amidohydrolase inhibitor" RELATED [ChEBI] synonym: "acylamide amidohydrolase inhibitors" RELATED [ChEBI] synonym: "amidase (EC 3.5.1.4) inhibitor" RELATED [ChEBI] synonym: "amidase (EC 3.5.1.4) inhibitors" RELATED [ChEBI] synonym: "amidase inhibitor" RELATED [ChEBI] synonym: "amidase inhibitors" RELATED [ChEBI] synonym: "amidohydrolase inhibitor" RELATED [ChEBI] synonym: "amidohydrolase inhibitors" RELATED [ChEBI] synonym: "deaminase inhibitor" RELATED [ChEBI] synonym: "deaminase inhibitors" RELATED [ChEBI] synonym: "EC 3.5.1.4 (amidase) inhibitors" RELATED [ChEBI] synonym: "EC 3.5.1.4 inhibitor" RELATED [ChEBI] synonym: "EC 3.5.1.4 inhibitors" RELATED [ChEBI] synonym: "fatty acylamidase inhibitor" RELATED [ChEBI] synonym: "fatty acylamidase inhibitors" RELATED [ChEBI] synonym: "N-acetylaminohydrolase inhibitor" RELATED [ChEBI] synonym: "N-acetylaminohydrolase inhibitors" RELATED [ChEBI] xref: Wikipedia:Amidase is_a: CHEBI:76807 ! EC 3.5.1.* (non-peptide linear amide C-N hydrolase) inhibitor [Term] id: CHEBI:77974 name: food packaging gas namespace: chebi_ontology def: "A food additive that is a (generally inert) gas which is used to envelop foodstuffs during packing and so protect them from unwanted chemical reactions such as food spoilage or oxidation during subsequent transport and storage. The term includes propellant gases, used to expel foods from a container." [] subset: 3_STAR synonym: "food packaging gases" RELATED [ChEBI] xref: Wikipedia:Packaging_gas is_a: CHEBI:64047 ! food additive [Term] id: CHEBI:78017 name: food propellant namespace: chebi_ontology def: "A propellant that is used to expel foods from an aerosol container." [] subset: 3_STAR synonym: "food propellants" RELATED [ChEBI] is_a: CHEBI:64047 ! food additive is_a: CHEBI:76414 ! propellant [Term] id: CHEBI:78295 name: food component namespace: chebi_ontology def: "A physiological role played by any substance that is distributed in foodstuffs. It includes materials derived from plants or animals, such as vitamins or minerals, as well as environmental contaminants." [] def: "Any substance that is distributed in foodstuffs. It includes materials derived from plants or animals, such as vitamins or minerals, as well as environmental contaminants." [] subset: 3_STAR synonym: "dietary component" RELATED [ChEBI] synonym: "dietary components" RELATED [ChEBI] synonym: "food components" RELATED [ChEBI] is_a: CHEBI:52211 ! physiological role [Term] id: CHEBI:78433 name: refrigerant namespace: chebi_ontology def: "A substance used in a thermodynamic heat pump cycle or refrigeration cycle that undergoes a phase change from a gas to a liquid and back. Refrigerants are used in air-conditioning systems and freezers or refrigerators and are assigned a \"R\" number (by ASHRAE - formerly the American Society of Heating, Refrigerating and Air Conditioning Engineers), which is determined systematically according to their molecular structure." [] subset: 3_STAR synonym: "refrigerants" RELATED [ChEBI] xref: Wikipedia:Refrigerant is_a: CHEBI:33232 ! application [Term] id: CHEBI:78608 name: alpha-amino acid zwitterion namespace: chebi_ontology alt_id: CHEBI:83409 def: "An amino acid zwitterion obtained by transfer of a proton from the carboxy to the amino group of any alpha-amino acid; major species at pH 7.3." [] subset: 3_STAR synonym: "an alpha-amino acid" RELATED [UniProt] xref: MetaCyc:Alpha-Amino-Acids {source="SUBMITTER"} is_a: CHEBI:35238 ! amino acid zwitterion relationship: is_tautomer_of CHEBI:33704 ! alpha-amino acid property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C2H4NO2R" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "74.059" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "74.02420" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[NH3+]C([*])C([O-])=O" xsd:string [Term] id: CHEBI:78616 name: carbohydrates and carbohydrate derivatives namespace: chebi_ontology def: "Any organooxygen compound that is a polyhydroxy-aldehyde or -ketone, or a compound derived from one. Carbohydrates contain only carbon, hydrogen and oxygen and usually have an empirical formula Cm(H2O)n; carbohydrate derivatives may contain other elements by substitution or condensation." [] subset: 3_STAR synonym: "carbohydrates and derivatives" RELATED [ChEBI] synonym: "carbohydrates and their derivatives" RELATED [ChEBI] is_a: CHEBI:36963 ! organooxygen compound [Term] id: CHEBI:79387 name: trivalent inorganic anion namespace: chebi_ontology def: "Any inorganic anion with a valency of three." [] subset: 3_STAR synonym: "trivalent inorganic anions" RELATED [ChEBI] is_a: CHEBI:24834 ! inorganic anion [Term] id: CHEBI:79388 name: divalent inorganic anion namespace: chebi_ontology def: "Any inorganic anion with a valency of two." [] subset: 3_STAR synonym: "divalent inorganic anions" RELATED [ChEBI] is_a: CHEBI:24834 ! inorganic anion [Term] id: CHEBI:79389 name: monovalent inorganic anion namespace: chebi_ontology def: "Any inorganic anion with a valency of one." [] subset: 3_STAR synonym: "monovalent inorganic anions" RELATED [ChEBI] is_a: CHEBI:24834 ! inorganic anion [Term] id: CHEBI:83348 name: chlorophyllide a(2-) namespace: chebi_ontology def: "A cyclic tetrapyrrole anion arising from deprotonation of the carboxy group and the C-21 posiiton of chlorophyllide a. It is the major microspecies at pH 7.3 (according to Marvin v 6.2.0.)." [] subset: 3_STAR synonym: "chlorophyllide a" RELATED [UniProt] is_a: CHEBI:139292 ! chlorophyllide(2-) relationship: is_conjugate_base_of CHEBI:57942 ! chlorophyllide a(1-) property_value: http://purl.obolibrary.org/obo/chebi/charge "-2" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C35H32MgN4O5" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C35H35N4O5.Mg/c1-8-19-15(3)22-12-24-17(5)21(10-11-28(40)41)32(38-24)30-31(35(43)44-7)34(42)29-18(6)25(39-33(29)30)14-27-20(9-2)16(4)23(37-27)13-26(19)36-22;/h8,12-14,17,21H,1,9-11H2,2-7H3,(H3,36,37,38,39,40,41,42);/q-1;+2/p-3/t17-,21-;/m0./s1" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/inchikey "IZOAGQOHKWGYKF-PVMVIUQGSA-K" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/mass "612.95800" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "612.22341" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "CCC1=C(C)C2=[N+]3C1=Cc1c(C)c4C(=O)[C-](C(=O)OC)C5=C6[C@@H](CCC([O-])=O)[C@H](C)C7=[N+]6[Mg--]3(n1c45)n1c(=C7)c(C)c(C=C)c1=C2" xsd:string [Term] id: CHEBI:84729 name: hydroxyindoles namespace: chebi_ontology def: "Any member of the class of indoles carrying at least one hydroxy group." [] subset: 3_STAR is_a: CHEBI:24828 ! indoles is_a: CHEBI:33822 ! organic hydroxy compound [Term] id: CHEBI:84735 name: algal metabolite namespace: chebi_ontology def: "Any eukaryotic metabolite produced during a metabolic reaction in algae including unicellular organisms like chlorella and diatoms to multicellular organisms like giant kelps and brown algae." [] subset: 3_STAR synonym: "algal metabolites" RELATED [ChEBI] is_a: CHEBI:75763 ! eukaryotic metabolite [Term] id: CL:0000000 name: cell namespace: cell def: "A material entity of anatomical origin (part of or deriving from an organism) that has as its parts a maximally connected cell compartment surrounded by a plasma membrane." [CARO:mah] comment: The definition of cell is intended to represent all cells, and thus a cell is defined as a material entity and not an anatomical structure, which implies that it is part of an organism (or the entirety of one). subset: ubprop:upper_level xref: CALOHA:TS-2035 xref: FMA:68646 xref: GO:0005623 xref: KUPO:0000002 xref: VHOG:0001533 xref: WBbt:0004017 xref: XAO:0003012 disjoint_from: GO:0031012 ! extracellular matrix disjoint_from: GO:0032991 ! protein-containing complex disjoint_from: GO:0043226 ! organelle relationship: has_part GO:0005634 {gci_filler="PATO:0001407", gci_relation="bearer_of"} ! nucleus relationship: has_part GO:0005634 {gci_filler="PATO:0001908", gci_relation="bearer_of"} ! nucleus relationship: only_in_taxon NCBITaxon:131567 ! cellular organisms property_value: IAO:0000412 http://purl.obolibrary.org/obo/cl.owl [Term] id: CL:0000003 name: native cell namespace: cell def: "A cell that is found in a natural setting, which includes multicellular organism cells 'in vivo' (i.e. part of an organism), and unicellular organisms 'in environment' (i.e. part of a natural environment)." [CARO:mah] comment: To accommodate unicellular organisms better, 'cell in vivo' has been re-labeled 'native cell' to better represent its intended meaning - that is, that it is a cell in the context of a multicellular organism or in a natural environment. 'Native' is intended to contrast with 'in vitro', which refers to cells or other biological entities that have been intentionally placed in a controlled, non-natural setting for the purpose of study or manipulation. (MAH 1.12.12). subset: ubprop:upper_level synonym: "cell in vivo" NARROW [] xref: CARO:0000013 is_a: CL:0000000 ! cell [Term] id: CL:0000005 name: fibroblast neural crest derived namespace: cell def: "Any fibroblast that is deriived from the neural crest." [https://orcid.org/0000-0001-5208-3432] is_a: CL:0000057 ! fibroblast intersection_of: CL:0000057 ! fibroblast intersection_of: develops_from CL:0000333 ! migratory neural crest cell relationship: develops_from CL:0000008 ! migratory cranial neural crest cell [Term] id: CL:0000006 name: neuronal receptor cell namespace: cell synonym: "neuronal receptor cell (sensu Animalia)" EXACT [] is_a: CL:0000101 ! sensory neuron is_a: CL:0000197 ! sensory receptor cell intersection_of: CL:0000197 ! sensory receptor cell intersection_of: CL:0000540 ! neuron intersection_of: capable_of GO:0050906 ! detection of stimulus involved in sensory perception [Term] id: CL:0000007 name: early embryonic cell (metazoa) namespace: cell def: "A cell found in the embryo before the formation of all the gem layers is complete." [GOC:tfm] is_a: CL:0002321 ! embryonic cell (metazoa) [Term] id: CL:0000008 name: migratory cranial neural crest cell namespace: cell def: "Cell that is part of the migratory cranial neural crest population. Migratory cranial neural crest cells develop from premigratory cranial neural crest cells and have undergone epithelial to mesenchymal transition and delamination." [https://orcid.org/0000-0001-5208-3432, ZFA:0007091] is_a: CL:0000333 ! migratory neural crest cell [Term] id: CL:0000011 name: migratory trunk neural crest cell namespace: cell def: "Cell that is part of the migratory trunk neural crest population. Migratory trunk neural crest cells develop from premigratory trunk neural crest cells and have undergone epithelial to mesenchymal transition and delamination." [https://orcid.org/0000-0001-5208-3432, ZFA:0007095] is_a: CL:0000333 ! migratory neural crest cell [Term] id: CL:0000014 name: germ line stem cell namespace: cell synonym: "germline stem cell" EXACT [] is_a: CL:0000034 {is_inferred="true"} ! stem cell is_a: CL:0000039 {is_inferred="true"} ! germ line cell intersection_of: CL:0000039 ! germ line cell intersection_of: capable_of GO:0017145 ! stem cell division [Term] id: CL:0000027 name: smooth muscle cell neural crest derived namespace: cell def: "A smooth muscle cell derived from the neural crest." [https://orcid.org/0000-0001-5208-3432] is_a: CL:0000192 {is_inferred="true"} ! smooth muscle cell intersection_of: CL:0000192 ! smooth muscle cell intersection_of: develops_from CL:0000333 ! migratory neural crest cell relationship: develops_from CL:0000008 ! migratory cranial neural crest cell [Term] id: CL:0000029 name: neural crest derived neuron namespace: cell synonym: "neuron neural crest derived" EXACT [] is_a: CL:0000540 {is_inferred="true"} ! neuron intersection_of: CL:0000540 ! neuron intersection_of: develops_from CL:0000333 ! migratory neural crest cell relationship: develops_from CL:0002676 ! neural crest derived neuroblast [Term] id: CL:0000030 name: glioblast namespace: cell xref: FBbt:00005145 is_a: CARO:0000000 ! anatomical entity is_a: CL:0000055 ! non-terminally differentiated cell relationship: develops_from CL:0000133 ! neurectodermal cell [Term] id: CL:0000031 name: neuroblast (sensu Vertebrata) namespace: cell alt_id: CL:0000337 def: "A cell that will develop into a neuron often after a migration phase." [GOC:NV, http://en.wikipedia.org/wiki/Neuroblast] synonym: "neuroblast" EXACT [] xref: BTO:0000930 xref: FMA:70563 is_a: CL:0000055 ! non-terminally differentiated cell is_a: CL:0000548 ! animal cell relationship: only_in_taxon NCBITaxon:7742 ! Vertebrata [Term] id: CL:0000034 name: stem cell namespace: cell def: "A relatively undifferentiated cell that retains the ability to divide and proliferate throughout life to provide progenitor cells that can differentiate into specialized cells." [GOC:tfm, MESH:A11.872] comment: This term applies to metazoan. For plant stem cells, consider using PO:0004011 ‘initial cell’ or its parent PO:0004010 ‘meristematic cell’. synonym: "animal stem cell" EXACT [] xref: CALOHA:TS-2086 xref: FMA:63368 is_a: CL:0011115 ! precursor cell intersection_of: CL:0000003 ! native cell intersection_of: capable_of GO:0017145 ! stem cell division relationship: capable_of GO:0017145 ! stem cell division relationship: in_taxon NCBITaxon:33208 ! Metazoa [Term] id: CL:0000035 name: single fate stem cell namespace: cell def: "A stem cell that self-renews as well as give rise to a single mature cell type." [GOC:tfm] synonym: "unipotent stem cell" EXACT [] synonym: "unipotential stem cell" EXACT [] xref: FMA:70569 is_a: CL:0000723 ! somatic stem cell intersection_of: CL:0000003 ! native cell intersection_of: bearer_of PATO:0001400 ! unipotent intersection_of: capable_of GO:0017145 ! stem cell division relationship: bearer_of PATO:0001400 ! unipotent [Term] id: CL:0000037 name: hematopoietic stem cell namespace: cell def: "A stem cell from which all cells of the lymphoid and myeloid lineages develop, including blood cells and cells of the immune system. Hematopoietic stem cells lack cell markers of effector cells (lin-negative). Lin-negative is defined by lacking one or more of the following cell surface markers: CD2, CD3 epsilon, CD4, CD5 ,CD8 alpha chain, CD11b, CD14, CD19, CD20, CD56, ly6G, ter119." [GOC:add, GOC:dsd, GOC:tfm, http://en.wikipedia.org/wiki/Hematopoietic_stem_cell, PMID:19022770] comment: Markers differ between species, and two sets of markers have been described for mice. HSCs are reportedly CD34-positive, CD45-positive, CD48-negative, CD150-positive, CD133-positive, and CD244-negative. synonym: "blood forming stem cell" EXACT [] synonym: "colony forming unit hematopoietic" RELATED [] synonym: "hemopoietic stem cell" EXACT [] synonym: "HSC" EXACT [] xref: BTO:0000725 xref: CALOHA:TS-0448 xref: FMA:70337 xref: FMA:86475 xref: VHOG:0001485 is_a: CL:0000723 ! somatic stem cell is_a: CL:0008001 ! hematopoietic precursor cell is_a: CL:0011026 ! progenitor cell intersection_of: CL:0000988 ! hematopoietic cell intersection_of: capable_of GO:0002244 ! hematopoietic progenitor cell differentiation intersection_of: capable_of GO:0048103 ! somatic stem cell division intersection_of: lacks_plasma_membrane_part PR:000001002 ! CD19 molecule intersection_of: lacks_plasma_membrane_part PR:000001004 ! CD4 molecule intersection_of: lacks_plasma_membrane_part PR:000001012 ! integrin alpha-M intersection_of: lacks_plasma_membrane_part PR:000001020 ! CD3 epsilon intersection_of: lacks_plasma_membrane_part PR:000001024 ! neural cell adhesion molecule 1 intersection_of: lacks_plasma_membrane_part PR:000001083 ! CD2 molecule intersection_of: lacks_plasma_membrane_part PR:000001084 ! T-cell surface glycoprotein CD8 alpha chain intersection_of: lacks_plasma_membrane_part PR:000001289 ! membrane-spanning 4-domains subfamily A member 1 intersection_of: lacks_plasma_membrane_part PR:000001839 ! T-cell surface glycoprotein CD5 intersection_of: lacks_plasma_membrane_part PR:000001889 ! CD14 molecule intersection_of: lacks_plasma_membrane_part PR:000002978 ! lymphocyte antigen 6G intersection_of: lacks_plasma_membrane_part PR:000002981 ! lymphocyte antigen 76 (mouse) relationship: capable_of GO:0002244 ! hematopoietic progenitor cell differentiation relationship: develops_from CL:0000566 ! angioblastic mesenchymal cell relationship: lacks_plasma_membrane_part PR:000001002 ! CD19 molecule relationship: lacks_plasma_membrane_part PR:000001004 ! CD4 molecule relationship: lacks_plasma_membrane_part PR:000001012 ! integrin alpha-M relationship: lacks_plasma_membrane_part PR:000001020 ! CD3 epsilon relationship: lacks_plasma_membrane_part PR:000001024 ! neural cell adhesion molecule 1 relationship: lacks_plasma_membrane_part PR:000001083 ! CD2 molecule relationship: lacks_plasma_membrane_part PR:000001084 ! T-cell surface glycoprotein CD8 alpha chain relationship: lacks_plasma_membrane_part PR:000001289 ! membrane-spanning 4-domains subfamily A member 1 relationship: lacks_plasma_membrane_part PR:000001839 ! T-cell surface glycoprotein CD5 relationship: lacks_plasma_membrane_part PR:000001889 ! CD14 molecule relationship: lacks_plasma_membrane_part PR:000002978 ! lymphocyte antigen 6G relationship: lacks_plasma_membrane_part PR:000002981 ! lymphocyte antigen 76 (mouse) [Term] id: CL:0000038 name: erythroid progenitor cell namespace: cell def: "A progenitor cell committed to the erythroid lineage." [GOC:add, ISBN:0721601464] synonym: "BFU-E" RELATED [] synonym: "blast forming unit erythroid" RELATED [] synonym: "burst forming unit erythroid" RELATED [] synonym: "CFU-E" RELATED [] synonym: "colony forming unit erythroid" RELATED [] synonym: "erythroid stem cell" RELATED [] xref: BTO:0004911 is_a: CL:0000764 ! erythroid lineage cell is_a: CL:0000839 {is_inferred="true"} ! myeloid lineage restricted progenitor cell relationship: develops_from CL:0000050 ! megakaryocyte-erythroid progenitor cell [Term] id: CL:0000039 name: germ line cell namespace: cell def: "A cell that is within the developmental lineage of gametes and is able to pass along its genetic material to offspring." [GOC:tfm, ISBN:0721662544] comment: Originally this term had some plant germ line cell children. subset: ubprop:upper_level is_a: BFO:0000040 ! material entity is_a: CL:0000003 ! native cell disjoint_from: CL:0002371 ! somatic cell relationship: capable_of GO:0022414 ! reproductive process [Term] id: CL:0000047 name: neuronal stem cell namespace: cell def: "Neural stem cell is characterized as an undifferentiated cell that originates from the neuroectoderm and has the capacity both to perpetually self-renew without differentiating and to generate multiple types of lineage-restricted progenitors." [GOC:tfm, http://en.wikipedia.org/wiki/Neural_stem_cell, MESH:D058953, PMID:15247488] synonym: "neural stem cell" EXACT [] synonym: "NSC" EXACT [] xref: BTO:0002881 xref: CALOHA:TS-2360 xref: FMA:86684 is_a: CARO:0000000 ! anatomical entity is_a: CL:0000048 {is_inferred="true"} ! multi fate stem cell intersection_of: CL:0000048 ! multi fate stem cell intersection_of: part_of UBERON:0001017 ! central nervous system relationship: develops_from CL:0000133 ! neurectodermal cell relationship: part_of UBERON:0001017 ! central nervous system [Term] id: CL:0000048 name: multi fate stem cell namespace: cell def: "A stem cell that can give rise to multiple lineages of cells." [GOC:add] synonym: "multi-fate stem cell" EXACT [] synonym: "multifate stem cell" EXACT [] synonym: "multipotent cell" EXACT [] synonym: "multipotent stem cell" EXACT [] xref: FMA:84789 is_a: CL:0000034 ! stem cell is_a: CL:0002371 ! somatic cell intersection_of: CL:0002371 ! somatic cell intersection_of: bearer_of PATO:0001402 ! multipotent intersection_of: capable_of GO:0017145 ! stem cell division relationship: bearer_of PATO:0001402 ! multipotent [Term] id: CL:0000049 name: common myeloid progenitor namespace: cell def: "A progenitor cell committed to myeloid lineage, including the megakaryocyte and erythroid lineages." [GOC:add, ISBN:0878932437, MESH:D023461] comment: This cell type is intended to be compatible with any vertebrate common myeloid progenitor. For mammalian CMP known to be CD34-positive, please use the term 'common myeloid progenitor, CD34-positive' (CL_0001059). synonym: "CFU-GEMM" RELATED [ISBN:0878932437] synonym: "CFU-S" RELATED [ISBN:0878932437] synonym: "CMP" EXACT [ISBN:0878932437] synonym: "colony forming unit granulocyte, erythrocyte, macrophage, and megakaryocyte" RELATED [ISBN:0878932437] synonym: "common myeloid precursor" EXACT [] synonym: "multipotential myeloid stem cell" RELATED [ISBN:0878932437] synonym: "myeloid stem cell" RELATED [ISBN:0878932437] synonym: "pluripotent stem cell (bone marrow)" RELATED [ISBN:0878932437] xref: BTO:0004730 is_a: CL:0002032 {is_inferred="true"} ! hematopoietic oligopotent progenitor cell disjoint_from: CL:0000050 ! megakaryocyte-erythroid progenitor cell [Term] id: CL:0000050 name: megakaryocyte-erythroid progenitor cell namespace: cell def: "A progenitor cell committed to the megakaryocyte and erythroid lineages." [GOC:add, GOC:dsd, GOC:tfm, http://en.wikipedia.org/wiki/Megakaryocyte-erythroid_progenitor_cell, MESH:D055015, PMID:16647566] comment: MEPs are reportedly CD19-negative, CD34-negative, CD45RA-negative, CD110-positive, CD117-positive, and SCA1-negative and reportedly express the transcription factors GATA-1 and NF-E2. synonym: "CFU-EM" EXACT [] synonym: "CFU-MegE" EXACT [] synonym: "colony forming unit erythroid megakaryocyte" EXACT [] synonym: "Meg/E progenitor" EXACT [] synonym: "megakaryocyte/erythrocyte progenitor" EXACT [] synonym: "megakaryocyte/erythroid progenitor cell" EXACT [] synonym: "MEP" EXACT [] is_a: CL:0000763 ! myeloid cell is_a: CL:0002032 {is_inferred="true"} ! hematopoietic oligopotent progenitor cell is_a: CL:0011026 ! progenitor cell intersection_of: CL:0002032 ! hematopoietic oligopotent progenitor cell intersection_of: capable_of GO:0030218 ! erythrocyte differentiation intersection_of: capable_of GO:0030219 ! megakaryocyte differentiation relationship: capable_of GO:0030218 ! erythrocyte differentiation relationship: capable_of GO:0030219 ! megakaryocyte differentiation [Term] id: CL:0000052 name: totipotent stem cell namespace: cell def: "A stem cell from which all cells of the body can form." [GOC:add, GOC:tfm] synonym: "totipotential stem cell" EXACT [] xref: FMA:84790 is_a: CL:0000723 ! somatic stem cell [Term] id: CL:0000055 name: non-terminally differentiated cell namespace: cell def: "A precursor cell with a limited number of potential fates." [SANBI:mhl] comment: define using PATO mulit-potent or oligopotent? synonym: "blast cell" EXACT [] xref: BTO:0000125 xref: FMA:84782 is_a: CL:0011115 ! precursor cell [Term] id: CL:0000056 name: myoblast namespace: cell def: "A cell that is commited to differentiating into a muscle cell. Embryonic myoblasts develop from the mesoderm. They undergo proliferation, migrate to their various sites, and then differentiate into the appropriate form of myocytes. Myoblasts also occur as transient populations of cells in muscles undergoing repair." [GOC:tfm, MESH:A11.635, PMID:21849021] xref: BTO:0000222 xref: CALOHA:TS-0650 xref: FBbt:00005083 xref: FMA:70335 xref: VHOG:0001529 is_a: CL:0000680 ! muscle precursor cell [Term] id: CL:0000057 name: fibroblast namespace: cell def: "A connective tissue cell which secretes an extracellular matrix rich in collagen and other macromolecules. Flattened and irregular in outline with branching processes; appear fusiform or spindle-shaped." [http://en.wikipedia.org/wiki/Fibroblast, ISBN:0517223651, MESH:A11.329.228, MESH:D005347] comment: These cells may be vimentin-positive, fibronectin-positive, fsp1-positive, MMP-1-positive, collagen I-positive, collagen III-positive, and alpha-SMA-negative. xref: BTO:0000452 xref: CALOHA:TS-0362 xref: FMA:63877 xref: VHOG:0001482 is_a: CARO:0000000 ! anatomical entity is_a: CL:0002320 ! connective tissue cell relationship: develops_from CL:0000134 ! mesenchymal stem cell [Term] id: CL:0000058 name: chondroblast namespace: cell def: "Skeletogenic cell that is typically non-terminally differentiated, secretes an avascular, GAG rich matrix; is not buried in cartilage tissue matrix, retains the ability to divide, located adjacent to cartilage tissue (including within the perichondrium), and develops from prechondroblast (and thus prechondrogenic) cell." [GO_REF:0000034, GOC:tfm, ISBN:0618947256] synonym: "chrondoplast" EXACT [] xref: BTO:0003607 xref: FMA:66783 is_a: CARO:0000000 ! anatomical entity is_a: CL:0000055 ! non-terminally differentiated cell is_a: CL:0002320 ! connective tissue cell relationship: develops_from CL:0007009 ! prechondroblast relationship: produces UBERON:0002418 ! cartilage tissue [Term] id: CL:0000064 name: ciliated cell namespace: cell def: "A cell that has a filiform extrusion of the cell surface." [GOC:tfm] xref: VHOG:0001532 xref: XAO:0000031 is_a: CL:0000003 ! native cell intersection_of: CL:0000003 ! native cell intersection_of: has_part GO:0005929 ! cilium relationship: has_part GO:0005929 ! cilium [Term] id: CL:0000066 name: epithelial cell namespace: cell def: "A cell that is usually found in a two-dimensional sheet with a free surface. The cell has a cytoskeleton that allows for tight cell to cell contact and for cell polarity where apical part is directed towards the lumen and the basal part to the basal lamina." [FB:ma, GOC:tfm, MESH:A11.436] synonym: "epitheliocyte" EXACT [] xref: BTO:0000414 xref: CALOHA:TS-2026 xref: CARO:0000077 xref: FBbt:00000124 xref: FMA:66768 xref: WBbt:0003672 is_a: BFO:0000004 ! independent continuant is_a: CL:0000548 ! animal cell disjoint_from: CL:0000738 ! leukocyte relationship: part_of UBERON:0000483 ! epithelium [Term] id: CL:0000067 name: ciliated epithelial cell namespace: cell def: "An epithelial cell that has a cilia." [GOC:tfm] xref: FMA:70605 is_a: CL:0000064 ! ciliated cell is_a: CL:0000066 ! epithelial cell intersection_of: CL:0000066 ! epithelial cell intersection_of: has_part GO:0005929 ! cilium [Term] id: CL:0000068 name: duct epithelial cell namespace: cell def: "An epithelial cell that is part of a duct." [https://orcid.org/0000-0001-5208-3432] is_a: CL:0000066 ! epithelial cell is_a: CL:0002371 ! somatic cell intersection_of: CL:0000066 ! epithelial cell intersection_of: part_of UBERON:0000058 ! duct relationship: part_of UBERON:0000058 ! duct [Term] id: CL:0000071 name: blood vessel endothelial cell namespace: cell def: "An endothelial cell that lines the vasculature." [GOC:tfm] synonym: "cuboidal endothelial cell of vascular tree" EXACT [] is_a: CL:0000076 {is_inferred="true"} ! squamous epithelial cell is_a: CL:0002139 ! endothelial cell of vascular tree intersection_of: CL:0000076 ! squamous epithelial cell intersection_of: part_of UBERON:0004638 ! blood vessel endothelium relationship: develops_from CL:0002546 ! embryonic blood vessel endothelial progenitor cell relationship: part_of UBERON:0004638 ! blood vessel endothelium [Term] id: CL:0000075 name: columnar/cuboidal epithelial cell namespace: cell def: "A columnar/cuboidal epithelial cell is a cell usually found in a two dimensional sheet with a free surface. Columnar/cuboidal epithelial cells take on the shape of a column or cube." [GO:0002065, https://orcid.org/0000-0001-5208-3432] is_a: CL:0000066 ! epithelial cell is_a: CL:0002371 ! somatic cell [Term] id: CL:0000076 name: squamous epithelial cell namespace: cell xref: CALOHA:TS-1249 is_a: CL:0000066 ! epithelial cell [Term] id: CL:0000077 name: mesothelial cell namespace: cell def: "A flattened epithelial cell of mesenchymal origin that lines the serous cavity." [GOC:tfm, ISBN:0721662544] synonym: "mesotheliocyte" EXACT [] xref: FMA:66773 is_a: CL:0000076 ! squamous epithelial cell is_a: CL:0000213 ! lining cell is_a: CL:0002078 ! meso-epithelial cell [Term] id: CL:0000080 name: circulating cell namespace: cell def: "A cell which moves among different tissues of the body, via blood, lymph, or other medium." [GOC:add] is_a: BFO:0000004 ! independent continuant is_a: CL:0000003 ! native cell intersection_of: CL:0000003 ! native cell intersection_of: part_of UBERON:0000179 ! haemolymphatic fluid relationship: part_of UBERON:0000179 ! haemolymphatic fluid [Term] id: CL:0000081 name: blood cell namespace: cell def: "A cell found predominately in the blood." [GOC:add, GOC:tfm] xref: FMA:62844 is_a: BFO:0000040 ! material entity is_a: CL:0000988 {is_inferred="true"} ! hematopoietic cell intersection_of: CL:0000988 ! hematopoietic cell intersection_of: capable_of GO:0008015 ! blood circulation relationship: capable_of GO:0008015 ! blood circulation [Term] id: CL:0000082 name: epithelial cell of lung namespace: cell def: "An epithelial cell of the lung." [https://orcid.org/0000-0001-5208-3432] synonym: "lung epithelial cell" EXACT [] xref: BTO:0004299 is_a: CARO:0000000 ! anatomical entity is_a: CL:0000066 ! epithelial cell intersection_of: CL:0000066 ! epithelial cell intersection_of: part_of UBERON:0002048 ! lung relationship: part_of UBERON:0000115 ! lung epithelium [Term] id: CL:0000095 name: neuron associated cell namespace: cell is_a: CL:0002319 ! neural cell relationship: develops_from CL:0000133 ! neurectodermal cell [Term] id: CL:0000098 name: sensory epithelial cell namespace: cell def: "A specialized epithelial cell involved in sensory perception. Restricted to special sense organs of the olfactory, gustatory, and vestibulocochlear receptor systems; contain sensory cells surrounded by supportive, non-receptive cells." [GOC:tfm, ISBN:0517223651, ISBN:0721662544] comment: The term "neuroepithelial cell" is used to describe both this cell type and neurecto-epithelial cell (CL:0000710). synonym: "neuroepithelial cell" BROAD [] xref: BTO:0004301 is_a: CL:0000066 ! epithelial cell is_a: CL:0000197 ! sensory receptor cell is_a: CL:0002371 ! somatic cell intersection_of: CL:0000066 ! epithelial cell intersection_of: capable_of GO:0050906 ! detection of stimulus involved in sensory perception [Term] id: CL:0000099 name: interneuron namespace: cell def: "Most generally any neuron which is not motor or sensory. Interneurons may also refer to neurons whose axons remain within a particular brain region as contrasted with projection neurons which have axons projecting to other brain regions." [GOC:tfm, MESH:A08.663.358] xref: BTO:0003811 xref: FBbt:00005125 xref: FMA:67313 xref: WBbt:0005113 is_a: CL:0000540 ! neuron [Term] id: CL:0000100 name: motor neuron namespace: cell def: "An efferent neuron that passes from the central nervous system or a ganglion toward or to a muscle and conducts an impulse that causes or inhibits movement." [MESH:A08.663.655.500, PMID:16875686] synonym: "motoneuron" EXACT [] xref: BTO:0000312 xref: FMA:83617 xref: WBbt:0005409 is_a: CL:0000527 ! efferent neuron [Term] id: CL:0000101 name: sensory neuron namespace: cell def: "Any neuron having a sensory function; an afferent neuron conveying sensory impulses." [ISBN:0721662544] xref: BTO:0001037 xref: FBbt:00005124 xref: FMA:84649 xref: WBbt:0005759 is_a: CL:0000526 ! afferent neuron intersection_of: CL:0000540 ! neuron intersection_of: capable_of GO:0050906 ! detection of stimulus involved in sensory perception relationship: capable_of GO:0050906 ! detection of stimulus involved in sensory perception [Term] id: CL:0000107 name: autonomic neuron namespace: cell def: "A neuron whose cell body is within an autonomic ganglion." [GOC:tfm] xref: FMA:80121 is_a: CL:2000032 ! peripheral nervous system neuron intersection_of: CL:0000540 ! neuron intersection_of: RO:0002100 UBERON:0002410 ! has soma location autonomic nervous system relationship: RO:0002100 UBERON:0002410 ! has soma location autonomic nervous system [Term] id: CL:0000115 name: endothelial cell namespace: cell def: "An endothelial cell comprises the outermost layer or lining of anatomical structures and can be squamous or cuboidal. In mammals, endothelial cell has vimentin filaments and is derived from the mesoderm." [GOC:tfm, http://en.wikipedia.org/wiki/Endothelial_cell, https://sourceforge.net/tracker/?func=detail&atid=440764&aid=3364936&group_id=36855, MESH:D042783, PMID:21275341] comment: From FMA: 9.07.2001: Endothelial cell has always been classified as a kind of epithelial cell, specifically a squamous cell but that is not true. First, endothelial cell can either be squamous or cuboidal (e.g. high-endothelial cell) and secondly, it has different embryological derivation (mesodermal) than a true epithelial cell (ectodermal and endodermal). The basis for present classification is the fact that it comprises the outermost layer or lining of anatomical structures (location-based) but a better structural basis for the differentia is the cytoskeleton of the cell. Endothelial cell has vimentin filaments while an epithelial cell has keratin filaments. [Onard]. synonym: "endotheliocyte" EXACT [] xref: BTO:0001176 xref: CALOHA:TS-0278 xref: FMA:66772 is_a: CL:0000213 ! lining cell is_a: CL:0002078 ! meso-epithelial cell [Term] id: CL:0000117 name: CNS neuron (sensu Vertebrata) namespace: cell is_a: CL:0000540 ! neuron relationship: develops_from CL:0000031 ! neuroblast (sensu Vertebrata) relationship: part_of UBERON:0001017 ! central nervous system [Term] id: CL:0000125 name: glial cell namespace: cell def: "A non-neuronal cell of the nervous system. They not only provide physical support, but also respond to injury, regulate the ionic and chemical composition of the extracellular milieu. Guide neuronal migration during development, and exchange metabolites with neurons." [MESH:A08.637] synonym: "neuroglia" RELATED [] synonym: "neuroglial cell" EXACT [] xref: BTO:0002606 xref: CALOHA:TS-0415 xref: FMA:54536 is_a: CL:0000095 ! neuron associated cell relationship: develops_from CL:0000030 {comment="It is unclear that all glial cells develop from a cell type called a glioblast. Radial glial cells develop from neuroepithelial cells and other types of glial cells develop from other precursors. Unless glioblast is meant to describe any cell that can give rise to a glial cell, this relationship needs further investigation."} ! glioblast [Term] id: CL:0000133 name: neurectodermal cell namespace: cell def: "Ectoderm destined to be nervous tissue." [GOC:tfm, ISBN:068340007X] synonym: "neurectoderm cell" EXACT [] is_a: CL:0000221 ! ectodermal cell [Term] id: CL:0000134 name: mesenchymal stem cell namespace: cell alt_id: CL:0002452 def: "A connective tissue cell that normally gives rise to other cells that are organized as three-dimensional masses. In humans, this cell type is CD73-positive, CD90-positive, CD105-positive, CD45-negative, CD34-negative, and MHCII-negative. They may further differentiate into osteoblasts, adipocytes, myocytes, neurons, or chondroblasts in vitro. Originally described as residing in the bone marrow, this cell type is now known to reside in many, if not all, adult organs." [FB:ma, GOC:dsd, http://en.wikipedia.org/wiki/Mesenchymal_stem_cell, http://www.copewithcytokines.de/cope.cgi?key=mesenchymal%20stem%20cells, PMCID:PMC2613570, PMID:10102814j, PMID:16923606, PMID:17986482, PMID:19960544] comment: Many but not all mesenchymal cells derive from the mesoderm. MSCs are reportedly CD3-negative, CD4-negative, CD5-negative, CD8-negative, CD11a-negative, CD11b-negative, CD14-negative, CD19-negative, CD29-positive, CD31-negative, CD34-negative, CD38-negative, CD40-negative, CD44-positive, CD45-negative, CD49-positive, CD54-positive, CD66b-negative, CD79a-negative, CD80-negative, CD102-positive, CD106-positive, CD117-positive, CD121a-positive, CD121b-positive, CD123-positive, CD124-positive, CD133-negative, CD146-positive, CD166-positive, CD271-positive, B220-negative, Gr1-negative, MHCI-positive, MHCII-negative, SSEA4-negative, sca1-positive, Ter119-negative, and glycophorin A-negative. Cultured MSCs are capable of producing stem cell factor, IL7, IL8, IL11, TGF-beta, cofilin, galectin-1, laminin-receptor 1, cyclophilin A, and MMP-2. synonym: "BMSC" NARROW [] synonym: "bone marrow stromal cells" NARROW [] synonym: "CFU-F" RELATED [] synonym: "colony-forming unit-fibroblast" NARROW [] synonym: "marrow stromal cells" NARROW [PMID:11378515] synonym: "mesenchymal precursor cell" RELATED [] synonym: "mesenchymal progenitor cells" RELATED PLURAL [MESH:D044982] synonym: "mesenchymal stem cell" RELATED [] synonym: "mesenchymal stromal cell" RELATED [] synonym: "mesenchymal stromal cells" RELATED PLURAL [] synonym: "MSC" RELATED [PMID:11378515] synonym: "stem cells, mesenchymal" RELATED PLURAL [MESH:D044982] xref: BTO:0002625 xref: BTO:0003298 xref: FMA:70546 is_a: CL:0000048 ! multi fate stem cell is_a: CL:0002320 {is_inferred="true"} ! connective tissue cell property_value: seeAlso https://github.com/obophenotype/cell-ontology/issues/474 xsd:string [Term] id: CL:0000136 name: fat cell namespace: cell alt_id: CL:0000450 def: "A fat-storing cell found mostly in the abdominal cavity and subcutaneous tissue of mammals. Fat is usually stored in the form of triglycerides." [MESH:A11.329.114] synonym: "adipocyte" EXACT [] synonym: "adipose cell" EXACT [] xref: BTO:0000443 xref: CALOHA:TS-0012 xref: FMA:63880 is_a: CARO:0000000 ! anatomical entity is_a: CL:0000325 ! stuff accumulating cell is_a: CL:0002320 ! connective tissue cell relationship: develops_from CL:0000134 ! mesenchymal stem cell [Term] id: CL:0000138 name: chondrocyte namespace: cell def: "Skeletogenic cell that is terminally differentiated, secretes an avascular, GAG-rich matrix, is embedded in cartilage tissue matrix, retains the ability to divide, and develops from a chondroblast cell." [GO_REF:0000034, MESH:A11.329.171] synonym: "cartilage cell" EXACT [] xref: BTO:0000249 xref: CALOHA:TS-0138 xref: FMA:66782 is_a: CL:0000153 ! glycosaminoglycan secreting cell is_a: CL:0000667 ! collagen secreting cell relationship: develops_from CL:0000058 ! chondroblast relationship: located_in UBERON:0002418 ! cartilage tissue [Term] id: CL:0000147 name: pigment cell namespace: cell def: "A pigment cell is a cell that contains pigment granules." [GOC:tfm] synonym: "chromatocyte" EXACT [] synonym: "chromatophore" EXACT [] xref: VHOG:0001678 is_a: CL:0000325 ! stuff accumulating cell [Term] id: CL:0000149 name: visual pigment cell namespace: cell synonym: "pigment cell" BROAD [] is_a: CL:0000147 ! pigment cell [Term] id: CL:0000150 name: glandular epithelial cell namespace: cell def: "A specialized epithelial cell that is capable of synthesizing and secreting certain biomolecules." [GOC:tfm] xref: CALOHA:TS-2085 xref: FMA:86494 is_a: CL:0000066 ! epithelial cell is_a: CL:0000151 ! secretory cell is_a: CL:0002371 ! somatic cell relationship: part_of UBERON:0006799 ! glandular epithelium [Term] id: CL:0000151 name: secretory cell namespace: cell def: "A cell that specializes in controlled release of one or more substances." [GOC:tfm, ISBN:0721662544] xref: BTO:0003659 xref: FMA:86916 is_a: BFO:0000040 ! material entity is_a: CL:0000003 ! native cell intersection_of: CL:0000003 ! native cell intersection_of: capable_of GO:0032940 ! secretion by cell relationship: capable_of GO:0032940 ! secretion by cell [Term] id: CL:0000152 name: exocrine cell namespace: cell def: "A cell of an exocrine gland; i.e. a gland that discharges its secretion via a duct." [ISBN:0198547684] xref: FMA:16014 is_a: CL:0000151 ! secretory cell intersection_of: CL:0000151 ! secretory cell intersection_of: part_of UBERON:0002365 ! exocrine gland relationship: part_of UBERON:0002365 ! exocrine gland [Term] id: CL:0000153 name: glycosaminoglycan secreting cell namespace: cell def: "A cell that secretes glycosaminoglycans." [GOC:tfm] synonym: "GAG secreting cell" EXACT [] synonym: "hyaluronic acid secreting cell" NARROW [] is_a: CL:0000327 ! extracellular matrix secreting cell is_a: CL:0000447 ! carbohydrate secreting cell [Term] id: CL:0000154 name: protein secreting cell namespace: cell is_a: CL:0000151 ! secretory cell intersection_of: CL:0000151 ! secretory cell intersection_of: capable_of GO:0009306 ! protein secretion relationship: capable_of GO:0009306 ! protein secretion [Term] id: CL:0000159 name: seromucus secreting cell namespace: cell is_a: CL:0000151 ! secretory cell [Term] id: CL:0000161 name: acid secreting cell namespace: cell is_a: CL:0000151 {is_inferred="true"} ! secretory cell intersection_of: CL:0000151 ! secretory cell intersection_of: capable_of GO:0046717 ! acid secretion relationship: capable_of GO:0046717 ! acid secretion [Term] id: CL:0000163 name: endocrine cell namespace: cell def: "A cell of an endocrine gland, ductless glands that secrete substances which are released directly into the circulation and which influence metabolism and other body functions." [MESH:A06.407] synonym: "endocrinocyte" EXACT [] xref: FMA:83809 is_a: CL:0000151 ! secretory cell intersection_of: CL:0000151 ! secretory cell intersection_of: capable_of GO:0060986 ! endocrine hormone secretion relationship: capable_of GO:0060986 ! endocrine hormone secretion relationship: part_of UBERON:0002368 ! endocrine gland [Term] id: CL:0000164 name: enteroendocrine cell namespace: cell def: "An endocrine cell that is located in the epithelium of the gastrointestinal tract or in the pancreas." [GOC:tfm, SANBI:mhl] xref: BTO:0003865 xref: FMA:62930 is_a: CL:0000150 ! glandular epithelial cell is_a: CL:0000163 ! endocrine cell [Term] id: CL:0000165 name: neuroendocrine cell namespace: cell def: "An endocrine cell that has the specialized function to produce and secrete hormones in response to neuronal signals." [MESH:A06.688] synonym: "neurosecretory cell" EXACT [] xref: BTO:0002691 xref: FMA:83810 is_a: CL:0000163 ! endocrine cell is_a: CL:0000393 ! electrically responsive cell is_a: CL:0000710 ! neurecto-epithelial cell [Term] id: CL:0000167 name: peptide hormone secreting cell namespace: cell is_a: CL:0000151 ! secretory cell intersection_of: CL:0000151 ! secretory cell intersection_of: capable_of GO:0030072 ! peptide hormone secretion relationship: capable_of GO:0030072 ! peptide hormone secretion [Term] id: CL:0000170 name: glucagon secreting cell namespace: cell def: "A cell that secretes glucagon." [GOC:tfm] synonym: "glucagon-secreting cell" EXACT [] xref: FMA:84045 is_a: CL:0000167 ! peptide hormone secreting cell intersection_of: CL:0000151 ! secretory cell intersection_of: capable_of GO:0070091 ! glucagon secretion relationship: capable_of GO:0070091 ! glucagon secretion [Term] id: CL:0000172 name: somatostatin secreting cell namespace: cell is_a: CL:0000167 ! peptide hormone secreting cell intersection_of: CL:0000151 ! secretory cell intersection_of: capable_of GO:0070253 ! somatostatin secretion relationship: capable_of GO:0070253 ! somatostatin secretion [Term] id: CL:0000174 name: steroid hormone secreting cell namespace: cell is_a: CL:0000163 ! endocrine cell intersection_of: CL:0000151 ! secretory cell intersection_of: capable_of GO:0035929 ! steroid hormone secretion relationship: capable_of GO:0035929 ! steroid hormone secretion [Term] id: CL:0000183 name: contractile cell namespace: cell def: "A cell whose primary function is to shorten." [FB:ma] is_a: CL:0000003 ! native cell [Term] id: CL:0000187 name: muscle cell namespace: cell def: "A mature contractile cell, commonly known as a myocyte. This cell has as part of its cytoplasm myofibrils organized in various patterns." [MESH:A11.620] synonym: "muscle fiber" EXACT [] synonym: "myocyte" EXACT [] xref: BTO:0000888 xref: BTO:0000902 xref: CALOHA:TS-2032 xref: FBbt:00005074 xref: FMA:67328 xref: WBbt:0003675 is_a: CARO:0000000 ! anatomical entity is_a: CL:0000183 ! contractile cell is_a: CL:0000393 ! electrically responsive cell is_a: CL:0000548 ! animal cell is_a: CL:0002371 ! somatic cell relationship: develops_from CL:0000056 ! myoblast [Term] id: CL:0000188 name: cell of skeletal muscle namespace: cell def: "A somatic cell located in skeletal muscle." [GOC:tfm] synonym: "skeletal muscle cell" EXACT [] xref: BTO:0004392 xref: CALOHA:TS-2158 xref: FMA:9727 is_a: CARO:0000000 ! anatomical entity is_a: CL:0002371 ! somatic cell intersection_of: CL:0002371 ! somatic cell intersection_of: part_of UBERON:0001134 ! skeletal muscle tissue relationship: part_of UBERON:0001134 ! skeletal muscle tissue [Term] id: CL:0000192 name: smooth muscle cell namespace: cell alt_id: CL:0000191 def: "A non-striated, elongated, spindle-shaped cell found lining the digestive tract, uterus, and blood vessels. They develop from specialized myoblasts (smooth muscle myoblast)." [http://en.wikipedia.org/wiki/Smooth_muscle_cell, MESH:A11.620.520, MESH:D032389, PMID:9315361] synonym: "myocytes, smooth muscle" EXACT [MESH:D032389] synonym: "non-striated muscle cell" BROAD [] synonym: "non-striated muscle cell" NARROW [] synonym: "SMCs" EXACT [PMID:9315361] synonym: "smooth muscle fiber" EXACT [] xref: BTO:0004576 xref: CALOHA:TS-2159 xref: FMA:14072 is_a: CL:0008000 ! non-striated muscle cell is_a: CL:0008007 ! visceral muscle cell relationship: develops_from CL:0000514 ! smooth muscle myoblast [Term] id: CL:0000197 name: sensory receptor cell namespace: cell def: "A cell that is capable of detection of a stimulus involved in sensory perception." [] synonym: "receptor cell" EXACT [] is_a: BFO:0000040 ! material entity is_a: CL:0000003 ! native cell intersection_of: CL:0000000 ! cell intersection_of: capable_of GO:0050906 ! detection of stimulus involved in sensory perception intersection_of: part_of UBERON:0001032 ! sensory system relationship: capable_of GO:0050906 ! detection of stimulus involved in sensory perception relationship: part_of UBERON:0001032 ! sensory system [Term] id: CL:0000210 name: photoreceptor cell namespace: cell def: "A cell specialized to detect and transduce light." [MESH:A08.663.650.650] xref: BTO:0001060 xref: CALOHA:TS-0868 xref: FBbt:00004211 xref: FMA:86740 is_a: CL:0000006 {is_inferred="true"} ! neuronal receptor cell intersection_of: CL:0000540 ! neuron intersection_of: capable_of GO:0050962 ! detection of light stimulus involved in sensory perception relationship: capable_of GO:0050962 ! detection of light stimulus involved in sensory perception [Term] id: CL:0000211 name: electrically active cell namespace: cell def: "A cell whose function is determined by the generation or the reception of an electric signal." [FB:ma] is_a: CL:0000003 ! native cell [Term] id: CL:0000213 name: lining cell namespace: cell def: "A cell within an epithelial cell sheet whose main function is to act as an internal or external covering for a tissue or an organism." [JB:jb] synonym: "boundary cell" EXACT [] is_a: CL:0000215 ! barrier cell [Term] id: CL:0000214 name: synovial cell namespace: cell def: "A cell located in the synovial joint." [] def: "A meso-epithelial cell that lies between the cartilaginous fibers in the synovial membrane of a joint and produces hyaluronic acid." [] synonym: "hyaluronic acid secreting cell" NARROW [] synonym: "synoviocyte" EXACT [] xref: BTO:0003652 xref: CALOHA:TS-0995 xref: FMA:66786 is_a: CL:0000153 ! glycosaminoglycan secreting cell is_a: CL:0000213 ! lining cell is_a: CL:0002078 {is_inferred="true"} ! meso-epithelial cell relationship: part_of UBERON:0002217 ! synovial joint [Term] id: CL:0000215 name: barrier cell namespace: cell def: "A cell whose primary function is to prevent the transport of stuff across compartments." [JB:jb] is_a: CL:0000003 ! native cell [Term] id: CL:0000219 name: motile cell namespace: cell def: "A cell that moves by its own activities." [FB:ma] is_a: BFO:0000040 ! material entity is_a: CL:0000003 ! native cell intersection_of: CL:0000003 ! native cell intersection_of: capable_of GO:0048870 ! cell motility relationship: capable_of GO:0048870 ! cell motility [Term] id: CL:0000221 name: ectodermal cell namespace: cell def: "A cell of the outer of the three germ layers of the embryo." [MESH:A16.254.425.273] synonym: "ectoderm cell" EXACT [] xref: FMA:72549 is_a: CARO:0000000 ! anatomical entity is_a: CL:0002321 ! embryonic cell (metazoa) relationship: part_of UBERON:0000924 ! ectoderm [Term] id: CL:0000222 name: mesodermal cell namespace: cell def: "A cell of the middle germ layer of the embryo." [MESH:A16.254.425.660] synonym: "mesoblast" EXACT [] synonym: "mesoderm cell" EXACT [] xref: FMA:72554 is_a: CARO:0000000 ! anatomical entity is_a: CL:0002321 ! embryonic cell (metazoa) relationship: part_of UBERON:0000926 ! mesoderm [Term] id: CL:0000223 name: endodermal cell namespace: cell def: "A cell of the inner of the three germ layers of the embryo." [MESH:A16.254.425.407] synonym: "endoderm cell" EXACT [] xref: FMA:72555 is_a: CARO:0000000 ! anatomical entity is_a: CL:0002321 ! embryonic cell (metazoa) relationship: part_of UBERON:0000925 ! endoderm [Term] id: CL:0000225 name: anucleate cell namespace: cell def: "A cell that lacks a nucleus." [FB:ma] synonym: "non-nucleated cell" EXACT [] xref: FMA:68647 is_a: CL:0000003 ! native cell intersection_of: CL:0000003 ! native cell intersection_of: bearer_of PATO:0001405 ! anucleate disjoint_from: CL:0002242 ! nucleate cell relationship: bearer_of PATO:0001405 ! anucleate [Term] id: CL:0000226 name: single nucleate cell namespace: cell def: "A cell with a single nucleus." [FB:ma, GOC:tfm] is_a: CL:0002242 ! nucleate cell intersection_of: CL:0000003 ! native cell intersection_of: bearer_of PATO:0001407 ! mononucleate relationship: bearer_of PATO:0001407 ! mononucleate [Term] id: CL:0000227 name: binucleate cell namespace: cell is_a: CL:0000228 ! multinucleate cell intersection_of: CL:0000003 ! native cell intersection_of: bearer_of PATO:0001406 ! binucleate relationship: bearer_of PATO:0001406 ! binucleate [Term] id: CL:0000228 name: multinucleate cell namespace: cell def: "A cell with more than one nucleus." [FB:ma] synonym: "syncitium" EXACT [] synonym: "syncytial cell" EXACT [] synonym: "syncytium" EXACT [] xref: AEO:0000203 xref: WBbt:0008074 is_a: CL:0002242 ! nucleate cell intersection_of: CL:0000003 ! native cell intersection_of: bearer_of PATO:0001908 ! multinucleate relationship: bearer_of PATO:0001908 ! multinucleate [Term] id: CL:0000232 name: erythrocyte namespace: cell def: "A red blood cell. In mammals, mature erythrocytes are biconcave disks containing hemoglobin whose function is to transport oxygen." [GOC:tfm, MESH:A11.118.290] synonym: "RBC" EXACT [] synonym: "red blood cell" EXACT [] xref: BTO:0000424 xref: CALOHA:TS-0290 xref: FMA:81100 is_a: CL:0000081 ! blood cell is_a: CL:0000329 ! oxygen accumulating cell is_a: CL:0000764 {is_inferred="true"} ! erythroid lineage cell intersection_of: CL:0000764 ! erythroid lineage cell intersection_of: bearer_of PATO:0002039 ! biconcave intersection_of: capable_of GO:0008015 ! blood circulation intersection_of: capable_of GO:0015671 ! oxygen transport intersection_of: lacks_part GO:0005840 ! ribosome intersection_of: lacks_plasma_membrane_part PR:000001945 ! transferrin receptor protein 1 relationship: bearer_of PATO:0002039 ! biconcave relationship: develops_from CL:0000558 ! reticulocyte relationship: lacks_part GO:0005840 ! ribosome relationship: lacks_plasma_membrane_part PR:000001945 ! transferrin receptor protein 1 [Term] id: CL:0000255 name: eukaryotic cell namespace: cell is_a: CL:0000003 ! native cell intersection_of: CL:0000003 ! native cell intersection_of: only_in_taxon NCBITaxon:2759 ! Eukaryota relationship: only_in_taxon NCBITaxon:2759 ! Eukaryota [Term] id: CL:0000257 name: Eumycetozoan cell namespace: cell is_a: CL:0000255 ! eukaryotic cell intersection_of: CL:0000003 ! native cell intersection_of: only_in_taxon NCBITaxon:142796 ! Eumycetozoa relationship: only_in_taxon NCBITaxon:142796 ! Eumycetozoa [Term] id: CL:0000287 name: eye photoreceptor cell namespace: cell is_a: CL:0000210 ! photoreceptor cell intersection_of: CL:0000210 ! photoreceptor cell intersection_of: part_of UBERON:0000970 ! eye relationship: part_of UBERON:0000970 ! eye [Term] id: CL:0000293 name: structural cell namespace: cell def: "A cell whose primary function is to provide structural support, to provide strength and physical integrity to the organism." [TAIR:sr] is_a: CL:0000003 ! native cell [Term] id: CL:0000306 name: crystallin accumulating cell namespace: cell synonym: "lens cell" EXACT [] xref: FBbt:00004193 is_a: CL:0000325 ! stuff accumulating cell [Term] id: CL:0000313 name: serous secreting cell namespace: cell def: "Columnar glandular cell with irregular nucleus, copious granular endoplasmic reticulum and supranuclear granules. Secretes a watery fluid containing proteins known as serous fluid." [GOC:tfm, ISBN:0517223651, ISBN:0721662544] synonym: "serous cell" EXACT [] xref: BTO:0003687 xref: FMA:62511 is_a: CL:0000159 ! seromucus secreting cell [Term] id: CL:0000325 name: stuff accumulating cell namespace: cell def: "A cell that is specialised to accumulate a particular substance(s)." [FB:ma] subset: ubprop:upper_level is_a: CL:0000003 ! native cell [Term] id: CL:0000327 name: extracellular matrix secreting cell namespace: cell is_a: CL:0000151 ! secretory cell is_a: CL:0000499 ! stromal cell [Term] id: CL:0000329 name: oxygen accumulating cell namespace: cell is_a: BFO:0000040 ! material entity is_a: CL:0000003 ! native cell intersection_of: CL:0000003 ! native cell intersection_of: capable_of GO:0015671 ! oxygen transport relationship: capable_of GO:0015671 ! oxygen transport [Term] id: CL:0000333 name: migratory neural crest cell namespace: cell def: "A cell derived from the specialized ectoderm flanking each side of the embryonic neural plate, which after the closure of the neural tube, forms masses of cells that migrate out from the dorsal aspect of the neural tube to spread throughout the body." [MESH:A16.254.600] xref: FMA:86667 is_a: CL:0000219 ! motile cell is_a: CL:0011012 ! neural crest cell is_a: CL:0011026 ! progenitor cell relationship: develops_from CL:0007004 ! premigratory neural crest cell [Term] id: CL:0000335 name: mesenchyme condensation cell namespace: cell def: "A mesenchymal cell in embryonic development found in a contracting mass and that gives rise to osteoprogenitors." [GOC:tfm, PMID:5025404] is_a: CL:0008019 ! mesenchymal cell [Term] id: CL:0000347 name: scleral cell namespace: cell def: "A cell of the sclera of the eye." [GOC:add] is_a: CARO:0000000 ! anatomical entity is_a: CL:0000293 ! structural cell intersection_of: CL:0000293 ! structural cell intersection_of: part_of UBERON:0001773 ! sclera relationship: develops_from CL:0000008 ! migratory cranial neural crest cell relationship: part_of UBERON:0001773 ! sclera [Term] id: CL:0000348 name: choroidal cell of the eye namespace: cell def: "A cell of the choroid of the eye." [GOC:add] is_a: CARO:0000000 ! anatomical entity is_a: CL:0000293 ! structural cell intersection_of: CL:0000293 ! structural cell intersection_of: part_of UBERON:0001776 ! optic choroid relationship: develops_from CL:0000008 ! migratory cranial neural crest cell relationship: part_of UBERON:0001776 ! optic choroid [Term] id: CL:0000349 name: extraembryonic cell namespace: cell is_a: CARO:0000000 ! anatomical entity is_a: CL:0000548 ! animal cell is_a: CL:0002371 ! somatic cell intersection_of: CL:0000548 ! animal cell intersection_of: part_of UBERON:0000478 ! extraembryonic structure relationship: part_of UBERON:0000478 ! extraembryonic structure [Term] id: CL:0000352 name: epiblast cell namespace: cell def: "A cell of the outer layer of a blastula that gives rise to the ectoderm after gastrulation." [GOC:tfm, ISBN:0618947256] is_a: CL:0000052 ! totipotent stem cell [Term] id: CL:0000355 name: multi-potent skeletal muscle stem cell namespace: cell def: "A multifate stem cell found in skeletal muscle than can differentiate into many different cell types, including muscle. Distinct cell type from satellite cell." [PMID:18282570] comment: Multi-potency demonstrated ex vivo. At the time of writing, it is unclear whether the endogenous population differentiates into multiple cell types in vivo. xref: FMA:86767 is_a: CL:0000048 {is_inferred="true"} ! multi fate stem cell is_a: CL:0000188 ! cell of skeletal muscle intersection_of: CL:0000048 ! multi fate stem cell intersection_of: part_of UBERON:0001134 ! skeletal muscle tissue [Term] id: CL:0000359 name: vascular associated smooth muscle cell namespace: cell def: "A smooth muscle cell associated with the vasculature." [GOC:dsd, GOC:tfm] synonym: "vascular smooth muscle cell" EXACT [] synonym: "VSMC" EXACT [] is_a: CL:0000192 {is_inferred="true"} ! smooth muscle cell intersection_of: CL:0000192 ! smooth muscle cell intersection_of: part_of UBERON:0002049 ! vasculature relationship: part_of UBERON:0002049 ! vasculature [Term] id: CL:0000362 name: epidermal cell namespace: cell alt_id: CL:1000396 def: "An epithelial cell of the integument (the outer layer of an organism)." [Flybase:dsj, MA:ma] synonym: "cell of epidermis" EXACT [FMA:62411] synonym: "epithelial cell of skin" NARROW [FMA:62411] xref: BTO:0001470 xref: CALOHA:TS-0283 xref: FMA:62411 is_a: CL:0002159 ! general ecto-epithelial cell intersection_of: CL:0000066 ! epithelial cell intersection_of: part_of UBERON:0007376 ! outer epithelium relationship: part_of UBERON:0007376 ! outer epithelium [Term] id: CL:0000365 name: animal zygote namespace: cell def: "Diploid cell produced by the fusion of sperm cell nucleus and egg cell." [ISBN:0471245208] synonym: "zygote" BROAD [] xref: BTO:0000854 xref: EHDAA2:0004546 xref: FMA:72395 is_a: CL:0000007 ! early embryonic cell (metazoa) is_a: CL:0010017 ! zygote intersection_of: CL:0010017 ! zygote intersection_of: only_in_taxon NCBITaxon:33208 ! Metazoa [Term] id: CL:0000381 name: neurosecretory neuron namespace: cell xref: FBbt:00005130 is_a: CL:0000151 ! secretory cell is_a: CL:0000527 ! efferent neuron intersection_of: CL:0000540 ! neuron intersection_of: capable_of GO:0046879 ! hormone secretion relationship: capable_of GO:0046879 ! hormone secretion [Term] id: CL:0000393 name: electrically responsive cell namespace: cell def: "A cell whose function is determined by its response to an electric signal." [FB:ma] is_a: CL:0000211 ! electrically active cell [Term] id: CL:0000397 name: ganglion interneuron namespace: cell is_a: CL:0000099 {is_inferred="true"} ! interneuron intersection_of: CL:0000099 ! interneuron intersection_of: RO:0002100 UBERON:0000045 ! has soma location ganglion relationship: RO:0002100 UBERON:0000045 ! has soma location ganglion [Term] id: CL:0000402 name: CNS interneuron namespace: cell is_a: CL:0000099 {is_inferred="true"} ! interneuron is_a: CL:0000117 ! CNS neuron (sensu Vertebrata) is_a: CL:2000029 ! central nervous system neuron intersection_of: CL:0000099 ! interneuron intersection_of: RO:0002100 UBERON:0001017 ! has soma location central nervous system [Term] id: CL:0000404 name: electrically signaling cell namespace: cell def: "A cell that initiates an electrical signal and passes that signal to another cell." [FB:ma] is_a: CL:0000211 ! electrically active cell [Term] id: CL:0000447 name: carbohydrate secreting cell namespace: cell is_a: CL:0000151 ! secretory cell [Term] id: CL:0000457 name: biogenic amine secreting cell namespace: cell is_a: CL:0000151 ! secretory cell [Term] id: CL:0000458 name: serotonin secreting cell namespace: cell def: "A cell type that secretes 5-Hydroxytryptamine (serotonin)." [GOC:tfm, PMID:19630576] synonym: "5-HT secreting cell" EXACT [] synonym: "5-Hydroxytryptamine secreting cell" EXACT [] is_a: CL:0000457 ! biogenic amine secreting cell intersection_of: CL:0000151 ! secretory cell intersection_of: capable_of GO:0001820 ! serotonin secretion relationship: capable_of GO:0001820 ! serotonin secretion [Term] id: CL:0000459 name: noradrenergic cell namespace: cell def: "A cell capable of producting norepiniphrine. Norepiniphrine is a catecholamine with multiple roles including as a hormone and a neurotransmitter. In addition, epiniphrine is synthesized from norepiniphrine by the actions of the phenylethanolamine N-methyltransferase enzyme." [GOC:tfm, ISBN:068340007X] synonym: "noradrenaline secreting cell" EXACT [] synonym: "norepinephrin secreting cell" EXACT [] synonym: "norepinephrine secreting cell" EXACT [] is_a: CL:0000457 ! biogenic amine secreting cell intersection_of: CL:0000151 ! secretory cell intersection_of: capable_of GO:0048243 ! norepinephrine secretion relationship: capable_of GO:0048243 ! norepinephrine secretion [Term] id: CL:0000488 name: visible light photoreceptor cell namespace: cell def: "A photoreceptor cell that detects visible light." [GOC:tfm] is_a: CL:0000210 ! photoreceptor cell intersection_of: CL:0000210 ! photoreceptor cell intersection_of: capable_of GO:0009584 ! detection of visible light relationship: capable_of GO:0009584 ! detection of visible light [Term] id: CL:0000499 name: stromal cell namespace: cell def: "A connective tissue cell of an organ found in the loose connective tissue. These are most often associated with the uterine mucosa and the ovary as well as the hematopoietic system and elsewhere." [GOC:tfm, MESH:A11.329.830] xref: BTO:0002064 xref: FMA:83624 is_a: CARO:0000000 ! anatomical entity is_a: CL:0002320 ! connective tissue cell relationship: develops_from CL:0000134 ! mesenchymal stem cell [Term] id: CL:0000513 name: cardiac muscle myoblast namespace: cell alt_id: CL:0000714 def: "A precursor cell destined to differentiate into cardiac muscle cell." [GOC:tfm, MESH:A11.635.470] synonym: "cardiac muscle progenitor cell" EXACT [] synonym: "cardiomyocyte progenitor cell" EXACT [] xref: FMA:84797 is_a: CL:0002494 ! cardiocyte is_a: CL:0010021 ! cardiac myoblast intersection_of: CL:0000056 ! myoblast intersection_of: develops_into CL:0000746 ! cardiac muscle cell intersection_of: part_of UBERON:0001133 ! cardiac muscle tissue relationship: part_of UBERON:0001133 ! cardiac muscle tissue [Term] id: CL:0000514 name: smooth muscle myoblast namespace: cell def: "A precursor cell destined to differentiate into smooth muscle myocytes." [GOC:tfm, MESH:A11.635.510, MESH:D032390] synonym: "myoblast, smooth muscle" EXACT [MESH:D032390] synonym: "satellite cell" RELATED [] xref: FMA:84798 is_a: CL:0000056 {is_inferred="true"} ! myoblast intersection_of: CL:0000056 ! myoblast intersection_of: develops_into CL:0000192 ! smooth muscle cell relationship: develops_into CL:0000192 ! smooth muscle cell [Term] id: CL:0000515 name: skeletal muscle myoblast namespace: cell def: "A myoblast that differentiates into skeletal muscle fibers." [SANBI:mhl] synonym: "skeletal myoblast" EXACT [] xref: FMA:84799 is_a: CL:0000056 {is_inferred="true"} ! myoblast is_a: CL:0011026 ! progenitor cell intersection_of: CL:0000056 ! myoblast intersection_of: develops_into CL:0008002 ! skeletal muscle fiber relationship: develops_from CL:0000355 ! multi-potent skeletal muscle stem cell relationship: develops_into CL:0008002 ! skeletal muscle fiber [Term] id: CL:0000521 name: fungal cell namespace: cell is_a: CL:0000255 ! eukaryotic cell intersection_of: CL:0000003 ! native cell intersection_of: only_in_taxon NCBITaxon:4751 ! Fungi disjoint_from: CL:0000548 ! animal cell relationship: only_in_taxon NCBITaxon:4751 ! Fungi [Term] id: CL:0000526 name: afferent neuron namespace: cell def: "A neuron which conveys sensory information centrally from the periphery." [GOC:tfm, MESH:A08.663.650] synonym: "input neuron" EXACT [] xref: FMA:87653 is_a: CL:0000540 ! neuron [Term] id: CL:0000527 name: efferent neuron namespace: cell def: "A neuron which sends impulses peripherally to activate muscles or secretory cells." [MESH:A08.663.655] synonym: "output neuron" EXACT [] is_a: CL:0000540 ! neuron [Term] id: CL:0000530 name: primary neuron namespace: cell is_a: CL:0000540 ! neuron [Term] id: CL:0000531 name: primary sensory neuron namespace: cell is_a: CL:0000101 ! sensory neuron is_a: CL:0000530 ! primary neuron intersection_of: CL:0000101 ! sensory neuron intersection_of: CL:0000530 ! primary neuron [Term] id: CL:0000540 name: neuron namespace: cell def: "The basic cellular unit of nervous tissue. Each neuron consists of a body, an axon, and dendrites. Their purpose is to receive, conduct, and transmit impulses in the nervous system." [http://en.wikipedia.org/wiki/Neuron, MESH:A08.663, MESH:D009474] comment: These cells are also reportedly CD4-negative and CD200-positive. They are also capable of producing CD40L and IFN-gamma. synonym: "nerve cell" EXACT [] xref: BTO:0000938 xref: CALOHA:TS-0683 xref: FBbt:00005106 xref: FMA:54527 xref: VHOG:0001483 xref: WBbt:0003679 is_a: BFO:0000040 ! material entity is_a: CL:0000393 ! electrically responsive cell is_a: CL:0000404 ! electrically signaling cell is_a: CL:0002319 ! neural cell relationship: capable_of GO:0019226 ! transmission of nerve impulse relationship: develops_from CL:0000031 {gci_relation="in_taxon", gci_filler="NCBITaxon:7742", xref="https://github.com/obophenotype/cell-ontology/issues/757"} ! neuroblast (sensu Vertebrata) property_value: IAO:0000412 http://purl.obolibrary.org/obo/cl.owl [Term] id: CL:0000547 name: proerythroblast namespace: cell def: "An immature, nucleated erythrocyte occupying the stage of erythropoeisis that follows formation of erythroid progenitor cells. This cell is CD71-positive, has both a nucleus and a nucleolus, and lacks hematopoeitic lineage markers." [ISBN:0721601464, MESH:A11.118.290.350.200, PMID:1638021] synonym: "pronormoblast" RELATED [] synonym: "rubriblast" EXACT [ISBN:0721601464] xref: FMA:83518 is_a: CL:0000764 {is_inferred="true"} ! erythroid lineage cell is_a: CL:0002242 ! nucleate cell intersection_of: CL:0000764 ! erythroid lineage cell intersection_of: bearer_of PATO:0002505 ! nucleated intersection_of: has_part CL:0017503 ! basophilic cytoplasm intersection_of: has_part CL:0017505 ! increased nucleus size intersection_of: has_part GO:0005730 ! nucleolus intersection_of: lacks_plasma_membrane_part PR:000001002 ! CD19 molecule intersection_of: lacks_plasma_membrane_part PR:000001004 ! CD4 molecule intersection_of: lacks_plasma_membrane_part PR:000001012 ! integrin alpha-M intersection_of: lacks_plasma_membrane_part PR:000001020 ! CD3 epsilon intersection_of: lacks_plasma_membrane_part PR:000001024 ! neural cell adhesion molecule 1 intersection_of: lacks_plasma_membrane_part PR:000001083 ! CD2 molecule intersection_of: lacks_plasma_membrane_part PR:000001084 ! T-cell surface glycoprotein CD8 alpha chain intersection_of: lacks_plasma_membrane_part PR:000001289 ! membrane-spanning 4-domains subfamily A member 1 intersection_of: lacks_plasma_membrane_part PR:000001839 ! T-cell surface glycoprotein CD5 intersection_of: lacks_plasma_membrane_part PR:000001889 ! CD14 molecule intersection_of: lacks_plasma_membrane_part PR:000002978 ! lymphocyte antigen 6G intersection_of: RO:0002104 PR:000001945 ! has plasma membrane part transferrin receptor protein 1 relationship: develops_from CL:0000038 ! erythroid progenitor cell relationship: has_part CL:0017503 ! basophilic cytoplasm relationship: has_part CL:0017505 ! increased nucleus size relationship: has_part GO:0005730 ! nucleolus relationship: lacks_plasma_membrane_part PR:000001002 ! CD19 molecule relationship: lacks_plasma_membrane_part PR:000001004 ! CD4 molecule relationship: lacks_plasma_membrane_part PR:000001012 ! integrin alpha-M relationship: lacks_plasma_membrane_part PR:000001020 ! CD3 epsilon relationship: lacks_plasma_membrane_part PR:000001024 ! neural cell adhesion molecule 1 relationship: lacks_plasma_membrane_part PR:000001083 ! CD2 molecule relationship: lacks_plasma_membrane_part PR:000001084 ! T-cell surface glycoprotein CD8 alpha chain relationship: lacks_plasma_membrane_part PR:000001289 ! membrane-spanning 4-domains subfamily A member 1 relationship: lacks_plasma_membrane_part PR:000001839 ! T-cell surface glycoprotein CD5 relationship: lacks_plasma_membrane_part PR:000001889 ! CD14 molecule relationship: lacks_plasma_membrane_part PR:000002978 ! lymphocyte antigen 6G relationship: RO:0002104 PR:000001945 ! has plasma membrane part transferrin receptor protein 1 [Term] id: CL:0000548 name: animal cell namespace: cell subset: ubprop:upper_level is_a: CL:0000255 ! eukaryotic cell intersection_of: CL:0000003 ! native cell intersection_of: only_in_taxon NCBITaxon:33208 ! Metazoa relationship: only_in_taxon NCBITaxon:33208 ! Metazoa [Term] id: CL:0000549 name: basophilic erythroblast namespace: cell def: "A nucleated immature erythrocyte, having cytoplasm generally similar to that of the earlier proerythroblast but sometimes even more basophilic, and usually regular in outline. The nucleus is still relatively large, but the chromatin strands are thicker and more deeply staining, giving a coarser appearance; the nucleoli have disappeared. This cell is CD71-positive and lacks hematopoeitic lineage markers." [GOC:tfm, ISBN:0721601464] synonym: "basophilic normoblast" EXACT [ISBN:0721601464] synonym: "early erythroblast" EXACT [ISBN:0721601464] synonym: "early normoblast" EXACT [ISBN:0721601464] synonym: "prorubricyte" EXACT [ISBN:0721601464] xref: FMA:83505 is_a: CL:0000765 {is_inferred="true"} ! erythroblast intersection_of: CL:0000765 ! erythroblast intersection_of: has_part CL:0017503 ! basophilic cytoplasm intersection_of: has_part GO:0000792 ! heterochromatin intersection_of: RO:0002104 PR:000001945 ! has plasma membrane part transferrin receptor protein 1 relationship: has_part CL:0017503 ! basophilic cytoplasm relationship: has_part GO:0000792 ! heterochromatin relationship: RO:0002104 PR:000001945 ! has plasma membrane part transferrin receptor protein 1 [Term] id: CL:0000550 name: polychromatophilic erythroblast namespace: cell def: "A nucleated, immature erythrocyte in which the nucleus occupies a relatively smaller part of the cell than in its precursor, the basophilic erythroblast. The cytoplasm is beginning to acquire hemoglobin and thus is no longer a purely basophilic, but takes on acidophilic aspects, which becomes progressively more marked as the cell matures. The chromatin of the nucleus is arranged in coarse, deeply staining clumps. This cell is CD71-positive and lacks hematopoeitic lineage markers." [ISBN:0721601464] synonym: "intermediate erythroblast" EXACT [ISBN:0721601464] synonym: "intermediate normoblast" EXACT [ISBN:0721601464] synonym: "polychromatic erythroblast" EXACT [ISBN:0721601464] synonym: "polychromatic normoblast" EXACT [ISBN:0721601464] synonym: "polychromatophilic normoblast" EXACT [ISBN:0721601464] synonym: "rubricyte" EXACT [ISBN:0721601464] xref: FMA:83506 is_a: CL:0000765 {is_inferred="true"} ! erythroblast intersection_of: CL:0000765 ! erythroblast intersection_of: has_part CL:0017504 ! polychromatophilic cytoplasm intersection_of: has_part GO:0000792 ! heterochromatin intersection_of: RO:0002104 PR:000001945 ! has plasma membrane part transferrin receptor protein 1 relationship: develops_from CL:0000549 ! basophilic erythroblast relationship: has_part CL:0017504 ! polychromatophilic cytoplasm relationship: has_part GO:0000792 ! heterochromatin relationship: RO:0002104 PR:000001945 ! has plasma membrane part transferrin receptor protein 1 [Term] id: CL:0000552 name: orthochromatic erythroblast namespace: cell def: "The final stage of the nucleated, immature erythrocyte, before nuclear loss. Typically the cytoplasm is described as acidophilic, but it still shows a faint polychromatic tint. The nucleus is small and initially may still have coarse, clumped chromatin, as in its precursor, the polychromatophilic erythroblast, but ultimately it becomes pyknotic, and appears as a deeply staining, blue-black, homogeneous structureless mass. The nucleus is often eccentric and sometimes lobulated." [ISBN:0721601464] synonym: "acidophilic erythroblast" EXACT [ISBN:0721601464] synonym: "eosinophilic erythroblast" EXACT [ISBN:0721601464] synonym: "late erythoblast" EXACT [] synonym: "orthochromatic normoblast" EXACT [ISBN:0721601464] synonym: "pyknotic eto enrythroblast" EXACT [ISBN:0721601464] xref: FMA:84646 is_a: CL:0000765 {is_inferred="true"} ! erythroblast intersection_of: CL:0000765 ! erythroblast intersection_of: has_part CL:0017502 ! acidophilic cytoplasm intersection_of: participates_in GO:0030263 ! apoptotic chromosome condensation relationship: develops_from CL:0000550 ! polychromatophilic erythroblast relationship: has_part CL:0017502 ! acidophilic cytoplasm relationship: participates_in GO:0030263 ! apoptotic chromosome condensation [Term] id: CL:0000553 name: megakaryocyte progenitor cell namespace: cell def: "The earliest cytologically identifiable precursor in the thrombocytic series. This cell is capable of endomitosis and lacks expression of hematopoieitic lineage markers (lin-negative)." [GOC:dsd, GOC:tfm, ISBN:0721601464] comment: Lineage negative is described here as CD2-negative, CD3-negative, CD4-negative, CD5-negative, CD8a-negative, CD14-negative, CD19-negative, CD20-negative, CD56-negative, Ly6g-negative, and Ter119-negative. synonym: "CFU-Meg" EXACT [PMID:11722431, PMID:12482498] synonym: "colony-forming unit-megakaryocyte" EXACT [] synonym: "Meg-CFC" EXACT [PMCID:PMC1794060] synonym: "megacaryoblast" EXACT [] synonym: "megacaryocyte progenitor cell" EXACT [] synonym: "megakaryoblast" EXACT [] synonym: "megakaryocytic progenitor cell" EXACT [PMID:12482498] synonym: "MkP" EXACT [PMID:21116988] synonym: "promegacaryocyte" RELATED [] synonym: "promegakaryocyte" RELATED [] xref: BTO:0001164 xref: CALOHA:TS-0610 xref: FMA:84235 is_a: CL:0000763 ! myeloid cell is_a: CL:0000839 {is_inferred="true"} ! myeloid lineage restricted progenitor cell intersection_of: CL:0000839 ! myeloid lineage restricted progenitor cell intersection_of: capable_of GO:0007113 ! endomitotic cell cycle intersection_of: capable_of GO:0030219 ! megakaryocyte differentiation intersection_of: lacks_plasma_membrane_part PR:000001002 ! CD19 molecule intersection_of: lacks_plasma_membrane_part PR:000001004 ! CD4 molecule intersection_of: lacks_plasma_membrane_part PR:000001012 ! integrin alpha-M intersection_of: lacks_plasma_membrane_part PR:000001020 ! CD3 epsilon intersection_of: lacks_plasma_membrane_part PR:000001024 ! neural cell adhesion molecule 1 intersection_of: lacks_plasma_membrane_part PR:000001083 ! CD2 molecule intersection_of: lacks_plasma_membrane_part PR:000001084 ! T-cell surface glycoprotein CD8 alpha chain intersection_of: lacks_plasma_membrane_part PR:000001289 ! membrane-spanning 4-domains subfamily A member 1 intersection_of: lacks_plasma_membrane_part PR:000001839 ! T-cell surface glycoprotein CD5 intersection_of: lacks_plasma_membrane_part PR:000001889 ! CD14 molecule intersection_of: lacks_plasma_membrane_part PR:000002978 ! lymphocyte antigen 6G intersection_of: lacks_plasma_membrane_part PR:000002981 ! lymphocyte antigen 76 (mouse) relationship: capable_of GO:0007113 ! endomitotic cell cycle relationship: capable_of GO:0030219 ! megakaryocyte differentiation relationship: develops_from CL:0000050 ! megakaryocyte-erythroid progenitor cell relationship: lacks_plasma_membrane_part PR:000001002 ! CD19 molecule relationship: lacks_plasma_membrane_part PR:000001004 ! CD4 molecule relationship: lacks_plasma_membrane_part PR:000001012 ! integrin alpha-M relationship: lacks_plasma_membrane_part PR:000001020 ! CD3 epsilon relationship: lacks_plasma_membrane_part PR:000001024 ! neural cell adhesion molecule 1 relationship: lacks_plasma_membrane_part PR:000001083 ! CD2 molecule relationship: lacks_plasma_membrane_part PR:000001084 ! T-cell surface glycoprotein CD8 alpha chain relationship: lacks_plasma_membrane_part PR:000001289 ! membrane-spanning 4-domains subfamily A member 1 relationship: lacks_plasma_membrane_part PR:000001839 ! T-cell surface glycoprotein CD5 relationship: lacks_plasma_membrane_part PR:000001889 ! CD14 molecule relationship: lacks_plasma_membrane_part PR:000002978 ! lymphocyte antigen 6G relationship: lacks_plasma_membrane_part PR:000002981 ! lymphocyte antigen 76 (mouse) [Term] id: CL:0000556 name: megakaryocyte namespace: cell def: "A giant cell 50 to 100 micron in diameter, with a greatly lobulated nucleus, found in the bone marrow; mature blood platelets are released from its cytoplasm." [http://en.wikipedia.org/wiki/Megakaryocyte, ISBN:0721601464, MESH:D008533] comment: Megakaryocytes are reportedly CD181-positive and CD182-positive. synonym: "megacaryocyte" EXACT [] synonym: "megalocaryocyte" EXACT [] synonym: "megalokaryocyte" EXACT [] xref: BTO:0000843 xref: CALOHA:TS-0611 xref: FMA:83555 is_a: CL:0000763 {is_inferred="true"} ! myeloid cell is_a: CL:1001610 ! bone marrow hematopoietic cell intersection_of: CL:0000763 ! myeloid cell intersection_of: bearer_of PATO:0001393 ! euploid intersection_of: part_of UBERON:0002371 ! bone marrow disjoint_from: CL:0000764 ! erythroid lineage cell relationship: bearer_of PATO:0001393 ! euploid relationship: develops_from CL:0000553 ! megakaryocyte progenitor cell [Term] id: CL:0000558 name: reticulocyte namespace: cell def: "An immature erythrocyte that changes the protein composition of its plasma membrane by exosome formation and extrusion. The types of protein removed differ between species though removal of the transferrin receptor is apparent in mammals and birds." [GOC:add, GOC:tfm, PMID:15946868, PMID:2037622] xref: BTO:0001173 xref: CALOHA:TS-0864 is_a: BFO:0000040 ! material entity is_a: CL:0000764 {is_inferred="true"} ! erythroid lineage cell intersection_of: CL:0000764 ! erythroid lineage cell intersection_of: capable_of GO:0071971 ! extracellular exosome assembly intersection_of: lacks_plasma_membrane_part PR:000001002 ! CD19 molecule intersection_of: lacks_plasma_membrane_part PR:000001004 ! CD4 molecule intersection_of: lacks_plasma_membrane_part PR:000001012 ! integrin alpha-M intersection_of: lacks_plasma_membrane_part PR:000001020 ! CD3 epsilon intersection_of: lacks_plasma_membrane_part PR:000001024 ! neural cell adhesion molecule 1 intersection_of: lacks_plasma_membrane_part PR:000001083 ! CD2 molecule intersection_of: lacks_plasma_membrane_part PR:000001084 ! T-cell surface glycoprotein CD8 alpha chain intersection_of: lacks_plasma_membrane_part PR:000001289 ! membrane-spanning 4-domains subfamily A member 1 intersection_of: lacks_plasma_membrane_part PR:000001839 ! T-cell surface glycoprotein CD5 intersection_of: lacks_plasma_membrane_part PR:000001889 ! CD14 molecule intersection_of: lacks_plasma_membrane_part PR:000002978 ! lymphocyte antigen 6G intersection_of: RO:0002104 PR:000001945 ! has plasma membrane part transferrin receptor protein 1 relationship: capable_of GO:0071971 ! extracellular exosome assembly relationship: develops_from CL:0000552 ! orthochromatic erythroblast relationship: lacks_plasma_membrane_part PR:000001002 ! CD19 molecule relationship: lacks_plasma_membrane_part PR:000001004 ! CD4 molecule relationship: lacks_plasma_membrane_part PR:000001012 ! integrin alpha-M relationship: lacks_plasma_membrane_part PR:000001020 ! CD3 epsilon relationship: lacks_plasma_membrane_part PR:000001024 ! neural cell adhesion molecule 1 relationship: lacks_plasma_membrane_part PR:000001083 ! CD2 molecule relationship: lacks_plasma_membrane_part PR:000001084 ! T-cell surface glycoprotein CD8 alpha chain relationship: lacks_plasma_membrane_part PR:000001289 ! membrane-spanning 4-domains subfamily A member 1 relationship: lacks_plasma_membrane_part PR:000001839 ! T-cell surface glycoprotein CD5 relationship: lacks_plasma_membrane_part PR:000001889 ! CD14 molecule relationship: lacks_plasma_membrane_part PR:000002978 ! lymphocyte antigen 6G relationship: RO:0002104 PR:000001945 ! has plasma membrane part transferrin receptor protein 1 [Term] id: CL:0000562 name: nucleate erythrocyte namespace: cell def: "An erythrocyte having a nucleus." [GOC:add, GOc:tfm] synonym: "RBC" BROAD [] synonym: "red blood cell" BROAD [] is_a: CL:0000232 {is_inferred="true"} ! erythrocyte is_a: CL:0002242 ! nucleate cell intersection_of: CL:0000232 ! erythrocyte intersection_of: bearer_of PATO:0002505 ! nucleated relationship: develops_from CL:0002421 ! nucleated reticulocyte [Term] id: CL:0000566 name: angioblastic mesenchymal cell namespace: cell def: "A mesenchymal stem cell capable of developing into blood vessel endothelium." [GOC:dsd, GOC:tfm, PMID:12768659] comment: These cells are reportedly CD31-positive, CD34-positive, CD144-positive, CD309-positive, and TAL1-positive. synonym: "angioblast" EXACT [] synonym: "chondroplast" EXACT [] is_a: CL:0000134 {is_inferred="true"} ! mesenchymal stem cell is_a: CL:0011026 ! progenitor cell intersection_of: CL:0000134 ! mesenchymal stem cell intersection_of: RO:0002104 PR:000001444 ! has plasma membrane part cadherin-5 intersection_of: RO:0002104 PR:000002112 ! has plasma membrane part vascular endothelial growth factor receptor 2 intersection_of: RO:0002104 PR:000016043 ! has plasma membrane part T-cell acute lymphocytic leukemia protein 1 relationship: develops_from CL:0000134 ! mesenchymal stem cell relationship: RO:0002104 PR:000001444 ! has plasma membrane part cadherin-5 relationship: RO:0002104 PR:000002112 ! has plasma membrane part vascular endothelial growth factor receptor 2 relationship: RO:0002104 PR:000016043 ! has plasma membrane part T-cell acute lymphocytic leukemia protein 1 [Term] id: CL:0000569 name: cardiac mesenchymal cell namespace: cell def: "A mesenchymal cell found in the developing heart and that develops into some part of the heart. These cells derive from intra- and extra-cardiac sources, including the endocardium, epicardium, neural crest, and second heart field." [PMID:18816864] is_a: CARO:0000000 ! anatomical entity is_a: CL:0008019 ! mesenchymal cell intersection_of: CL:0008019 ! mesenchymal cell intersection_of: develops_into CL:0002494 ! cardiocyte relationship: develops_into CL:0002494 ! cardiocyte [Term] id: CL:0000573 name: retinal cone cell namespace: cell def: "One of the two photoreceptor cell types in the vertebrate retina. In cones the photopigment is in invaginations of the cell membrane of the outer segment. Cones are less sensitive to light than rods, but they provide vision with higher spatial and temporal acuity, and the combination of signals from cones with different pigments allows color vision." [MESH:A08.663.650.650.670.100] xref: BTO:0001036 xref: CALOHA:TS-0866 xref: FMA:67748 is_a: CL:0010009 ! camera-type eye photoreceptor cell relationship: develops_from CL:0002672 ! retinal progenitor cell [Term] id: CL:0000575 name: corneal epithelial cell namespace: cell alt_id: CL:1000431 def: "An epithelial cell of the cornea." [GOC:tfm] synonym: "epithelial cell of cornea" EXACT [FMA:70551] xref: BTO:0004298 xref: CALOHA:TS-0173 xref: FMA:70551 is_a: CL:0000076 {is_inferred="true"} ! squamous epithelial cell is_a: CL:0002159 ! general ecto-epithelial cell intersection_of: CL:0000076 ! squamous epithelial cell intersection_of: part_of UBERON:0000964 ! cornea relationship: part_of UBERON:0000964 ! cornea [Term] id: CL:0000586 name: germ cell namespace: cell def: "The reproductive cell in multicellular organisms." [MESH:A05.360.490] xref: BTO:0000535 xref: VHOG:0001534 xref: WBbt:0006796 is_a: CL:0000039 {is_inferred="true"} ! germ line cell relationship: capable_of GO:0048609 ! multicellular organismal reproductive process [Term] id: CL:0000593 name: androgen secreting cell namespace: cell def: "A steroid hormone secreting cell that secretes androgen." [GOC:tfm] is_a: CL:0000174 ! steroid hormone secreting cell intersection_of: CL:0000151 ! secretory cell intersection_of: capable_of GO:0035935 ! androgen secretion relationship: capable_of GO:0035935 ! androgen secretion [Term] id: CL:0000595 name: enucleate erythrocyte namespace: cell def: "An erythrocyte lacking a nucleus." [GOC:add, GOC:tfm] synonym: "RBC" BROAD [] synonym: "red blood cell" BROAD [] is_a: CL:0000225 ! anucleate cell is_a: CL:0000232 {is_inferred="true"} ! erythrocyte intersection_of: CL:0000232 ! erythrocyte intersection_of: bearer_of PATO:0001405 ! anucleate relationship: develops_from CL:0002422 ! enucleated reticulocyte [Term] id: CL:0000604 name: retinal rod cell namespace: cell def: "One of the two photoreceptor cell types of the vertebrate retina. In rods the photopigment is in stacks of membranous disks separate from the outer cell membrane. Rods are more sensitive to light than cones, but rod mediated vision has less spatial and temporal resolution than cone vision." [MESH:A08.663.650.650.670.650] xref: BTO:0001024 xref: CALOHA:TS-0870 xref: FMA:67747 is_a: CL:0010009 ! camera-type eye photoreceptor cell relationship: develops_from CL:0002672 ! retinal progenitor cell [Term] id: CL:0000630 name: supporting cell name: supportive cell namespace: cell def: "A cell whose primary function is to support other cell types." [FB:ma, GOC:tfm] synonym: "supportive cell" EXACT [] xref: BTO:0002315 is_a: CL:0000003 ! native cell [Term] id: CL:0000667 name: collagen secreting cell namespace: cell def: "An extracellular matrix secreting cell that secretes collagen." [GOC:tfm] is_a: CL:0000327 ! extracellular matrix secreting cell [Term] id: CL:0000670 name: primordial germ cell namespace: cell def: "A primordial germ cell is a diploid germ cell precursors that transiently exist in the embryo before they enter into close association with the somatic cells of the gonad and become irreversibly committed as germ cells." [GOC:tfm, PMID:1381289] synonym: "gonocyte" EXACT [] synonym: "primitive germ cell" EXACT [] xref: FMA:70567 is_a: CL:0000039 {is_inferred="true"} ! germ line cell is_a: CL:0000219 {is_inferred="true"} ! motile cell intersection_of: CL:0000039 ! germ line cell intersection_of: capable_of GO:0048870 ! cell motility intersection_of: part_of UBERON:0000922 ! embryo relationship: part_of UBERON:0000922 ! embryo [Term] id: CL:0000680 name: muscle precursor cell namespace: cell def: "A non-terminally differentiated cell that is capable of developing into a muscle cell." [GOC:add] is_a: CARO:0000000 ! anatomical entity is_a: CL:0000055 ! non-terminally differentiated cell is_a: CL:0002371 ! somatic cell intersection_of: CL:0011115 ! precursor cell intersection_of: develops_into CL:0000187 ! muscle cell relationship: develops_from CL:0000222 ! mesodermal cell relationship: develops_into CL:0000187 ! muscle cell [Term] id: CL:0000696 name: PP cell namespace: cell def: "A cell that stores and secretes pancreatic polypeptide hormone." [GOC:tfm, JB:jb, PMID:15153415] synonym: "type F enteroendocrine cell" EXACT [] xref: FMA:62938 xref: FMA:83409 is_a: CL:0000164 ! enteroendocrine cell is_a: CL:0000167 ! peptide hormone secreting cell [Term] id: CL:0000710 name: neurecto-epithelial cell namespace: cell def: "Epithelial cells derived from neural plate and neural crest." [GOC:tfm] comment: The term "neuroepithelial cell" is used to describe both this cell type and sensory epithelial cell (CL:0000098). synonym: "neuroepithelial cell" BROAD [] xref: BTO:0004301 xref: FMA:70557 is_a: CL:0000075 ! columnar/cuboidal epithelial cell is_a: CL:0002077 ! ecto-epithelial cell intersection_of: CL:0002077 ! ecto-epithelial cell intersection_of: develops_from CL:0000133 ! neurectodermal cell relationship: develops_from CL:0000133 ! neurectodermal cell [Term] id: CL:0000723 name: somatic stem cell namespace: cell def: "A stem cell that can give rise to cell types of the body other than those of the germ-line." [GO:0048103] xref: CALOHA:TS-2086 xref: FMA:63368 is_a: CL:0000034 {is_inferred="true"} ! stem cell is_a: CL:0002371 ! somatic cell intersection_of: CL:0000034 ! stem cell intersection_of: capable_of GO:0048103 ! somatic stem cell division relationship: capable_of GO:0048103 ! somatic stem cell division [Term] id: CL:0000737 name: striated muscle cell namespace: cell def: "Muscle cell which has as its direct parts myofilaments organized into sarcomeres." [GOC:tfm, ISBN:0721662544] xref: BTO:0002916 xref: CALOHA:TS-2157 xref: FMA:86936 is_a: CL:0000187 ! muscle cell intersection_of: CL:0000187 ! muscle cell intersection_of: bearer_of PATO:0001410 ! striated intersection_of: has_part GO:0030017 ! sarcomere disjoint_from: CL:0008000 ! non-striated muscle cell relationship: bearer_of PATO:0001410 ! striated relationship: has_part GO:0030017 ! sarcomere [Term] id: CL:0000738 name: leukocyte namespace: cell def: "An achromatic cell of the myeloid or lymphoid lineages capable of ameboid movement, found in blood or other tissue." [GOC:add, GOC:tfm, ISBN:978-0-323-05290-0] synonym: "immune cell" EXACT [] synonym: "leucocyte" EXACT [] synonym: "white blood cell" EXACT [] xref: BTO:0000751 xref: CALOHA:TS-0549 xref: FMA:62852 is_a: CARO:0000000 ! anatomical entity is_a: CL:0000219 ! motile cell is_a: CL:0000988 {is_inferred="true"} ! hematopoietic cell is_a: CL:0002242 ! nucleate cell intersection_of: CL:0000988 ! hematopoietic cell intersection_of: bearer_of PATO:0002505 ! nucleated intersection_of: capable_of GO:0001667 ! ameboidal-type cell migration relationship: capable_of GO:0001667 ! ameboidal-type cell migration relationship: develops_from CL:0000037 ! hematopoietic stem cell relationship: only_in_taxon NCBITaxon:7742 ! Vertebrata relationship: part_of UBERON:0002405 ! immune system [Term] id: CL:0000740 name: retinal ganglion cell namespace: cell def: "The set of neurons that receives neural inputs via bipolar, horizontal and amacrine cells. The axons of these cells make up the optic nerve." [GOC:dph] synonym: "gangliocyte" EXACT [] synonym: "ganglion cell of retina" EXACT [] synonym: "RGC" EXACT [] xref: BTO:0001800 xref: FMA:67765 is_a: CL:0000117 ! CNS neuron (sensu Vertebrata) relationship: RO:0002100 UBERON:0000966 ! has soma location retina [Term] id: CL:0000746 name: cardiac muscle cell namespace: cell alt_id: FMA:83808 def: "Cardiac muscle cells are striated muscle cells that are responsible for heart contraction. In mammals, the contractile fiber resembles those of skeletal muscle but are only one third as large in diameter, are richer in sarcoplasm, and contain centrally located instead of peripheral nuclei." [GOC:mtg_cardiacconduct_nov11, GOC:tfm, ISBN:0323052908, PMID:22426062, PMID:4711263] comment: This class encompasses the muscle cells responsible for heart* contraction in both vertebrates and arthropods. The ultrastucture of a wide range of arthropod heart cells has been examined including spiders, horseshoe crabs, crustaceans (see Sherman, 1973 and refs therein) and insects (see Lehmacher et al (2012) and refs therein). According to these refs, the cells participating in heart contraction in all cases are transversely striated. Insects hearts additionally contain ostial cells, also transversely striated muscle cells, but which do not participate in heart contraction. synonym: "cardiac muscle fiber" EXACT [GO:0048739] synonym: "cardiac myocyte" EXACT [] synonym: "cardiocyte" BROAD [] synonym: "cardiomyocyte" EXACT [] synonym: "heart muscle cell" EXACT [] xref: BTO:0001539 xref: CALOHA:TS-0115 xref: FMA:14067 is_a: CL:0000737 ! striated muscle cell is_a: CL:0002494 ! cardiocyte intersection_of: CL:0000187 ! muscle cell intersection_of: bearer_of PATO:0002478 ! transversely striated intersection_of: has_part GO:0030017 ! sarcomere intersection_of: part_of UBERON:0007100 ! primary circulatory organ intersection_of: participates_in GO:0060047 ! heart contraction relationship: bearer_of PATO:0002478 ! transversely striated relationship: develops_from CL:0000513 ! cardiac muscle myoblast relationship: participates_in GO:0060047 ! heart contraction [Term] id: CL:0000763 name: myeloid cell namespace: cell def: "A cell of the monocyte, granulocyte, mast cell, megakaryocyte, or erythroid lineage." [GOC:add] xref: BTO:0001441 xref: CALOHA:TS-0647 is_a: CARO:0000000 ! anatomical entity is_a: CL:0000988 {is_inferred="true"} ! hematopoietic cell intersection_of: CL:0000988 ! hematopoietic cell intersection_of: develops_from CL:0000049 ! common myeloid progenitor relationship: develops_from CL:0000049 ! common myeloid progenitor [Term] id: CL:0000764 name: erythroid lineage cell namespace: cell alt_id: CL:0002156 def: "A immature or mature cell in the lineage leading to and including erythrocytes." [GOC:add, GOC:tfm] comment: Note that in FMA erythropoietic cells are types of nucleated erythrocytes and thus don't include erythrocytes. synonym: "erythropoietic cell" EXACT [] xref: CALOHA:TS-0290 xref: FMA:62845 xref: FMA:83516 is_a: CL:0000763 ! myeloid cell [Term] id: CL:0000765 name: erythroblast namespace: cell def: "A nucleated precursor of an erythrocyte that lacks hematopoietic lineage markers." [GOC:add, ISBN:0721601464, PMID:18174176] synonym: "normoblast" EXACT [] xref: BTO:0001571 xref: CALOHA:TS-0289 xref: FMA:83504 is_a: CL:0000764 {is_inferred="true"} ! erythroid lineage cell is_a: CL:0011026 ! progenitor cell intersection_of: CL:0000764 ! erythroid lineage cell intersection_of: capable_of GO:0030218 ! erythrocyte differentiation intersection_of: has_part GO:0005634 ! nucleus intersection_of: lacks_part GO:0005730 ! nucleolus intersection_of: lacks_plasma_membrane_part PR:000001002 ! CD19 molecule intersection_of: lacks_plasma_membrane_part PR:000001004 ! CD4 molecule intersection_of: lacks_plasma_membrane_part PR:000001012 ! integrin alpha-M intersection_of: lacks_plasma_membrane_part PR:000001020 ! CD3 epsilon intersection_of: lacks_plasma_membrane_part PR:000001024 ! neural cell adhesion molecule 1 intersection_of: lacks_plasma_membrane_part PR:000001083 ! CD2 molecule intersection_of: lacks_plasma_membrane_part PR:000001084 ! T-cell surface glycoprotein CD8 alpha chain intersection_of: lacks_plasma_membrane_part PR:000001289 ! membrane-spanning 4-domains subfamily A member 1 intersection_of: lacks_plasma_membrane_part PR:000001839 ! T-cell surface glycoprotein CD5 intersection_of: lacks_plasma_membrane_part PR:000001889 ! CD14 molecule intersection_of: lacks_plasma_membrane_part PR:000002978 ! lymphocyte antigen 6G relationship: capable_of GO:0030218 ! erythrocyte differentiation relationship: develops_from CL:0000547 ! proerythroblast relationship: has_part GO:0005634 ! nucleus relationship: lacks_part GO:0005730 ! nucleolus relationship: lacks_plasma_membrane_part PR:000001002 ! CD19 molecule relationship: lacks_plasma_membrane_part PR:000001004 ! CD4 molecule relationship: lacks_plasma_membrane_part PR:000001012 ! integrin alpha-M relationship: lacks_plasma_membrane_part PR:000001020 ! CD3 epsilon relationship: lacks_plasma_membrane_part PR:000001024 ! neural cell adhesion molecule 1 relationship: lacks_plasma_membrane_part PR:000001083 ! CD2 molecule relationship: lacks_plasma_membrane_part PR:000001084 ! T-cell surface glycoprotein CD8 alpha chain relationship: lacks_plasma_membrane_part PR:000001289 ! membrane-spanning 4-domains subfamily A member 1 relationship: lacks_plasma_membrane_part PR:000001839 ! T-cell surface glycoprotein CD5 relationship: lacks_plasma_membrane_part PR:000001889 ! CD14 molecule relationship: lacks_plasma_membrane_part PR:000002978 ! lymphocyte antigen 6G [Term] id: CL:0000766 name: myeloid leukocyte namespace: cell def: "A cell of the monocyte, granulocyte, or mast cell lineage." [GOC:add] is_a: CL:0000738 {is_inferred="true"} ! leukocyte is_a: CL:0000763 ! myeloid cell intersection_of: CL:0000738 ! leukocyte intersection_of: develops_from CL:0000049 ! common myeloid progenitor [Term] id: CL:0000837 name: hematopoietic multipotent progenitor cell namespace: cell def: "A hematopoietic multipotent progenitor cell is multipotent, but not capable of long-term self-renewal. These cells are characterized as lacking lineage cell surface markers and being CD34-positive in both mice and humans." [GOC:add, GOC:tfm, PMID:19022770] comment: Markers differ between mouse and human. synonym: "hemopoietic progenitor cell" EXACT [] synonym: "MPP" EXACT [] xref: BTO:0000725 xref: CALOHA:TS-0448 is_a: CARO:0000000 ! anatomical entity is_a: CL:0008001 ! hematopoietic precursor cell intersection_of: CL:0000988 ! hematopoietic cell intersection_of: bearer_of PATO:0001402 ! multipotent intersection_of: lacks_plasma_membrane_part PR:000001002 ! CD19 molecule intersection_of: lacks_plasma_membrane_part PR:000001004 ! CD4 molecule intersection_of: lacks_plasma_membrane_part PR:000001012 ! integrin alpha-M intersection_of: lacks_plasma_membrane_part PR:000001020 ! CD3 epsilon intersection_of: lacks_plasma_membrane_part PR:000001024 ! neural cell adhesion molecule 1 intersection_of: lacks_plasma_membrane_part PR:000001083 ! CD2 molecule intersection_of: lacks_plasma_membrane_part PR:000001084 ! T-cell surface glycoprotein CD8 alpha chain intersection_of: lacks_plasma_membrane_part PR:000001289 ! membrane-spanning 4-domains subfamily A member 1 intersection_of: lacks_plasma_membrane_part PR:000001839 ! T-cell surface glycoprotein CD5 intersection_of: lacks_plasma_membrane_part PR:000001869 ! interleukin-7 receptor subunit alpha intersection_of: lacks_plasma_membrane_part PR:000001889 ! CD14 molecule intersection_of: lacks_plasma_membrane_part PR:000002978 ! lymphocyte antigen 6G intersection_of: lacks_plasma_membrane_part PR:000002981 ! lymphocyte antigen 76 (mouse) intersection_of: RO:0002104 PR:000001003 ! has plasma membrane part CD34 molecule disjoint_from: CL:0002032 ! hematopoietic oligopotent progenitor cell relationship: bearer_of PATO:0001402 ! multipotent relationship: develops_from CL:0000037 ! hematopoietic stem cell relationship: lacks_plasma_membrane_part PR:000001002 ! CD19 molecule relationship: lacks_plasma_membrane_part PR:000001004 ! CD4 molecule relationship: lacks_plasma_membrane_part PR:000001012 ! integrin alpha-M relationship: lacks_plasma_membrane_part PR:000001020 ! CD3 epsilon relationship: lacks_plasma_membrane_part PR:000001024 ! neural cell adhesion molecule 1 relationship: lacks_plasma_membrane_part PR:000001083 ! CD2 molecule relationship: lacks_plasma_membrane_part PR:000001084 ! T-cell surface glycoprotein CD8 alpha chain relationship: lacks_plasma_membrane_part PR:000001289 ! membrane-spanning 4-domains subfamily A member 1 relationship: lacks_plasma_membrane_part PR:000001839 ! T-cell surface glycoprotein CD5 relationship: lacks_plasma_membrane_part PR:000001869 ! interleukin-7 receptor subunit alpha relationship: lacks_plasma_membrane_part PR:000001889 ! CD14 molecule relationship: lacks_plasma_membrane_part PR:000002978 ! lymphocyte antigen 6G relationship: lacks_plasma_membrane_part PR:000002981 ! lymphocyte antigen 76 (mouse) relationship: RO:0002104 PR:000001003 ! has plasma membrane part CD34 molecule [Term] id: CL:0000839 name: myeloid lineage restricted progenitor cell namespace: cell def: "A progenitor cell restricted to the myeloid lineage." [GOC:add, GOC:tfm, PMID:19022770] comment: Note that this is a class of cell types, not an identified single cell type. synonym: "myeloid progenitor cell" BROAD [] xref: BTO:0004730 xref: CALOHA:TS-2099 xref: FMA:70339 is_a: CL:0002031 {is_inferred="true"} ! hematopoietic lineage restricted progenitor cell is_a: CL:0011026 ! progenitor cell intersection_of: CL:0002031 ! hematopoietic lineage restricted progenitor cell intersection_of: capable_of GO:0030099 ! myeloid cell differentiation relationship: capable_of GO:0030099 ! myeloid cell differentiation [Term] id: CL:0000842 name: mononuclear cell namespace: cell def: "A leukocyte with a single non-segmented nucleus in the mature form." [GOC:add] synonym: "mononuclear leukocyte" EXACT [] synonym: "peripheral blood mononuclear cell" NARROW [] xref: BTO:0000878 xref: CALOHA:TS-0768 xref: FMA:86713 is_a: CL:0000226 ! single nucleate cell is_a: CL:0000738 {is_inferred="true"} ! leukocyte intersection_of: CL:0000738 ! leukocyte intersection_of: bearer_of PATO:0001407 ! mononucleate [Term] id: CL:0000988 name: hematopoietic cell namespace: cell def: "A cell of a hematopoietic lineage." [GO_REF:0000031, GOC:add] synonym: "haematopoietic cell" EXACT [] synonym: "haemopoietic cell" EXACT [] synonym: "hemopoietic cell" EXACT [] xref: BTO:0000574 xref: CALOHA:TS-2017 xref: FMA:70366 xref: FMA:83598 is_a: CL:0000548 ! animal cell is_a: CL:0002371 ! somatic cell [Term] id: CL:0001035 name: bone cell namespace: cell def: "A connective tissue cell found in bone." [GO_REF:0000034, GOC:add] is_a: BFO:0000004 ! independent continuant is_a: CL:0000548 {is_inferred="true"} ! animal cell intersection_of: CL:0000548 ! animal cell intersection_of: part_of UBERON:0001474 ! bone element relationship: part_of UBERON:0001474 ! bone element created_by: adiehl creation_date: 2011-11-16T04:28:16Z [Term] id: CL:0001060 name: hematopoietic oligopotent progenitor cell, lineage-negative namespace: cell def: "A hematopoietic oligopotent progenitor cell that has the ability to differentiate into limited cell types but lacks lineage cell markers and self renewal capabilities. Cell lacks hematopoeitic lineage markers." [GOC:tfm, PMID:19022770] is_a: CL:0002032 ! hematopoietic oligopotent progenitor cell intersection_of: CL:0002032 ! hematopoietic oligopotent progenitor cell intersection_of: bearer_of PATO:0001401 ! oligopotent intersection_of: lacks_plasma_membrane_part PR:000001002 ! CD19 molecule intersection_of: lacks_plasma_membrane_part PR:000001004 ! CD4 molecule intersection_of: lacks_plasma_membrane_part PR:000001012 ! integrin alpha-M intersection_of: lacks_plasma_membrane_part PR:000001020 ! CD3 epsilon intersection_of: lacks_plasma_membrane_part PR:000001024 ! neural cell adhesion molecule 1 intersection_of: lacks_plasma_membrane_part PR:000001083 ! CD2 molecule intersection_of: lacks_plasma_membrane_part PR:000001084 ! T-cell surface glycoprotein CD8 alpha chain intersection_of: lacks_plasma_membrane_part PR:000001289 ! membrane-spanning 4-domains subfamily A member 1 intersection_of: lacks_plasma_membrane_part PR:000001839 ! T-cell surface glycoprotein CD5 intersection_of: lacks_plasma_membrane_part PR:000001889 ! CD14 molecule intersection_of: lacks_plasma_membrane_part PR:000002978 ! lymphocyte antigen 6G intersection_of: lacks_plasma_membrane_part PR:000002981 ! lymphocyte antigen 76 (mouse) relationship: lacks_plasma_membrane_part PR:000001002 ! CD19 molecule relationship: lacks_plasma_membrane_part PR:000001004 ! CD4 molecule relationship: lacks_plasma_membrane_part PR:000001012 ! integrin alpha-M relationship: lacks_plasma_membrane_part PR:000001020 ! CD3 epsilon relationship: lacks_plasma_membrane_part PR:000001024 ! neural cell adhesion molecule 1 relationship: lacks_plasma_membrane_part PR:000001083 ! CD2 molecule relationship: lacks_plasma_membrane_part PR:000001084 ! T-cell surface glycoprotein CD8 alpha chain relationship: lacks_plasma_membrane_part PR:000001289 ! membrane-spanning 4-domains subfamily A member 1 relationship: lacks_plasma_membrane_part PR:000001839 ! T-cell surface glycoprotein CD5 relationship: lacks_plasma_membrane_part PR:000001889 ! CD14 molecule relationship: lacks_plasma_membrane_part PR:000002978 ! lymphocyte antigen 6G relationship: lacks_plasma_membrane_part PR:000002981 ! lymphocyte antigen 76 (mouse) created_by: tmeehan creation_date: 2010-01-06T03:43:27Z [Term] id: CL:0001066 name: erythroid progenitor cell, mammalian namespace: cell def: "A progenitor cell committed to the erythroid lineage. This cell is ter119-positive but lacks expression of other hematopoietic lineage markers (lin-negative)." [GOC:add, ISBN:0721601464] synonym: "BFU-E" RELATED [] synonym: "blast forming unit erythroid" RELATED [] synonym: "burst forming unit erythroid" RELATED [] synonym: "CFU-E" RELATED [] synonym: "colony forming unit erythroid" RELATED [] synonym: "erythroid stem cell" RELATED [] xref: BTO:0004911 is_a: CL:0000038 ! erythroid progenitor cell intersection_of: CL:0000038 ! erythroid progenitor cell intersection_of: capable_of GO:0030218 ! erythrocyte differentiation intersection_of: lacks_plasma_membrane_part PR:000001002 ! CD19 molecule intersection_of: lacks_plasma_membrane_part PR:000001004 ! CD4 molecule intersection_of: lacks_plasma_membrane_part PR:000001012 ! integrin alpha-M intersection_of: lacks_plasma_membrane_part PR:000001020 ! CD3 epsilon intersection_of: lacks_plasma_membrane_part PR:000001024 ! neural cell adhesion molecule 1 intersection_of: lacks_plasma_membrane_part PR:000001083 ! CD2 molecule intersection_of: lacks_plasma_membrane_part PR:000001084 ! T-cell surface glycoprotein CD8 alpha chain intersection_of: lacks_plasma_membrane_part PR:000001289 ! membrane-spanning 4-domains subfamily A member 1 intersection_of: lacks_plasma_membrane_part PR:000001839 ! T-cell surface glycoprotein CD5 intersection_of: lacks_plasma_membrane_part PR:000001889 ! CD14 molecule intersection_of: lacks_plasma_membrane_part PR:000002978 ! lymphocyte antigen 6G intersection_of: RO:0002104 PR:000001945 ! has plasma membrane part transferrin receptor protein 1 relationship: capable_of GO:0030218 ! erythrocyte differentiation relationship: lacks_plasma_membrane_part PR:000001002 ! CD19 molecule relationship: lacks_plasma_membrane_part PR:000001004 ! CD4 molecule relationship: lacks_plasma_membrane_part PR:000001012 ! integrin alpha-M relationship: lacks_plasma_membrane_part PR:000001020 ! CD3 epsilon relationship: lacks_plasma_membrane_part PR:000001024 ! neural cell adhesion molecule 1 relationship: lacks_plasma_membrane_part PR:000001083 ! CD2 molecule relationship: lacks_plasma_membrane_part PR:000001084 ! T-cell surface glycoprotein CD8 alpha chain relationship: lacks_plasma_membrane_part PR:000001289 ! membrane-spanning 4-domains subfamily A member 1 relationship: lacks_plasma_membrane_part PR:000001839 ! T-cell surface glycoprotein CD5 relationship: lacks_plasma_membrane_part PR:000001889 ! CD14 molecule relationship: lacks_plasma_membrane_part PR:000002978 ! lymphocyte antigen 6G relationship: RO:0002104 PR:000001945 ! has plasma membrane part transferrin receptor protein 1 [Term] id: CL:0002031 name: hematopoietic lineage restricted progenitor cell namespace: cell def: "A hematopoietic progenitor cell that is capable of developing into only one lineage of hematopoietic cells." [GOC:tfm, PMID:19022770] is_a: CARO:0000000 ! anatomical entity is_a: CL:0008001 ! hematopoietic precursor cell intersection_of: CL:0000988 ! hematopoietic cell intersection_of: bearer_of PATO:0001400 ! unipotent disjoint_from: CL:0002032 ! hematopoietic oligopotent progenitor cell relationship: bearer_of PATO:0001400 ! unipotent relationship: develops_from CL:0002032 ! hematopoietic oligopotent progenitor cell created_by: tmeehan creation_date: 2010-01-06T03:43:20Z [Term] id: CL:0002032 name: hematopoietic oligopotent progenitor cell namespace: cell def: "A hematopoietic oligopotent progenitor cell that has the ability to differentiate into limited cell types but lacks lineage cell markers and self renewal capabilities." [GOC:tfm, https://orcid.org/0000-0001-5208-3432, PMID:19022770] comment: This cell type is intended to be compatible with any vertebrate hematopoietic oligopotent progenitor cell. For mammalian hematopoietic oligopotent progenitor cells known to be lineage-negative, please use the term 'hematopoietic oligopotent progenitor cell' (CL_0001060). is_a: CARO:0000000 ! anatomical entity is_a: CL:0008001 ! hematopoietic precursor cell intersection_of: CL:0000988 ! hematopoietic cell intersection_of: bearer_of PATO:0001401 ! oligopotent relationship: bearer_of PATO:0001401 ! oligopotent relationship: develops_from CL:0000837 ! hematopoietic multipotent progenitor cell created_by: tmeehan creation_date: 2010-01-06T03:43:27Z [Term] id: CL:0002067 name: type A enteroendocrine cell namespace: cell def: "An enteroendocrine cell that produces glucagon." [GOC:tfm, ISBN:0412046911] xref: FMA:62939 is_a: CL:0000164 ! enteroendocrine cell is_a: CL:0000170 ! glucagon secreting cell intersection_of: CL:0000164 ! enteroendocrine cell intersection_of: capable_of GO:0070091 ! glucagon secretion created_by: tmeehan creation_date: 2010-09-10T10:48:54Z [Term] id: CL:0002068 name: Purkinje myocyte namespace: cell def: "Specialized cardiac myocyte that is subendocardially interspersed with the regular cardiac muscle cell. They are uninucleate cylindrical cells, associated end-to-end in long rows, continue from the node to the atrioventricular bundle; relatively short compared to ordinary myocytes but are nearly twice their diameter." [FMA:0412046911, GOC:tfm, PMID:19939742] synonym: "myocytus conducens cardiacus" EXACT [] synonym: "Purkinje cell fiber" EXACT [] synonym: "Purkinje muscle cell" EXACT [] xref: BTO:0001032 xref: FMA:14146 is_a: CL:0002086 ! specialized cardiac myocyte created_by: tmeehan creation_date: 2010-06-28T08:36:15Z [Term] id: CL:0002072 name: nodal myocyte namespace: cell def: "A specialized cardiac myocyte in the sinoatrial and atrioventricular nodes. The cell is slender and fusiform confined to the nodal center, circumferentially arranged around the nodal artery." [FMA:67101, GOC:tfm] synonym: "cardiac pacemaker cell" EXACT [GOC:pr] synonym: "myocytus nodalis" EXACT [] synonym: "P cell" EXACT [] synonym: "pacemaker cell" BROAD [] xref: BTO:0004190 xref: FMA:67101 is_a: CL:0002086 ! specialized cardiac myocyte created_by: tmeehan creation_date: 2010-06-29T11:41:37Z [Term] id: CL:0002073 name: transitional myocyte namespace: cell def: "Specialized cardiac myocyte which is in the internodal tract and atrioventricular node. The cell is more slender than ordinary atrial myocytes and has more myofibrils than nodal myocytes." [FMA:67142, GOC:tfm] xref: FMA:67142 is_a: CL:0002086 ! specialized cardiac myocyte created_by: tmeehan creation_date: 2010-06-29T02:39:32Z [Term] id: CL:0002074 name: myocardial endocrine cell namespace: cell def: "The myoendocrine cellis a specialized myocyte localized mainly in the right and left atrial appendages, and also scattered within other areas of the atria and along the conductive system in the ventricular septum. The most conspicuous feature distinguishing myoendocrine cells from other atrial myoctyes is the presence of membane-bounded secretory granules (these granules contain precursor of cardiodilatins or atrial natriuretic polypeptides)." [FMA:67111, GOC:tfm] xref: FMA:67111 is_a: CL:0000163 ! endocrine cell is_a: CL:0002086 ! specialized cardiac myocyte created_by: tmeehan creation_date: 2010-06-29T11:50:47Z [Term] id: CL:0002076 name: endo-epithelial cell namespace: cell def: "An epithelial cell derived from endoderm." [FMA:69075, GOC:tfm] xref: FMA:69075 is_a: CARO:0000000 ! anatomical entity is_a: CL:0000066 ! epithelial cell is_a: CL:0002371 ! somatic cell relationship: develops_from CL:0000223 ! endodermal cell created_by: tmeehan creation_date: 2010-06-29T03:38:14Z [Term] id: CL:0002077 name: ecto-epithelial cell namespace: cell def: "An epithelial cell derived from ectoderm." [FMA:69074, GOC:tfm] xref: FMA:69074 is_a: CARO:0000000 ! anatomical entity is_a: CL:0000066 ! epithelial cell is_a: CL:0002371 ! somatic cell intersection_of: CL:0000066 ! epithelial cell intersection_of: develops_from CL:0000221 ! ectodermal cell relationship: develops_from CL:0000221 ! ectodermal cell created_by: tmeehan creation_date: 2010-06-29T03:38:22Z [Term] id: CL:0002078 name: meso-epithelial cell namespace: cell def: "Epithelial cell derived from mesoderm or mesenchyme." [FMA:69076, GOC:tfm] synonym: "epithelial mesenchymal cell" EXACT [] xref: FMA:69076 is_a: CARO:0000000 ! anatomical entity is_a: CL:0000066 ! epithelial cell is_a: CL:0002371 ! somatic cell intersection_of: CL:0000066 ! epithelial cell intersection_of: develops_from CL:0000222 ! mesodermal cell relationship: develops_from CL:0000222 ! mesodermal cell created_by: tmeehan creation_date: 2010-06-29T03:49:14Z [Term] id: CL:0002086 name: specialized cardiac myocyte namespace: cell def: "A cardiac myocyte that is an excitable cells in the myocardium, specifically in the conducting system of heart." [FMA:67968, GOC:tfm] xref: FMA:67968 is_a: CL:0000746 ! cardiac muscle cell created_by: tmeehan creation_date: 2010-07-21T01:33:38Z [Term] id: CL:0002092 name: bone marrow cell namespace: cell def: "A cell found in the bone marrow. This can include fibroblasts, macrophages, adipocytes, osteoblasts, osteoclasts, endothelial cells and hematopoietic cells." [GOC:tfm, ISBN:0618947256] comment: MH consider whether bone marrow cells are bone cells in the structural sense vs. being part of bone organ sense. xref: BTO:0004850 xref: FMA:83621 is_a: CARO:0000000 ! anatomical entity is_a: CL:0001035 {is_inferred="true"} ! bone cell intersection_of: CL:0001035 ! bone cell intersection_of: part_of UBERON:0002371 ! bone marrow relationship: part_of UBERON:0002371 ! bone marrow created_by: tmeehan creation_date: 2010-07-22T04:48:15Z [Term] id: CL:0002095 name: hilus cell of ovary namespace: cell def: "A cell in the hilum of the ovary that produces androgens." [GOC:tfm, ISBN:068340007X] synonym: "hilar cell of ovary" EXACT [] xref: FMA:18710 is_a: CL:0000593 ! androgen secreting cell is_a: CL:0002132 ! stromal cell of ovary created_by: tmeehan creation_date: 2010-08-23T11:18:18Z [Term] id: CL:0002132 name: stromal cell of ovary namespace: cell def: "A stomal cell of the ovary" [GOC:tfm] synonym: "ovarian stromal cell" EXACT [GOC:cjm] xref: FMA:72299 is_a: CL:0000499 ! stromal cell intersection_of: CL:0000499 ! stromal cell intersection_of: part_of UBERON:0000992 ! ovary relationship: part_of UBERON:0000992 ! ovary created_by: tmeehan creation_date: 2010-08-23T12:10:31Z [Term] id: CL:0002139 name: endothelial cell of vascular tree namespace: cell def: "An endothelial cell of the vascular tree, which includes blood vessels and lymphatic vessels." [GOC:dsd, GOC:tfm, PMID:12768659] comment: These cells are reportedly CD31-positive, CD34-positive, CD144-positive, TAL1-positive. synonym: "cubodial endothelial cell of vascular tree" NARROW [] synonym: "vascular endothelial cell" EXACT [] xref: BTO:0001854 xref: CALOHA:TS-1106 xref: FMA:67755 is_a: CL:0000115 ! endothelial cell created_by: tmeehan creation_date: 2010-08-24T02:06:40Z [Term] id: CL:0002144 name: capillary endothelial cell namespace: cell def: "An endothelial cell found in capillaries." [GOC:tfm] xref: BTO:0004956 xref: CALOHA:TS-0112 xref: FMA:67756 is_a: CL:0000071 {is_inferred="true"} ! blood vessel endothelial cell intersection_of: CL:0000071 ! blood vessel endothelial cell intersection_of: part_of UBERON:0001915 ! endothelium of capillary relationship: part_of UBERON:0001915 ! endothelium of capillary created_by: tmeehan creation_date: 2010-08-24T10:15:00Z [Term] id: CL:0002159 name: general ecto-epithelial cell namespace: cell def: "Epithelial cells derived from general body ectoderm and ectoderm placodes." [GOC:tfm] xref: FMA:70556 is_a: CL:0002077 ! ecto-epithelial cell created_by: tmeehan creation_date: 2010-08-26T08:31:08Z [Term] id: CL:0002178 name: epithelial cell of stomach namespace: cell alt_id: CL:1000399 def: "An epithelial cell found in the lining of the stomach." [GOC:tfm] xref: FMA:62948 is_a: CL:0002251 {is_inferred="true"} ! epithelial cell of alimentary canal intersection_of: CL:0000066 ! epithelial cell intersection_of: part_of UBERON:0000945 ! stomach relationship: part_of UBERON:0000945 ! stomach created_by: tmeehan creation_date: 2010-08-25T03:22:08Z [Term] id: CL:0002180 name: mucous cell of stomach namespace: cell alt_id: CL:1000404 def: "A mucous cell in the epithelium of the stomach." [GOC:tfm] xref: FMA:63464 is_a: CL:0002659 ! glandular cell of stomach intersection_of: CL:0002178 ! epithelial cell of stomach intersection_of: part_of UBERON:0001199 ! mucosa of stomach relationship: part_of UBERON:0001199 ! mucosa of stomach created_by: tmeehan creation_date: 2010-08-25T03:38:51Z [Term] id: CL:0002183 name: stem cell of gastric gland namespace: cell alt_id: CL:1000400 def: "A stomach epithelial cell that is olumnar in form with a few short apical microvilli; relatively undifferentiated mitotic cell from which other types of gland are derived; few in number, situated in the isthmus region of the gland and base of the gastric pit." [GOC:tfm, ISBN:0517223651] xref: FMA:62953 is_a: CL:0000048 {is_inferred="true"} ! multi fate stem cell is_a: CL:0000152 ! exocrine cell is_a: CL:0002180 ! mucous cell of stomach intersection_of: CL:0000048 ! multi fate stem cell intersection_of: part_of UBERON:0000325 ! gastric gland relationship: part_of UBERON:0000325 ! gastric gland created_by: tmeehan creation_date: 2010-08-25T03:57:08Z [Term] id: CL:0002222 name: vertebrate lens cell namespace: cell def: "A cell comprising the transparent, biconvex body separating the posterior chamber and vitreous body, and constituting part of the refracting mechanism of the mammalian eye." [GOC:tfm, ISBN:0721662544] xref: FMA:70950 is_a: CARO:0000000 ! anatomical entity is_a: CL:0000066 ! epithelial cell is_a: CL:0000306 ! crystallin accumulating cell is_a: CL:0002371 ! somatic cell relationship: part_of UBERON:0000965 ! lens of camera-type eye created_by: tmeehan creation_date: 2010-09-07T10:38:03Z [Term] id: CL:0002224 name: lens epithelial cell namespace: cell def: "A cell of the cuboidal epithelium that covers the lens. The cells of the lens epithelium regulate most of the homeostatic functions of the lens. As ions, nutrients, and liquid enter the lens from the aqueous humor, Na+/K+ ATPase pumps in the lens epithelial cells pump ions out of the lens to maintain appropriate lens osmolarity and volume, with equatorially positioned lens epithelium cells contributing most to this current. The activity of the Na+/K+ ATPases keeps water and current flowing through the lens from the poles and exiting through the equatorial regions. The cells of the lens epithelium also serve as the progenitors for new lens fibers. It constantly lays down fibers in the embryo, fetus, infant, and adult, and continues to lay down fibers for lifelong growth." [GOC:tfm, http://en.wikipedia.org/wiki/Lens_%28anatomy%29#Lens_epithelium, ISBN:0721662544] xref: FMA:67559 is_a: CL:0000075 {is_inferred="true"} ! columnar/cuboidal epithelial cell is_a: CL:0002222 ! vertebrate lens cell intersection_of: CL:0000075 ! columnar/cuboidal epithelial cell intersection_of: part_of UBERON:0001803 ! epithelium of lens relationship: part_of UBERON:0001803 ! epithelium of lens created_by: tmeehan creation_date: 2010-09-07T10:45:47Z [Term] id: CL:0002240 name: marrow fibroblast namespace: cell def: "A fibroblast in the bone marrow." [GOC:tfm] xref: FMA:84377 is_a: CL:0000057 ! fibroblast is_a: CL:0002092 ! bone marrow cell intersection_of: CL:0000057 ! fibroblast intersection_of: part_of UBERON:0002371 ! bone marrow created_by: tmeehan creation_date: 2010-09-07T02:25:18Z [Term] id: CL:0002242 name: nucleate cell namespace: cell def: "A cell containing at least one nucleus." [GOC:tfm] xref: FMA:67513 is_a: CL:0000003 ! native cell intersection_of: CL:0000003 ! native cell intersection_of: bearer_of PATO:0002505 ! nucleated relationship: bearer_of PATO:0002505 ! nucleated created_by: tmeehan creation_date: 2010-09-07T03:32:33Z [Term] id: CL:0002246 name: peripheral blood stem cell namespace: cell def: "A hematopoeitic stem cell found in the blood. Normally found in very limited numbers in the peripheral circulation (less than 0.1% of all nucleated cells)." [GOC:tfm] synonym: "PBSC" EXACT [] xref: BTO:0002669 xref: FMA:86711 is_a: CL:0000037 {is_inferred="true"} ! hematopoietic stem cell is_a: CL:0000080 ! circulating cell intersection_of: CL:0000037 ! hematopoietic stem cell intersection_of: part_of UBERON:0000178 ! blood relationship: part_of UBERON:0000178 ! blood created_by: tmeehan creation_date: 2010-09-07T03:57:09Z [Term] id: CL:0002251 name: epithelial cell of alimentary canal namespace: cell def: "An epithelial cell of the musculomembranous digestive tube extending from the mouth to the anus." [GOC:tfm, ISBN:0721662544] is_a: CL:0002076 ! endo-epithelial cell intersection_of: CL:0000066 ! epithelial cell intersection_of: part_of UBERON:0001555 ! digestive tract relationship: part_of UBERON:0001555 ! digestive tract created_by: tmeehan creation_date: 2010-09-08T09:26:53Z [Term] id: CL:0002252 name: epithelial cell of esophagus namespace: cell alt_id: CL:1000402 def: "An epithelial cell of the esophagus." [GOC:tfm] xref: FMA:63071 is_a: CL:0002251 {is_inferred="true"} ! epithelial cell of alimentary canal intersection_of: CL:0000066 ! epithelial cell intersection_of: part_of UBERON:0001043 ! esophagus relationship: part_of UBERON:0001043 ! esophagus created_by: tmeehan creation_date: 2010-09-08T09:28:20Z [Term] id: CL:0002262 name: endothelial cell of sinusoid namespace: cell alt_id: CL:1000403 def: "An endothelial cell that lines any of the venous cavities through which blood passes in various glands and organs such as the spleen and liver." [GOC:tfm, ISBN:0618947256] xref: FMA:63134 is_a: CL:0000115 ! endothelial cell intersection_of: CL:0000115 ! endothelial cell intersection_of: part_of UBERON:0003909 ! sinusoid relationship: part_of UBERON:0003909 ! sinusoid created_by: tmeehan creation_date: 2010-09-14T10:57:26Z [Term] id: CL:0002264 name: type A cell of stomach namespace: cell def: "A type of enteroendocrine cell found in the stomach that secretes glucagon." [GOC:tfm] xref: FMA:83411 is_a: CL:0002067 ! type A enteroendocrine cell is_a: CL:0002659 ! glandular cell of stomach intersection_of: CL:0002067 ! type A enteroendocrine cell intersection_of: part_of UBERON:0000945 ! stomach created_by: tmeehan creation_date: 2010-09-10T10:54:42Z [Term] id: CL:0002308 name: epithelial cell of skin gland namespace: cell def: "An epithelial cell of a skin gland." [GOC:tfm] synonym: "epithelial cell of gland of skin" EXACT [] xref: FMA:70657 is_a: CL:0002159 ! general ecto-epithelial cell intersection_of: CL:0000066 ! epithelial cell intersection_of: part_of UBERON:0002419 ! skin gland relationship: part_of UBERON:0002419 ! skin gland created_by: tmeehan creation_date: 2010-09-14T12:00:07Z [Term] id: CL:0002319 name: neural cell namespace: cell def: "A cell that is part of the nervous system." [GOC:tfm, ISBN:0618947256] xref: CALOHA:TS-2040 xref: FMA:70333 is_a: CARO:0000000 ! anatomical entity is_a: CL:0000548 ! animal cell is_a: CL:0002371 ! somatic cell intersection_of: CL:0000548 ! animal cell intersection_of: part_of UBERON:0001016 ! nervous system relationship: part_of UBERON:0001016 ! nervous system created_by: tmeehan creation_date: 2010-09-15T01:34:57Z [Term] id: CL:0002320 name: connective tissue cell namespace: cell alt_id: CL:1000406 def: "A cell of the supporting or framework tissue of the body, arising chiefly from the embryonic mesoderm and including adipose tissue, cartilage, and bone." [GOC:tfm, ISBN:0618947256] xref: CALOHA:TS-2096 xref: FMA:63875 is_a: BFO:0000004 ! independent continuant is_a: CL:0000548 ! animal cell is_a: CL:0002371 {is_inferred="true"} ! somatic cell intersection_of: CL:0002371 ! somatic cell intersection_of: part_of UBERON:0002384 ! connective tissue relationship: part_of UBERON:0002384 ! connective tissue created_by: tmeehan creation_date: 2010-09-15T03:01:54Z [Term] id: CL:0002321 name: embryonic cell (metazoa) namespace: cell def: "A cell of the embryo." [FMA:0618947256] xref: CALOHA:TS-0263 xref: FMA:82840 xref: FMA:82841 xref: WBbt:0007028 is_a: CL:0000548 ! animal cell created_by: tmeehan creation_date: 2010-09-15T03:39:21Z [Term] id: CL:0002333 name: neural crest derived fat cell namespace: cell def: "A fat cell derived from a neural crest cell." [GOC:tfm, PMID:17507398] is_a: CL:0000136 ! fat cell intersection_of: CL:0000136 ! fat cell intersection_of: develops_from CL:0000333 ! migratory neural crest cell relationship: develops_from CL:0000005 ! fibroblast neural crest derived created_by: tmeehan creation_date: 2010-09-20T02:25:25Z [Term] id: CL:0002350 name: endocardial cell namespace: cell alt_id: CL:1000475 def: "An endothelial cell that lines the intracavitary lumen of the heart, separating the circulating blood from the underlying myocardium. This cell type releases a number of vasoactive substances including prostacyclin, nitrous oxide and endothelin." [GOC:tfm, ISSN:0452-3458] synonym: "endocardial endothelial cell" EXACT [] synonym: "endothelial cell of endocardium" EXACT [FMA:75621] xref: FMA:75621 is_a: CL:0010008 ! cardiac endothelial cell intersection_of: CL:0000115 ! endothelial cell intersection_of: part_of UBERON:0002165 ! endocardium relationship: part_of UBERON:0002165 ! endocardium created_by: tmeehan creation_date: 2010-09-21T04:33:05Z [Term] id: CL:0002352 name: gestational hematopoietic stem cell namespace: cell def: "A hematopoietic stem cell that exists during embryogenesis." [GOC:tfm, ISBN:978-60327-246-6] is_a: CL:0000037 ! hematopoietic stem cell intersection_of: CL:0000037 ! hematopoietic stem cell intersection_of: part_of UBERON:0000922 ! embryo relationship: part_of UBERON:0000922 ! embryo created_by: tmeehan creation_date: 2010-09-22T09:05:13Z [Term] id: CL:0002363 name: keratocyte namespace: cell def: "A keratocyte is a specialized fibroblast residing in the cornea stroma that has a flattened, dendritic cell located between the lamellae with a large flattened nucleus and lengthy processes which communicate with neighboring cells. This corneal layer, representing about 85-90% of corneal thickness, is built up from highly regular collagenous lamellae and extracellular matrix components. Keratocytes play the major role in keeping it transparent, healing its wounds, and synthesizing its components. This cell type secretes collagen I, V, VI, and keratin sulfate." [GOC:tfm, ISBN:978-0-7020-2958-5] synonym: "corneal fibroblast" EXACT [] synonym: "corneal keratocyte" EXACT [] is_a: CL:0000005 ! fibroblast neural crest derived intersection_of: CL:0000057 ! fibroblast intersection_of: part_of UBERON:0001777 ! substantia propria of cornea relationship: part_of UBERON:0001777 ! substantia propria of cornea created_by: tmeehan creation_date: 2010-09-22T01:57:40Z [Term] id: CL:0002368 name: respiratory epithelial cell namespace: cell def: "An endo-epithelial cell of the respiratory tract." [GOC:tfm] synonym: "airway epithelial cell" EXACT [] xref: BTO:0004533 is_a: CL:0002076 {is_inferred="true"} ! endo-epithelial cell intersection_of: CL:0002076 ! endo-epithelial cell intersection_of: part_of UBERON:0000065 ! respiratory tract relationship: part_of UBERON:0000065 ! respiratory tract created_by: tmeehan creation_date: 2010-09-23T04:38:49Z [Term] id: CL:0002371 name: somatic cell namespace: cell def: "A cell of an organism that does not pass on its genetic material to the organism's offspring (i.e. a non-germ line cell)." [GOC:tfm, ISBN:0721662544] subset: ubprop:upper_level xref: BTO:0001268 xref: FMA:72300 xref: WBbt:0008378 is_a: CL:0000003 ! native cell created_by: tmeehan creation_date: 2010-09-24T09:44:42Z [Term] id: CL:0002372 name: myotube namespace: cell alt_id: CL:0000369 def: "A transversely striated, synctial muscle cell, formed by the fusion of myoblasts." [GOC:dos, GOC:tfm, ISBN:0323052908, PMID:22274696] synonym: "myotubule" EXACT [] synonym: "single cell sarcomere" EXACT [] is_a: CL:0000228 ! multinucleate cell is_a: CL:0000737 ! striated muscle cell intersection_of: CL:0000187 ! muscle cell intersection_of: bearer_of PATO:0001908 ! multinucleate intersection_of: bearer_of PATO:0002478 ! transversely striated intersection_of: has_part GO:0030017 ! sarcomere relationship: bearer_of PATO:0002478 ! transversely striated created_by: tmeehan creation_date: 2010-09-24T01:13:01Z [Term] id: CL:0002421 name: nucleated reticulocyte namespace: cell def: "A reticulocyte that retains the nucleus and other organelles. Found in birds, fish, amphibians and reptiles." [GOC:tfm, PMID:18182572, PMID:9011180, PMID:9046052] is_a: CL:0000558 {is_inferred="true"} ! reticulocyte is_a: CL:0002242 ! nucleate cell intersection_of: CL:0000558 ! reticulocyte intersection_of: bearer_of PATO:0002505 ! nucleated created_by: tmeehan creation_date: 2010-10-15T09:24:05Z [Term] id: CL:0002422 name: enucleated reticulocyte namespace: cell def: "A reticulocyte lacking a nucleus and showing a basophilic reticulum under vital staining due to the presence of ribosomes." [GOC:tfm, ISBN:0-12203-052-4, ISBN:0721601464] xref: CALOHA:TS-0864 xref: FMA:66785 is_a: CL:0000225 ! anucleate cell is_a: CL:0000558 {is_inferred="true"} ! reticulocyte intersection_of: CL:0000558 ! reticulocyte intersection_of: bearer_of PATO:0001405 ! anucleate intersection_of: has_part GO:0005840 ! ribosome relationship: has_part GO:0005840 ! ribosome created_by: tmeehan creation_date: 2010-10-15T09:24:08Z [Term] id: CL:0002494 name: cardiocyte namespace: cell def: "A cell located in the heart, including both muscle and non muscle cells." [GOC:tfm] comment: From Onard of the FMA: Cardiac muscle cell or cardiac myocyte is a striated muscle cell. Cardiocyte on the other hand is any cell in the heart which includes cells other than muscle cells (e.g. endothelial cell of endocardium). Unless there is a consensus among anatomists that cardiocytes refer only to muscle cells, we will treat them as a general class of cells in the heart. synonym: "heart cell" EXACT [] xref: BTO:0001539 xref: CALOHA:TS-0115 xref: FMA:83808 xref: FMA:84791 is_a: BFO:0000004 ! independent continuant is_a: CL:0000548 ! animal cell is_a: CL:0002371 {is_inferred="true"} ! somatic cell intersection_of: CL:0002371 ! somatic cell intersection_of: part_of UBERON:0007100 ! primary circulatory organ relationship: part_of UBERON:0007100 ! primary circulatory organ created_by: tmeehan creation_date: 2010-12-07T09:37:22Z [Term] id: CL:0002503 name: adventitial cell namespace: cell def: "A cell of the adventitial layer of ductal structures such as the uterer, defent duct, biliary duct, etc" [GOC:tfm] xref: BTO:0002441 xref: FMA:84639 is_a: CL:0000630 ! supporting cell is_a: CL:0002320 ! connective tissue cell intersection_of: CL:0002320 ! connective tissue cell intersection_of: part_of UBERON:0005742 ! adventitia relationship: part_of UBERON:0005742 ! adventitia created_by: tmeehan creation_date: 2010-12-07T04:03:56Z [Term] id: CL:0002521 name: subcutaneous fat cell namespace: cell def: "A fat cell that is part of subcutaneous adipose tissue." [GOC:tfm] synonym: "subcutaneous adipocyte" EXACT [] is_a: CL:0000136 {is_inferred="true"} ! fat cell intersection_of: CL:0000136 ! fat cell intersection_of: part_of UBERON:0002190 ! subcutaneous adipose tissue relationship: part_of UBERON:0002190 ! subcutaneous adipose tissue created_by: tmeehan creation_date: 2011-02-21T02:51:22Z [Term] id: CL:0002539 name: aortic smooth muscle cell namespace: cell def: "A smooth muscle cell of the aorta." [GOC:tfm] xref: BTO:0004577 is_a: CL:0019018 ! blood vessel smooth muscle cell intersection_of: CL:0000359 ! vascular associated smooth muscle cell intersection_of: part_of UBERON:0004178 ! aorta smooth muscle tissue relationship: part_of UBERON:0004178 ! aorta smooth muscle tissue created_by: tmeehan creation_date: 2011-02-28T01:42:12Z [Term] id: CL:0002540 name: mesenchymal stem cell of the bone marrow namespace: cell def: "A mesenchymal stem cell that is part of the bone marrow." [GOC:tfm] is_a: CL:0000134 ! mesenchymal stem cell is_a: CL:0002092 ! bone marrow cell intersection_of: CL:0000134 ! mesenchymal stem cell intersection_of: part_of UBERON:0002371 ! bone marrow created_by: tmeehan creation_date: 2011-02-28T01:47:47Z [Term] id: CL:0002543 name: vein endothelial cell namespace: cell alt_id: CL:1000393 def: "An endothelial cell that is part of the vein." [GOC:tfm] synonym: "endothelial cell of vein" EXACT [] synonym: "venous endothelial cell" EXACT [] xref: FMA:62104 xref: KUPO:0001099 is_a: CL:0000071 {is_inferred="true"} ! blood vessel endothelial cell intersection_of: CL:0000071 ! blood vessel endothelial cell intersection_of: part_of UBERON:0001638 ! vein relationship: part_of UBERON:0001638 ! vein created_by: tmeehan creation_date: 2011-02-28T03:48:11Z [Term] id: CL:0002546 name: embryonic blood vessel endothelial progenitor cell namespace: cell def: "An endothelial progenitor cell that participates in angiogenesis during development." [GOC:tfm] comment: See CL:0002619. is_a: CL:0000222 ! mesodermal cell is_a: CL:0002371 ! somatic cell created_by: tmeehan creation_date: 2011-02-28T04:20:39Z [Term] id: CL:0002547 name: fibroblast of the aortic adventitia namespace: cell def: "A fibroblast of the aortic adventitia." [GOC:tfm] is_a: CL:1000306 {is_inferred="true"} ! fibroblast of tunica adventitia of artery intersection_of: CL:1000306 ! fibroblast of tunica adventitia of artery intersection_of: part_of UBERON:0004664 ! aorta tunica adventitia relationship: part_of UBERON:0004664 ! aorta tunica adventitia created_by: tmeehan creation_date: 2011-02-28T04:43:41Z [Term] id: CL:0002548 name: fibroblast of cardiac tissue namespace: cell def: "A fibroblast that is part of the heart." [GOC:tfm] synonym: "cardiac fibroblast" EXACT [] is_a: CL:0000057 {is_inferred="true"} ! fibroblast is_a: CL:0002494 {is_inferred="true"} ! cardiocyte intersection_of: CL:0000057 ! fibroblast intersection_of: part_of UBERON:0000948 ! heart relationship: part_of UBERON:0000948 ! heart created_by: tmeehan creation_date: 2011-02-28T04:57:44Z [Term] id: CL:0002551 name: fibroblast of dermis namespace: cell is_a: CL:0002620 {is_inferred="true"} ! skin fibroblast intersection_of: CL:0002620 ! skin fibroblast intersection_of: part_of UBERON:0002067 ! dermis relationship: part_of UBERON:0002067 ! dermis created_by: tmeehan creation_date: 2011-02-28T05:05:33Z [Term] id: CL:0002553 name: fibroblast of lung namespace: cell def: "A fibroblast that is part of lung." [GOC:tfm] xref: BTO:0000764 xref: CALOHA:TS-0575 is_a: CL:0000057 {is_inferred="true"} ! fibroblast intersection_of: CL:0000057 ! fibroblast intersection_of: part_of UBERON:0002048 ! lung relationship: part_of UBERON:0002048 ! lung created_by: tmeehan creation_date: 2011-02-28T05:11:03Z [Term] id: CL:0002557 name: fibroblast of pulmonary artery namespace: cell def: "A fibroblast of pulmonary artery." [GOC:tfm] is_a: CL:0000057 {is_inferred="true"} ! fibroblast intersection_of: CL:0000057 ! fibroblast intersection_of: part_of UBERON:0002012 ! pulmonary artery relationship: part_of UBERON:0002012 ! pulmonary artery created_by: tmeehan creation_date: 2011-02-28T05:22:27Z [Term] id: CL:0002570 name: mesenchymal stem cell of adipose tissue namespace: cell def: "A mesenchymal stem cell of adipose tissue." [GOC:tfm] synonym: "mesenchymal stem cell of adipose" EXACT [] is_a: CL:0000134 ! mesenchymal stem cell intersection_of: CL:0000134 ! mesenchymal stem cell intersection_of: part_of UBERON:0001013 ! adipose tissue relationship: part_of UBERON:0001013 ! adipose tissue created_by: tmeehan creation_date: 2011-03-01T09:57:17Z [Term] id: CL:0002573 name: Schwann cell namespace: cell def: "A glial cell that ensheathes axons of neuron in the peripheral nervous system and are necessary for their maintainance and function." [GOC:tfm] xref: BTO:0001220 xref: CALOHA:TS-0898 is_a: CL:0000125 ! glial cell intersection_of: CL:0000125 ! glial cell intersection_of: part_of UBERON:0000010 ! peripheral nervous system relationship: part_of UBERON:0000010 ! peripheral nervous system created_by: tmeehan creation_date: 2011-03-02T01:19:27Z [Term] id: CL:0002585 name: retinal blood vessel endothelial cell namespace: cell def: "A blood vessel endothelial cell that is part of the retina." [GOC:tfm] is_a: CL:0000071 {is_inferred="true"} ! blood vessel endothelial cell is_a: CL:0009004 ! retinal cell intersection_of: CL:0000071 ! blood vessel endothelial cell intersection_of: part_of UBERON:0000966 ! retina relationship: part_of UBERON:0000966 ! retina created_by: tmeehan creation_date: 2011-03-06T03:28:27Z [Term] id: CL:0002590 name: smooth muscle cell of the brain vasculature namespace: cell def: "A vascular associated smooth muscle cell of the brain vasculature." [GOC:tfm] is_a: CL:0000359 {is_inferred="true"} ! vascular associated smooth muscle cell is_a: CL:0002319 ! neural cell intersection_of: CL:0000359 ! vascular associated smooth muscle cell intersection_of: part_of UBERON:0000955 ! brain relationship: part_of UBERON:0000955 ! brain created_by: tmeehan creation_date: 2011-03-06T05:01:20Z [Term] id: CL:0002591 name: smooth muscle cell of the pulmonary artery namespace: cell def: "A smooth muscle of the pulmonary artery." [GOC:tfm] xref: BTO:0003336 is_a: CL:0019018 ! blood vessel smooth muscle cell intersection_of: CL:0000359 ! vascular associated smooth muscle cell intersection_of: part_of UBERON:0002012 ! pulmonary artery relationship: part_of UBERON:0002012 ! pulmonary artery created_by: tmeehan creation_date: 2011-03-06T05:01:28Z [Term] id: CL:0002596 name: smooth muscle cell of the carotid artery namespace: cell def: "Smooth muscle cell of the carotid artery." [GOC:tfm] is_a: CL:0019018 ! blood vessel smooth muscle cell intersection_of: CL:0000359 ! vascular associated smooth muscle cell intersection_of: part_of UBERON:0005396 ! carotid artery segment relationship: part_of UBERON:0005396 ! carotid artery segment created_by: tmeehan creation_date: 2011-03-06T05:01:56Z [Term] id: CL:0002599 name: smooth muscle cell of the esophagus namespace: cell def: "A smooth muscle cell of the esophagus." [GOC:tfm] is_a: CL:0000192 {is_inferred="true"} ! smooth muscle cell intersection_of: CL:0000192 ! smooth muscle cell intersection_of: part_of UBERON:0001043 ! esophagus relationship: part_of UBERON:0001043 ! esophagus created_by: tmeehan creation_date: 2011-03-06T05:48:17Z [Term] id: CL:0002610 name: raphe nuclei neuron namespace: cell def: "A neuron of the raphe nuclei." [GOC:tfm] is_a: CL:0000117 {is_inferred="true"} ! CNS neuron (sensu Vertebrata) is_a: CL:2000029 ! central nervous system neuron intersection_of: CL:0000117 ! CNS neuron (sensu Vertebrata) intersection_of: RO:0002100 UBERON:0004684 ! has soma location raphe nuclei relationship: RO:0002100 UBERON:0004684 ! has soma location raphe nuclei created_by: tmeehan creation_date: 2011-03-06T07:42:06Z [Term] id: CL:0002612 name: neuron of the ventral spinal cord namespace: cell def: "A neuron of the ventral spinal cord." [GOC:tfm] is_a: CL:0000117 {is_inferred="true"} ! CNS neuron (sensu Vertebrata) is_a: CL:2000029 ! central nervous system neuron intersection_of: CL:0000117 ! CNS neuron (sensu Vertebrata) intersection_of: RO:0002100 UBERON:0002257 ! has soma location ventral horn of spinal cord relationship: RO:0002100 UBERON:0002257 ! has soma location ventral horn of spinal cord created_by: tmeehan creation_date: 2011-03-06T07:46:03Z [Term] id: CL:0002620 name: skin fibroblast namespace: cell def: "A fibroblast of skin." [GOC:tfm] xref: BTO:0001255 xref: CALOHA:TS-0935 is_a: CL:0000057 {is_inferred="true"} ! fibroblast intersection_of: CL:0000057 ! fibroblast intersection_of: part_of UBERON:0002097 ! skin of body relationship: part_of UBERON:0002097 ! skin of body created_by: tmeehan creation_date: 2011-03-14T12:31:49Z [Term] id: CL:0002632 name: epithelial cell of lower respiratory tract namespace: cell is_a: CL:0002368 {is_inferred="true"} ! respiratory epithelial cell intersection_of: CL:0002368 ! respiratory epithelial cell intersection_of: part_of UBERON:0001558 ! lower respiratory tract relationship: part_of UBERON:0001558 ! lower respiratory tract created_by: tmeehan creation_date: 2011-06-21T12:29:31Z [Term] id: CL:0002657 name: glandular cell of esophagus namespace: cell def: "A glandular epithelial cell of the esophagus." [GOC:tfm] xref: FMA:86548 is_a: CL:0000150 {is_inferred="true"} ! glandular epithelial cell is_a: CL:0002252 {is_inferred="true"} ! epithelial cell of esophagus intersection_of: CL:0000150 ! glandular epithelial cell intersection_of: part_of UBERON:0001043 ! esophagus created_by: tmeehan creation_date: 2011-07-08T03:55:57Z [Term] id: CL:0002659 name: glandular cell of stomach namespace: cell def: "A glandular epithelial cell that is part of the stomach." [GOC:tfm] xref: CALOHA:TS-1284 xref: FMA:86554 is_a: CL:0000150 {is_inferred="true"} ! glandular epithelial cell is_a: CL:0002178 ! epithelial cell of stomach intersection_of: CL:0000150 ! glandular epithelial cell intersection_of: part_of UBERON:0000945 ! stomach created_by: tmeehan creation_date: 2011-07-11T01:20:35Z [Term] id: CL:0002663 name: myocardial endocrine cell of atrium namespace: cell def: "A myocardial endocrine cell that is part of the atrium." [GOC:tfm] xref: FMA:83389 is_a: CL:0002074 {is_inferred="true"} ! myocardial endocrine cell intersection_of: CL:0002074 ! myocardial endocrine cell intersection_of: part_of UBERON:0002081 ! cardiac atrium relationship: part_of UBERON:0002081 ! cardiac atrium created_by: tmeehan creation_date: 2011-07-11T02:45:39Z [Term] id: CL:0002664 name: cardioblast namespace: cell def: "A stem cell that can give rise to multiple cell types (i.e. smooth muscle, endothelial) in the developing heart." [GOC:tfm, PMID:19745164] comment: Discrepancy in develops from origins prevents me from making the assertion that cardioblasts give rise to all instances of cardiocytes as we state cardiac muscle cells develop from cardiac myoblast, which in turn develop from muscle stem cell. synonym: "cardiovascular progenitor cell" EXACT [PMID:17519333, PMID:19745164] synonym: "CPC" EXACT [PMID:19745164] is_a: CL:0000048 ! multi fate stem cell created_by: tmeehan creation_date: 2011-07-11T03:15:38Z [Term] id: CL:0002672 name: retinal progenitor cell namespace: cell def: "A multi-fate stem cell that can give rise to different retinal cell types including rod and cone cells." [GOC:tfm, PMID:20959166, PMID:21148186] is_a: CARO:0000000 ! anatomical entity is_a: CL:0000048 ! multi fate stem cell relationship: develops_from CL:0000133 ! neurectodermal cell created_by: tmeehan creation_date: 2011-08-16T02:38:01Z [Term] id: CL:0002676 name: neural crest derived neuroblast namespace: cell def: "A neuroblast derived from a neural crest cell." [GOC:tfm, PMID:17407019] is_a: CL:0000031 ! neuroblast (sensu Vertebrata) is_a: CL:0011026 ! progenitor cell relationship: develops_from CL:0000333 ! migratory neural crest cell created_by: tmeehan creation_date: 2011-08-22T09:24:15Z [Term] id: CL:0005000 name: spinal cord interneuron namespace: cell def: "A CNS interneuron located in the spinal cord." [CL:CVS] comment: Is_a interneuron, part_of UBERON:0002240. is_a: CL:0000402 {is_inferred="true"} ! CNS interneuron intersection_of: CL:0000099 ! interneuron intersection_of: RO:0002100 UBERON:0002240 ! has soma location spinal cord relationship: RO:0002100 UBERON:0002240 ! has soma location spinal cord [Term] id: CL:0007001 name: skeletogenic cell namespace: cell def: "Cell that has the potential to form a skeletal cell type (e.g. cells in periosteum, cells in marrow) and produce extracellular matrix (often mineralized) and skeletal tissue (often mineralized)." [GO_REF:0000034] comment: Needs logical definition. Should be capable_of skeletal system morphogenesis? or skeletal tissue development? needs to be added to GO. NOTES:a cell type of the early embryo (see also: mesenchymal cells) that will give rise to mineralized connective tissue. Scleroblasts can differentiate into osteoblasts (bone-forming cells), chondroblasts (cartilage-forming cells), odontoblasts (dentin-forming cells), ameloblasts (enamel-forming cells). The mesenchymal cells developing into osteoblasts and chondroblasts are derived from the mesoderm. Those developing into odontoblasts are neural crest cells. Those developing into ameloblasts are derived from the ectoderm. (http://www.copewithcytokines.de/cope.cgi?key=scleroblasts) synonym: "scleroblast" EXACT [GO_REF:0000034] is_a: CL:0000003 ! native cell created_by: haendel creation_date: 2012-06-15T02:51:27Z [Term] id: CL:0007004 name: premigratory neural crest cell namespace: cell def: "Cell that is part of the neural crest region of the neuroepithelium, prior to migration. Note that not all premigratory neural crest cells may become migratory neural crest cells." [UBERONREF:0000002] is_a: CARO:0000000 ! anatomical entity is_a: CL:0011012 ! neural crest cell relationship: develops_from CL:0000133 ! neurectodermal cell relationship: part_of UBERON:0002342 ! neural crest created_by: haendel creation_date: 2012-06-27T08:27:35Z [Term] id: CL:0007009 name: prechondroblast namespace: cell def: "Skeletogenic cell that has the potential to develop into a chondroblast; and arises from neural crest, meseosdermal and notochordal and connective tissue cells." [GO_REF:0000034] is_a: CL:0000055 ! non-terminally differentiated cell created_by: haendel creation_date: 2012-06-27T10:44:01Z [Term] id: CL:0008000 name: non-striated muscle cell def: "Any muscle cell in which the fibers are not organised into sarcomeres." [GOC:DOS] is_a: CL:0000187 ! muscle cell [Term] id: CL:0008001 name: hematopoietic precursor cell def: "Any hematopoietic cell that is a precursor of some other hematopoietic cell type." [GOC:dos] is_a: CL:0000988 ! hematopoietic cell [Term] id: CL:0008002 name: skeletal muscle fiber def: "A transversely striated, synctial cell of skeletal muscle. It is formed when proliferating myoblasts exit the cell cycle, differentiate and fuse." [GOC:tfm, ISBN:0323052908] is_a: CL:0000188 ! cell of skeletal muscle is_a: CL:0002372 ! myotube intersection_of: CL:0000187 ! muscle cell intersection_of: bearer_of PATO:0001908 ! multinucleate intersection_of: bearer_of PATO:0002478 ! transversely striated intersection_of: has_part GO:0030017 ! sarcomere intersection_of: part_of UBERON:0001134 ! skeletal muscle tissue relationship: develops_from CL:0000515 ! skeletal muscle myoblast [Term] id: CL:0008007 name: visceral muscle cell def: "A muscle cell that is part of some visceral muscle" [GOC:dos] is_a: CL:0000187 ! muscle cell [Term] id: CL:0008008 name: striated visceral muscle cell def: "A visceral muscle cell that is striated. Examples include the visceral muscle cells of arhtropods." [GOC:dos] is_a: CL:0000737 ! striated muscle cell is_a: CL:0008007 ! visceral muscle cell intersection_of: CL:0008007 ! visceral muscle cell intersection_of: bearer_of PATO:0001410 {all_some="true"} ! striated [Term] id: CL:0008009 name: transversely striated visceral muscle cell def: "A visceral muscle that is transversely striated. Examples include the visceral muscle cells of arthropods." [GOC:dos] is_a: CL:0008008 ! striated visceral muscle cell intersection_of: CL:0008007 ! visceral muscle cell intersection_of: bearer_of PATO:0002478 {all_some="true"} ! transversely striated relationship: bearer_of PATO:0002478 ! transversely striated [Term] id: CL:0008017 name: adult skeletal muscle myoblast namespace: cell def: "A skeletal muscle myoblast that is part of a skeletal mucle. These cells are formed following acivation and division of skeletal muscle satellite cells. They form a transient population that is lost when they fuse to form skeletal muscle fibers." [PMID:23303905] comment: The vast majority of these cells develop from skeletal muscle satellite cells, although there are some reports of other origins. synonym: "myogenic precursor cell" BROAD [PMID:23303905] is_a: CL:0000188 ! cell of skeletal muscle is_a: CL:0000515 ! skeletal muscle myoblast intersection_of: CL:0000056 ! myoblast intersection_of: develops_into CL:0008002 ! skeletal muscle fiber intersection_of: part_of UBERON:0001134 ! skeletal muscle tissue [Term] id: CL:0008019 name: mesenchymal cell def: "A non-polarised cell precursor cell that is part of some mesenchyme, is associated with the cell matrix but is not connected to other cells and is capable of migration." [] synonym: "mesenchyme cell" EXACT [] is_a: CL:0000219 ! motile cell is_a: CL:0002371 ! somatic cell relationship: capable_of GO:0016477 ! cell migration relationship: part_of UBERON:0003104 ! mesenchyme [Term] id: CL:0008022 name: endocardial cushion cell def: "A mesenchymal cell of the endocardial cushion. These cells develop via an epithelial to mesenchymal transition when endocardial cells break cell-to-cell contacts and migrate into the cardiac jelly. Cells from this population form the heart septa and valves." [PMID:18816864] is_a: CL:0000569 ! cardiac mesenchymal cell is_a: CL:0002494 ! cardiocyte intersection_of: CL:0000569 ! cardiac mesenchymal cell intersection_of: part_of UBERON:0002062 ! endocardial cushion relationship: part_of UBERON:0002062 ! endocardial cushion [Term] id: CL:0008028 name: visual system neuron is_a: CL:0000540 ! neuron intersection_of: CL:0000540 ! neuron intersection_of: capable_of_part_of GO:0007601 ! visual perception relationship: capable_of_part_of GO:0007601 ! visual perception created_by: dos creation_date: 2017-07-09T19:12:36Z [Term] id: CL:0008034 name: mural cell def: "Mural cells are pericytes and the vascular smooth muscle cells (vSMCs) of the microcirculation." [Wiki:Mural_cell&oldid=930603194] subset: added_for_HCA is_a: CL:0002371 ! somatic cell created_by: dos creation_date: 2020-02-29T17:33:55Z [Term] id: CL:0008035 name: microcirculation associated smooth muscle cell is_a: CL:0000359 ! vascular associated smooth muscle cell is_a: CL:0008034 ! mural cell intersection_of: CL:0000359 ! vascular associated smooth muscle cell intersection_of: part_of UBERON:0010523 ! microcirculatory vessel relationship: part_of UBERON:0010523 ! microcirculatory vessel created_by: dos creation_date: 2020-02-29T17:37:00Z [Term] id: CL:0009000 name: sensory neuron of spinal nerve def: "A sensory neuron of the spinal nerve that senses body position and sends information about how much the muscle is stretched to the spinal cord." [GOC:nv, GOC:pr] synonym: "spinal sensory neuron" EXACT [] is_a: CL:0000101 {is_inferred="true"} ! sensory neuron intersection_of: CL:0000101 ! sensory neuron intersection_of: part_of UBERON:0001780 ! spinal nerve relationship: part_of UBERON:0001780 ! spinal nerve [Term] id: CL:0009001 name: compound eye retinal cell def: "Any cell in the compound eye, a light sensing organ composed of ommatidia." [] xref: GOC:pr xref: PMID:12021768 is_a: CARO:0000000 ! anatomical entity is_a: CL:0002371 ! somatic cell [Term] id: CL:0009004 name: retinal cell namespace: cell def: "Any cell in the retina, the innermost layer or coating at the back of the eyeball, which is sensitive to light and in which the optic nerve terminates." [GOC:pr] xref: PMID:10702418 is_a: CL:0002319 ! neural cell intersection_of: CL:0002319 ! neural cell intersection_of: part_of UBERON:0005388 ! photoreceptor array relationship: part_of UBERON:0005388 ! photoreceptor array [Term] id: CL:0010001 name: stromal cell of bone marrow def: "A stromal cell that is part_of a bone marrow." [] synonym: "bone marrow stromal cell" EXACT [] is_a: CL:0000499 ! stromal cell is_a: CL:0002092 ! bone marrow cell intersection_of: CL:0000499 ! stromal cell intersection_of: part_of UBERON:0002371 ! bone marrow created_by: GOC:cjm [Term] id: CL:0010004 name: mononuclear cell of bone marrow def: "A mononuclear cell that is part_of a bone marrow." [] synonym: "bone marrow mononuclear cell" EXACT [] is_a: CL:0000842 ! mononuclear cell is_a: CL:1001610 ! bone marrow hematopoietic cell intersection_of: CL:0000842 ! mononuclear cell intersection_of: part_of UBERON:0002371 ! bone marrow created_by: GOC:cjm [Term] id: CL:0010006 name: cardiac blood vessel endothelial cell is_a: CL:0000071 ! blood vessel endothelial cell is_a: CL:0010008 ! cardiac endothelial cell intersection_of: CL:0000071 ! blood vessel endothelial cell intersection_of: part_of UBERON:0000948 ! heart [Term] id: CL:0010007 name: His-Purkinje system cell is_a: CARO:0000000 ! anatomical entity is_a: CL:0000003 ! native cell intersection_of: CL:0000003 ! native cell intersection_of: part_of UBERON:0004146 ! His-Purkinje system relationship: part_of UBERON:0004146 ! His-Purkinje system [Term] id: CL:0010008 name: cardiac endothelial cell is_a: CL:0000115 ! endothelial cell is_a: CL:0002494 ! cardiocyte intersection_of: CL:0000115 ! endothelial cell intersection_of: part_of UBERON:0000948 ! heart relationship: part_of UBERON:0000948 ! heart [Term] id: CL:0010009 name: camera-type eye photoreceptor cell synonym: "camera type eye photoreceptor cell" EXACT [] is_a: CL:0000287 ! eye photoreceptor cell intersection_of: CL:0000210 ! photoreceptor cell intersection_of: part_of UBERON:0000019 ! camera-type eye relationship: part_of UBERON:0000019 ! camera-type eye [Term] id: CL:0010017 name: zygote def: "A zygote in a plant or an animal." [] is_a: CL:0000003 ! native cell property_value: seeAlso https://github.com/obophenotype/cell-ontology/issues/786 [Term] id: CL:0010020 name: cardiac glial cell is_a: CL:0000125 ! glial cell is_a: CL:0002494 ! cardiocyte intersection_of: CL:0000125 ! glial cell intersection_of: part_of UBERON:0000948 ! heart relationship: part_of UBERON:0000948 ! heart [Term] id: CL:0010021 name: cardiac myoblast namespace: cell is_a: CL:0000056 ! myoblast intersection_of: CL:0000056 ! myoblast intersection_of: develops_into CL:0000746 ! cardiac muscle cell relationship: develops_into CL:0000746 ! cardiac muscle cell [Term] id: CL:0010022 name: cardiac neuron is_a: CL:0000540 ! neuron is_a: CL:0002494 ! cardiocyte intersection_of: CL:0000540 ! neuron intersection_of: part_of UBERON:0000948 ! heart relationship: part_of UBERON:0000948 ! heart [Term] id: CL:0011001 name: spinal cord motor neuron def: "A motor neuron that passes from the spinal cord toward or to a muscle and conducts an impulse that causes movement." [GOC:nv] is_a: CL:0000100 {is_inferred="true"} ! motor neuron is_a: CL:2000029 ! central nervous system neuron intersection_of: CL:0000100 ! motor neuron intersection_of: RO:0002100 UBERON:0002240 ! has soma location spinal cord relationship: RO:0002100 UBERON:0002240 ! has soma location spinal cord [Term] id: CL:0011007 name: paraxial cell def: "A cell in the area of mesoderm in the neurulating embryo that flanks and forms simultaneously with the neural tube. The cells of this region give rise to somites." [GOC:NV, PMID:11687492] synonym: "paraxial mesoderm cell" EXACT [] synonym: "presomitic mesoderm cell" NARROW [] synonym: "somitic mesoderm cell" EXACT [] is_a: CL:0000222 ! mesodermal cell intersection_of: CL:0000222 ! mesodermal cell intersection_of: part_of UBERON:0003059 ! presomitic mesoderm relationship: part_of UBERON:0003059 ! presomitic mesoderm [Term] id: CL:0011012 name: neural crest cell namespace: cell def: "A cell of the neural crest. Neural crest cells are multipotent. Premigratory neural crest cells are found at the neural plate boarder, some of which will undergo ectomesynchymal transition and delamination to form migratory neural crest cells." [https://orcid.org/0000-0001-5208-3432, https://orcid.org/0000-0002-9900-7880] is_a: CL:0000048 ! multi fate stem cell is_a: CL:0002321 ! embryonic cell (metazoa) [Term] id: CL:0011019 name: mesothelial cell of epicardium def: "A mesothelial cell that is part of the epicardium." [] is_a: CL:0000077 ! mesothelial cell is_a: CL:0002494 ! cardiocyte intersection_of: CL:0000077 ! mesothelial cell intersection_of: part_of UBERON:0002348 ! epicardium relationship: part_of UBERON:0002348 ! epicardium created_by: http://orcid.org/0000-0001-5208-3432 [Term] id: CL:0011021 name: fibroblast of upper back skin def: "A fibroblast that is part of upper back skin." [] is_a: CL:0011022 ! fibroblast of skin of back intersection_of: CL:0000057 ! fibroblast intersection_of: part_of UBERON:0009015 ! upper back skin relationship: part_of UBERON:0009015 ! upper back skin created_by: http://orcid.org/0000-0001-5208-3432 [Term] id: CL:0011022 name: fibroblast of skin of back def: "A fibroblast that is part of skin of back." [] is_a: CL:0002620 ! skin fibroblast intersection_of: CL:0000057 ! fibroblast intersection_of: part_of UBERON:0001068 ! skin of back relationship: part_of UBERON:0001068 ! skin of back created_by: http://orcid.org/0000-0001-5208-3432 [Term] id: CL:0011026 name: progenitor cell def: "A precursor cell that has a tendency to differentiate into a specific type of cell. They are descendants of stem cells, only they are more constrained in their differentiation potential or capacity for self-renewal, and are often more limited in both senses." [https://doi.org/10.1016/B978-0-12-409503-8.00002-0, ISBN:978-1-62808-994-3] is_a: CARO:0000000 ! anatomical entity is_a: CL:0011115 ! precursor cell intersection_of: CL:0011115 ! precursor cell intersection_of: develops_from CL:0000034 ! stem cell relationship: develops_from CL:0000034 ! stem cell created_by: http://orcid.org/0000-0001-5208-3432 [Term] id: CL:0011027 name: skeletal muscle fibroblast def: "Any fibroblast that is part of skeletal muscle tissue." [https://orcid.org/0000-0001-6164-0667, PMID:28369879] synonym: "skeleton muscle fibroblast" EXACT [] is_a: CL:0000188 ! cell of skeletal muscle is_a: CL:1001609 ! muscle fibroblast intersection_of: CL:0000057 ! fibroblast intersection_of: part_of UBERON:0001134 ! skeletal muscle tissue created_by: http://orcid.org/0000-0001-5208-3432 [Term] id: CL:0011030 name: dermal microvascular endothelial cell def: "Any microvascular endothelial cell that is part of the dermis." [BTO:0004574, CL:patterns/cellPartOfAnatomicalEntity] synonym: "dermal microvascular endothelium cell" EXACT [] synonym: "DMEC cell" EXACT [] is_a: CL:2000008 ! microvascular endothelial cell is_a: CL:2000010 ! dermis blood vessel endothelial cell intersection_of: CL:2000008 ! microvascular endothelial cell intersection_of: part_of UBERON:0002067 ! dermis created_by: http://orcid.org/0000-0001-5208-3432 [Term] id: CL:0011115 name: precursor cell def: "A cell that, by division or terminal differentiation, can give rise to other cell types." [GOC:dos] comment: Work is needed on GO 'cell differentiation' before it is clear whether the equivalent class definition 'native cell' that capable_of some 'cell differentiation' works. Also, may want to consider merging this with non-terminally differentiated cell. is_a: BFO:0000040 ! material entity is_a: CL:0000003 ! native cell intersection_of: CL:0000003 ! native cell intersection_of: capable_of GO:0030154 ! cell differentiation relationship: capable_of GO:0030154 ! cell differentiation [Term] id: CL:0017502 name: acidophilic cytoplasm namespace: cell def: "Cytoplasm that exhibits a characteristic staining and color, red or pink, with Eosin stain." [GOC:add] synonym: "eosinophilic" NARROW [] is_a: GO:0005737 ! cytoplasm intersection_of: GO:0005737 ! cytoplasm intersection_of: bearer_of PATO:0002418 ! acidophilic relationship: bearer_of PATO:0002418 ! acidophilic created_by: tmeehan creation_date: 2009-12-22T04:23:25Z [Term] id: CL:0017503 name: basophilic cytoplasm namespace: cell def: "Cytoplasm that exhibits molecular interaction for basic dyes under specific pH conditions." [GOC:tfm] is_a: GO:0005737 ! cytoplasm intersection_of: GO:0005737 ! cytoplasm intersection_of: bearer_of PATO:0002094 ! basophilic relationship: bearer_of PATO:0002094 ! basophilic created_by: tmeehan creation_date: 2009-12-22T04:24:54Z [Term] id: CL:0017504 name: polychromatophilic cytoplasm namespace: cell def: "Cytoplasm that exhibits affinity for both basic and acid stains under specific pH conditions." [GOC:tfm] is_a: GO:0005737 ! cytoplasm intersection_of: GO:0005737 ! cytoplasm intersection_of: bearer_of PATO:0070047 ! polychromatophilic relationship: bearer_of PATO:0070047 ! polychromatophilic created_by: tmeehan creation_date: 2009-12-28T04:25:23Z [Term] id: CL:0017505 name: increased nucleus size namespace: cell def: "A nucleus size quality which is relatively high compared to the amount of cytoplasm present in the same cell." [GOC:tfm] is_a: GO:0005634 ! nucleus intersection_of: GO:0005634 ! nucleus intersection_of: bearer_of PATO:0000586 ! increased size relationship: bearer_of PATO:0000586 ! increased size created_by: tmeehan creation_date: 2009-12-23T10:53:24Z [Term] id: CL:0019018 name: blood vessel smooth muscle cell def: "A smooth muscle cell that is part of any blood vessel." [PMID:9108778] synonym: "smooth muscle cell of blood vessel" EXACT [] is_a: CL:0000359 ! vascular associated smooth muscle cell intersection_of: CL:0000192 ! smooth muscle cell intersection_of: part_of UBERON:0001981 ! blood vessel relationship: dc-creator http://orcid.org/0000-0003-2034-601X relationship: part_of UBERON:0001981 ! blood vessel property_value: http://purl.org/dc/elements/1.1/date 2020-07-21T12:42:48Z xsd:dateTime [Term] id: CL:1000222 name: stomach neuroendocrine cell is_a: CL:0000165 ! neuroendocrine cell is_a: CL:0002178 ! epithelial cell of stomach intersection_of: CL:0000165 ! neuroendocrine cell intersection_of: part_of UBERON:0000945 ! stomach [Term] id: CL:1000223 name: lung neuroendocrine cell is_a: CL:0000082 ! epithelial cell of lung is_a: CL:0000165 ! neuroendocrine cell is_a: CL:1000272 ! lung secretory cell intersection_of: CL:0000165 ! neuroendocrine cell intersection_of: part_of UBERON:0002048 ! lung [Term] id: CL:1000271 name: lung ciliated cell is_a: CARO:0000000 ! anatomical entity is_a: CL:0000064 ! ciliated cell intersection_of: CL:0000064 ! ciliated cell intersection_of: part_of UBERON:0002048 ! lung relationship: part_of UBERON:0002048 ! lung [Term] id: CL:1000272 name: lung secretory cell is_a: CARO:0000000 ! anatomical entity is_a: CL:0000151 ! secretory cell intersection_of: CL:0000151 ! secretory cell intersection_of: part_of UBERON:0002048 ! lung relationship: part_of UBERON:0002048 ! lung [Term] id: CL:1000303 name: fibroblast of areolar connective tissue namespace: cell def: "A fibroblast that is part of the areolar connective tissue." [GOC:tfm] xref: FMA:261279 is_a: CL:0000057 {is_inferred="true"} ! fibroblast intersection_of: CL:0000057 ! fibroblast intersection_of: part_of UBERON:0006815 ! areolar connective tissue relationship: part_of UBERON:0006815 ! areolar connective tissue [Term] id: CL:1000306 name: fibroblast of tunica adventitia of artery namespace: cell def: "A fibroblast that is part of the tunica adventitia of artery." [GOC:tfm] xref: FMA:261285 is_a: CL:0000057 {is_inferred="true"} ! fibroblast is_a: CL:0002503 ! adventitial cell intersection_of: CL:0000057 ! fibroblast intersection_of: part_of UBERON:0005734 ! tunica adventitia of blood vessel relationship: part_of UBERON:0005734 ! tunica adventitia of blood vessel [Term] id: CL:1000307 name: fibroblast of dense regular elastic tissue namespace: cell def: "A fibroblast that is part of the dense regular elastic tissue." [GOC:tfm] xref: FMA:261287 is_a: CL:0000057 ! fibroblast intersection_of: CL:0000057 ! fibroblast intersection_of: part_of UBERON:0007846 ! dense regular connective tissue relationship: part_of UBERON:0002521 ! elastic tissue relationship: part_of UBERON:0007846 ! dense regular connective tissue [Term] id: CL:1000309 name: epicardial adipocyte namespace: cell def: "A fat cell that is part of the epicardial fat." [GOC:tfm] synonym: "adipocyte of epicardial fat" EXACT [FMA:261293] synonym: "epicardial fat cell" EXACT [FMA:261293] xref: FMA:261293 is_a: CL:0000136 ! fat cell is_a: CL:0002494 ! cardiocyte relationship: part_of UBERON:0002348 ! epicardium [Term] id: CL:1000310 name: adipocyte of epicardial fat of right ventricle namespace: cell def: "A fat cell that is part of the epicardial fat of right ventricle." [GOC:tfm] synonym: "epicardial adipocyte of right ventricle" EXACT [FMA:261297] synonym: "epicardial fat cell of right ventricle" EXACT [FMA:261297] xref: FMA:261297 is_a: CL:1000309 ! epicardial adipocyte intersection_of: CL:1000309 ! epicardial adipocyte intersection_of: part_of UBERON:0002080 ! heart right ventricle relationship: part_of UBERON:0002080 ! heart right ventricle [Term] id: CL:1000311 name: adipocyte of epicardial fat of left ventricle namespace: cell def: "A fat cell that is part of the epicardial fat of left ventricle." [GOC:tfm] synonym: "epicardial adipocyte of left ventricle" EXACT [FMA:261300] synonym: "epicardial fat cell of left ventricle" EXACT [FMA:261300] xref: FMA:261300 is_a: CL:1000309 ! epicardial adipocyte intersection_of: CL:1000309 ! epicardial adipocyte intersection_of: part_of UBERON:0002084 ! heart left ventricle relationship: part_of UBERON:0002084 ! heart left ventricle [Term] id: CL:1000361 name: transitional myocyte of interatrial septum namespace: cell def: "A transitional myocyte that is part of the interatrial septum." [GOC:tfm] xref: FMA:263152 is_a: CL:0002073 {is_inferred="true"} ! transitional myocyte is_a: CL:2000022 ! cardiac septum cell intersection_of: CL:0002073 ! transitional myocyte intersection_of: part_of UBERON:0002085 ! interatrial septum relationship: part_of UBERON:0002085 ! interatrial septum [Term] id: CL:1000362 name: transitional myocyte of interventricular septum namespace: cell def: "A transitional myocyte that is part of the interventricular septum." [GOC:tfm] xref: FMA:263154 is_a: CL:0002073 {is_inferred="true"} ! transitional myocyte is_a: CL:2000022 ! cardiac septum cell intersection_of: CL:0002073 ! transitional myocyte intersection_of: part_of UBERON:0002094 ! interventricular septum relationship: part_of UBERON:0002094 ! interventricular septum [Term] id: CL:1000376 name: Purkinje myocyte of interventricular septum namespace: cell def: "A Purkinje myocyte that is part of the interventricular septum." [GOC:tfm] xref: FMA:263182 is_a: CL:0002068 {is_inferred="true"} ! Purkinje myocyte is_a: CL:2000022 ! cardiac septum cell intersection_of: CL:0002068 ! Purkinje myocyte intersection_of: part_of UBERON:0002094 ! interventricular septum relationship: part_of UBERON:0002094 ! interventricular septum [Term] id: CL:1000409 name: myocyte of sinoatrial node namespace: cell def: "A muscle cell that is part of the sinoatrial node." [FMA:67102, GOC:tfm] synonym: "myocyte of sinoatrial node" EXACT [FMA:67102] synonym: "SA nodal myocyte" EXACT [FMA:67102] synonym: "SA node cardiac muscle cell" EXACT [GOC:pr] synonym: "sinoatrial node cell" EXACT [GOC:pr] synonym: "sinoatrial node myocyte" EXACT [] synonym: "sinuatrial node myocyte" EXACT [FMA:67102] xref: FMA:67102 is_a: CL:0002072 ! nodal myocyte intersection_of: CL:0000187 ! muscle cell intersection_of: part_of UBERON:0002351 ! sinoatrial node relationship: part_of UBERON:0002351 ! sinoatrial node [Term] id: CL:1000410 name: myocyte of atrioventricular node namespace: cell def: "A muscle cell that is part of the atrioventricular node." [FMA:67106, GOC:tfm] synonym: "atrioventricular node cell" EXACT [GOC:pr] synonym: "atrioventricular node myocyte" EXACT [FMA:67106] synonym: "AV nodal myocyte" EXACT [FMA:67106] synonym: "AV node cardiac muscle cell" EXACT [GOC:pr] synonym: "AV node cell" EXACT [GOC:pr] xref: FMA:67106 is_a: CL:0002072 ! nodal myocyte is_a: CL:2000022 ! cardiac septum cell intersection_of: CL:0000187 ! muscle cell intersection_of: part_of UBERON:0002352 ! atrioventricular node relationship: part_of UBERON:0002352 ! atrioventricular node [Term] id: CL:1000412 name: endothelial cell of arteriole namespace: cell def: "An endothelial cell that is part of the arteriole." [GOC:tfm] xref: FMA:67760 xref: KUPO:0001097 is_a: CL:0000071 {is_inferred="true"} ! blood vessel endothelial cell intersection_of: CL:0000115 ! endothelial cell intersection_of: part_of UBERON:0001980 ! arteriole relationship: part_of UBERON:0001980 ! arteriole [Term] id: CL:1000413 name: endothelial cell of artery namespace: cell alt_id: CL:0002542 def: "A blood vessel endothelial cell that is part of an arterial endothelium." [GOC:tfm] synonym: "arterial endothelial cell" EXACT [] xref: BTO:0004758 xref: FMA:67761 xref: KUPO:0001095 is_a: CL:0000071 ! blood vessel endothelial cell intersection_of: CL:0000115 ! endothelial cell intersection_of: part_of UBERON:0001637 ! artery relationship: part_of UBERON:0001917 ! endothelium of artery [Term] id: CL:1000414 name: endothelial cell of venule namespace: cell def: "An endothelial cell that is part of the venule." [GOC:tfm] xref: FMA:67762 is_a: CL:0002139 {is_inferred="true"} ! endothelial cell of vascular tree intersection_of: CL:0002139 ! endothelial cell of vascular tree intersection_of: part_of UBERON:0001979 ! venule relationship: part_of UBERON:0001979 ! venule [Term] id: CL:1000428 name: stem cell of epidermis namespace: cell def: "A somatic stem cell that is part of the epidermis." [GOC:tfm] synonym: "epidermal stem cell" EXACT [FMA:70541] xref: FMA:70541 is_a: CARO:0000000 ! anatomical entity is_a: CL:0000723 {is_inferred="true"} ! somatic stem cell intersection_of: CL:0000723 ! somatic stem cell intersection_of: part_of UBERON:0001003 ! skin epidermis relationship: part_of UBERON:0001003 ! skin epidermis [Term] id: CL:1000443 name: ciliary muscle cell namespace: cell def: "A smooth muscle cell that is part of the ciliary body." [GOC:tfm] synonym: "smooth muscle cell of ciliary body" EXACT [FMA:70610] xref: FMA:70610 is_a: CL:0000192 {is_inferred="true"} ! smooth muscle cell intersection_of: CL:0000192 ! smooth muscle cell intersection_of: part_of UBERON:0001775 ! ciliary body relationship: part_of UBERON:0001775 ! ciliary body [Term] id: CL:1000444 name: mesothelial cell of anterior chamber of eye namespace: cell def: "A mesothelial cell that is part of the anterior chamber of eyeball." [GOC:tfm] xref: FMA:70615 is_a: CL:0000077 {is_inferred="true"} ! mesothelial cell intersection_of: CL:0000077 ! mesothelial cell intersection_of: part_of UBERON:0001766 ! anterior chamber of eyeball relationship: part_of UBERON:0001766 ! anterior chamber of eyeball [Term] id: CL:1000456 name: mesothelial cell of parietal peritoneum namespace: cell def: "A mesothelial cell that is part of the parietal peritoneum." [GOC:tfm] xref: FMA:72142 is_a: CL:1000490 ! mesothelial cell of peritoneum intersection_of: CL:0000077 ! mesothelial cell intersection_of: part_of UBERON:0001366 ! parietal peritoneum relationship: part_of UBERON:0001366 ! parietal peritoneum [Term] id: CL:1000457 name: mesothelial cell of visceral peritoneum namespace: cell def: "A mesothelial cell that is part of the visceral peritoneum." [GOC:tfm] xref: FMA:72143 is_a: CL:1000490 ! mesothelial cell of peritoneum intersection_of: CL:0000077 ! mesothelial cell intersection_of: part_of UBERON:0001178 ! visceral peritoneum relationship: part_of UBERON:0001178 ! visceral peritoneum [Term] id: CL:1000478 name: transitional myocyte of sinoatrial node namespace: cell def: "A transitional myocyte that is part of the sinoatrial node." [GOC:tfm] synonym: "transitinal myocyte of sinuatrial node" EXACT [] xref: FMA:83384 is_a: CL:0002073 {is_inferred="true"} ! transitional myocyte is_a: CL:1000409 ! myocyte of sinoatrial node intersection_of: CL:0002073 ! transitional myocyte intersection_of: part_of UBERON:0002351 ! sinoatrial node [Term] id: CL:1000479 name: Purkinje myocyte of atrioventricular node namespace: cell def: "A Purkinje myocyte that is part of the atrioventricular node." [GOC:tfm] xref: FMA:83386 is_a: CL:0002068 {is_inferred="true"} ! Purkinje myocyte is_a: CL:1000410 ! myocyte of atrioventricular node intersection_of: CL:0002068 ! Purkinje myocyte intersection_of: part_of UBERON:0002352 ! atrioventricular node [Term] id: CL:1000482 name: myocardial endocrine cell of interventricular septum namespace: cell def: "A myocardial endocrine cell that is part of the interventricular septum." [GOC:tfm] xref: FMA:83390 is_a: CL:0002074 {is_inferred="true"} ! myocardial endocrine cell is_a: CL:2000022 ! cardiac septum cell intersection_of: CL:0002074 ! myocardial endocrine cell intersection_of: part_of UBERON:0002094 ! interventricular septum relationship: part_of UBERON:0002094 ! interventricular septum [Term] id: CL:1000490 name: mesothelial cell of peritoneum namespace: cell def: "A mesothelial cell that is part of the peritoneum." [GOC:tfm] synonym: "peritoneal mesothelial cell" EXACT [FMA:86736] xref: FMA:86736 is_a: CL:0000077 {is_inferred="true"} ! mesothelial cell intersection_of: CL:0000077 ! mesothelial cell intersection_of: part_of UBERON:0002358 ! peritoneum relationship: part_of UBERON:0002358 ! peritoneum [Term] id: CL:1000491 name: mesothelial cell of pleura namespace: cell def: "A mesothelial cell that is part of the pleura." [GOC:tfm] synonym: "pleural mesothelial cell" EXACT [FMA:86737] xref: FMA:86737 is_a: CL:0000077 {is_inferred="true"} ! mesothelial cell intersection_of: CL:0000077 ! mesothelial cell intersection_of: part_of UBERON:0000977 ! pleura relationship: part_of UBERON:0000977 ! pleura [Term] id: CL:1000492 name: mesothelial cell of parietal pleura namespace: cell def: "A mesothelial cell that is part of the parietal pleura." [GOC:tfm] xref: FMA:86738 is_a: CL:1000491 ! mesothelial cell of pleura intersection_of: CL:0000077 ! mesothelial cell intersection_of: part_of UBERON:0002400 ! parietal pleura relationship: part_of UBERON:0002400 ! parietal pleura [Term] id: CL:1000493 name: mesothelial cell of visceral pleura namespace: cell def: "A mesothelial cell that is part of the visceral pleura." [GOC:tfm] xref: FMA:86739 is_a: CL:0000082 ! epithelial cell of lung is_a: CL:1000491 ! mesothelial cell of pleura intersection_of: CL:0000077 ! mesothelial cell intersection_of: part_of UBERON:0002401 ! visceral pleura relationship: part_of UBERON:0002401 ! visceral pleura [Term] id: CL:1001567 name: lung endothelial cell namespace: cl synonym: "endothelial cell of lung" RELATED [] synonym: "pulmonary vessel endothelial cell" RELATED [] is_a: CL:0000082 ! epithelial cell of lung is_a: CL:0002139 ! endothelial cell of vascular tree intersection_of: CL:0002139 ! endothelial cell of vascular tree intersection_of: part_of UBERON:0002048 ! lung relationship: part_of UBERON:0000102 ! lung vasculature [Term] id: CL:1001568 name: pulmonary artery endothelial cell namespace: cl synonym: "PAEC cell" RELATED [BTO:0001141] xref: BTO:0001141 is_a: CL:1000413 ! endothelial cell of artery intersection_of: CL:0002139 ! endothelial cell of vascular tree intersection_of: part_of UBERON:0002012 ! pulmonary artery relationship: part_of UBERON:0005317 ! pulmonary artery endothelium [Term] id: CL:1001576 name: oral mucosa squamous cell def: "Squamous cell of oral epithelium." [NPX:PDR] synonym: "oral cavity mucosa squamous cell" RELATED [CALOHA:TS-1252] synonym: "oral cavity mucosa squamous epithelial cell" RELATED [CALOHA:TS-1252] synonym: "oral mucosa squamous epithelial cell" RELATED [CALOHA:TS-1252] synonym: "oral mucosa squamous epithelial cells" RELATED [CALOHA:TS-1252] xref: CALOHA:TS-1252 is_a: CL:0000076 ! squamous epithelial cell is_a: CL:0002251 ! epithelial cell of alimentary canal intersection_of: CL:0000076 ! squamous epithelial cell intersection_of: part_of UBERON:0002424 ! oral epithelium relationship: part_of UBERON:0002424 ! oral epithelium [Term] id: CL:1001609 name: muscle fibroblast def: "Fibroblast from muscle organ." [NPX:PDR] xref: CALOHA:TS-0643 is_a: CL:0000057 ! fibroblast intersection_of: CL:0000057 ! fibroblast intersection_of: part_of UBERON:0001630 ! muscle organ relationship: part_of UBERON:0001630 ! muscle organ [Term] id: CL:1001610 name: bone marrow hematopoietic cell def: "Hematopoietic cells resident in the bone marrow. Include: hematopoietic stem cells (lymphoid stem cells and myeloid stem cells) and the precursor cells for thrombocytes, erythrocytes, basophils, neutrophils, eosinophils, monocytes and lymphocytes." [NPX:PDR] synonym: "bone marrow hematopoietic cells" RELATED [CALOHA:TS-2109] synonym: "bone marrow poietic cells" RELATED [CALOHA:TS-2109] xref: CALOHA:TS-2109 is_a: CL:0000988 ! hematopoietic cell is_a: CL:0002092 ! bone marrow cell intersection_of: CL:0000988 ! hematopoietic cell intersection_of: part_of UBERON:0002371 ! bone marrow relationship: part_of UBERON:0012429 ! hematopoietic tissue [Term] id: CL:2000001 name: peripheral blood mononuclear cell namespace: cell def: "A leukocyte with a single non-segmented nucleus in the mature form found in the circulatory pool of blood." [GOC:TermGenie] is_a: CL:0000080 ! circulating cell is_a: CL:0000842 ! mononuclear cell intersection_of: CL:0000842 ! mononuclear cell intersection_of: part_of UBERON:0000178 ! blood relationship: part_of UBERON:0000178 ! blood created_by: TermGenie creation_date: 2014-02-11T17:29:04Z [Term] id: CL:2000008 name: microvascular endothelial cell namespace: cell def: "Any blood vessel endothelial cell that is part of a microvascular endothelium." [GOC:TermGenie] is_a: CL:0000071 ! blood vessel endothelial cell intersection_of: CL:0000071 ! blood vessel endothelial cell intersection_of: part_of UBERON:0008339 ! microvascular endothelium relationship: part_of UBERON:0008339 ! microvascular endothelium created_by: TermGenie creation_date: 2014-06-04T15:07:42Z [Term] id: CL:2000010 name: dermis blood vessel endothelial cell namespace: cell def: "Any blood vessel endothelial cell that is part of a dermis." [GOC:TermGenie] is_a: CL:0000071 ! blood vessel endothelial cell intersection_of: CL:0000071 ! blood vessel endothelial cell intersection_of: part_of UBERON:0002067 ! dermis relationship: part_of UBERON:0002067 ! dermis created_by: TermGenie creation_date: 2014-06-04T15:12:06Z [Term] id: CL:2000013 name: fibroblast of skin of abdomen namespace: cell def: "Any skin fibroblast that is part of a skin of abdomen." [GOC:TermGenie] is_a: CL:0002620 ! skin fibroblast intersection_of: CL:0002620 ! skin fibroblast intersection_of: part_of UBERON:0001416 ! skin of abdomen relationship: part_of UBERON:0001416 ! skin of abdomen created_by: TermGenie creation_date: 2014-06-04T15:18:16Z [Term] id: CL:2000016 name: lung microvascular endothelial cell namespace: cell def: "Any lung endothelial cell that is part of a microvascular endothelium." [GOC:TermGenie] is_a: CL:1001567 ! lung endothelial cell is_a: CL:2000008 ! microvascular endothelial cell intersection_of: CL:1001567 ! lung endothelial cell intersection_of: part_of UBERON:0008339 ! microvascular endothelium created_by: TermGenie creation_date: 2014-06-04T16:00:56Z [Term] id: CL:2000019 name: compound eye photoreceptor cell namespace: cell def: "Any photoreceptor cell that is part of a compound eye." [GOC:TermGenie] is_a: CL:0000287 ! eye photoreceptor cell intersection_of: CL:0000210 ! photoreceptor cell intersection_of: part_of UBERON:0000018 ! compound eye relationship: part_of UBERON:0000018 ! compound eye created_by: TermGenie creation_date: 2014-06-24T23:16:45Z [Term] id: CL:2000022 name: cardiac septum cell namespace: cell def: "Any native cell that is part of a cardiac septum." [GOC:TermGenie] is_a: CARO:0000000 ! anatomical entity is_a: CL:0000003 ! native cell intersection_of: CL:0000003 ! native cell intersection_of: part_of UBERON:0002099 ! cardiac septum relationship: part_of UBERON:0002099 ! cardiac septum created_by: TermGenie creation_date: 2014-06-24T23:17:07Z [Term] id: CL:2000029 name: central nervous system neuron namespace: cell def: "Any neuron that is part of a central nervous system." [GOC:TermGenie] is_a: CL:0000540 ! neuron intersection_of: CL:0000540 ! neuron intersection_of: RO:0002100 UBERON:0001017 ! has soma location central nervous system relationship: RO:0002100 UBERON:0001017 ! has soma location central nervous system created_by: TermGenie creation_date: 2014-06-25T01:17:43Z [Term] id: CL:2000032 name: peripheral nervous system neuron namespace: cell def: "Any neuron that is part of a peripheral nervous system." [GOC:TermGenie] is_a: CL:0000540 ! neuron intersection_of: CL:0000540 ! neuron intersection_of: RO:0002100 UBERON:0000010 ! has soma location peripheral nervous system relationship: RO:0002100 UBERON:0000010 ! has soma location peripheral nervous system created_by: TermGenie creation_date: 2014-06-25T02:28:17Z [Term] id: CL:2000042 name: embryonic fibroblast namespace: cell def: "Any fibroblast that is part of a embryo." [GOC:TermGenie] is_a: CL:0000057 ! fibroblast intersection_of: CL:0000057 ! fibroblast intersection_of: part_of UBERON:0000922 ! embryo relationship: part_of UBERON:0000922 ! embryo created_by: TermGenie creation_date: 2014-07-09T00:12:00Z [Term] id: CL:2000044 name: brain microvascular endothelial cell namespace: cell def: "Any microvascular endothelial cell that is part of a brain." [GOC:TermGenie] is_a: CL:0002319 ! neural cell is_a: CL:2000008 ! microvascular endothelial cell intersection_of: CL:2000008 ! microvascular endothelial cell intersection_of: part_of UBERON:0000955 ! brain relationship: part_of UBERON:0000955 ! brain created_by: TermGenie creation_date: 2014-07-09T00:24:53Z [Term] id: CL:2000046 name: ventricular cardiac muscle cell namespace: cell def: "Any cardiac muscle cell that is part of a cardiac ventricle." [GOC:TermGenie] is_a: CL:0000746 ! cardiac muscle cell intersection_of: CL:0000746 ! cardiac muscle cell intersection_of: part_of UBERON:0002082 ! cardiac ventricle relationship: part_of UBERON:0002082 ! cardiac ventricle created_by: TermGenie creation_date: 2014-08-12T20:50:28Z [Term] id: CL:2000047 name: brainstem motor neuron namespace: cell def: "Any motor neuron that is part of a brainstem." [GOC:TermGenie] is_a: CL:0000100 ! motor neuron is_a: CL:2000029 ! central nervous system neuron intersection_of: CL:0000100 ! motor neuron intersection_of: RO:0002100 UBERON:0002298 ! has soma location brainstem relationship: RO:0002100 UBERON:0002298 ! has soma location brainstem created_by: TermGenie creation_date: 2014-10-02T23:52:53Z [Term] id: CL:2000063 name: ovarian fibroblast namespace: cell def: "Any fibroblast that is part of a female gonad." [GOC:TermGenie] comment: http://www.sciencellonline.com/site/productInformation.php?keyword=7330 is_a: CL:0000057 ! fibroblast intersection_of: CL:0000057 ! fibroblast intersection_of: part_of UBERON:0000992 ! ovary relationship: part_of UBERON:0000992 ! ovary created_by: TermGenie creation_date: 2014-10-07T17:57:42Z [Term] id: CL:2000064 name: ovarian surface epithelial cell namespace: cell def: "Any epithelial cell that is part of a female gonad." [GOC:TermGenie] comment: http://www.sciencellonline.com/site/productInformation.php?keyword=7310 is_a: CARO:0000000 ! anatomical entity is_a: CL:0000066 ! epithelial cell intersection_of: CL:0000066 ! epithelial cell intersection_of: part_of UBERON:0000992 ! ovary relationship: part_of UBERON:0000992 ! ovary created_by: TermGenie creation_date: 2014-10-07T17:59:13Z [Term] id: CL:2000066 name: cardiac ventricle fibroblast namespace: cell def: "Any fibroblast that is part of a cardiac ventricle." [GOC:TermGenie] comment: http://www.sciencellonline.com/site/productInformation.php?keyword=6310 is_a: CL:0002548 ! fibroblast of cardiac tissue intersection_of: CL:0000057 ! fibroblast intersection_of: part_of UBERON:0002082 ! cardiac ventricle relationship: part_of UBERON:0002082 ! cardiac ventricle created_by: TermGenie creation_date: 2014-10-07T18:35:38Z [Term] id: CL:2000067 name: cardiac atrium fibroblast namespace: cell def: "Any fibroblast that is part of a cardiac atrium." [GOC:TermGenie] comment: http://www.sciencellonline.com/site/productInformation.php?keyword=6320 is_a: CL:0002548 ! fibroblast of cardiac tissue intersection_of: CL:0000057 ! fibroblast intersection_of: part_of UBERON:0002081 ! cardiac atrium relationship: part_of UBERON:0002081 ! cardiac atrium created_by: TermGenie creation_date: 2014-10-07T18:36:54Z [Term] id: CL:2000068 name: pericardium fibroblast namespace: cell def: "Any fibroblast that is part of a pericardium." [GOC:TermGenie] comment: http://www.sciencellonline.com/site/productInformation.php?keyword=6430 is_a: CL:0000057 ! fibroblast intersection_of: CL:0000057 ! fibroblast intersection_of: part_of UBERON:0002407 ! pericardium relationship: part_of UBERON:0002407 ! pericardium created_by: TermGenie creation_date: 2014-10-07T18:38:06Z [Term] id: CL:2000070 name: optic choroid fibroblast namespace: cell def: "Any fibroblast that is part of a optic choroid." [GOC:TermGenie] comment: http://www.sciencellonline.com/site/productInformation.php?keyword=6620 is_a: CL:0000057 ! fibroblast intersection_of: CL:0000057 ! fibroblast intersection_of: part_of UBERON:0001776 ! optic choroid relationship: part_of UBERON:0001776 ! optic choroid created_by: TermGenie creation_date: 2014-10-07T18:50:43Z [Term] id: CL:2000072 name: adipose microvascular endothelial cell namespace: cell def: "Any microvascular endothelial cell that is part of a adipose tissue." [GOC:TermGenie] comment: http://www.sciencellonline.com/site/productInformation.php?keyword=7200 is_a: CL:0002320 ! connective tissue cell is_a: CL:2000008 ! microvascular endothelial cell intersection_of: CL:2000008 ! microvascular endothelial cell intersection_of: part_of UBERON:0001013 ! adipose tissue relationship: part_of UBERON:0001013 ! adipose tissue created_by: TermGenie creation_date: 2014-10-07T22:13:45Z [Term] id: CL:2000073 name: migratory cardiac neural crest cell namespace: cell def: "Any migratory neural crest cell that is part of a cardiac neural crest." [GOC:TermGenie] is_a: CL:0000333 ! migratory neural crest cell intersection_of: CL:0000333 ! migratory neural crest cell intersection_of: part_of UBERON:0000095 ! cardiac neural crest relationship: part_of UBERON:0000095 ! cardiac neural crest created_by: TermGenie creation_date: 2014-11-05T01:18:43Z [Term] id: CL:2000080 name: mesenchymal stem cell of abdominal adipose tissue namespace: cell def: "Any mesenchymal stem cell of adipose tissue that is part of an abdomen." [GOC:TermGenie] synonym: "mesenchymal stem cell of abdominal adipose" EXACT [] is_a: CL:0002570 ! mesenchymal stem cell of adipose tissue intersection_of: CL:0002570 ! mesenchymal stem cell of adipose tissue intersection_of: part_of UBERON:0000916 ! abdomen relationship: part_of UBERON:0000916 ! abdomen created_by: TermGenie creation_date: 2014-12-02T19:10:34Z [Term] id: CL:3000000 name: ciliated epithelial cell of esophagus namespace: cell def: "A ciliated epithelial cell of the esophagus." [GOC:CellBLAST, PMID:29802404] is_a: CL:0000067 ! ciliated epithelial cell is_a: CL:0002252 ! epithelial cell of esophagus intersection_of: CL:0000067 ! ciliated epithelial cell intersection_of: part_of UBERON:0001976 ! epithelium of esophagus relationship: part_of UBERON:0001976 ! epithelium of esophagus created_by: CellBLAST creation_date: 2019-02-09T16:40:30Z [Term] id: CL:4028001 name: pulmonary capillary endothelial cell def: "Any capillary endothelial cell that is part of a lung." [] synonym: "lung capillary endothelial cell" EXACT [] is_a: CL:0002144 ! capillary endothelial cell is_a: CL:2000016 ! lung microvascular endothelial cell intersection_of: CL:0002144 ! capillary endothelial cell intersection_of: part_of UBERON:0002048 ! lung created_by: http://orcid.org/0000-0002-3293-5463 creation_date: 2021-11-23T02:31:40Z [Term] id: ECOCORE:00000001 name: food web def: "A system in which living entities consume living, dead, or non-living entities or are consumed by other living entities through trophic interactions." [] {http://purl.obolibrary.org/obo/IAO_0000119="https://en.wikipedia.org/wiki/Food_web"} synonym: "consumer-resource system" EXACT [] synonym: "topological web" RELATED [] synonym: "trophic system" EXACT [] synonym: "web of life" RELATED [] is_a: RO:0002577 ! system relationship: has_part ECOCORE:00000003 ! food chain [Term] id: ECOCORE:00000002 name: food cycle def: "A food web in which the outputs of a trophic interaction are consumed by organisms acting in a lower trophic level relative to the initial interaction." [] is_a: ECOCORE:00000001 ! food web property_value: editor_note "Definition needs revision, but core intention is captured." xsd:string [Term] id: ECOCORE:00000003 name: food chain def: "A system in which a series of living entities consume living, dead, or non-living entities in successively higher trophic levels." [] {http://purl.obolibrary.org/obo/IAO_0000119="https://en.wikipedia.org/wiki/Food_web"} synonym: "consumer-resource chain" EXACT [] synonym: "trophic chain" EXACT [] is_a: RO:0002577 ! system [Term] id: ECOCORE:00000004 name: trophic function def: "A function which inheres in a living entity by virtue of that entity being able to feed on a material." [] is_a: BFO:0000034 ! function property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string property_value: IAO:0000117 http://orcid.org/0000-0002-4366-3088 xsd:string [Term] id: ECOCORE:00000005 name: heterotrophic function def: "A function which inheres in a living entity by virtue of that entity being able to feed on living or once-living (dead) material." [] is_a: ECOCORE:00000004 ! trophic function relationship: BFO:0000054 ECOCORE:00000011 ! realized in heterotrophy property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string property_value: IAO:0000117 http://orcid.org/0000-0002-4366-3088 xsd:string [Term] id: ECOCORE:00000006 name: autotrophic function def: "A function which inheres in a living entity by virtue of that entity being able to harvest energy and create biomass from non-living materials." [] is_a: ECOCORE:00000004 ! trophic function relationship: BFO:0000054 ECOCORE:00000009 ! realized in autotrophy property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string property_value: IAO:0000117 http://orcid.org/0000-0002-4366-3088 xsd:string [Term] id: ECOCORE:00000007 name: mixotrophic function def: "A function which inheres in a living entity by virtue of that entity being able to realize autotrophic and heterotrophic functions." [] is_a: ECOCORE:00000004 ! trophic function property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string property_value: IAO:0000117 http://orcid.org/0000-0002-4366-3088 xsd:string [Term] id: ECOCORE:00000008 name: trophic process def: "A process during which a living entity acquires or generates food and energy from a living, dead, or non-living entity." [] is_a: BFO:0000015 ! process relationship: has_part GO:0045333 ! cellular respiration property_value: editor_note "All categories of interaction partners should be indentified in subclasses." xsd:string property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string property_value: IAO:0000117 http://orcid.org/0000-0002-4366-3088 xsd:string [Term] id: ECOCORE:00000009 name: autotrophy def: "A trophic process during which a living entity acquires energy and generates biomass from non-living entities." [] is_a: ECOCORE:00000008 ! trophic process property_value: editor_note "This should be axiomatised and made a defined class: any trophic interaction which has as input some inorganic material (non-living) that is the only source of carbon or reducing equivalents source is a autotrophic process." xsd:string property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string property_value: IAO:0000117 http://orcid.org/0000-0002-4366-3088 xsd:string [Term] id: ECOCORE:00000010 name: heterotroph def: "An organism that obtains carbon for growth and development by metabolizing biogenic organic compounds derived from living or dead material." [] synonym: "consumer" RELATED [] is_a: OBI:0100026 ! organism relationship: capable_of ECOCORE:00000011 ! heterotrophy property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string property_value: IAO:0000117 http://orcid.org/0000-0002-4366-3088 xsd:string [Term] id: ECOCORE:00000011 name: heterotrophy def: "A trophic process during which a living entity acquires food and energy by consuming another organism or organism part, living or dead." [] synonym: "consumption" EXACT [] is_a: ECOCORE:00000008 ! trophic process property_value: editor_note "This should be axiomatised and made a defined class: any trophic interaction which has as input some organic material (living or dead) that is the only source of carbon or reducing equivalents source is a autotrophic process." xsd:string property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string property_value: IAO:0000117 http://orcid.org/0000-0002-4366-3088 xsd:string [Term] id: ECOCORE:00000012 name: mixotroph def: "An organism which is capable of heterotrophic and autotrophic trophic processes." [] is_a: ECOCORE:00000010 ! heterotroph is_a: ECOCORE:00000023 ! autotroph property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string property_value: IAO:0000117 http://orcid.org/0000-0002-4366-3088 xsd:string [Term] id: ECOCORE:00000013 name: nectivory def: "A herbivorous process during which a living entity acquires food and energy by consuming nectar." [] is_a: ECOCORE:00000020 ! herbivory relationship: dc-creator http://orcid.org/0000-0002-2908-3327 property_value: http://purl.org/dc/elements/1.1/date 2022-03-09T17:05:35Z xsd:dateTime [Term] id: ECOCORE:00000014 name: lithotrophy def: "A trophic process during which a living entity acquires reducing equivalents from inorganic chemicals for use in biosynthesis or energy conservation via aerobic or anaerobic respiration." [] {http://purl.obolibrary.org/obo/IAO_0000119="https://en.wikipedia.org/wiki/Lithotroph"} is_a: ECOCORE:00000008 ! trophic process property_value: IAO:0000117 http://orcid.org/0000-0002-4366-3088 xsd:string [Term] id: ECOCORE:00000015 name: fungivore def: "A heterotroph which consumes fungi." [] synonym: "fungal feeder" EXACT [] synonym: "mycophage" EXACT [] is_a: CARO:0001010 ! organism or virus or viroid is_a: ECOCORE:00000010 ! heterotroph intersection_of: capable_of ECOCORE:00000016 ! fungivory intersection_of: RO:0002470 NCBITaxon:4751 ! eats Fungi relationship: capable_of ECOCORE:00000016 ! fungivory relationship: RO:0002470 NCBITaxon:4751 ! eats Fungi property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string property_value: IAO:0000117 http://orcid.org/0000-0002-4366-3088 xsd:string [Term] id: ECOCORE:00000016 name: fungivory def: "A heterotrophic process during which a living entity acquires food and energy by consuming living fungal material." [] comment: In this class, we make no commitment to whether the organism belongs to a taxon which has adapted to a fungi-heavy diet: this is a functional defintion, referencing the act of eating, primarily, a fungi-based diet. synonym: "fungal feeding" EXACT [] synonym: "mycophagy" EXACT [] is_a: ECOCORE:00000011 ! heterotrophy relationship: has_input NCBITaxon:4751 ! Fungi property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string property_value: IAO:0000117 http://orcid.org/0000-0002-4366-3088 xsd:string [Term] id: ECOCORE:00000017 name: phototrophy def: "A trophic process during which a living entity generates food from abiotic sources or through consumption of living or dead material, and captures energy from light." [] {http://purl.obolibrary.org/obo/IAO_0000119="https://en.wikipedia.org/wiki/Phototroph"} is_a: ECOCORE:00000008 ! trophic process relationship: has_part GO:0015979 ! photosynthesis property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string property_value: IAO:0000117 http://orcid.org/0000-0002-4366-3088 xsd:string [Term] id: ECOCORE:00000018 name: life history def: "A history which includes all the processes during which resources are used by an organism to grow, survive, and reproduce over its lifetime." [] {http://purl.obolibrary.org/obo/IAO_0000119="ISBN:9781305967335", http://purl.obolibrary.org/obo/IAO_0000119="ISBN:130596733X"} is_a: BFO:0000182 ! history property_value: IAO:0000117 http://orcid.org/0000-0002-4364-7715 xsd:string property_value: IAO:0000117 http://orcid.org/0000-0002-4366-3088 xsd:string [Term] id: ECOCORE:00000019 name: herbivore def: "A heterotroph which consumes plants or macroalgae via ingestion through a type of \"mouth\". Plant or algal matter is broken down through an internal digestion process." [] comment: There is some debate over whether herbivores should be restricted to plants and macroalgae or generalsed to more photoautotrophs. We welcome input on our issue tracker: https://github.com/EcologicalSemantics/ecocore synonym: "phytophage" EXACT [] synonym: "plant eater" NARROW [] synonym: "primary consumer" EXACT [] is_a: ECOCORE:00000010 ! heterotroph relationship: capable_of ECOCORE:00000020 ! herbivory property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string property_value: IAO:0000117 http://orcid.org/0000-0002-4366-3088 xsd:string [Term] id: ECOCORE:00000020 name: herbivory def: "A heterotrophic process during which a living entity acquires food and energy by consuming living plant- or macro-algal material." [] comment: In this class, we make no commitment to whether the organism belongs to a taxon which has adapted to a herbivorous diet: this is a functional defintion, referencing the act of eating, primarily, a plant- or macroalga-based diet. synonym: "phytophagy" EXACT [] synonym: "plant trophism" EXACT [] is_a: ECOCORE:00000011 ! heterotrophy property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string property_value: IAO:0000117 http://orcid.org/0000-0002-4366-3088 xsd:string [Term] id: ECOCORE:00000021 name: carnivory def: "A heterotrophic process during which a living entity acquires food and energy from consuming living metazoan (animal) material." [] comment: In this class, we make no commitment to whether the organism belongs to a taxon which has adapted to a carnivorous diet: this is a functional defintion, referencing the act of eating, primarily, an animal-based diet. synonym: "zoophagy" EXACT [] is_a: ECOCORE:00000011 ! heterotrophy relationship: has_input NCBITaxon:33208 ! Metazoa property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string property_value: IAO:0000117 http://orcid.org/0000-0002-4366-3088 xsd:string [Term] id: ECOCORE:00000022 name: symbiosis def: "A process during which two living entities engage in a close and long-term biological interaction." [] is_a: BFO:0000015 ! process relationship: dc-creator http://orcid.org/0000-0002-2908-3327 property_value: http://purl.org/dc/elements/1.1/date 2022-03-09T17:22:07Z xsd:dateTime [Term] id: ECOCORE:00000023 name: autotroph def: "An organism which is capable of incorporating abiogenic (inorganic) carbon into its biomass." [] synonym: "primary producer" RELATED [] is_a: OBI:0100026 ! organism relationship: capable_of ECOCORE:00000009 ! autotrophy property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string property_value: IAO:0000117 http://orcid.org/0000-0002-4366-3088 xsd:string [Term] id: ECOCORE:00000024 name: area to mass ratio def: "Quotient (or ratio) of surface area of an organism divided by the mass of the same organism" [] is_a: PATO:0001995 ! organismal quality property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000025 name: commensalism def: "A symbiotic process in which one participant gains benefits while the other participant neither benefits nor is harmed." [] is_a: ECOCORE:00000022 ! symbiosis relationship: dc-creator http://orcid.org/0000-0002-2908-3327 property_value: http://purl.org/dc/elements/1.1/date 2022-03-09T17:23:41Z xsd:dateTime [Term] id: ECOCORE:00000026 name: prenatal development def: "The duration of the development from fertilized, deposited or implanted egg to hatching/birth. Corresponds to egg incubation duration in oviparous animals and to gestation period duration in viviparous animals." [] synonym: "gestation" RELATED [] synonym: "incubation" RELATED [] is_a: GO:0032502 ! developmental process property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000027 name: primary diet def: "Type of food comprising the majority of the diet of an organism" [] is_a: PATO:0001995 ! organismal quality property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000028 name: oviparous def: "A reproductive quality inhering in a bearer by virtue of the bearer's ability to produce offspring that develop inside a shelled egg, with a large food supply in yolk, after internal fertilization" [] is_a: PATO:0001434 ! reproductive quality property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000029 name: viviparous def: "A reproductive quality inhering in a bearer by virtue of the bearer's ability to produce offspring that are born live, or where the development of the offspring is supported by either parent in or on any part of their body" [] is_a: PATO:0001434 ! reproductive quality property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000030 name: ovoviviparous def: "A reproductive quality inhering in a bearer by virtue of the bearer's ability to produce offspring that are born live after retaining the eggs inside the body of the female" [] is_a: PATO:0001434 ! reproductive quality property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000031 name: ovuliparous def: "A reproductive quality inhering in a bearer by virtue of the bearer's ability to produce offspring via external fertilization, the oocytes being released and fertilized outside the female's body by the male" [] is_a: PATO:0001434 ! reproductive quality property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000032 name: histrotrophic viviparity def: "A reproductive quality inhering in a bearer by virtue of the bearer's ability to produce zygotes that develop in the female's oviducts, but find their nutriments from other tissues, whether skin or glandular tissue" [] is_a: ECOCORE:00000029 ! viviparous property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000033 name: hemotrophic viviparity def: "A reproductive quality inhering in a bearer by virtue of the bearer's ability to produce offspring that receive nutriments from the female during prenatal development via a specialized structure, such as a placenta" [] is_a: ECOCORE:00000029 ! viviparous property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000034 name: copepodid stage 2 def: "The second post-naupliar life stage of a copepod" [] is_a: UBERON:0000105 ! life cycle stage relationship: precedes ECOCORE:00000035 ! copepodid stage 3 property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000035 name: copepodid stage 3 def: "The third post-naupliar life stage of a copepod" [] is_a: UBERON:0000105 ! life cycle stage relationship: precedes ECOCORE:00000036 ! copepodid stage 4 property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000036 name: copepodid stage 4 def: "The fourth post-naupliar life stage of a copepod" [] is_a: UBERON:0000105 ! life cycle stage relationship: precedes ECOCORE:00000037 ! copepodid stage 5 property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000037 name: copepodid stage 5 def: "The fifth post-naupliar life stage of a copepod" [] is_a: UBERON:0000105 ! life cycle stage relationship: precedes ECOCORE:00000038 ! copepodid stage 6 property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000038 name: copepodid stage 6 def: "The sixth post-naupliar life stage of a copepod" [] is_a: UBERON:0000105 ! life cycle stage property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000039 name: cursorial def: "An evolutionary quality inhering in a bearer by virtue of the bearer's morphological and physiological adaptation for running" [] is_a: PATO:0001995 ! organismal quality property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000040 name: fossorial def: "An evolutionary quality inhering in a bearer by virtue of the bearer's morphological and physiological adaptation for digging and living underground" [] is_a: PATO:0001995 ! organismal quality property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000041 name: arboreal def: "An evolutionary quality inhering in a bearer by virtue of the bearer's morphological and physiological adaptation for living in trees" [] is_a: PATO:0001995 ! organismal quality property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000042 name: hermaphroditic def: "a reproductive quality inhering in the bearer by virtue of the bearer having reproductive organs normally associated with both male and female sexes at the same time" [] synonym: "monoecious" RELATED [] is_a: ECOCORE:00000061 ! sexual system property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000043 name: protogynous def: "a reproductive quality inhering in the bearer by virtue of the bearer having female reproductive organs at the beginning of its life and then switching to male reproductive organs" [] is_a: ECOCORE:00000120 ! sequentially hermaphroditic property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000044 name: direct development def: "The process by which a larvae transforms into an adult wherein the larvae looks like a smaller adult form" [] is_a: GO:0002164 ! larval development property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000045 name: symbiotroph def: "heterotroph that acquires nutrition from a symbiont" [] is_a: CARO:0001010 ! organism or virus or viroid is_a: ECOCORE:00000010 ! heterotroph relationship: capable_of ECOCORE:00000060 ! symbiotrophy property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000046 name: endophyte def: "An organism bearing a symbiont role and capable of living within a plant for at least part of its life cycle without causing apparent disease" [] is_a: ECOCORE:00000045 ! symbiotroph property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000047 name: parasitism def: "A symbiotic process in which one participant gains benefits while the other participant is harmed." [] is_a: ECOCORE:00000022 ! symbiosis relationship: dc-creator http://orcid.org/0000-0002-2908-3327 property_value: http://purl.org/dc/elements/1.1/date 2022-03-09T17:28:04Z xsd:dateTime [Term] id: ECOCORE:00000048 name: lecithotrophic larva def: "anatomical entity that comprises the organism in a distinct juvenile form that is provided with a source of nutrition, usually a yolk sac, to use before metamorphosing into an adult" [] is_a: UBERON:0002548 ! larva [Term] id: ECOCORE:00000049 name: microphytobenthos def: "a community of microscopic, unicellular eukaryotic algae and the prokaryotic Cyanobacteria which live on sediment surfaces" [] synonym: "algae" RELATED [] is_a: PCO:0000002 ! ecological community property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000050 name: deposit feeder def: "Organism that acquires nutrition by consuming particles of organic matter that have settled to the bottom of a body of water." [] is_a: ECOCORE:00000010 ! heterotroph relationship: capable_of ECOCORE:00000182 ! deposit feeding property_value: IAO:0000117 https://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000051 name: suspension feeder def: "A heterotroph that acquires nutrition by consuming particles suspended in water or air." [] is_a: ECOCORE:00000010 ! heterotroph property_value: IAO:0000117 https://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000052 name: subsurface deposit feeder def: "Organism that acquires nutrition by consuming particles of organic matter that have settled to the bottom of a body of water. The organism lives beneath the surface of the bottom sediment and retrieves food particles without coming into direct contact with the sediment surface." [] is_a: ECOCORE:00000050 ! deposit feeder property_value: IAO:0000117 https://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000053 name: surface deposit feeder def: "Organism that acquires nutrition by consuming particles of organic matter that have settled to the bottom of a body of water. The organism lives on or in the bottom sediment and uses a part of its body to retrieve the food particles directly from the surface." [] is_a: ECOCORE:00000050 ! deposit feeder property_value: IAO:0000117 https://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000054 name: decomposer def: "heterotroph that obtains nutrition by breaking down dead or decaying organisms or other organic matter" [] is_a: ECOCORE:00000010 ! heterotroph relationship: capable_of ECOCORE:00000058 ! decomposition property_value: IAO:0000117 https://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000055 name: detritivore def: "A decomposer which obtains nutrition by consuming detritus." [] is_a: CARO:0001010 ! organism or virus or viroid is_a: ECOCORE:00000054 ! decomposer intersection_of: capable_of ECOCORE:00000057 ! detritivory intersection_of: RO:0002470 ENVO:01001103 ! eats detritus relationship: capable_of ECOCORE:00000057 ! detritivory relationship: RO:0002470 ENVO:01001103 ! eats detritus property_value: IAO:0000117 https://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000056 name: saprotroph def: "A decomposer that obtains nutrition through extracellular digestion of decaying organic matter" [] is_a: ECOCORE:00000054 ! decomposer property_value: IAO:0000117 https://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000057 name: detritivory def: "A decomposition process during which a living entity acquires food and energy by consuming detritus." [] is_a: ECOCORE:00000058 ! decomposition is_a: ENVO:02500000 ! environmental system process relationship: has_input ENVO:01001103 ! detritus property_value: IAO:0000117 https://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000058 name: decomposition def: "A heterotrophic process during which a living entity acquires food and energy by breaking down organic substances into simpler matter." [] is_a: ECOCORE:00000011 ! heterotrophy property_value: IAO:0000117 https://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000059 name: saprotrophy def: "A decomposition process during which a living entity acquires food and energy through extracellular digestion of decaying organic matter." [] is_a: ECOCORE:00000058 ! decomposition property_value: IAO:0000117 https://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000060 name: symbiotrophy def: "A heterotrophic process during which a living entity acquires food and energy through a symbiotic relationship with another organism." [] is_a: ECOCORE:00000011 ! heterotrophy property_value: IAO:0000117 https://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000061 name: sexual system def: "An organismal quality inhering in a bearer by virtue of the organization of the systems of organs involved with sexual reproduction amongst the bearer's conspecifics." [] is_a: PATO:0001434 ! reproductive quality property_value: IAO:0000117 https://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000062 name: mating system def: "An organismal quality inhering in a bearer by virtue of the structure of the bearer's conspecifics in relation to sexual behavior." [] is_a: PATO:0001434 ! reproductive quality property_value: IAO:0000117 https://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000063 name: monogamous def: "One male and one female have an exclusive mating relationship" [] is_a: ECOCORE:00000062 ! mating system property_value: IAO:0000117 https://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000064 name: polyandrous def: "One female has an exclusive mating relationship with two or more males" [] is_a: ECOCORE:00000062 ! mating system property_value: IAO:0000117 https://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000065 name: polygynous def: "One male has an exclusive mating relationship with two or more females" [] is_a: ECOCORE:00000062 ! mating system property_value: IAO:0000117 https://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000066 name: polygynandrous def: "Two or more males have an exclusive mating relationship with two or more females" [] is_a: ECOCORE:00000062 ! mating system property_value: IAO:0000117 https://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000067 name: promiscuity def: "a member of one sex mates with any member of the opposite sex" [] is_a: ECOCORE:00000062 ! mating system property_value: IAO:0000117 https://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000068 name: endemic def: "The ecological state of a species being unique to a defined geographic location, such as an island, nation, or other defined zone or habitat type." [] is_a: PCO:0000003 ! quality of a population property_value: IAO:0000117 https://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000069 name: extinct def: "The ecological state of a species or population wherein all individuals are dead." [] is_a: PCO:0000003 ! quality of a population disjoint_from: ECOCORE:00000072 ! extant property_value: IAO:0000117 https://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000070 name: indigenous def: "The ecological state of a species living in a region where its presence is the result of only natural process, with no human intervention" [] synonym: "native" RELATED [] is_a: PCO:0000003 ! quality of a population property_value: IAO:0000117 https://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000071 name: introduced def: "The ecological state of a species living outside its native distributional range, which has arrived there by human activity, either deliberate or accidental." [] synonym: "exotic" RELATED [] is_a: PCO:0000003 ! quality of a population property_value: IAO:0000117 https://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000072 name: extant def: "The ecological state that is not the extinct state" [] is_a: PCO:0000003 ! quality of a population property_value: IAO:0000117 https://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000073 name: cosmopolitan def: "The ecological state of a species being found across all or most of the world in appropriate habitats." [] is_a: PCO:0000003 ! quality of a population property_value: IAO:0000117 https://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000074 name: microendemic def: "The ecological state of a species being unique to a very small and specific location, such as the side of a mountain or a single lake." [] is_a: ECOCORE:00000068 ! endemic property_value: IAO:0000117 https://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000075 name: annual survival rate def: "The estimated proportion of members of a population alive in year t that is still alive in year t + 1" [] is_a: PCO:0000003 ! quality of a population property_value: IAO:0000117 https://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000076 name: algae def: "A polyphyletic group of diverse photosynthetic organisms that excludes vascular plants and mosses and includes cyanobacteria, seaweed, and some single-celled organisms." [] is_a: OBI:0100026 ! organism property_value: IAO:0000117 https://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000077 name: cyanobacteria def: "Bacteria that are able to obtain their energy through photosynthesis" [] is_a: NCBITaxon:2 ! Bacteria intersection_of: NCBITaxon:2 ! Bacteria intersection_of: capable_of GO:0015979 ! photosynthesis relationship: capable_of GO:0015979 ! photosynthesis property_value: IAO:0000117 https://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000078 name: crepuscular is_a: PATO:0001995 ! organismal quality property_value: IAO:0000117 "An evolutionary quality inhering in a bearer by virtue of the bearer's morphological and physiological adaptation for being active primarily during dawn and dusk" xsd:string property_value: IAO:0000117 https://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000079 name: nocturnal def: "An evolutionary quality inhering in a bearer by virtue of the bearer's morphological and physiological adaptation for being active during the hours of darkness" [] is_a: PATO:0001995 ! organismal quality property_value: IAO:0000117 https://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000080 name: diurnal def: "An evolutionary quality inhering in a bearer by virtue of the bearer's morphological and physiological adaptation for being active during the hours of daylight" [] is_a: PATO:0001995 ! organismal quality property_value: IAO:0000117 https://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000081 name: migratory def: "An evolutionary quality inhering in a bearer by virtue of the bearer's morphological and physiological adaptation for participating in long-distance movement of conspecifics, usually on a seasonal basis" [] is_a: PATO:0001995 ! organismal quality property_value: IAO:0000117 https://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000083 name: graminivore def: "An herbivore that primarily consumes grasses." [] synonym: "grass eater" EXACT [] is_a: ECOCORE:00000019 ! herbivore property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string property_value: IAO:0000119 https://en.wikipedia.org/wiki/Graminivore xsd:string [Term] id: ECOCORE:00000084 name: folivore def: "An herbivore that primarily consumes leaves" [] synonym: "leaf eater" EXACT [] synonym: "phyllophage" EXACT [] is_a: CARO:0001010 ! organism or virus or viroid is_a: ECOCORE:00000019 ! herbivore relationship: RO:0002470 PO:0025034 ! eats leaf property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string property_value: IAO:0000119 https://en.wikipedia.org/wiki/Folivore xsd:string [Term] id: ECOCORE:00000085 name: rhizovore def: "An herbivore that primarily consumes roots" [] synonym: "racidivore" EXACT [] synonym: "rhizophage" EXACT [] synonym: "root eater" EXACT [] synonym: "root feeder" EXACT [] synonym: "root herbivore" EXACT [] is_a: CARO:0001010 ! organism or virus or viroid is_a: ECOCORE:00000019 ! herbivore relationship: RO:0002470 PO:0009005 ! eats root property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000086 name: algivore def: "An herbivore that primarily consumes algae" [] synonym: "algae eater" EXACT [] synonym: "algophage" EXACT [] is_a: ECOCORE:00000019 ! herbivore property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000087 name: parasitoid def: "A heterotroph with a temporary parasitic association with another organism that leads to the death of the host. After which, the parasitoid can continue without the host or can move on to a new host. These organisms are considered partly parasites and partly predators." [] is_a: ECOCORE:00000010 ! heterotroph property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000088 name: carnivore def: "A heterotroph that consumes animals in whole or in part via ingestion through a type of \"mouth\". Animal matter is broken down through an internal digestion process." [] synonym: "zoophage" EXACT [] is_a: CARO:0001010 ! organism or virus or viroid is_a: ECOCORE:00000010 ! heterotroph intersection_of: capable_of ECOCORE:00000021 ! carnivory intersection_of: RO:0002470 NCBITaxon:33208 ! eats Metazoa relationship: capable_of ECOCORE:00000021 ! carnivory relationship: RO:0002470 NCBITaxon:33208 ! eats Metazoa property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000089 name: predator def: "A carnivore that actively captures and consumes other animals, causing their immediate or immenent death" [] is_a: ECOCORE:00000088 ! carnivore relationship: capable_of ECOCORE:00000102 ! predation property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000090 name: scavenger def: "A carnivore that feeds on dead and decaying animal matter" [] synonym: "necrophage" EXACT [] is_a: ECOCORE:00000088 ! carnivore relationship: capable_of ECOCORE:00000103 ! scavenging property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000091 name: insectivore def: "A predator that primarily eats insects" [] synonym: "entomophage" EXACT [] is_a: ECOCORE:00000089 ! predator relationship: capable_of ECOCORE:00000108 ! insectivory property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000092 name: secondary consumer def: "A predator that eats primary consumers or herbivores" [] is_a: ECOCORE:00000089 ! predator property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000093 name: tertiary consumer def: "A predator that eats secondary consumers" [] is_a: ECOCORE:00000089 ! predator property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000094 name: quaternary consumer def: "A predator that eats tertiary consumers" [] is_a: ECOCORE:00000089 ! predator property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000095 name: apex predator def: "a predator residing at the top of a food chain upon which no other creatures prey." [] synonym: "top predator" EXACT [] is_a: ECOCORE:00000089 ! predator property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000096 name: ambush predator def: "a predator that captures or traps prey by stealth or strategy, rather than by speed or strength." [] is_a: ECOCORE:00000089 ! predator property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000097 name: litter transformer def: "a detritivore that consumes leaf litter" [] is_a: ECOCORE:00000055 ! detritivore property_value: IAO:0000117 https://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000098 name: bacterivore def: "a heterotroph that consumes bacteria" [] synonym: "bacterial feeder" EXACT [] is_a: CARO:0001010 ! organism or virus or viroid is_a: ECOCORE:00000010 ! heterotroph relationship: capable_of ECOCORE:00000114 ! bactivory [Term] id: ECOCORE:00000099 name: herbivorous grazing def: "A herbivorous process during which a living entity acquires food and energy by consuming grasses, leaves, and other soft plant material." [] is_a: ECOCORE:00000020 ! herbivory property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000100 name: seed predation def: "A herbivorous process during which a living entity acquires food and energy by consuming seeds of a plant." [] synonym: "granivory" EXACT [] is_a: ECOCORE:00000020 ! herbivory relationship: has_input PO:0009010 ! seed property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000101 name: herbivorous browsing def: "A herbivorous process during which a living entity acquires food and energy by consuming twigs, leaves, and bark of trees and shrubs." [] is_a: ECOCORE:00000020 ! herbivory property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000102 name: predation def: "A carnivorous process during which a living entity acquires food and energy by consuming other animals while they are stil alive. Predation leads directly to the imminent death of the prey organism(s)." [] comment: The definition of predation can be controversial. is_a: ECOCORE:00000021 ! carnivory property_value: IAO:0000117 https://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000103 name: scavenging def: "A carnivorous process during which a living entity acquires food and energy by consuming dead or decaying animal matter." [] synonym: "necrophagy" EXACT [] is_a: ECOCORE:00000021 ! carnivory property_value: IAO:0000117 https://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000104 name: cannibalism def: "A predation process during which a living entity acquires food and energy by consuming all or part of another individual of the same species as food." [] is_a: ECOCORE:00000102 ! predation property_value: IAO:0000117 https://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000105 name: intrauterine cannibalism def: "A cannibalistic process during which an embryo obtains food and energy by consuming a less-developed sibling while both are still in the uterus." [] is_a: ECOCORE:00000104 ! cannibalism property_value: IAO:0000117 https://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000106 name: adelphophagy def: "An intrauterine cannibalistic process during which an embryo obtains food and energy by consuming a less-developed sibling embryo while both are still in the uterus." [] synonym: "embryophagy" EXACT [] is_a: ECOCORE:00000105 ! intrauterine cannibalism property_value: IAO:0000117 https://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000107 name: oophagy def: "An intrauterine cannibalistic process during which an embryo obtains food and energy by consuming less-developed sibling eggs while both are still in the uterus." [] is_a: ECOCORE:00000105 ! intrauterine cannibalism property_value: IAO:0000117 https://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000108 name: insectivory def: "A predation process during which a living entity acquires food and energy by consuming insects." [] synonym: "entomophagy" EXACT [] is_a: ECOCORE:00000102 ! predation property_value: IAO:0000117 https://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000109 name: egg predation def: "A predation process during which a living entity acquires food and energy by consuming eggs." [] is_a: ECOCORE:00000102 ! predation property_value: IAO:0000117 https://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000110 name: social predation def: "A predation process during which a group of predators cooperates to kill creatures larger than those they could overpower singly." [] is_a: ECOCORE:00000102 ! predation property_value: IAO:0000117 https://orcid.org/0000-0002-2908-3327 xsd:string property_value: IAO:0000119 https://en.wikipedia.org/wiki/Predation#Social_predation xsd:string [Term] id: ECOCORE:00000111 name: monophagy def: "A heterotrophic process during which a living entity acquires food and energy by consuming a very narrow range of food items, sometimes only one." [] is_a: ECOCORE:00000011 ! heterotrophy property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000112 name: oligophagy def: "A heterotrophic process during which a living entity acquires food and energy by consuming a few, very specific food items." [] is_a: ECOCORE:00000011 ! heterotrophy property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string property_value: IAO:0000119 https://en.wikipedia.org/wiki/Oligophagy xsd:string [Term] id: ECOCORE:00000113 name: polyphagy def: "A heterotrophic process during which a living entity acquires food and energy by consuming a wide range of food items." [] is_a: ECOCORE:00000011 ! heterotrophy property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000114 name: bactivory def: "A heterotrophic process during which a living entity acquires food and energy from consuming bacteria." [] synonym: "bacterial feeding" EXACT [] is_a: ECOCORE:00000011 ! heterotrophy property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000115 name: broadcast spawn def: "A reproductive quality inhering in a bearer by virtue of the bearer's ability to produce offspring via external fertilisation, the oocytes being scattered into the environment and fertilised outside the female's body by the male." [] is_a: ECOCORE:00000031 ! ovuliparous property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000116 name: sac spawn def: "A reproductive quality inhering in a bearer by virtue of the bearer's ability to produce offspring via external fertilisation, the oocytes being released in an ovigerous sac and fertilised outside the female's body by the male." [] is_a: ECOCORE:00000031 ! ovuliparous property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000117 name: protandrous def: "a reproductive quality inhering in the bearer by virtue of the bearer having male reproductive organs at the beginning of its life and then switching to female reproductive organs" [] is_a: ECOCORE:00000120 ! sequentially hermaphroditic property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000118 name: protogynous hermaphroditism def: "a reproductive quality inhering in the bearer by virtue of the bearer having female reproductive organs at the beginning of its life and then switching to being a hermaphrodite" [] is_a: ECOCORE:00000120 ! sequentially hermaphroditic property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000119 name: protandrous hermaphroditism def: "a reproductive quality inhering in the bearer by virtue of the bearer having male reproductive organs at the beginning of its life and then switching to being a hermaphrodite" [] is_a: ECOCORE:00000120 ! sequentially hermaphroditic property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000120 name: sequentially hermaphroditic def: "a reproductive quality inhering in the bearer by virtue of the bearer changing sex at some point in its life" [] synonym: "dichogamy" EXACT [] is_a: ECOCORE:00000061 ! sexual system property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000121 name: photoorganoautotroph def: "A photoautotroph which is capable of using a biogenic organic compound as an electron donor." [] is_a: ECOCORE:00000130 ! photoautotroph property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000122 name: photolithoautotroph def: "A photoautotroph which is capable of using an abiogenic organic compound as an electron donor." [] is_a: ECOCORE:00000130 ! photoautotroph property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000123 name: chemoorganoautotroph def: "A chemoautotroph which is capable of using a biogenic organic compound as an electron donor." [] is_a: ECOCORE:00000129 ! chemoautotroph property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000124 name: chemolithoautotroph def: "A chemoautotroph which is capable of using an abiogenic organic compound as an electron donor." [] is_a: ECOCORE:00000129 ! chemoautotroph property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000125 name: photoorganoheterotroph def: "A photoheterotroph which is capable of using a biogenic organic compound as an electron donor." [] is_a: ECOCORE:00000131 ! photoheterotroph property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000126 name: photolithoheterotroph def: "A photoheterotroph which is capable of using an abiogenic organic compound as an electron donor." [] is_a: ECOCORE:00000131 ! photoheterotroph property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000127 name: chemoorganoheterotroph def: "A chemoheterotroph which is capable of using a biogenic organic compound as an electron donor." [] is_a: ECOCORE:00000132 ! chemoheterotroph property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000128 name: chemolithoheterotroph def: "A chemoheterotroph which is capable of using an abiogenic organic compound as an electron donor." [] is_a: ECOCORE:00000132 ! chemoheterotroph property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000129 name: chemoautotroph def: "An autotroph which is capable of obtaining energy from the bonds in a chemical compound." [] is_a: ECOCORE:00000023 ! autotroph property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000130 name: photoautotroph def: "An autotroph which is capable of transforming light into chemical energy." [] is_a: ECOCORE:00000023 ! autotroph property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000131 name: photoheterotroph def: "A heterotroph which is capable of transforming light into chemical energy." [] is_a: ECOCORE:00000010 ! heterotroph property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000132 name: chemoheterotroph def: "A heterotroph which is capable of obtaining energy from the bonds in a chemical compound." [] is_a: ECOCORE:00000010 ! heterotroph property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000134 name: extremophile def: "An organism that thrives in physically or geochemically extreme conditions that are detrimental to most life on Earth" [] is_a: OBI:0100026 ! organism property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string property_value: IAO:0000119 https://en.wikipedia.org/wiki/Extremophile xsd:string [Term] id: ECOCORE:00000135 name: epigeic def: "An organismal quality inhering in a bearer by virtue of the bearer's ability to live on the surface of the soil and in leaf litter" [] synonym: "surface dwelling" RELATED [] is_a: PATO:0001995 ! organismal quality property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string property_value: IAO:0000117 https://orcid.org/0000-0002-1434-9495 xsd:string [Term] id: ECOCORE:00000136 name: frugivore def: "An herbivore that primarily consumes fruits or fruit-like vegetables" [] synonym: "carpophage" EXACT [] synonym: "fructivore" EXACT [] synonym: "fruit eater" EXACT [] xref: https://www.wikidata.org/entity/Q1470764 is_a: CARO:0001010 ! organism or virus or viroid is_a: ECOCORE:00000019 ! herbivore relationship: RO:0002470 PO:0009001 ! eats fruit property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000137 name: palynivore def: "An herbivore that primarily consumes pollen" [] synonym: "pollen eater" EXACT [] xref: https://www.wikidata.org/entity/Q3805698 is_a: ECOCORE:00000019 ! herbivore property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000139 name: grazing def: "A heterotrophic process during which a living entity acquires food and energy by eating food off of a surface while slowly moving through the environment." [] is_a: ECOCORE:00000011 ! heterotrophy property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000140 name: nectarivore def: "An herbivore that primarily consumes nectar" [] synonym: "nectar eater" EXACT [] synonym: "nectivore" EXACT [] xref: https://www.wikidata.org/entry/Q120880 is_a: ECOCORE:00000019 ! herbivore property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000141 name: endogeic def: "An organismal quality inhering in a bearer by virtue of the bearer's ability to live in the top 20 cm of soil and make temporary, horizontal burrows." [] is_a: PATO:0001995 ! organismal quality property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string property_value: IAO:0000117 https://orcid.org/0000-0002-1434-9495 xsd:string [Term] id: ECOCORE:00000142 name: anecic def: "An organismal quality inhering in a bearer by virtue of the bearer's ability to burrow more than 20 cm deep into the soil and make permanent, vertical burrows." [] is_a: PATO:0001995 ! organismal quality property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string property_value: IAO:0000117 https://orcid.org/0000-0002-1434-9495 xsd:string [Term] id: ECOCORE:00000143 name: granivore def: "An herbivore that primarily consumes seeds" [] synonym: "seed eater" EXACT [] xref: https://www.wikidata.org/entity/Q1974986 is_a: CARO:0001010 ! organism or virus or viroid is_a: ECOCORE:00000019 ! herbivore relationship: RO:0002470 PO:0009010 ! eats seed property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000144 name: xylophage def: "An herbivore that primarily consumes wood" [] xref: https://www.wikidata.org/entity/Q2072826 is_a: CARO:0001010 ! organism or virus or viroid is_a: ECOCORE:00000019 ! herbivore relationship: RO:0002470 ENVO:00002040 ! eats wood property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000145 name: gumnivore def: "An herbivore that primarily consumes plant exudates - gums, saps, and resins" [] synonym: "gumivore" EXACT [] synonym: "gummivore" EXACT [] xref: https://www.wikidata.org/entity/Q17020010 is_a: ECOCORE:00000019 ! herbivore property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string property_value: IAO:0000119 "J.G. Fleagle 1988 Primate Adaptations and Evolution. Academic Press. NY" xsd:string [Term] id: ECOCORE:00000146 name: parasite def: "A symbiotroph that reduces the fitness, survival, or growth of its symbiont, often called a host" [] xref: https://www.wikidata.org/entity/Q10253316 is_a: ECOCORE:00000045 ! symbiotroph relationship: capable_of ECOCORE:00000147 ! trophic parasitism property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000147 name: trophic parasitism def: "A symbiotrophic process during which a living entity acquires food and energy from another living entity via a close association. The entity providing the food and energy is harmed by this process." [] is_a: ECOCORE:00000047 ! parasitism is_a: ECOCORE:00000060 ! symbiotrophy property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000148 name: prey def: "An organism that is consumed in whole or in part by a predator" [] is_a: OBI:0100026 ! organism property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000149 name: preferred prey def: "Prey that is successfully captured and consumed at a higher frequency than other types of prey. The predator may be specially adapted for capturing or consuming its preferred prey or have special nutritional requirements that are only met by the preferred prey." [] is_a: ECOCORE:00000148 ! prey property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000150 name: alternate prey def: "Prey that is consumed only if the preferred prey are unavailable." [] synonym: "alternative prey" EXACT [] is_a: ECOCORE:00000148 ! prey property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000151 name: internal parasite def: "A parasite that lives entirely within the body of its host" [] synonym: "endoparasite" EXACT [] xref: https://www.wikidata.org/entity/Q9300235 is_a: ECOCORE:00000146 ! parasite [Term] id: ECOCORE:00000152 name: external parasite def: "A parasite that lives on the exterior surface of its host" [] synonym: "ectoparasite" EXACT [] xref: https://www.wikidata.org/entity/Q7880449 is_a: ECOCORE:00000146 ! parasite property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000153 name: mesoparasite def: "A parasite that enters the body of the host, but remains partially outside" [] is_a: ECOCORE:00000146 ! parasite property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000154 name: ophiophagy def: "A predation process during which a living entity acquires food and energy by consuming snakes." [] synonym: "snake eating" EXACT [] xref: https://www.wikidata.org/entity/Q2746753 is_a: ECOCORE:00000102 ! predation property_value: IAO:0000117 https://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000155 name: durophagy def: "A heterotrophic process during which a living entity acquires food and energy from consuming hard organisms or hard parts of organisms. This can include plants, such as bamboo, animals with hard shells, such as corals, or the hard parts of organisms, such as bone. Durophagy requires special adaptions, such as blunt, strong teeth and a heavy jaw." [] xref: https://www.wikidata.org/entity/Q5316712 is_a: ECOCORE:00000011 ! heterotrophy property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string property_value: IAO:0000119 https://en.wikipedia.org/wiki/Durophagy xsd:string [Term] id: ECOCORE:00000156 name: piscivore def: "A predator that primarily eats fish" [] synonym: "fish eater" EXACT [] xref: https://www.wikidata.org/entity/Q1420208 is_a: ECOCORE:00000089 ! predator property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000157 name: filter feeder def: "A suspension feeder that acquires nutrition by consuming particles using a filtering apparatus." [] is_a: ECOCORE:00000051 ! suspension feeder [Term] id: ECOCORE:00000158 name: planktivore def: "A suspension feeder that acquires nutrition by consuming planktonic organisms." [] is_a: CARO:0001010 ! organism or virus or viroid is_a: ECOCORE:00000051 ! suspension feeder relationship: RO:0002470 ENVO:01000063 ! eats planktonic material [Term] id: ECOCORE:00000159 name: osmotroph def: "A heterotroph that obtains dissolved organic compounds by osmosis for nutrition. An osmotroph is not directly involved in breaking down organic material to create the organic compounds it uses." [] is_a: ECOCORE:00000010 ! heterotroph property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000160 name: chemosymbiosis def: "A symbiotrophic process in which a bacterium provides chemically-derived energy and nutrients, often via the oxidation of hydrogen sulfide, to a higher organism." [] is_a: ECOCORE:00000060 ! symbiotrophy property_value: IAO:0000117 https://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000161 name: photosymbiosis def: "A symbiotrophic process in which a photosynthetic organism provides energy and nutrients to a heterotrophic organism." [] is_a: ECOCORE:00000060 ! symbiotrophy property_value: IAO:0000117 https://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000162 name: organotrophy def: "A trophic process during which a living entity acquires reducing equivalents from organic chemicals for use in biosynthesis or energy conservation via aerobic or anaerobic respiration." [] is_a: ECOCORE:00000008 ! trophic process [Term] id: ECOCORE:00000163 name: chemotrophy def: "A trophic process during which a living entity generates food from abiotic sources or through consumption of living or dead material, and captures energy from preformed molecules." [] is_a: ECOCORE:00000008 ! trophic process [Term] id: ECOCORE:00000164 name: sanguivore def: "A carnivore that consumes blood, during a brief, temporary interaction." [] synonym: "blood eater" EXACT [] synonym: "hematophage" EXACT [] is_a: ECOCORE:00000088 ! carnivore intersection_of: capable_of ECOCORE:00000165 ! hematophagy intersection_of: RO:0002470 UBERON:0000178 ! eats blood relationship: capable_of ECOCORE:00000165 ! hematophagy relationship: RO:0002470 UBERON:0000178 ! eats blood property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000165 name: hematophagy def: "A carnivorous process during which a living entity acquires food and energy from consuming blood." [] is_a: ECOCORE:00000021 ! carnivory relationship: has_input UBERON:0000178 ! blood property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000166 name: viral predation def: "A reproductive process wherein a virus uses another cell for reproduction. This process causes the mortality of the host cell via lysis." [] is_a: GO:0022414 ! reproductive process property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000167 name: leaf miner def: "a folivore that lives in and eats the leaf tissue of plants" [] is_a: ECOCORE:00000084 ! folivore relationship: RO:0002634 PO:0025034 ! endoparasite of leaf property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000168 name: herbivorous grazer def: "an herbivore that primarily consumes grasses, leaves, and other soft plant material" [] is_a: ECOCORE:00000019 ! herbivore property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string property_value: IAO:0000117 https://orcid.org/0000-0002-9943-2342 xsd:string [Term] id: ECOCORE:00000169 name: herbivorous browser def: "An herbivore that primarily consumes twigs, leaves, and bark of trees and shrubs." [] is_a: ECOCORE:00000019 ! herbivore property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000170 name: microcarnivore def: "a carnivore that primarily eats organisms less than 1 cm in their longest dimension" [] is_a: ECOCORE:00000088 ! carnivore property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string property_value: IAO:0000117 https://orcid.org/0000-0002-9943-2342 xsd:string [Term] id: ECOCORE:00000171 name: sulfur reducer def: "an organism that uses inorganic sulfur compounds as a terminal electron acceptor during cellular respiration" [] synonym: "sulfur reducing organism" EXACT [] synonym: "sulphur reducer" EXACT [] synonym: "sulphur reducing organism" EXACT [] is_a: OBI:0100026 ! organism property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000172 name: anaerobe def: "an organism that does not require oxygen for growth" [] synonym: "anaerobic organism" EXACT [] is_a: OBI:0100026 ! organism property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000173 name: aerobe def: "an organism that can survive and grow in an oxygenated environment" [] synonym: "aerobic organism" EXACT [] is_a: OBI:0100026 ! organism property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000174 name: prototroph def: "an organism capable of producing all amino acids required for its growth" [] synonym: "prototrophic organism" EXACT [] is_a: OBI:0100026 ! organism property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000175 name: auxotroph def: "an organism that is unable to synthesize a particular organic compound required for its growth" [] synonym: "auxotrophic organism" EXACT [] is_a: OBI:0100026 ! organism property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000176 name: coprophage def: "a decomposer which obtains nutrition by consuming feces" [] is_a: ECOCORE:00000054 ! decomposer property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000177 name: facultative anaerobe def: "an anaerobe that makes ATP by aerobic respiration if oxygen is present, but is capable of switching to fermentation if oxygen is absent." [] synonym: "facultative anaerobic organism" EXACT [] is_a: ECOCORE:00000172 ! anaerobe property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000178 name: obligate anaerobe def: "an anaerobe that cannot grow in the presence of oxygen" [] is_a: ECOCORE:00000172 ! anaerobe property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000179 name: obligate aerobe def: "an aerobe that requires oxygen to grow" [] is_a: ECOCORE:00000173 ! aerobe property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000180 name: microaerophile def: "an aerobe that can grow at oxygen levels lower than what is present in the atmosphere" [] synonym: "microaerophilic organism" EXACT [] is_a: ECOCORE:00000173 ! aerobe property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ECOCORE:00000181 name: aerotolerant anaerobe def: "an anaerobe that can tolerate low levels of oxygen" [] is_a: ECOCORE:00000172 ! anaerobe [Term] id: ECOCORE:00000182 name: deposit feeding def: "A heterotrophic process during which a living entity acquires food and energy by consuming particles of organic matter that have settled to the bottom of a body of water" [] is_a: ECOCORE:00000011 ! heterotrophy relationship: dc-creator http://orcid.org/0000-0002-2908-3327 property_value: http://purl.org/dc/elements/1.1/date 2021-10-26T20:14:31Z xsd:dateTime [Term] id: ECOCORE:3000001 name: species range def: "An environmental zone that encompasses the geographical area in which most members of a species as collection of organisms can be found." [] {http://purl.obolibrary.org/obo/IAO_0000119="Range"} comment: Not all member of the species are necessarily found within its range, because there may be individuals in zoos or individuals that have strayed beyond the range but which will not be able to form a sustainable population in the new area. The latter individuals are often referred to as vagrants. is_a: ENVO:01000408 ! environmental zone property_value: editor_note "I feel that there should be some relationship to \"species as collection of organisms\" but I don't know which one. Determined by seems a little too strong, but might work." xsd:string property_value: IAO:0000117 https://orcid.org/0000-0001-8815-0078 [Term] id: ENVO:00000191 name: solid astronomical body part def: "A part of an astronomical body which is primarily composed of a continuous volume of solid material, shaped by one or more environmental processes." [https://en.wikipedia.org/wiki/Landform] synonym: "geological feature" RELATED [ADL:FTT] synonym: "physiographic feature" RELATED [] xref: EcoLexicon:landform xref: EcoLexicon:landforms xref: FTT:754 xref: FTT:96 xref: SWEETRealm:Landform xref: TGN:21400 xref: TGN:21401 is_a: ENVO:01000813 ! astronomical body part intersection_of: ENVO:01000813 ! astronomical body part intersection_of: composed_primarily_of ENVO:01000814 ! solid environmental material relationship: composed_primarily_of ENVO:01000814 ! solid environmental material [Term] id: ENVO:00000428 name: biome alt_id: LTER:809 {xref="https://vocab.lternet.edu/vocab/vocab/index.php?tema=809&/biomes"} def: "A biome is an ecosystem to which resident ecological communities have evolved adaptations." [DOI:10.1186/2041-1480-4-43, https://en.wikipedia.org/wiki/Biome] comment: There has been some concern raised (see Issue #143) about the usefulness of the assertion that organisms have evolved within a given biome. They may have evolved adaptations elsewhere and demonstrating one or the other is often not feasible. Consider relabelling to "environmental system determined by an ecological community" or similar. synonym: "EcosytemType" RELATED [NASA:earthrealm] synonym: "major habitat type" EXACT [WWF:Biome] xref: EcoLexicon:biome is_a: ENVO:01001110 ! ecosystem disjoint_from: ENVO:01000276 ! ecoregion disjoint_from: ENVO:01000280 ! ecozone relationship: has_component ENVO:01000739 {minCardinality="2"} ! habitat relationship: has_part ENVO:01000739 ! habitat relationship: part_of ENVO:01000817 ! biosphere relationship: RO:0002507 PCO:0000002 ! determined by ecological community [Term] id: ENVO:00002040 name: wood namespace: ENVO xref: EcoLexicon:wood xref: https://en.wikipedia.org/wiki/Wood xref: LTER:637 xref: SWEETRealm:Wood is_a: ENVO:01000155 ! organic material is_a: ENVO:01000814 ! solid environmental material [Term] id: ENVO:00003074 name: manufactured product def: "A material entity that has been processed by humans or their technology in any way, including intermediate products as well as final products." [] {comment="https://en.wikipedia.org/wiki/Manufactured_product"} synonym: "manufactured good" EXACT [] is_a: BFO:0000040 ! material entity intersection_of: BFO:0000040 ! material entity intersection_of: output_of ENVO:01000993 ! manufacturing process relationship: output_of ENVO:01000993 ! manufacturing process [Term] id: ENVO:00010483 name: environmental material def: "A portion of environmental material is a fiat object part which forms the medium or part of the medium of an environmental system." [DOI:10.1186/2041-1480-4-43, MA:ma, ORCID:0000-0002-4366-3088, URL:http\://ontology.buffalo.edu/smith/articles/niches.html] comment: Everything under this parent must be a mass noun. All subclasses are to be understood as being composed primarily of the named entity, rather than restricted to that entity. For example, "ENVO:water" is to be understood as "environmental material composed primarly of some CHEBI:water". This class is currently being aligned to the Basic Formal Ontology. Following this alignment, its definition and the definitions of its subclasses will be revised. synonym: "portion of environmental material" EXACT [] is_a: BFO:0000024 ! fiat object part [Term] id: ENVO:0010001 name: anthropogenic environmental material namespace: ENVO def: "Anthropogenic material in or on which organisms may live." [MA:ma] is_a: ENVO:00010483 ! environmental material [Term] id: ENVO:01000063 name: planktonic material def: "A portion of planktonic material is a portion of environmental material primarily composed of plankton." [] subset: envoPolar synonym: "algae" RELATED [] is_a: ENVO:01000155 ! organic material property_value: editor_note "See Issue #251. Awaiting class creation in PCO to attempt logical definitions." xsd:string [Term] id: ENVO:01000155 name: organic material def: "Environmental material derived from living organisms and composed primarily of one or more biomacromolecules." [ISBN:978-0-618-45504-1, ORCID:0000-0002-4366-3088] synonym: "biomass" EXACT [] xref: EcoLexicon:organic_material is_a: ENVO:00010483 ! environmental material intersection_of: ENVO:00010483 ! environmental material intersection_of: composed_primarily_of CHEBI:33694 ! biomacromolecule relationship: composed_primarily_of CHEBI:33694 ! biomacromolecule created_by: ORCID:0000-0002-4366-3088 creation_date: 2010-03-20T08:40:04Z [Term] id: ENVO:01000254 name: environmental system def: "A system which has the disposition to environ one or more material entities." [DOI:10.1186/2041-1480-4-43] comment: In ENVO's alignment with the Basic Formal Ontology, this class is being considered as a subclass of a proposed BFO class "system". The relation "environed_by" is also under development. Roughly, a system which includes a material entity (at least partially) within its site and causally influences that entity may be considered to environ it. Following the completion of this alignment, this class' definition and the definitions of its subclasses will be revised. synonym: "environment" EXACT [] xref: EcoLexicon:environment is_a: RO:0002577 ! system creation_date: 2013-09-23T16:04:08Z [Term] id: ENVO:01000276 name: ecoregion def: "A large unit of land or water containing a geographically distinct assemblage of species, natural communities, and environmental conditions." [DOI:10.1641/0006-3568(2001)051[0933\:TEOTWA\]2.0.CO;2, URL:http\://worldwildlife.org/biomes] comment: Unlike biomes, ecoregions are geographically defined entities. ENVO's sister project, GAZ, contains terms for instances of ecoregions (e.g. Beringia lowland tundra). Requests for new terms should be directed to GAZ. ENVO will only contain this top-level class. The class' definition is preliminary and will be aligned to BFO. subset: envoPolar is_a: ENVO:01001110 ! ecosystem relationship: part_of ENVO:01000280 ! ecozone created_by: ORCID:0000-0002-4366-3088 creation_date: 2013-10-12T17:21:09Z [Term] id: ENVO:01000280 name: ecozone def: "Ecozones delineate large areas of a planetary surface within which organisms have been evolving in relative isolation over long periods of time, separated from one another by geographic features, such as oceans, broad deserts, or high mountain ranges, that constitute barriers to migration." [https://en.wikipedia.org/wiki/ecozone] comment: ENVO contains this top-level class, but all instances will be in GAZ. The definition is preliminary and will be aligned to BFO.\nhttps://en.wikipedia.org/wiki/ Ecozones correspond to the floristic kingdoms of botany or zoogeographic regions of zoology. Ecozones are characterized by the evolutionary history of the organisms they contain. They are distinct from biomes, also known as major habitat types, which are divisions of the Earth's surface based on life form, or the adaptation of plants and animals to climatic, soil, and other conditions. Biomes are characterized by similar climax vegetation. Each ecozone may include a number of different biomes. A tropical moist broadleaf forest in Central America, for example, may be similar to one in New Guinea in its vegetation type and structure, climate, soils, etc., but these forests are inhabited by plants and animals with very different evolutionary histories. subset: envoPolar is_a: ENVO:01001110 ! ecosystem relationship: part_of ENVO:01000817 ! biosphere created_by: ORCID:0000-0002-4366-3088 creation_date: 2013-10-13T18:32:46Z [Term] id: ENVO:01000313 name: anthropogenic environment def: "An anthropogenic environment is an environmental system which is the product of human activity." [] comment: Unsatisfactory definition here. Must consider the threshold that makes an environmental system anthropogenic. is_a: ENVO:01000254 ! environmental system [Term] id: ENVO:01000349 name: root matter def: "An organic material primarily composed of a portion of plant root." [] comment: Requested in Issue 115 as part of the annotation of metagenomic submissions present in the European Nucleotide Archive. is_a: CARO:0000000 ! anatomical entity is_a: ENVO:01000155 ! organic material relationship: part_of PO:0009005 ! root [Term] id: ENVO:01000408 name: environmental zone def: "A site which has its extent determined by the presence or influence of one or more components of an environmental system or the processes occurring therein." [] comment: Formerly, this class was an experimental class and a subclass of "environmental feature". It is now aligned to BFO. The class was not obsoleted as the core semantics maintained their stability through its transition. subset: envoPolar synonym: "environmental area" RELATED [] is_a: BFO:0000029 ! site relationship: part_of ENVO:01000254 ! environmental system [Term] id: ENVO:01000637 name: outer space def: "Outer space is a hard vacuum containing a low density of particles, predominantly a plasma of hydrogen and helium as well as electromagnetic radiation, magnetic fields, neutrinos, dust and cosmic rays that exists between celestial bodies." [https://en.wikipedia.org/wiki/Outer_space] subset: envoAstro synonym: "space" BROAD [] is_a: ENVO:00010483 ! environmental material [Term] id: ENVO:01000739 name: habitat def: "An environmental system which can sustain and allow the growth of an ecological population." [EnvO:EnvO] comment: A habitat's specificity to an ecological population differentiates it from other environment classes. xref: EcoLexicon:habitat xref: https://en.wikipedia.org/wiki/Habitat xref: LTER:238 xref: SWEETRealm:Habitat is_a: ENVO:01001110 ! ecosystem relationship: part_of ENVO:01000817 ! biosphere relationship: RO:0002507 PCO:0000001 ! determined by population of organisms [Term] id: ENVO:01000797 name: gaseous environmental material def: "A material entity which is composed of one or more chemical entities and has neither independent shape nor volume but tends to expand indefinitely." [http://www.merriam-webster.com/dictionary/gas] synonym: "gas" NARROW [] is_a: ENVO:02000140 ! fluid environmental material intersection_of: ENVO:00010483 ! environmental material intersection_of: has_quality PATO:0001547 ! quality of a gas relationship: has_quality PATO:0001547 ! quality of a gas property_value: editor_note "This class is to be populated by inference." xsd:string [Term] id: ENVO:01000798 name: plasma def: "A material entity which is composed of a volume of unbound positive and negative particles in roughly equal numbers, conducts electricity, and possesses internal magnetic fields." [http://www.merriam-webster.com/dictionary/plasma, https://en.wikipedia.org/wiki/Plasma_%28physics%29] is_a: ENVO:02000140 ! fluid environmental material property_value: editor_note "An NTR for `quality of a plasma` has been posted on the PATO tracker: https://github.com/pato-ontology/pato/issues/88" xsd:string [Term] id: ENVO:01000799 name: astronomical body def: "An object which is naturally occuring, bound together by gravitational or electromagnetic forces, and surrounded by space." [https://en.wikipedia.org/wiki/Astronomical_object] comment: Astronomical bodies are usually cohesive, thus the use of the term 'object' sensu BFO 'object'. subset: envoAstro synonym: "celestial body" RELATED [] is_a: ENVO:01000804 ! astronomical object [Term] id: ENVO:01000804 name: astronomical object def: "An object which is composed of one or more gravitationally bound structures that are associated with a position in space." [https://en.wikipedia.org/wiki/Astronomical_object] comment: If there is only one astronomical body involved, this class is equivalent to ENVO:01000799. This may be problematic with reasoning, but it seems to be true to the rather fuzzy definitions found thus far. subset: envoAstro synonym: "celestial object" RELATED [] is_a: BFO:0000030 ! object relationship: has_part ENVO:01000799 ! astronomical body relationship: has_quality ENVO:01001164 ! geodiversity relationship: surrounded_by ENVO:01000637 ! outer space [Term] id: ENVO:01000813 name: astronomical body part def: "A material part of an astronomical body." [] subset: envoAstro subset: envoPolar is_a: BFO:0000024 ! fiat object part relationship: part_of ENVO:01000799 ! astronomical body [Term] id: ENVO:01000814 name: solid environmental material def: "An environmental material which is in a solid state." [] comment: This is a defined class: its subclasses will not be asserted, but filled by inference. is_a: ENVO:00010483 ! environmental material intersection_of: ENVO:00010483 ! environmental material intersection_of: has_quality PATO:0001546 ! quality of a solid relationship: has_quality PATO:0001546 ! quality of a solid [Term] id: ENVO:01000815 name: liquid environmental material def: "An environmental material which is in a liquid state." [] comment: This is a defined class: most of its subclasses will not be asserted, but filled by inference. subset: envoPolar is_a: ENVO:02000140 ! fluid environmental material intersection_of: ENVO:00010483 ! environmental material intersection_of: has_quality PATO:0001548 ! quality of a liquid relationship: has_quality PATO:0001548 ! quality of a liquid [Term] id: ENVO:01000817 name: biosphere def: "A biosphere is a part of an astronomical body which includes, as parts, all the living entities within the gravitational sphere of influence of that body, as well as the non-living and dead entities with which they interact." [http://www.biology-online.org/dictionary/Biosphere, https://en.wikipedia.org/wiki/Biosphere] comment: The gravitational sphere of influence referenced in this class' definition is the Hill sphere: a region in which an object dominates the attraction of satellites despite gravitational perturbations. subset: envoAstro subset: envoPolar is_a: ENVO:01001479 ! fluid astronomical body part is_a: ENVO:01001784 ! compound astronomical body part relationship: has_part PCO:0000000 ! collection of organisms property_value: editor_note "Whether this class should be grouped with classes such as \"hydrosphere\" and \"cryosphere\" requires some discussion." xsd:string [Term] id: ENVO:01000930 name: ecological corridor def: "An ecosystem which bridges two or more adjoining ecosystems and through which organisms may move or propagate." [http://www.eionet.europa.eu/gemet/concept/10510, https://www.eionet.europa.eu/gemet/concept/3756] comment: Ecological corridors may or may not provide habitats for the organisms which move through them. They serve to mitigate the effects of habitat fragmentation by allowing genetic exchange between populations that would otherwise be separated by, e.g., human activity. synonym: "animal corridor" RELATED [] synonym: "green corridor" RELATED [] synonym: "habitat corridor" RELATED [] synonym: "wildlife corridor" RELATED [] is_a: ENVO:01001110 ! ecosystem [Term] id: ENVO:01000947 name: ecotone def: "An envirommental system which bridges two or more biomes and which includes ecological communities which blend these biomes' phylogenetic and phenotypic compositions." [https://en.wikipedia.org/wiki/Ecotone, https://github.com/EnvironmentOntology/envo/issues/501, https://www.merriam-webster.com/dictionary/ecotone, ISBN:978-0-03-058414-5] comment: There are many subtypes of ecotone, some with sharp transitions and others with gradual, patchy transitions between communities. From Wikipedia:Ecotone - The word ecotone was coined from a combination of eco(logy) plus -tone, from the Greek tonos or tension – in other words, a place where ecologies are in tension. is_a: ENVO:01001110 ! ecosystem relationship: has_component ENVO:00000428 {minCardinality="2"} ! biome relationship: overlaps ENVO:00000428 ! biome [Term] id: ENVO:01000951 name: natural environment def: "An environmental system in which minimal to no anthropisation has occurred and non-human agents are the primary determinants of the system's dynamics and composition." [https://en.wikipedia.org/wiki/Anthropization, https://en.wikipedia.org/wiki/Natural_environment] comment: In most contexts, 'natural' is defined by the lack of intervention or influence by humans and their activities. On Earth, most environments fall on a scale between completely natural and anthropised. is_a: ENVO:01000254 ! environmental system property_value: IAO:0000118 "non-anthropised environment" xsd:string property_value: IAO:0000118 "non-anthropized environment" xsd:string [Term] id: ENVO:01000952 name: anthropisation def: "A process during which a natural environmental system is altered by human action." [https://en.wikipedia.org/wiki/Anthropization] comment: An area may be classified as anthropized even though it looks natural, such as grasslands that have been deforested by humans. It can be difficult to determine how much a site has been anthropized in the case of urbanization because one must be able to estimate the state of the landscape before significant human action. {xref="https://en.wikipedia.org/wiki/Anthropization"} synonym: "anthropization" EXACT [] is_a: ENVO:01001434 ! anthropogenic ecosystem conversion process intersection_of: ENVO:01001434 ! anthropogenic ecosystem conversion process intersection_of: has_input ENVO:01000951 ! natural environment intersection_of: has_output ENVO:01000313 ! anthropogenic environment relationship: has_input ENVO:01000951 ! natural environment relationship: has_output ENVO:01000313 ! anthropogenic environment [Term] id: ENVO:01000993 name: manufacturing process def: "A planned process during which raw or recycled materials are transformed into products for use or sale using labour and machines, tools, chemical and biological processing, or formulation." [https://en.wikipedia.org/wiki/Manufacturing] comment: The term may refer to a range of human activity, from handicraft to high tech, but is most commonly applied to industrial production, in which raw materials are transformed into finished goods on a large scale. {xref="https://en.wikipedia.org/wiki/Manufacturing"} is_a: OBI:0000011 ! planned process intersection_of: OBI:0000011 ! planned process intersection_of: has_output ENVO:00003074 ! manufactured product relationship: has_output ENVO:00003074 ! manufactured product relationship: process_has_causal_agent NCBITaxon:9606 ! Homo sapiens [Term] id: ENVO:01000997 name: environmental system determined by a quality def: "An environmental system which is determined by materials bearing roughly homogeneous qualities." [] comment: Organisational class. Not intended for annotation. is_a: ENVO:01000254 ! environmental system [Term] id: ENVO:01000998 name: environmental system determined by a material def: "An environmental system within which an environmental material strongly influences the system's composition and properties." [] comment: Organisational class. Not intended for annotation. Subclasses describe environments which are usually permeated by an environmental material. They may also describe environments which are sufficiently close to a material, that their dynamics are strongly influenced by it (e.g. a patch of forest ecosystem neighbouring a uranium dump). is_a: ENVO:01000254 ! environmental system intersection_of: ENVO:01000254 ! environmental system intersection_of: RO:0002507 ENVO:00010483 ! determined by environmental material relationship: RO:0002507 ENVO:00010483 ! determined by environmental material [Term] id: ENVO:01001000 name: environmental system determined by an organism def: "An environmental system which is determined by a living organism." [] subset: envoEmpo subset: envoOmics synonym: "host-associated environment" RELATED [] is_a: ENVO:01001110 ! ecosystem intersection_of: ENVO:01000254 ! environmental system intersection_of: RO:0002507 NCBITaxon:131567 ! determined by cellular organisms relationship: RO:0002507 NCBITaxon:131567 ! determined by cellular organisms [Term] id: ENVO:01001001 name: plant-associated environment def: "An environmental system determined by a green plant." [] subset: envoEmpo subset: envoOmics synonym: "plant environment" BROAD [] synonym: "Viridiplantae-associated environment" EXACT [] is_a: ENVO:01001000 ! environmental system determined by an organism intersection_of: ENVO:01000254 ! environmental system intersection_of: RO:0002507 NCBITaxon:33090 ! determined by Viridiplantae relationship: RO:0002507 NCBITaxon:33090 ! determined by Viridiplantae property_value: IAO:0000118 "Plant" xsd:string {xref="http://press.igsb.anl.gov/earthmicrobiome/protocols-and-standards/emp-ontology-empo/"} [Term] id: ENVO:01001002 name: animal-associated environment def: "An environmental system determined by an animal." [] subset: envoEmpo subset: envoMeo subset: envoOmics synonym: "animal environment" BROAD [] synonym: "Metazoan-associated environment" EXACT [] is_a: ENVO:01001000 ! environmental system determined by an organism intersection_of: ENVO:01000254 ! environmental system intersection_of: RO:0002507 NCBITaxon:33208 ! determined by Metazoa relationship: RO:0002507 NCBITaxon:33208 ! determined by Metazoa property_value: IAO:0000118 "Animal" xsd:string {xref="http://press.igsb.anl.gov/earthmicrobiome/protocols-and-standards/emp-ontology-empo/"} [Term] id: ENVO:01001033 name: digestive tract environment def: "An environmental system which has its properties and dynamics determined by a digestive tract." [] subset: envoEmpo subset: envoMeo subset: envoOmics is_a: CARO:0000000 ! anatomical entity is_a: ENVO:01000997 ! environmental system determined by a quality is_a: ENVO:01001110 ! ecosystem is_a: ENVO:2100000 ! anatomical entity environment intersection_of: ENVO:01000254 ! environmental system intersection_of: RO:0002507 UBERON:0001555 ! determined by digestive tract relationship: RO:0002507 UBERON:0001555 ! determined by digestive tract property_value: IAO:0000118 "Animal proximal gut" xsd:string {xref="http://press.igsb.anl.gov/earthmicrobiome/protocols-and-standards/emp-ontology-empo/", comment="This EMPO class includes examples of microbial environments determined by the \"gut intestine, gizzard, crop, lumen, [and] mucosa\"."} [Term] id: ENVO:01001041 name: fungi-associated environment def: "An environmental system determined by a fungal structure." [] subset: envoEmpo subset: envoMeo subset: envoOmics synonym: "fungus environment" BROAD [] synonym: "fungus-associated environment" EXACT [] is_a: ENVO:01001000 ! environmental system determined by an organism is_a: ENVO:01001058 ! environment associated with a fungal tissue intersection_of: ENVO:01000254 ! environmental system intersection_of: RO:0002507 NCBITaxon:4751 ! determined by Fungi relationship: RO:0002507 NCBITaxon:4751 ! determined by Fungi property_value: IAO:0000118 "Fungus" xsd:string {xref="http://press.igsb.anl.gov/earthmicrobiome/protocols-and-standards/emp-ontology-empo/"} [Term] id: ENVO:01001057 name: environment associated with a plant part or small plant def: "An environmental system determined by part of a living or dead plant, or a whole small plant." [] subset: envoEmpo subset: envoMeo subset: envoOmics is_a: ENVO:01001110 ! ecosystem property_value: IAO:0000118 "Plant corpus" xsd:string {xref="http://press.igsb.anl.gov/earthmicrobiome/protocols-and-standards/emp-ontology-empo/"} [Term] id: ENVO:01001058 name: environment associated with a fungal tissue def: "An environmental system determined by part of a living or dead fungus." [] subset: envoEmpo subset: envoMeo subset: envoOmics is_a: ENVO:01001110 ! ecosystem is_a: ENVO:2100000 ! anatomical entity environment intersection_of: ENVO:01001110 ! ecosystem intersection_of: RO:0002507 FAO:0000001 ! determined by fungal structure relationship: RO:0002507 FAO:0000001 ! determined by fungal structure property_value: IAO:0000118 "Fungus corpus" xsd:string {xref="http://press.igsb.anl.gov/earthmicrobiome/protocols-and-standards/emp-ontology-empo/"} [Term] id: ENVO:01001103 name: detritus def: "An organic material which is primarily composed of dead particulate matter." [https://en.wikipedia.org/wiki/Detritus] is_a: ENVO:01000155 ! organic material relationship: has_quality PATO:0001759 ! granular [Term] id: ENVO:01001110 name: ecosystem alt_id: LTER:173 {xref="https://vocab.lternet.edu/vocab/vocab/index.php?tema=173&/ecosystems"} def: "An environmental system which includes both living and non-living components." [https://en.wikipedia.org/wiki/Ecosystem] comment: This class will be primarily filled by inference, any environmental system which necessarily includes living parts should be autoclassified here. is_a: ENVO:01000254 ! environmental system [Term] id: ENVO:01001164 name: geodiversity def: "A quality which inheres in a astronomical body or astronomical body part by virtue of the variation in its material composition, participation in geological processes, and the variation in is land- and hydroforms." [https://en.wikipedia.org/wiki/Geodiversity] comment: Materials which are usually assessed when appraising geodiversity include minerals, rocks, sediments, fossils, soils and water. Landforms factored into geodiversity metrics typically include folds, faults, and other expressions of morphology or relations between units of earth material. Natural processes that are included in measures of geodiversity are those which either maintain or change materials or geoforms, including tectonics, sediment transport, and pedogenesis. Geodiversity does not usually factor in anthropogenic entities. {xref=""} is_a: PATO:0001241 ! physical object quality [Term] id: ENVO:01001189 name: algal material comment: An organic material which is primarily composed of living or dead algae, along with their exudates. {xref="https://en.wikipedia.org/wiki/Algae"} is_a: ENVO:01000155 ! organic material property_value: editor_note "This class will be axiomatised with \"alga\" once an approach to handle this term's ambiguous semantics has been agreed with PCO." xsd:string [Term] id: ENVO:01001434 name: anthropogenic ecosystem conversion process def: "A process during which an ecosystem - natural or anthropised - is changed by the actions of humans." [] is_a: ENVO:02500027 ! anthropogenic environmental process created_by: http://orcid.org/0000-0002-4366-3088 [Term] id: ENVO:01001477 name: liquid astronomical body part def: "A part of an astronomical body which is primarily composed of a continuous volume of liquid material, shaped by one or more environmental processes." [https://en.wikipedia.org/wiki/Landform] is_a: ENVO:01001479 ! fluid astronomical body part is_a: ENVO:01001784 ! compound astronomical body part intersection_of: ENVO:01001479 ! fluid astronomical body part intersection_of: composed_primarily_of ENVO:01000815 ! liquid environmental material relationship: composed_primarily_of ENVO:01000815 ! liquid environmental material created_by: http://orcid.org/0000-0002-4366-3088 [Term] id: ENVO:01001478 name: gaseous astronomical body part def: "A part of an astronomical body which is primarily composed of a continuous volume of gaseous material, shaped by one or more environmental processes." [https://en.wikipedia.org/wiki/Landform] is_a: ENVO:01001479 ! fluid astronomical body part is_a: ENVO:01001784 ! compound astronomical body part intersection_of: ENVO:01001479 ! fluid astronomical body part intersection_of: composed_primarily_of ENVO:01000797 ! gaseous environmental material relationship: composed_primarily_of ENVO:01000797 ! gaseous environmental material created_by: http://orcid.org/0000-0002-4366-3088 [Term] id: ENVO:01001479 name: fluid astronomical body part def: "A part of an astronomical body which is primarily composed of a continuous volume of liquid or gaseous material, shaped by one or more environmental processes." [https://en.wikipedia.org/wiki/Landform] is_a: ENVO:01000813 ! astronomical body part created_by: http://orcid.org/0000-0002-4366-3088 creation_date: 2018-10-04T13:59:22Z [Term] id: ENVO:01001686 name: mass of environmental material def: "An object which is composed primarily of an environmental material" [] comment: This class and its subclasses refer to objects that are discrete accumulations of environmental materials, generally primarily composed of one or a few main material types. is_a: BFO:0000030 ! object intersection_of: BFO:0000030 ! object intersection_of: composed_primarily_of ENVO:00010483 ! environmental material relationship: composed_primarily_of ENVO:00010483 ! environmental material relationship: dc-creator http://orcid.org/0000-0002-4366-3088 property_value: http://purl.org/dc/elements/1.1/date 2019-08-20T09:38:29Z xsd:dateTime [Term] id: ENVO:01001687 name: mass of solid material def: "An object which is composed primarily of a solid environmental material" [] comment: This class and its subclasses refer to objects that are discrete accumulations of environmental materials, generally primarily composed of one or a few main material types. is_a: ENVO:01001686 ! mass of environmental material intersection_of: ENVO:01001686 ! mass of environmental material intersection_of: composed_primarily_of ENVO:01000814 ! solid environmental material relationship: composed_primarily_of ENVO:01000814 ! solid environmental material relationship: dc-creator http://orcid.org/0000-0002-4366-3088 property_value: http://purl.org/dc/elements/1.1/date 2019-08-20T09:41:27Z xsd:dateTime [Term] id: ENVO:01001688 name: mass of fluid def: "An object which is composed primarily of a fluid." [] comment: This class and its subclasses refer to objects that are discrete accumulations of environmental materials, generally primarily composed of one or a few main material types. synonym: "fluid mass" EXACT [] is_a: ENVO:01001686 ! mass of environmental material relationship: dc-creator http://orcid.org/0000-0002-4366-3088 property_value: http://purl.org/dc/elements/1.1/date 2019-08-20T09:42:35Z xsd:dateTime [Term] id: ENVO:01001689 name: mass of gas def: "An object which is composed primarily of a gas." [] comment: This class and its subclasses refer to objects that are discrete accumulations of environmental materials, generally primarily composed of one or a few main material types. synonym: "gaseous mass" EXACT [] is_a: ENVO:01001688 ! mass of fluid intersection_of: ENVO:01001688 ! mass of fluid intersection_of: composed_primarily_of ENVO:01000797 ! gaseous environmental material relationship: composed_primarily_of ENVO:01000797 ! gaseous environmental material relationship: dc-creator http://orcid.org/0000-0002-4366-3088 property_value: http://purl.org/dc/elements/1.1/date 2019-08-20T09:44:01Z xsd:dateTime [Term] id: ENVO:01001690 name: mass of liquid def: "An object which is composed primarily of a liquid." [] comment: This class and its subclasses refer to objects that are discrete accumulations of environmental materials, generally primarily composed of one or a few main material types. synonym: "liquid mass" EXACT [] is_a: ENVO:01001688 ! mass of fluid intersection_of: ENVO:01001688 ! mass of fluid intersection_of: composed_primarily_of ENVO:01000815 ! liquid environmental material relationship: composed_primarily_of ENVO:01000815 ! liquid environmental material relationship: dc-creator http://orcid.org/0000-0002-4366-3088 property_value: http://purl.org/dc/elements/1.1/date 2019-08-20T09:45:03Z xsd:dateTime [Term] id: ENVO:01001691 name: mass of compounded environmental materials def: "An mass of environmental materials which has appreciable quantities of several individual materials, such that the removal of one would convert the mass into a different entity." [] is_a: ENVO:01001686 ! mass of environmental material intersection_of: ENVO:01001686 ! mass of environmental material intersection_of: composed_primarily_of ENVO:00010483 {minCardinality="2"} ! environmental material relationship: dc-creator http://orcid.org/0000-0002-4366-3088 property_value: http://purl.org/dc/elements/1.1/date 2019-08-20T09:47:10Z xsd:dateTime [Term] id: ENVO:01001784 name: compound astronomical body part def: "A part of an astronomical body which is primarily composed of a continuous medium bearing liquid, gaseous, and solid material in varying quantities." [https://en.wikipedia.org/wiki/Landform] is_a: ENVO:01000813 ! astronomical body part relationship: dc-creator http://orcid.org/0000-0002-4366-3088 property_value: http://purl.org/dc/elements/1.1/date 2019-10-17T08:36:00Z xsd:dateTime [Term] id: ENVO:01001795 name: ecosystem process def: "An environmental process either driven by or primarily impacting the parts or emergent properties of an ecosystem." [] is_a: ENVO:02500000 ! environmental system process intersection_of: ENVO:02500000 ! environmental system process intersection_of: process_has_causal_agent ENVO:01001110 ! ecosystem relationship: dc-creator http://orcid.org/0000-0002-4366-3088 relationship: process_has_causal_agent ENVO:01001110 ! ecosystem property_value: http://purl.org/dc/elements/1.1/date 2019-10-21T11:52:55Z xsd:dateTime [Term] id: ENVO:01001814 name: organic object def: "An object which is formed as a result of one or more biological processes and is composed primarily of organic material." [] is_a: ENVO:01001686 ! mass of environmental material intersection_of: BFO:0000030 ! object intersection_of: composed_primarily_of ENVO:01000155 ! organic material intersection_of: RO:0002354 GO:0008150 ! formed as result of biological_process relationship: composed_primarily_of ENVO:01000155 ! organic material relationship: dc-creator http://orcid.org/0000-0002-4366-3088 relationship: RO:0002354 GO:0008150 ! formed as result of biological_process property_value: http://purl.org/dc/elements/1.1/date 2019-10-29T15:02:58Z xsd:dateTime [Term] id: ENVO:02000140 name: fluid environmental material def: "A liquid or a gas." [https://github.com/EnvironmentOntology/envo/issues/940] synonym: "fluid" NARROW [] is_a: ENVO:00010483 ! environmental material union_of: ENVO:01000797 ! gaseous environmental material union_of: ENVO:01000798 ! plasma union_of: ENVO:01000815 ! liquid environmental material [Term] id: ENVO:02500000 name: environmental system process def: "A process in which includes the components of an environmental system as participants." [] comment: This is a convenience class for organisation and should not be used for annotation. is_a: BFO:0000015 ! process [Term] id: ENVO:02500009 name: biogeochemical cycling def: "A biogeochemical process during which one or more chemical compounds are sequentially converted into a series of related compounds in a regularly repeating, periodic fashion." [] subset: envoPolar is_a: ENVO:02500030 ! biogeochemical process [Term] id: ENVO:02500027 name: anthropogenic environmental process def: "An environmental process which is driven by the action of humans." [] is_a: ENVO:02500000 ! environmental system process intersection_of: ENVO:02500000 ! environmental system process intersection_of: process_has_causal_agent NCBITaxon:9606 ! Homo sapiens relationship: process_has_causal_agent NCBITaxon:9606 ! Homo sapiens [Term] id: ENVO:02500030 name: biogeochemical process def: "A process during which chemicals that are involved in natural ecosystem processes are transported or transformed, and which impact the activity of biological entities" [https://en.wikipedia.org/wiki/Biogeochemistry] subset: envoPolar is_a: ENVO:02500000 ! environmental system process relationship: has_part GO:0008150 ! biological_process relationship: has_participant CHEBI:24431 ! chemical entity relationship: has_participant ENVO:01000951 ! natural environment [Term] id: ENVO:08000002 name: mouth environment def: "An environment that is determined by a mouth." [GOC:TermGenie] subset: envoMeo is_a: CARO:0000000 ! anatomical entity is_a: ENVO:01000997 ! environmental system determined by a quality is_a: ENVO:01001110 ! ecosystem is_a: ENVO:2100000 {is_inferred="true"} ! anatomical entity environment intersection_of: ENVO:2100000 ! anatomical entity environment intersection_of: RO:0002507 UBERON:0000165 ! determined by mouth relationship: RO:0002507 UBERON:0000165 {is_inferred="true"} ! determined by mouth created_by: TermGenie creation_date: 2015-04-10T23:34:03Z [Term] id: ENVO:2100000 name: anatomical entity environment def: "An environment which is determined by an anatomical entity." [] is_a: ENVO:01000254 ! environmental system intersection_of: ENVO:01000254 ! environmental system intersection_of: RO:0002509 UBERON:0001062 ! determined by part of anatomical entity relationship: part_of ENVO:01001000 ! environmental system determined by an organism relationship: RO:0002509 UBERON:0001062 ! determined by part of anatomical entity [Term] id: ENVO:2100003 name: skin environment def: "An environment determined by an area or zone of skin tissue." [] subset: envoMeo is_a: CARO:0000000 ! anatomical entity is_a: ENVO:01000997 ! environmental system determined by a quality is_a: ENVO:01001110 ! ecosystem is_a: ENVO:2100004 ! integumental system environment intersection_of: ENVO:2100000 ! anatomical entity environment intersection_of: RO:0002507 UBERON:0000014 ! determined by zone of skin relationship: RO:0002507 UBERON:0000014 ! determined by zone of skin [Term] id: ENVO:2100004 name: integumental system environment is_a: ENVO:2100000 ! anatomical entity environment intersection_of: ENVO:2100000 ! anatomical entity environment intersection_of: RO:0002509 UBERON:0002416 ! determined by part of integumental system relationship: RO:0002509 UBERON:0002416 ! determined by part of integumental system [Term] id: ENVO:2100005 name: face skin environment subset: envoMeo is_a: ENVO:2100003 ! skin environment intersection_of: ENVO:2100000 ! anatomical entity environment intersection_of: RO:0002507 UBERON:1000021 ! determined by skin of face relationship: RO:0002507 UBERON:1000021 ! determined by skin of face [Term] id: FAO:0000001 name: fungal structure def: "An anatomical structure that forms all or part of a fungus." [] synonym: "fungal structure ontology" RELATED [] is_a: UBERON:0000061 ! anatomical structure [Term] id: GO:0000003 name: reproduction namespace: biological_process alt_id: GO:0019952 alt_id: GO:0050876 def: "The production of new individuals that contain some portion of genetic material inherited from one or more parent organisms." [GOC:go_curators, GOC:isa_complete, GOC:jl, ISBN:0198506732] subset: goslim_agr subset: goslim_chembl subset: goslim_flybase_ribbon subset: goslim_generic subset: goslim_pir subset: goslim_plant synonym: "reproductive physiological process" EXACT [] xref: Wikipedia:Reproduction is_a: GO:0008150 ! biological_process [Term] id: GO:0000011 name: vacuole inheritance namespace: biological_process def: "The distribution of vacuoles into daughter cells after mitosis or meiosis, mediated by interactions between vacuoles and the cytoskeleton." [GOC:mcc, PMID:10873824, PMID:14616069] is_a: GO:0007033 ! vacuole organization is_a: GO:0048308 ! organelle inheritance intersection_of: GO:0048308 ! organelle inheritance intersection_of: results_in_distribution_of GO:0005773 ! vacuole relationship: results_in_distribution_of GO:0005773 ! vacuole property_value: RO:0002161 NCBITaxon:4896 [Term] id: GO:0000035 name: acyl binding namespace: molecular_function def: "Binding to an acyl group, any group formally derived by removal of the hydroxyl group from the acid function of a carboxylic acid." [GOC:curators, ISBN:0198506732] synonym: "acyl-CoA or acyl binding" BROAD [] is_a: GO:0005488 ! binding intersection_of: GO:0005488 ! binding intersection_of: has_input CHEBI:22221 ! acyl group relationship: has_input CHEBI:22221 ! acyl group [Term] id: GO:0000070 name: mitotic sister chromatid segregation namespace: biological_process alt_id: GO:0016359 def: "The cell cycle process in which replicated homologous chromosomes are organized and then physically separated and apportioned to two sets during the mitotic cell cycle. Each replicated chromosome, composed of two sister chromatids, aligns at the cell equator, paired with its homologous partner. One homolog of each morphologic type goes into each of the resulting chromosome sets." [GOC:ai, GOC:jl] subset: goslim_pombe synonym: "mitotic chromosome segregation" EXACT [] synonym: "mitotic sister-chromatid adhesion release" NARROW [] is_a: GO:0000819 ! sister chromatid segregation is_a: GO:1903047 ! mitotic cell cycle process intersection_of: GO:0098813 ! nuclear chromosome segregation intersection_of: part_of GO:0140014 ! mitotic nuclear division relationship: part_of GO:0140014 ! mitotic nuclear division [Term] id: GO:0000139 name: Golgi membrane namespace: cellular_component def: "The lipid bilayer surrounding any of the compartments of the Golgi apparatus." [GOC:mah] is_a: GO:0098588 ! bounding membrane of organelle intersection_of: GO:0016020 ! membrane intersection_of: bounding_layer_of GO:0005794 ! Golgi apparatus relationship: bounding_layer_of GO:0005794 ! Golgi apparatus [Term] id: GO:0000226 name: microtubule cytoskeleton organization namespace: biological_process def: "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of cytoskeletal structures comprising microtubules and their associated proteins." [GOC:mah] subset: goslim_pombe synonym: "microtubule cytoskeleton organisation" EXACT [GOC:mah] synonym: "microtubule cytoskeleton organization and biogenesis" RELATED [GOC:mah] synonym: "microtubule dynamics" EXACT [GOC:dph, GOC:tb] is_a: GO:0007010 ! cytoskeleton organization is_a: GO:0007017 ! microtubule-based process intersection_of: GO:0016043 ! cellular component organization intersection_of: results_in_organization_of GO:0015630 ! microtubule cytoskeleton relationship: results_in_organization_of GO:0015630 ! microtubule cytoskeleton [Term] id: GO:0000228 name: nuclear chromosome namespace: cellular_component def: "A chromosome that encodes the nuclear genome and is found in the nucleus of a eukaryotic cell during the cell cycle phases when the nucleus is intact." [GOC:dph, GOC:mah] subset: goslim_chembl subset: goslim_generic synonym: "nuclear interphase chromosome" NARROW [] is_a: GO:0005694 ! chromosome intersection_of: GO:0005694 ! chromosome intersection_of: part_of GO:0005634 ! nucleus relationship: part_of GO:0031981 ! nuclear lumen [Term] id: GO:0000271 name: polysaccharide biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of a polysaccharide, a polymer of many (typically more than 10) monosaccharide residues linked glycosidically." [GOC:go_curators] synonym: "glycan biosynthesis" EXACT [] synonym: "glycan biosynthetic process" EXACT [] synonym: "polysaccharide anabolism" EXACT [] synonym: "polysaccharide biosynthesis" EXACT [] synonym: "polysaccharide formation" EXACT [] synonym: "polysaccharide synthesis" EXACT [] is_a: GO:0005976 ! polysaccharide metabolic process is_a: GO:0009059 ! macromolecule biosynthetic process is_a: GO:0016051 ! carbohydrate biosynthetic process intersection_of: GO:0009058 ! biosynthetic process intersection_of: has_primary_output CHEBI:18154 ! polysaccharide relationship: has_primary_output CHEBI:18154 ! polysaccharide [Term] id: GO:0000278 name: mitotic cell cycle namespace: biological_process alt_id: GO:0007067 def: "Progression through the phases of the mitotic cell cycle, the most common eukaryotic cell cycle, which canonically comprises four successive phases called G1, S, G2, and M and includes replication of the genome and the subsequent segregation of chromosomes into daughter cells. In some variant cell cycles nuclear replication or nuclear division may not be followed by cell division, or G1 and G2 phases may be absent." [GOC:mah, ISBN:0815316194, Reactome:69278] comment: Note that this term should not be confused with 'GO:0140014 ; mitotic nuclear division'. 'GO:0000278 ; mitotic cell cycle represents the entire mitotic cell cycle, while 'GO:0140014 ; mitotic nuclear division' specifically represents the actual nuclear division step of the mitotic cell cycle. subset: goslim_chembl subset: goslim_drosophila subset: goslim_generic subset: goslim_yeast synonym: "mitosis" RELATED [] xref: Wikipedia:Mitosis is_a: GO:0007049 ! cell cycle intersection_of: GO:0007049 ! cell cycle intersection_of: has_part GO:0140014 ! mitotic nuclear division relationship: has_part GO:0140014 ! mitotic nuclear division relationship: in_taxon NCBITaxon:2759 ! Eukaryota relationship: only_in_taxon NCBITaxon:2759 ! Eukaryota [Term] id: GO:0000280 name: nuclear division namespace: biological_process def: "The division of a cell nucleus into two nuclei, with DNA and other nuclear contents distributed between the daughter nuclei." [GOC:mah] subset: goslim_pir synonym: "karyokinesis" RELATED [] is_a: GO:0048285 ! organelle fission intersection_of: GO:0048285 ! organelle fission intersection_of: results_in_fission_of GO:0005634 ! nucleus relationship: results_in_fission_of GO:0005634 ! nucleus [Term] id: GO:0000313 name: organellar ribosome namespace: cellular_component def: "A ribosome contained within a subcellular membrane-bounded organelle." [GOC:mah, GOC:mcc] is_a: GO:0005840 ! ribosome intersection_of: GO:0005840 ! ribosome intersection_of: part_of GO:0043226 ! organelle relationship: part_of GO:0043226 ! organelle [Term] id: GO:0000740 name: nuclear membrane fusion namespace: biological_process def: "The joining of 2 or more lipid bilayer membranes that surround the nucleus." [GOC:elh] is_a: GO:0071763 ! nuclear membrane organization is_a: GO:0090174 ! organelle membrane fusion intersection_of: GO:0061025 ! membrane fusion intersection_of: results_in_fusion_of GO:0031965 ! nuclear membrane relationship: results_in_fusion_of GO:0031965 ! nuclear membrane [Term] id: GO:0000741 name: karyogamy namespace: biological_process alt_id: GO:0007335 def: "The creation of a single nucleus from multiple nuclei as a result of fusing the lipid bilayers that surround each nuclei." [GOC:elh] synonym: "nuclear fusion" EXACT [] synonym: "nuclear fusion during karyogamy" EXACT [] xref: Wikipedia:Karyogamy is_a: GO:0006997 ! nucleus organization is_a: GO:0048284 ! organelle fusion intersection_of: GO:0048284 ! organelle fusion intersection_of: results_in_fusion_of GO:0005634 ! nucleus relationship: part_of GO:0006997 ! nucleus organization relationship: results_in_fusion_of GO:0005634 ! nucleus [Term] id: GO:0000768 name: syncytium formation by plasma membrane fusion namespace: biological_process def: "The formation of a syncytium, a mass of cytoplasm containing several nuclei enclosed within a single plasma membrane, by the fusion of the plasma membranes of two or more individual cells." [GOC:mtg_muscle, GOC:tb] synonym: "cell fusion" BROAD [] is_a: GO:0006949 ! syncytium formation is_a: GO:0140253 ! cell-cell fusion intersection_of: GO:0006949 ! syncytium formation intersection_of: has_part GO:0045026 ! plasma membrane fusion [Term] id: GO:0000785 name: chromatin namespace: cellular_component alt_id: GO:0000789 alt_id: GO:0000790 alt_id: GO:0005717 def: "The ordered and organized complex of DNA, protein, and sometimes RNA, that forms the chromosome." [GOC:elh, PMID:20404130] comment: Chromosomes include parts that are not part of the chromatin. Examples include the kinetochore. synonym: "chromosome scaffold" RELATED [] synonym: "cytoplasmic chromatin" NARROW [] synonym: "nuclear chromatin" NARROW [] xref: NIF_Subcellular:sao1615953555 is_a: GO:0110165 ! cellular anatomical entity relationship: part_of GO:0005694 ! chromosome [Term] id: GO:0000792 name: heterochromatin namespace: cellular_component alt_id: GO:0005720 alt_id: GO:0035328 def: "A compact and highly condensed form of chromatin that is refractory to transcription." [PMID:32017156] synonym: "nuclear heterochromatin" NARROW [] synonym: "transcriptionally inactive chromatin" EXACT [] synonym: "transcriptionally silent chromatin" EXACT [] xref: NIF_Subcellular:sao581845896 xref: Wikipedia:Heterochromatin is_a: GO:0000785 ! chromatin property_value: IAO:0000233 https://github.com/geneontology/go-ontology/issues/22355 xsd:anyURI [Term] id: GO:0000819 name: sister chromatid segregation namespace: biological_process def: "The cell cycle process in which sister chromatids are organized and then physically separated and apportioned to two or more sets." [GOC:ai, GOC:elh] is_a: GO:0051276 ! chromosome organization is_a: GO:0098813 ! nuclear chromosome segregation [Term] id: GO:0000902 name: cell morphogenesis namespace: biological_process alt_id: GO:0007148 alt_id: GO:0045790 alt_id: GO:0045791 def: "The developmental process in which the size or shape of a cell is generated and organized." [GOC:clt, GOC:dph, GOC:go_curators, GOC:tb] subset: goslim_chembl subset: goslim_drosophila subset: goslim_yeast synonym: "cellular morphogenesis" EXACT [] is_a: GO:0009653 ! anatomical structure morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of CL:0000000 ! cell relationship: results_in_morphogenesis_of CL:0000000 ! cell [Term] id: GO:0000904 name: cell morphogenesis involved in differentiation namespace: biological_process def: "The change in form (cell shape and size) that occurs when relatively unspecialized cells, e.g. embryonic or regenerative cells, acquire specialized structural and/or functional features that characterize the cells, tissues, or organs of the mature organism or some other relatively stable phase of the organism's life history." [GOC:go_curators] is_a: GO:0000902 ! cell morphogenesis intersection_of: GO:0000902 ! cell morphogenesis intersection_of: part_of GO:0048468 ! cell development relationship: part_of GO:0048468 ! cell development [Term] id: GO:0001101 name: response to acid chemical namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus by the chemical structure of the anion portion of a dissociated acid (rather than the acid acting as a proton donor). The acid chemical may be in gaseous, liquid or solid form." [GOC:go_curators, GOC:rn] comment: This term should be used to describe a response to a specific acid as a chemical. E.g., if an organism were responding to glutamate, then the response would be glutamate-specific; the organism is actually responding to the chemical structure of the anion portion of the dissociated acid. Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. If annotating experiments where an acid is playing a role as a proton donor, please annotate to GO:0010447 'response to acidic pH' instead. subset: gocheck_do_not_manually_annotate synonym: "response to acid" BROAD [] synonym: "response to acid anion" RELATED [] synonym: "response to oxoanion" RELATED [] is_a: GO:0042221 ! response to chemical [Term] id: GO:0001501 name: skeletal system development namespace: biological_process def: "The process whose specific outcome is the progression of the skeleton over time, from its formation to the mature structure. The skeleton is the bony framework of the body in vertebrates (endoskeleton) or the hard outer envelope of insects (exoskeleton or dermoskeleton)." [GOC:dph, GOC:jid, GOC:tb] synonym: "skeletal development" EXACT [] is_a: GO:0048731 ! system development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0001434 ! skeletal system relationship: results_in_development_of UBERON:0001434 ! skeletal system [Term] id: GO:0001503 name: ossification namespace: biological_process def: "The formation of bone or of a bony substance, or the conversion of fibrous tissue or of cartilage into bone or a bony substance." [GOC:mtg_mpo, PMID:17572649] comment: Note that this term does not have a 'developmental process' parent because ossification isn't necessarily developmental, can also occur as part of bone remodeling. Instead use 'ossification involved in bone maturation ; GO:0043931'. synonym: "bone biosynthesis" EXACT [] synonym: "bone formation" EXACT [] synonym: "osteogenesis" EXACT [] xref: Wikipedia:Ossification is_a: GO:0032501 ! multicellular organismal process intersection_of: GO:0032501 ! multicellular organismal process intersection_of: results_in_formation_of UBERON:0001474 ! bone element relationship: results_in_formation_of UBERON:0001474 ! bone element [Term] id: GO:0001508 name: action potential namespace: biological_process def: "A process in which membrane potential cycles through a depolarizing spike, triggered in response to depolarization above some threshold, followed by repolarization. This cycle is driven by the flow of ions through various voltage gated channels with different thresholds and ion specificities." [GOC:dph, GOC:go_curators, GOC:tb, ISBN:978-0-07-139011-8] comment: Action potentials typically propagate across excitable membranes. This class covers both action potentials that propagate and those that fail to do so. is_a: GO:0042391 ! regulation of membrane potential property_value: RO:0002161 NCBITaxon:4895 [Term] id: GO:0001525 name: angiogenesis namespace: biological_process def: "Blood vessel formation when new vessels emerge from the proliferation of pre-existing blood vessels." [ISBN:0878932453] synonym: "blood vessel formation from pre-existing blood vessels" EXACT systematic_synonym [] xref: Wikipedia:Angiogenesis is_a: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: results_in_formation_of UBERON:0001981 ! blood vessel relationship: part_of GO:0048514 ! blood vessel morphogenesis relationship: results_in_formation_of UBERON:0001981 ! blood vessel [Term] id: GO:0001558 name: regulation of cell growth namespace: biological_process def: "Any process that modulates the frequency, rate, extent or direction of cell growth." [GOC:go_curators] is_a: GO:0040008 ! regulation of growth is_a: GO:0051128 ! regulation of cellular component organization intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0016049 ! cell growth relationship: regulates GO:0016049 ! cell growth [Term] id: GO:0001568 name: blood vessel development namespace: biological_process def: "The process whose specific outcome is the progression of a blood vessel over time, from its formation to the mature structure. The blood vessel is the vasculature carrying blood." [GOC:hjd, UBERON:0001981] is_a: GO:0048856 ! anatomical structure development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0001981 ! blood vessel relationship: part_of GO:0001944 ! vasculature development relationship: results_in_development_of UBERON:0001981 ! blood vessel [Term] id: GO:0001569 name: branching involved in blood vessel morphogenesis namespace: biological_process def: "The process of coordinated growth and sprouting of blood vessels giving rise to the organized vascular system." [GOC:dph] synonym: "patterning of blood vessels" BROAD [GOC:dph] is_a: GO:0048754 ! branching morphogenesis of an epithelial tube intersection_of: GO:0048754 ! branching morphogenesis of an epithelial tube intersection_of: part_of GO:0048514 ! blood vessel morphogenesis relationship: part_of GO:0001525 ! angiogenesis [Term] id: GO:0001570 name: vasculogenesis namespace: biological_process def: "The differentiation of endothelial cells from progenitor cells during blood vessel development, and the de novo formation of blood vessels and tubes." [PMID:8999798] synonym: "vascular morphogenesis" EXACT [] xref: Wikipedia:Vasculogenesis is_a: GO:0030154 ! cell differentiation intersection_of: GO:0030154 ! cell differentiation intersection_of: results_in_formation_of UBERON:0001981 ! blood vessel relationship: part_of GO:0048514 ! blood vessel morphogenesis relationship: results_in_formation_of UBERON:0001981 ! blood vessel [Term] id: GO:0001578 name: microtubule bundle formation namespace: biological_process def: "A process that results in a parallel arrangement of microtubules." [GOC:dph] synonym: "microtubule bundling" EXACT [] is_a: GO:0000226 ! microtubule cytoskeleton organization relationship: results_in_formation_of GO:0097427 ! microtubule bundle [Term] id: GO:0001654 name: eye development namespace: biological_process alt_id: GO:0042460 def: "The process whose specific outcome is the progression of the eye over time, from its formation to the mature structure. The eye is the organ of sight." [GOC:jid, GOC:jl] xref: Wikipedia:Eye_development is_a: GO:0007423 ! sensory organ development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0000970 ! eye relationship: part_of GO:0150063 ! visual system development relationship: results_in_development_of UBERON:0000970 ! eye [Term] id: GO:0001659 name: temperature homeostasis namespace: biological_process def: "A homeostatic process in which an organism modulates its internal body temperature." [GOC:jl] synonym: "thermoregulation" EXACT [GOC:dph, GOC:tb] xref: Wikipedia:Thermoregulation is_a: GO:0048871 ! multicellular organismal homeostasis [Term] id: GO:0001667 name: ameboidal-type cell migration namespace: biological_process def: "Cell migration that is accomplished by extension and retraction of a pseudopodium." [GOC:dph] comment: Note that this term refers to a mode of migration rather than to any particular cell type. synonym: "ameboid cell migration" EXACT [] synonym: "amoeboid cell migration" EXACT [] synonym: "amoeboidal cell migration" EXACT [] is_a: GO:0016477 ! cell migration [Term] id: GO:0001672 name: regulation of chromatin assembly or disassembly namespace: biological_process def: "Any process that modulates the frequency, rate or extent of chromatin assembly or disassembly." [GOC:go_curators] synonym: "regulation of chromatin assembly/disassembly" EXACT [] is_a: GO:1902275 ! regulation of chromatin organization intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0006333 ! chromatin assembly or disassembly relationship: regulates GO:0006333 ! chromatin assembly or disassembly [Term] id: GO:0001677 name: formation of translation initiation ternary complex namespace: biological_process def: "Formation of a complex between aminoacylated initiator methionine tRNA, GTP, and initiation factor 2 (either eIF2 in eukaryotes, or IF2 in prokaryotes). In prokaryotes, fMet-tRNA (initiator) is used rather than Met-tRNA (initiator)." [GOC:hjd] synonym: "translation initiation ternary complex assembly" EXACT [] is_a: GO:0022618 ! ribonucleoprotein complex assembly intersection_of: GO:0022607 ! cellular component assembly intersection_of: results_in_assembly_of GO:0044207 ! translation initiation ternary complex relationship: part_of GO:0006413 ! translational initiation relationship: results_in_assembly_of GO:0044207 ! translation initiation ternary complex [Term] id: GO:0001696 name: gastric acid secretion namespace: biological_process def: "The regulated release of gastric acid (hydrochloric acid) by parietal or oxyntic cells during digestion." [GOC:hjd] synonym: "hydrochloric acid secretion" NARROW [] is_a: GO:0022600 ! digestive system process is_a: GO:0046717 ! acid secretion [Term] id: GO:0001700 name: embryonic development via the syncytial blastoderm namespace: biological_process def: "The process whose specific outcome is the progression of the embryo over time, from zygote formation through syncytial blastoderm to the hatching of the first instar larva. An example of this process is found in Drosophila melanogaster." [GOC:go_curators, GOC:mtg_sensu] is_a: GO:0009792 ! embryo development ending in birth or egg hatching relationship: in_taxon NCBITaxon:50557 ! Insecta relationship: only_in_taxon NCBITaxon:50557 ! Insecta [Term] id: GO:0001704 name: formation of primary germ layer namespace: biological_process def: "The formation of the ectoderm, mesoderm and endoderm during gastrulation." [GOC:go_curators] is_a: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: results_in_formation_of UBERON:0000923 ! germ layer relationship: part_of GO:0007369 ! gastrulation relationship: results_in_formation_of UBERON:0000923 ! germ layer [Term] id: GO:0001705 name: ectoderm formation namespace: biological_process def: "The formation of ectoderm during gastrulation." [GOC:go_curators] is_a: GO:0001704 ! formation of primary germ layer intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: results_in_formation_of UBERON:0000924 ! ectoderm relationship: part_of GO:0007398 ! ectoderm development relationship: results_in_formation_of UBERON:0000924 ! ectoderm [Term] id: GO:0001706 name: endoderm formation namespace: biological_process def: "The formation of the endoderm during gastrulation." [GOC:go_curators] synonym: "endoblast formation" NARROW [GOC:dph, GOC:sdb_2009, GOC:tb] is_a: GO:0001704 ! formation of primary germ layer intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: results_in_formation_of UBERON:0000925 ! endoderm relationship: part_of GO:0007492 ! endoderm development relationship: results_in_formation_of UBERON:0000925 ! endoderm [Term] id: GO:0001707 name: mesoderm formation namespace: biological_process def: "The process that gives rise to the mesoderm. This process pertains to the initial formation of the structure from unspecified parts." [GOC:go_curators] is_a: GO:0001704 ! formation of primary germ layer intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: results_in_formation_of UBERON:0000926 ! mesoderm relationship: part_of GO:0048332 ! mesoderm morphogenesis relationship: results_in_formation_of UBERON:0000926 ! mesoderm [Term] id: GO:0001743 name: lens placode formation namespace: biological_process def: "The initial developmental process that will lead to the formation of an eye." [GOC:dph] synonym: "optic placode formation" RELATED [] is_a: GO:0060788 ! ectodermal placode formation intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: results_in_formation_of UBERON:0003073 ! lens placode relationship: part_of GO:0048598 ! embryonic morphogenesis relationship: results_in_formation_of UBERON:0003073 ! lens placode [Term] id: GO:0001745 name: compound eye morphogenesis namespace: biological_process def: "The morphogenetic process in which the anatomical structures of the compound eye are generated and organized. The adult compound eye is a precise assembly of 700-800 ommatidia. Each ommatidium is composed of 20 cells, identified by cell type and position. An example of compound eye morphogenesis is found in Drosophila melanogaster." [GOC:dph, GOC:mtg_sensu] synonym: "insect-type retina morphogenesis" EXACT [PMID:11735386] is_a: GO:0048592 ! eye morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0000018 ! compound eye relationship: in_taxon NCBITaxon:6656 ! Arthropoda relationship: only_in_taxon NCBITaxon:6656 ! Arthropoda relationship: part_of GO:0048749 ! compound eye development relationship: results_in_morphogenesis_of UBERON:0000018 ! compound eye [Term] id: GO:0001751 name: compound eye photoreceptor cell differentiation namespace: biological_process def: "The process in which a relatively unspecialized cell acquires the specialized features of an eye photoreceptor cell." [GOC:go_curators] is_a: GO:0001754 ! eye photoreceptor cell differentiation intersection_of: GO:0030154 ! cell differentiation intersection_of: results_in_acquisition_of_features_of CL:2000019 ! compound eye photoreceptor cell relationship: part_of GO:0001745 ! compound eye morphogenesis relationship: results_in_acquisition_of_features_of CL:2000019 ! compound eye photoreceptor cell [Term] id: GO:0001754 name: eye photoreceptor cell differentiation namespace: biological_process def: "The process in which a relatively unspecialized cell acquires the specialized features of a photoreceptor cell, as found in the eye, the primary visual organ of most organisms." [GOC:go_curators] is_a: GO:0046530 ! photoreceptor cell differentiation intersection_of: GO:0030154 ! cell differentiation intersection_of: results_in_acquisition_of_features_of CL:0000287 ! eye photoreceptor cell relationship: part_of GO:0048592 ! eye morphogenesis relationship: results_in_acquisition_of_features_of CL:0000287 ! eye photoreceptor cell [Term] id: GO:0001756 name: somitogenesis namespace: biological_process def: "The formation of mesodermal clusters that are arranged segmentally along the anterior posterior axis of an embryo." [ISBN:0721662544] synonym: "formation of mesodermal clusters" EXACT systematic_synonym [] xref: Wikipedia:Somitogenesis is_a: GO:0009952 ! anterior/posterior pattern specification is_a: GO:0035282 ! segmentation is_a: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: results_in_formation_of UBERON:0002329 ! somite relationship: part_of GO:0043009 ! chordate embryonic development relationship: part_of GO:0061053 ! somite development relationship: results_in_formation_of UBERON:0002329 ! somite [Term] id: GO:0001763 name: morphogenesis of a branching structure namespace: biological_process def: "The process in which the anatomical structures of branches are generated and organized. A branch is a division or offshoot from a main stem. Examples in animals would include blood vessels, nerves, lymphatics and other endothelial or epithelial tubes." [ISBN:0721662544] synonym: "branching morphogenesis" EXACT [GOC:dph] is_a: GO:0009653 ! anatomical structure morphogenesis is_a: GO:0032501 ! multicellular organismal process [Term] id: GO:0001776 name: leukocyte homeostasis namespace: biological_process def: "The process of regulating the proliferation and elimination of cells of the immune system such that the total number of cells of a particular cell type within a whole or part of an organism is stable over time in the absence of an outside stimulus." [GOC:add, ISBN:0781735149] comment: Note that this term represents the return of immune system cell levels to stable numbers following an immune response as well as the proliferation and elimination of cells of the immune system required to maintain stable numbers in the absence of an outside stimulus. synonym: "immune cell homeostasis" EXACT [] synonym: "leucocyte homeostasis" EXACT [] is_a: GO:0002376 ! immune system process is_a: GO:0048872 ! homeostasis of number of cells intersection_of: GO:0048872 ! homeostasis of number of cells intersection_of: acts_on_population_of CL:0000738 ! leukocyte relationship: acts_on_population_of CL:0000738 ! leukocyte [Term] id: GO:0001820 name: serotonin secretion namespace: biological_process def: "The regulated release of serotonin by a cell. Serotonin (5-hydroxytryptamine, or 5-HT) is a monoamine synthesised in serotonergic neurons in the central nervous system, enterochromaffin cells in the gastrointestinal tract and some immune system cells." [GOC:ef, ISBN:0198506732, ISBN:0781735149] synonym: "5-HT secretion" EXACT [] synonym: "5-hydroxytryptamine secretion" EXACT [] synonym: "serotonin release" RELATED [GOC:tb] is_a: GO:0006837 ! serotonin transport is_a: GO:0023061 ! signal release intersection_of: GO:0046903 ! secretion intersection_of: transports_or_maintains_localization_of CHEBI:350546 ! serotonin(1+) [Term] id: GO:0001837 name: epithelial to mesenchymal transition namespace: biological_process def: "A transition where an epithelial cell loses apical/basolateral polarity, severs intercellular adhesive junctions, degrades basement membrane components and becomes a migratory mesenchymal cell." [GOC:dph, PMID:14701881] synonym: "EMT" EXACT [] synonym: "epithelial-mesenchymal transition" EXACT [] synonym: "mesenchymal cell differentiation from epithelial cell" EXACT [GOC:BHF, GOC:dph, GOC:rl] is_a: GO:0048762 ! mesenchymal cell differentiation intersection_of: GO:0030154 ! cell differentiation intersection_of: has_input CL:0000066 ! epithelial cell intersection_of: results_in_acquisition_of_features_of CL:0008019 ! mesenchymal cell relationship: has_input CL:0000066 ! epithelial cell [Term] id: GO:0001838 name: embryonic epithelial tube formation namespace: biological_process def: "The morphogenesis of an embryonic epithelium into a tube-shaped structure." [GOC:dph, ISBN:0824072820] is_a: GO:0072175 ! epithelial tube formation relationship: part_of GO:0016331 ! morphogenesis of embryonic epithelium [Term] id: GO:0001839 name: neural plate morphogenesis namespace: biological_process def: "The process in which the anatomical structures of the neural plate are generated and organized. The neural plate is a specialized region of columnar epithelial cells in the dorsal ectoderm that will give rise to nervous system tissue." [GOC:dph, ISBN:0878932437] is_a: GO:0016331 ! morphogenesis of embryonic epithelium intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0003075 ! neural plate relationship: part_of GO:0001840 ! neural plate development relationship: results_in_morphogenesis_of UBERON:0003075 ! neural plate [Term] id: GO:0001840 name: neural plate development namespace: biological_process def: "The process whose specific outcome is the progression of the neural plate over time, from its formation to the mature structure. The neural plate is a flat, thickened layer of ectodermal cells. The underlying dorsal mesoderm signals the ectodermal cells above it to elongate into columnar neural plate cells. The neural plate subsequently develops into the neural tube, which gives rise to the central nervous system." [GOC:dph, GOC:ef, ISBN:0878932437, ISBN:0878932585] is_a: GO:0060429 ! epithelium development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0003075 ! neural plate relationship: part_of GO:0043009 ! chordate embryonic development relationship: results_in_development_of UBERON:0003075 ! neural plate [Term] id: GO:0001841 name: neural tube formation namespace: biological_process alt_id: GO:0001679 def: "The formation of a tube from the flat layer of ectodermal cells known as the neural plate. This will give rise to the central nervous system." [GOC:dph, ISBN:0878932437] synonym: "neural tube morphogenesis" EXACT [GOC:dph] synonym: "neurulation" EXACT [] xref: Wikipedia:Neurulation is_a: GO:0001838 ! embryonic epithelial tube formation intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: results_in_formation_of UBERON:0001049 ! neural tube relationship: part_of GO:0021915 ! neural tube development relationship: results_in_formation_of UBERON:0001049 ! neural tube [Term] id: GO:0001842 name: neural fold formation namespace: biological_process def: "The process in which the neural fold is formed. The edges of the neural plate thicken and move up to form a U-shaped structure called the neural groove." [GOC:dph, ISBN:0878932437] synonym: "neural groove formation" RELATED [GOC:dph] is_a: GO:0016331 ! morphogenesis of embryonic epithelium is_a: GO:0048646 ! anatomical structure formation involved in morphogenesis is_a: GO:0060571 ! morphogenesis of an epithelial fold intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: results_in_formation_of UBERON:0005062 ! neural fold relationship: part_of GO:0014020 ! primary neural tube formation relationship: results_in_formation_of UBERON:0005062 ! neural fold [Term] id: GO:0001878 name: response to yeast namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus from a yeast species." [PMID:14707091] comment: defined as response to Saccharomycotina (true yeasts). This excludes fission yeast. is_a: GO:0009620 ! response to fungus intersection_of: GO:0050896 ! response to stimulus intersection_of: has_input NCBITaxon:147537 ! Saccharomycotina relationship: has_input NCBITaxon:147537 ! Saccharomycotina [Term] id: GO:0001885 name: endothelial cell development namespace: biological_process def: "The progression of an endothelial cell over time, from its formation to the mature structure." [GOC:dph] is_a: GO:0002064 ! epithelial cell development intersection_of: GO:0032502 ! developmental process intersection_of: results_in_development_of CL:0000115 ! endothelial cell relationship: part_of GO:0045446 ! endothelial cell differentiation relationship: results_in_development_of CL:0000115 ! endothelial cell [Term] id: GO:0001886 name: endothelial cell morphogenesis namespace: biological_process def: "The change in form (cell shape and size) that occurs during the differentiation of an endothelial cell." [GOC:ascb_2009, GOC:dph, GOC:tb] is_a: GO:0003382 ! epithelial cell morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of CL:0000115 ! endothelial cell relationship: part_of GO:0001885 ! endothelial cell development relationship: results_in_morphogenesis_of CL:0000115 ! endothelial cell [Term] id: GO:0001935 name: endothelial cell proliferation namespace: biological_process def: "The multiplication or reproduction of endothelial cells, resulting in the expansion of a cell population. Endothelial cells are thin flattened cells which line the inside surfaces of body cavities, blood vessels, and lymph vessels, making up the endothelium." [GOC:add, ISBN:0781735149] is_a: GO:0050673 ! epithelial cell proliferation intersection_of: GO:0008283 ! cell population proliferation intersection_of: acts_on_population_of CL:0000115 ! endothelial cell relationship: acts_on_population_of CL:0000115 ! endothelial cell [Term] id: GO:0001936 name: regulation of endothelial cell proliferation namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of endothelial cell proliferation." [GOC:add] is_a: GO:0050678 ! regulation of epithelial cell proliferation intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0001935 ! endothelial cell proliferation relationship: regulates GO:0001935 ! endothelial cell proliferation [Term] id: GO:0001937 name: negative regulation of endothelial cell proliferation namespace: biological_process def: "Any process that stops, prevents, or reduces the rate or extent of endothelial cell proliferation." [GOC:add] synonym: "down regulation of endothelial cell proliferation" EXACT [] synonym: "down-regulation of endothelial cell proliferation" EXACT [] synonym: "downregulation of endothelial cell proliferation" EXACT [] synonym: "inhibition of endothelial cell proliferation" NARROW [] is_a: GO:0001936 ! regulation of endothelial cell proliferation is_a: GO:0050680 ! negative regulation of epithelial cell proliferation intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0001935 ! endothelial cell proliferation relationship: negatively_regulates GO:0001935 ! endothelial cell proliferation [Term] id: GO:0001938 name: positive regulation of endothelial cell proliferation namespace: biological_process def: "Any process that activates or increases the rate or extent of endothelial cell proliferation." [GOC:add] synonym: "activation of endothelial cell proliferation" NARROW [] synonym: "stimulation of endothelial cell proliferation" NARROW [] synonym: "up regulation of endothelial cell proliferation" EXACT [] synonym: "up-regulation of endothelial cell proliferation" EXACT [] synonym: "upregulation of endothelial cell proliferation" EXACT [] is_a: GO:0001936 ! regulation of endothelial cell proliferation is_a: GO:0050679 ! positive regulation of epithelial cell proliferation intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0001935 ! endothelial cell proliferation relationship: positively_regulates GO:0001935 ! endothelial cell proliferation [Term] id: GO:0001944 name: vasculature development namespace: biological_process def: "The process whose specific outcome is the progression of the vasculature over time, from its formation to the mature structure. The vasculature is an interconnected tubular multi-tissue structure that contains fluid that is actively transported around the organism." [GOC:dph, UBERON:0002409] synonym: "vascular system development" RELATED [] is_a: GO:0048731 ! system development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0002049 ! vasculature relationship: part_of GO:0072359 ! circulatory system development relationship: results_in_development_of UBERON:0002049 ! vasculature [Term] id: GO:0001957 name: intramembranous ossification namespace: biological_process def: "Direct ossification that occurs within mesenchyme or an accumulation of relatively unspecialized cells." [ISBN:0878932437] comment: An instance of intramembranous ossification may also be classified as metaplastic; the former classifies based on tissue type location, and the latter based on mechanism/cell division. synonym: "dermal ossification" NARROW [GO_REF:0000034] synonym: "intramembranous bone ossification" RELATED [GOC:cjm] xref: Wikipedia:Intramembranous_ossification is_a: GO:0036072 ! direct ossification [Term] id: GO:0002009 name: morphogenesis of an epithelium namespace: biological_process def: "The process in which the anatomical structures of epithelia are generated and organized. An epithelium consists of closely packed cells arranged in one or more layers, that covers the outer surfaces of the body or lines any internal cavity or tube." [GOC:dph, GOC:jl, GOC:tb, ISBN:0198506732] synonym: "epithelium morphogenesis" EXACT [] is_a: GO:0048729 ! tissue morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0000483 ! epithelium relationship: part_of GO:0060429 ! epithelium development relationship: results_in_morphogenesis_of UBERON:0000483 ! epithelium [Term] id: GO:0002011 name: morphogenesis of an epithelial sheet namespace: biological_process def: "The process in which the anatomical structures of an epithelial sheet are generated and organized. An epithelial sheet is a flat surface consisting of closely packed epithelial cells." [GOC:jl] is_a: GO:0002009 ! morphogenesis of an epithelium intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0010136 ! epithelial sheet relationship: results_in_morphogenesis_of UBERON:0010136 ! epithelial sheet [Term] id: GO:0002027 name: regulation of heart rate namespace: biological_process def: "Any process that modulates the frequency or rate of heart contraction." [GOC:dph, GOC:tb, PMID:10358008] synonym: "cardiac chronotropy" EXACT [GOC:dph, GOC:tb] synonym: "regulation of heart contraction rate" EXACT [] synonym: "regulation of rate of heart contraction" EXACT [] is_a: GO:0008016 ! regulation of heart contraction is_a: GO:0065008 ! regulation of biological quality [Term] id: GO:0002052 name: positive regulation of neuroblast proliferation namespace: biological_process def: "Any process that activates or increases the rate of neuroblast proliferation." [GOC:dph] synonym: "activation of neuroblast proliferation" NARROW [] synonym: "stimulation of neuroblast proliferation" NARROW [] synonym: "up regulation of neuroblast proliferation" EXACT [] synonym: "up-regulation of neuroblast proliferation" EXACT [] synonym: "upregulation of neuroblast proliferation" EXACT [] is_a: GO:0050769 ! positive regulation of neurogenesis is_a: GO:1902692 ! regulation of neuroblast proliferation is_a: GO:2000179 ! positive regulation of neural precursor cell proliferation intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0007405 ! neuroblast proliferation relationship: positively_regulates GO:0007405 ! neuroblast proliferation [Term] id: GO:0002053 name: positive regulation of mesenchymal cell proliferation namespace: biological_process def: "The process of activating or increasing the rate or extent of mesenchymal cell proliferation. Mesenchymal cells are loosely organized embryonic cells." [GOC:dph] synonym: "activation of mesenchymal cell proliferation" NARROW [] synonym: "stimulation of mesenchymal cell proliferation" NARROW [] synonym: "up regulation of mesenchymal cell proliferation" EXACT [] synonym: "up-regulation of mesenchymal cell proliferation" EXACT [] synonym: "upregulation of mesenchymal cell proliferation" EXACT [] is_a: GO:0008284 ! positive regulation of cell population proliferation is_a: GO:0010464 ! regulation of mesenchymal cell proliferation intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0010463 ! mesenchymal cell proliferation relationship: positively_regulates GO:0010463 ! mesenchymal cell proliferation [Term] id: GO:0002054 name: nucleobase binding namespace: molecular_function def: "Binding to a nucleobase, any of a class of pyrmidines or purines, organic nitrogenous bases." [GOC:hjd] subset: goslim_pir is_a: GO:0036094 ! small molecule binding is_a: GO:0097159 ! organic cyclic compound binding is_a: GO:1901363 ! heterocyclic compound binding intersection_of: GO:0005488 ! binding intersection_of: has_input CHEBI:18282 ! nucleobase relationship: has_input CHEBI:18282 ! nucleobase [Term] id: GO:0002062 name: chondrocyte differentiation namespace: biological_process def: "The process in which a chondroblast acquires specialized structural and/or functional features of a chondrocyte. A chondrocyte is a polymorphic cell that forms cartilage." [GOC:dph] is_a: GO:0030154 ! cell differentiation intersection_of: GO:0030154 ! cell differentiation intersection_of: results_in_acquisition_of_features_of CL:0000138 ! chondrocyte relationship: part_of GO:0051216 ! cartilage development relationship: results_in_acquisition_of_features_of CL:0000138 ! chondrocyte [Term] id: GO:0002063 name: chondrocyte development namespace: biological_process def: "The process whose specific outcome is the progression of a chondrocyte over time, from its commitment to its mature state. Chondrocyte development does not include the steps involved in committing a chondroblast to a chondrocyte fate." [GOC:dph] is_a: GO:0048468 ! cell development intersection_of: GO:0032502 ! developmental process intersection_of: results_in_development_of CL:0000138 ! chondrocyte relationship: part_of GO:0002062 ! chondrocyte differentiation relationship: results_in_development_of CL:0000138 ! chondrocyte [Term] id: GO:0002064 name: epithelial cell development namespace: biological_process def: "The process whose specific outcome is the progression of an epithelial cell over time, from its formation to the mature structure. An epithelial cell is a cell usually found in a two-dimensional sheet with a free surface." [GOC:dph] is_a: GO:0048468 ! cell development intersection_of: GO:0032502 ! developmental process intersection_of: results_in_development_of CL:0000066 ! epithelial cell relationship: part_of GO:0030855 ! epithelial cell differentiation relationship: results_in_development_of CL:0000066 ! epithelial cell [Term] id: GO:0002065 name: columnar/cuboidal epithelial cell differentiation namespace: biological_process def: "The process in which a relatively unspecialized cell acquires specialized features of a columnar/cuboidal epithelial cell. A columnar/cuboidal epithelial cell is a cell usually found in a two dimensional sheet with a free surface. Columnar/cuboidal epithelial cells take on the shape of a column or cube." [GOC:dph] is_a: GO:0030855 ! epithelial cell differentiation intersection_of: GO:0030154 ! cell differentiation intersection_of: results_in_acquisition_of_features_of CL:0000075 ! columnar/cuboidal epithelial cell relationship: results_in_acquisition_of_features_of CL:0000075 ! columnar/cuboidal epithelial cell [Term] id: GO:0002066 name: columnar/cuboidal epithelial cell development namespace: biological_process def: "The process whose specific outcome is the progression of a columnar/cuboidal epithelial cell over time, from its formation to the mature structure. A columnar/cuboidal epithelial cell is a cell usually found in a two dimensional sheet with a free surface. Columnar/cuboidal epithelial cells take on the shape of a column or cube." [GOC:dph] is_a: GO:0002064 ! epithelial cell development intersection_of: GO:0032502 ! developmental process intersection_of: results_in_development_of CL:0000075 ! columnar/cuboidal epithelial cell relationship: part_of GO:0002065 ! columnar/cuboidal epithelial cell differentiation relationship: results_in_development_of CL:0000075 ! columnar/cuboidal epithelial cell [Term] id: GO:0002067 name: glandular epithelial cell differentiation namespace: biological_process def: "The process in which a relatively unspecialized cell acquires specialized features of a glandular epithelial cell. A glandular epithelial cell is a columnar/cuboidal epithelial cell found in a two dimensional sheet with a free surface exposed to the lumen of a gland." [GOC:dph] is_a: GO:0002065 ! columnar/cuboidal epithelial cell differentiation intersection_of: GO:0030154 ! cell differentiation intersection_of: results_in_acquisition_of_features_of CL:0000150 ! glandular epithelial cell relationship: results_in_acquisition_of_features_of CL:0000150 ! glandular epithelial cell [Term] id: GO:0002068 name: glandular epithelial cell development namespace: biological_process def: "The process whose specific outcome is the progression of a glandular epithelial cell over time, from its formation to the mature structure. A glandular epithelial cell is a columnar/cuboidal epithelial cell is a cell found in a two dimensional sheet with a free surface exposed to the lumen of a gland." [GOC:dph] is_a: GO:0002066 ! columnar/cuboidal epithelial cell development intersection_of: GO:0032502 ! developmental process intersection_of: results_in_development_of CL:0000150 ! glandular epithelial cell relationship: part_of GO:0002067 ! glandular epithelial cell differentiation relationship: results_in_development_of CL:0000150 ! glandular epithelial cell [Term] id: GO:0002072 name: optic cup morphogenesis involved in camera-type eye development namespace: biological_process def: "The invagination of the optic vesicle to form two-walled indentations, the optic cups, that will go on to form the retina. This process begins with the optic vesicle becoming a two-walled structure and its subsequent shape changes. It does not include the fate commitment of cells to become the pigmented retina and the neural retina. An example of this process is found in Mus musculus." [GOC:dph, GOC:mtg_sensu, GOC:sdb_2009, GOC:tb, ISBN:0878932437] synonym: "optic cup morphogenesis involved in camera-style eye development" EXACT [] is_a: GO:0016331 ! morphogenesis of embryonic epithelium intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0003072 ! optic cup relationship: part_of GO:0060900 ! embryonic camera-type eye formation relationship: results_in_morphogenesis_of UBERON:0003072 ! optic cup [Term] id: GO:0002085 name: inhibition of neuroepithelial cell differentiation namespace: biological_process def: "Any process that prevents the activation of neuroepithelial cell differentiation. Neuroepithelial cell differentiation is the process in which epiblast cells acquire specialized features of neuroepithelial cells." [GOC:dph, PMID:16678814] synonym: "negative regulation of neural plate formation" NARROW [GOC:dph, GOC:tb] synonym: "repression of premature neural plate formation" NARROW [GOC:dph, GOC:tb] is_a: GO:0022603 ! regulation of anatomical structure morphogenesis is_a: GO:0030857 ! negative regulation of epithelial cell differentiation is_a: GO:0045995 ! regulation of embryonic development is_a: GO:0048505 ! regulation of timing of cell differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0060563 ! neuroepithelial cell differentiation relationship: negatively_regulates GO:0060563 ! neuroepithelial cell differentiation [Term] id: GO:0002087 name: regulation of respiratory gaseous exchange by nervous system process namespace: biological_process def: "A process carried out by the nervous system that is required for the proper control of respiratory gaseous exchange. This process occurs in the respiratory center of the brain in vertebrates." [GOC:dph, GOC:tb, PMID:12458206] synonym: "neurological control of breathing" EXACT [GOC:dph, GOC:tb] synonym: "regulation of respiratory gaseous exchange by neurological system process" EXACT [] is_a: GO:0044065 ! regulation of respiratory system process is_a: GO:0050877 ! nervous system process intersection_of: GO:0050877 ! nervous system process intersection_of: regulates GO:0007585 ! respiratory gaseous exchange by respiratory system [Term] id: GO:0002088 name: lens development in camera-type eye namespace: biological_process def: "The process whose specific outcome is the progression of the lens over time, from its formation to the mature structure. The lens is a transparent structure in the eye through which light is focused onto the retina. An example of this process is found in Mus musculus." [GOC:dph, ISBN:0582064333] synonym: "lens development" EXACT [] synonym: "lens development in camera-style eye" EXACT [] is_a: GO:0048856 ! anatomical structure development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0000965 ! lens of camera-type eye relationship: part_of GO:0043010 ! camera-type eye development relationship: results_in_development_of UBERON:0000965 ! lens of camera-type eye [Term] id: GO:0002089 name: lens morphogenesis in camera-type eye namespace: biological_process def: "The process in which the anatomical structures of the lens are generated and organized. The lens is a transparent structure in the eye through which light is focused onto the retina. An example of this process is found in Mus musculus." [GOC:dph, GOC:mtg_sensu] synonym: "lens morphogenesis" EXACT [] synonym: "lens morphogenesis in camera-style eye" EXACT [] is_a: GO:0009653 ! anatomical structure morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0000965 ! lens of camera-type eye relationship: part_of GO:0002088 ! lens development in camera-type eye relationship: part_of GO:0048593 ! camera-type eye morphogenesis relationship: results_in_morphogenesis_of UBERON:0000965 ! lens of camera-type eye [Term] id: GO:0002164 name: larval development namespace: biological_process def: "The process whose specific outcome is the progression of the larva over time, from its formation to the mature structure. The larva is the early, immature form of an that at birth or hatching is fundamentally unlike its parent and must metamorphose before assuming the adult characters." [GOC:jid, ISBN:0877795088] is_a: GO:0007275 ! multicellular organism development is_a: GO:0009791 ! post-embryonic development [Term] id: GO:0002244 name: hematopoietic progenitor cell differentiation namespace: biological_process def: "The process in which precursor cell type acquires the specialized features of a hematopoietic progenitor cell, a class of cell types including myeloid progenitor cells and lymphoid progenitor cells." [GOC:add, GOC:rl, ISBN:0781735149, PMID:16551251] synonym: "haematopoietic progenitor cell differentiation" EXACT [] synonym: "haemopoietic progenitor cell differentiation" EXACT [] synonym: "hemopoietic progenitor cell differentiation" EXACT [] is_a: GO:0030154 ! cell differentiation intersection_of: GO:0030154 ! cell differentiation intersection_of: results_in_acquisition_of_features_of CL:0008001 ! hematopoietic precursor cell relationship: part_of GO:0030097 ! hemopoiesis relationship: results_in_acquisition_of_features_of CL:0008001 ! hematopoietic precursor cell [Term] id: GO:0002252 name: immune effector process namespace: biological_process def: "Any process of the immune system that executes a component of an immune response. An effector immune process takes place after its activation." [GO_REF:0000022, GOC:add, ISBN:0781735149] is_a: GO:0002376 ! immune system process property_value: IAO:0000233 https://github.com/geneontology/go-ontology/issues/18737 xsd:anyURI [Term] id: GO:0002262 name: myeloid cell homeostasis namespace: biological_process def: "The process of regulating the proliferation and elimination of myeloid cells such that the total number of myeloid cells within a whole or part of an organism is stable over time in the absence of an outside stimulus." [CL:0000763, GOC:add] is_a: GO:0002376 ! immune system process is_a: GO:0048872 ! homeostasis of number of cells intersection_of: GO:0048872 ! homeostasis of number of cells intersection_of: acts_on_population_of CL:0000763 ! myeloid cell relationship: acts_on_population_of CL:0000763 ! myeloid cell [Term] id: GO:0002318 name: myeloid progenitor cell differentiation namespace: biological_process def: "The process in which a precursor cell type acquires the specialized features of a myeloid progenitor cell. Myeloid progenitor cells include progenitor cells for any of the myeloid lineages." [GOC:add, PMID:16551264] is_a: GO:0002244 ! hematopoietic progenitor cell differentiation intersection_of: GO:0030154 ! cell differentiation intersection_of: results_in_acquisition_of_features_of CL:0000839 ! myeloid lineage restricted progenitor cell relationship: results_in_acquisition_of_features_of CL:0000839 ! myeloid lineage restricted progenitor cell [Term] id: GO:0002376 name: immune system process namespace: biological_process def: "Any process involved in the development or functioning of the immune system, an organismal system for calibrated responses to potential internal or invasive threats." [GO_REF:0000022, GOC:add] comment: Note that this term is a direct child of 'biological_process ; GO:0008150' because some immune system processes are types of cellular process (GO:0009987), whereas others are types of multicellular organism process (GO:0032501). subset: goslim_agr subset: goslim_chembl subset: goslim_flybase_ribbon subset: goslim_generic subset: goslim_mouse subset: goslim_pir xref: Wikipedia:Immune_system is_a: GO:0008150 ! biological_process property_value: RO:0002161 NCBITaxon:4895 [Term] id: GO:0002443 name: leukocyte mediated immunity namespace: biological_process alt_id: GO:0019723 alt_id: GO:0042087 def: "Any process involved in the carrying out of an immune response by a leukocyte." [GO_REF:0000022, GOC:add, ISBN:0781735149] synonym: "cell-mediated immune response" RELATED [] synonym: "cellular immune response" RELATED [] synonym: "immune cell effector process" EXACT [] synonym: "immune cell mediated immunity" EXACT [] synonym: "leucocyte immune effector process" EXACT [] synonym: "leucocyte mediated immunity" EXACT [] synonym: "leukocyte immune effector process" EXACT [] is_a: GO:0002252 ! immune effector process intersection_of: GO:0002376 ! immune system process intersection_of: process_has_causal_agent CL:0000738 ! leukocyte relationship: process_has_causal_agent CL:0000738 ! leukocyte [Term] id: GO:0002444 name: myeloid leukocyte mediated immunity namespace: biological_process def: "Any process involved in the carrying out of an immune response by a myeloid leukocyte." [GO_REF:0000022, GOC:add, ISBN:0781735149] synonym: "myeloid leucocyte immune effector process" EXACT [] synonym: "myeloid leucocyte mediated immunity" EXACT [] synonym: "myeloid leukocyte immune effector process" EXACT [] is_a: GO:0002443 ! leukocyte mediated immunity intersection_of: GO:0002376 ! immune system process intersection_of: process_has_causal_agent CL:0000766 ! myeloid leukocyte relationship: process_has_causal_agent CL:0000766 ! myeloid leukocyte [Term] id: GO:0002520 name: immune system development namespace: biological_process def: "The process whose specific outcome is the progression of an organismal system whose objective is to provide calibrated responses by an organism to a potential internal or invasive threat, over time, from its formation to the mature structure. A system is a regularly interacting or interdependent group of organs or tissues that work together to carry out a given biological process." [GOC:add, GOC:dph] subset: goslim_drosophila is_a: GO:0002376 ! immune system process is_a: GO:0048731 ! system development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0002405 ! immune system relationship: results_in_development_of UBERON:0002405 ! immune system [Term] id: GO:0002521 name: leukocyte differentiation namespace: biological_process def: "The process in which a relatively unspecialized hemopoietic precursor cell acquires the specialized features of a leukocyte. A leukocyte is an achromatic cell of the myeloid or lymphoid lineages capable of ameboid movement, found in blood or other tissue." [CL:0000738, GOC:add, PMID:16551264] synonym: "immune cell differentiation" EXACT [] synonym: "leucocyte differentiation" EXACT [] is_a: GO:0030154 ! cell differentiation intersection_of: GO:0030154 ! cell differentiation intersection_of: results_in_acquisition_of_features_of CL:0000738 ! leukocyte relationship: part_of GO:0030097 ! hemopoiesis relationship: results_in_acquisition_of_features_of CL:0000738 ! leukocyte [Term] id: GO:0002573 name: myeloid leukocyte differentiation namespace: biological_process def: "The process in which a relatively unspecialized myeloid precursor cell acquires the specialized features of any cell of the myeloid leukocyte lineage." [GOC:add, PMID:16551251] synonym: "myeloid leucocyte differentiation" EXACT [] is_a: GO:0002521 ! leukocyte differentiation is_a: GO:0030099 ! myeloid cell differentiation intersection_of: GO:0030154 ! cell differentiation intersection_of: results_in_acquisition_of_features_of CL:0000766 ! myeloid leukocyte relationship: results_in_acquisition_of_features_of CL:0000766 ! myeloid leukocyte [Term] id: GO:0002682 name: regulation of immune system process namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of an immune system process." [GOC:add] is_a: GO:0050789 ! regulation of biological process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0002376 ! immune system process relationship: regulates GO:0002376 ! immune system process [Term] id: GO:0002683 name: negative regulation of immune system process namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of an immune system process." [GOC:add] synonym: "down regulation of immune system process" EXACT [] synonym: "down-regulation of immune system process" EXACT [] synonym: "downregulation of immune system process" EXACT [] synonym: "inhibition of immune system process" NARROW [] is_a: GO:0002682 ! regulation of immune system process is_a: GO:0048519 ! negative regulation of biological process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0002376 ! immune system process relationship: negatively_regulates GO:0002376 ! immune system process [Term] id: GO:0002684 name: positive regulation of immune system process namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of an immune system process." [GOC:add] synonym: "activation of immune system process" NARROW [] synonym: "stimulation of immune system process" NARROW [] synonym: "up regulation of immune system process" EXACT [] synonym: "up-regulation of immune system process" EXACT [] synonym: "upregulation of immune system process" EXACT [] is_a: GO:0002682 ! regulation of immune system process is_a: GO:0048518 ! positive regulation of biological process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0002376 ! immune system process relationship: positively_regulates GO:0002376 ! immune system process [Term] id: GO:0002697 name: regulation of immune effector process namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of an immune effector process." [GOC:add] is_a: GO:0002682 ! regulation of immune system process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0002252 ! immune effector process relationship: regulates GO:0002252 ! immune effector process [Term] id: GO:0002698 name: negative regulation of immune effector process namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of an immune effector process." [GOC:add] synonym: "down regulation of immune effector process" EXACT [] synonym: "down-regulation of immune effector process" EXACT [] synonym: "downregulation of immune effector process" EXACT [] synonym: "inhibition of immune effector process" NARROW [] is_a: GO:0002683 ! negative regulation of immune system process is_a: GO:0002697 ! regulation of immune effector process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0002252 ! immune effector process relationship: negatively_regulates GO:0002252 ! immune effector process [Term] id: GO:0002699 name: positive regulation of immune effector process namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of an immune effector process." [GOC:add] synonym: "activation of immune effector process" NARROW [] synonym: "stimulation of immune effector process" NARROW [] synonym: "up regulation of immune effector process" EXACT [] synonym: "up-regulation of immune effector process" EXACT [] synonym: "upregulation of immune effector process" EXACT [] is_a: GO:0002684 ! positive regulation of immune system process is_a: GO:0002697 ! regulation of immune effector process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0002252 ! immune effector process relationship: positively_regulates GO:0002252 ! immune effector process [Term] id: GO:0002703 name: regulation of leukocyte mediated immunity namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of leukocyte mediated immunity." [GOC:add] synonym: "regulation of immune cell mediated immunity" EXACT [] synonym: "regulation of leucocyte mediated immunity" EXACT [] is_a: GO:0002697 ! regulation of immune effector process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0002443 ! leukocyte mediated immunity relationship: regulates GO:0002443 ! leukocyte mediated immunity [Term] id: GO:0002704 name: negative regulation of leukocyte mediated immunity namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of leukocyte mediated immunity." [GOC:add] synonym: "down regulation of leukocyte mediated immunity" EXACT [] synonym: "down-regulation of leukocyte mediated immunity" EXACT [] synonym: "downregulation of leukocyte mediated immunity" EXACT [] synonym: "inhibition of leukocyte mediated immunity" NARROW [] synonym: "negative regulation of immune cell mediated immunity" EXACT [] synonym: "negative regulation of leucocyte mediated immunity" EXACT [] is_a: GO:0002698 ! negative regulation of immune effector process is_a: GO:0002703 ! regulation of leukocyte mediated immunity intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0002443 ! leukocyte mediated immunity relationship: negatively_regulates GO:0002443 ! leukocyte mediated immunity [Term] id: GO:0002705 name: positive regulation of leukocyte mediated immunity namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of leukocyte mediated immunity." [GOC:add] synonym: "activation of leukocyte mediated immunity" NARROW [] synonym: "positive regulation of immune cell mediated immunity" EXACT [] synonym: "positive regulation of leucocyte mediated immunity" EXACT [] synonym: "stimulation of leukocyte mediated immunity" NARROW [] synonym: "up regulation of leukocyte mediated immunity" EXACT [] synonym: "up-regulation of leukocyte mediated immunity" EXACT [] synonym: "upregulation of leukocyte mediated immunity" EXACT [] is_a: GO:0002699 ! positive regulation of immune effector process is_a: GO:0002703 ! regulation of leukocyte mediated immunity intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0002443 ! leukocyte mediated immunity relationship: positively_regulates GO:0002443 ! leukocyte mediated immunity [Term] id: GO:0002761 name: regulation of myeloid leukocyte differentiation namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of myeloid leukocyte differentiation." [GOC:add] is_a: GO:0045637 ! regulation of myeloid cell differentiation is_a: GO:1902105 ! regulation of leukocyte differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0002573 ! myeloid leukocyte differentiation relationship: regulates GO:0002573 ! myeloid leukocyte differentiation [Term] id: GO:0002762 name: negative regulation of myeloid leukocyte differentiation namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of myeloid leukocyte differentiation." [GOC:add] synonym: "down regulation of myeloid leukocyte differentiation" EXACT [] synonym: "down-regulation of myeloid leukocyte differentiation" EXACT [] synonym: "downregulation of myeloid leukocyte differentiation" EXACT [] synonym: "inhibition of myeloid leukocyte differentiation" NARROW [] is_a: GO:0002761 ! regulation of myeloid leukocyte differentiation is_a: GO:0045638 ! negative regulation of myeloid cell differentiation is_a: GO:1902106 ! negative regulation of leukocyte differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0002573 ! myeloid leukocyte differentiation relationship: negatively_regulates GO:0002573 ! myeloid leukocyte differentiation [Term] id: GO:0002763 name: positive regulation of myeloid leukocyte differentiation namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of myeloid leukocyte differentiation." [GOC:add] synonym: "activation of myeloid leukocyte differentiation" NARROW [] synonym: "stimulation of myeloid leukocyte differentiation" NARROW [] synonym: "up regulation of myeloid leukocyte differentiation" EXACT [] synonym: "up-regulation of myeloid leukocyte differentiation" EXACT [] synonym: "upregulation of myeloid leukocyte differentiation" EXACT [] is_a: GO:0002761 ! regulation of myeloid leukocyte differentiation is_a: GO:0045639 ! positive regulation of myeloid cell differentiation is_a: GO:1902107 ! positive regulation of leukocyte differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0002573 ! myeloid leukocyte differentiation relationship: positively_regulates GO:0002573 ! myeloid leukocyte differentiation [Term] id: GO:0002790 name: peptide secretion namespace: biological_process def: "The controlled release of a peptide from a cell or a tissue." [GOC:add] is_a: GO:0015833 ! peptide transport is_a: GO:0046903 ! secretion intersection_of: GO:0046903 ! secretion intersection_of: transports_or_maintains_localization_of CHEBI:16670 ! peptide [Term] id: GO:0002791 name: regulation of peptide secretion namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of peptide secretion." [GOC:add] is_a: GO:0051046 ! regulation of secretion is_a: GO:0090087 ! regulation of peptide transport intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0002790 ! peptide secretion relationship: regulates GO:0002790 ! peptide secretion [Term] id: GO:0002792 name: negative regulation of peptide secretion namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of peptide secretion." [GOC:add] synonym: "down regulation of peptide secretion" EXACT [] synonym: "down-regulation of peptide secretion" EXACT [] synonym: "downregulation of peptide secretion" EXACT [] synonym: "inhibition of peptide secretion" NARROW [] is_a: GO:0002791 ! regulation of peptide secretion is_a: GO:0051048 ! negative regulation of secretion intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0002790 ! peptide secretion relationship: negatively_regulates GO:0002790 ! peptide secretion [Term] id: GO:0002793 name: positive regulation of peptide secretion namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of peptide secretion." [GOC:add] synonym: "activation of peptide secretion" NARROW [] synonym: "stimulation of peptide secretion" NARROW [] synonym: "up regulation of peptide secretion" EXACT [] synonym: "up-regulation of peptide secretion" EXACT [] synonym: "upregulation of peptide secretion" EXACT [] is_a: GO:0002791 ! regulation of peptide secretion is_a: GO:0051047 ! positive regulation of secretion intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0002790 ! peptide secretion relationship: positively_regulates GO:0002790 ! peptide secretion [Term] id: GO:0002831 name: regulation of response to biotic stimulus namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of a response to biotic stimulus." [GOC:add] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. subset: gocheck_do_not_manually_annotate is_a: GO:0048583 ! regulation of response to stimulus intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0009607 ! response to biotic stimulus relationship: regulates GO:0009607 ! response to biotic stimulus [Term] id: GO:0002832 name: negative regulation of response to biotic stimulus namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of a response to biotic stimulus." [GOC:add] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. subset: gocheck_do_not_manually_annotate synonym: "down regulation of response to biotic stimulus" EXACT [] synonym: "down-regulation of response to biotic stimulus" EXACT [] synonym: "downregulation of response to biotic stimulus" EXACT [] synonym: "inhibition of response to biotic stimulus" NARROW [] is_a: GO:0002831 ! regulation of response to biotic stimulus is_a: GO:0048585 ! negative regulation of response to stimulus intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0009607 ! response to biotic stimulus relationship: negatively_regulates GO:0009607 ! response to biotic stimulus [Term] id: GO:0002833 name: positive regulation of response to biotic stimulus namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of a response to biotic stimulus." [GOC:add] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. subset: gocheck_do_not_manually_annotate synonym: "activation of response to biotic stimulus" NARROW [] synonym: "stimulation of response to biotic stimulus" NARROW [] synonym: "up regulation of response to biotic stimulus" EXACT [] synonym: "up-regulation of response to biotic stimulus" EXACT [] synonym: "upregulation of response to biotic stimulus" EXACT [] is_a: GO:0002831 ! regulation of response to biotic stimulus is_a: GO:0048584 ! positive regulation of response to stimulus intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0009607 ! response to biotic stimulus relationship: positively_regulates GO:0009607 ! response to biotic stimulus [Term] id: GO:0002886 name: regulation of myeloid leukocyte mediated immunity namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of myeloid leukocyte mediated immunity." [GOC:add] is_a: GO:0002703 ! regulation of leukocyte mediated immunity intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0002444 ! myeloid leukocyte mediated immunity relationship: regulates GO:0002444 ! myeloid leukocyte mediated immunity [Term] id: GO:0002887 name: negative regulation of myeloid leukocyte mediated immunity namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of myeloid leukocyte mediated immunity." [GOC:add] synonym: "down regulation of myeloid leukocyte mediated immunity" EXACT [] synonym: "down-regulation of myeloid leukocyte mediated immunity" EXACT [] synonym: "downregulation of myeloid leukocyte mediated immunity" EXACT [] synonym: "inhibition of myeloid leukocyte mediated immunity" NARROW [] is_a: GO:0002704 ! negative regulation of leukocyte mediated immunity is_a: GO:0002886 ! regulation of myeloid leukocyte mediated immunity intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0002444 ! myeloid leukocyte mediated immunity relationship: negatively_regulates GO:0002444 ! myeloid leukocyte mediated immunity [Term] id: GO:0002888 name: positive regulation of myeloid leukocyte mediated immunity namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of myeloid leukocyte mediated immunity." [GOC:add] synonym: "activation of myeloid leukocyte mediated immunity" NARROW [] synonym: "stimulation of myeloid leukocyte mediated immunity" NARROW [] synonym: "up regulation of myeloid leukocyte mediated immunity" EXACT [] synonym: "up-regulation of myeloid leukocyte mediated immunity" EXACT [] synonym: "upregulation of myeloid leukocyte mediated immunity" EXACT [] is_a: GO:0002705 ! positive regulation of leukocyte mediated immunity is_a: GO:0002886 ! regulation of myeloid leukocyte mediated immunity intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0002444 ! myeloid leukocyte mediated immunity relationship: positively_regulates GO:0002444 ! myeloid leukocyte mediated immunity [Term] id: GO:0002932 name: tendon sheath development namespace: biological_process def: "The process whose specific outcome is the progression of a tendon sheath over time, from its formation to the mature structure. A tendon sheath is a layer of membrane around a tendon. It permits the tendon to move." [PMID:20696843] is_a: GO:0061448 ! connective tissue development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0000304 ! tendon sheath relationship: part_of GO:0035989 ! tendon development relationship: results_in_development_of UBERON:0000304 ! tendon sheath created_by: hjd creation_date: 2012-04-23T02:11:22Z [Term] id: GO:0003002 name: regionalization namespace: biological_process def: "The pattern specification process that results in the subdivision of an axis or axes in space to define an area or volume in which specific patterns of cell differentiation will take place or in which cells interpret a specific environment." [GOC:dph, GOC:isa_complete] synonym: "pattern formation" RELATED [GOC:dph] is_a: GO:0007389 ! pattern specification process [Term] id: GO:0003006 name: developmental process involved in reproduction namespace: biological_process def: "A developmental process in which a progressive change in the state of some part of an organism, germline or somatic, specifically contributes to its ability to form offspring." [GOC:dph, GOC:isa_complete] synonym: "puberty" NARROW [GOC:dph] synonym: "reproductive developmental process" RELATED [GOC:dph, GOC:tb] is_a: GO:0022414 ! reproductive process is_a: GO:0032502 ! developmental process intersection_of: GO:0032502 ! developmental process intersection_of: part_of GO:0000003 ! reproduction [Term] id: GO:0003007 name: heart morphogenesis namespace: biological_process def: "The developmental process in which the heart is generated and organized. The heart is a hollow, muscular organ, which, by contracting rhythmically, keeps up the circulation of the blood." [GOC:dph, GOC:isa_complete] synonym: "cardiac morphogenesis" RELATED [] is_a: GO:0009887 ! animal organ morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0007100 ! primary circulatory organ relationship: part_of GO:0007507 ! heart development relationship: results_in_morphogenesis_of UBERON:0007100 ! primary circulatory organ [Term] id: GO:0003008 name: system process namespace: biological_process def: "A multicellular organismal process carried out by any of the organs or tissues in an organ system. An organ system is a regularly interacting or interdependent group of organs or tissues that work together to carry out a biological objective." [GOC:mtg_cardio] synonym: "organ system process" EXACT [] is_a: GO:0032501 ! multicellular organismal process [Term] id: GO:0003009 name: skeletal muscle contraction namespace: biological_process def: "A process in which force is generated within skeletal muscle tissue, resulting in a change in muscle geometry. Force generation involves a chemo-mechanical energy conversion step that is carried out by the actin/myosin complex activity, which generates force through ATP hydrolysis. In the skeletal muscle, the muscle contraction takes advantage of an ordered sarcomeric structure and in most cases it is under voluntary control." [GOC:mtg_cardio, GOC:mtg_muscle] is_a: GO:0006941 ! striated muscle contraction intersection_of: GO:0006936 ! muscle contraction intersection_of: occurs_in UBERON:0001134 ! skeletal muscle tissue relationship: occurs_in UBERON:0001134 ! skeletal muscle tissue relationship: part_of GO:0050881 ! musculoskeletal movement [Term] id: GO:0003012 name: muscle system process namespace: biological_process def: "A organ system process carried out at the level of a muscle. Muscle tissue is composed of contractile cells or fibers." [GOC:mtg_cardio] subset: goslim_drosophila subset: goslim_generic synonym: "muscle physiological process" RELATED [] is_a: GO:0003008 ! system process [Term] id: GO:0003013 name: circulatory system process namespace: biological_process def: "A organ system process carried out by any of the organs or tissues of the circulatory system. The circulatory system is an organ system that moves extracellular fluids to and from tissue within a multicellular organism." [GOC:mtg_cardio] subset: goslim_chembl subset: goslim_generic xref: Wikipedia:Circulatory_system is_a: GO:0003008 ! system process [Term] id: GO:0003015 name: heart process namespace: biological_process def: "A circulatory system process carried out by the heart. The heart is a hollow, muscular organ, which, by contracting rhythmically, keeps up the circulation of the blood. The heart is a hollow, muscular organ, which, by contracting rhythmically, keeps up the circulation of the blood." [GOC:mtg_cardio] synonym: "cardiac process" RELATED [] is_a: GO:0003013 ! circulatory system process [Term] id: GO:0003016 name: respiratory system process namespace: biological_process alt_id: GO:0010802 def: "A process carried out by the organs or tissues of the respiratory system. The respiratory system is an organ system responsible for respiratory gaseous exchange." [GOC:dph, GOC:mtg_cardio, GOC:tb] subset: goslim_generic synonym: "respiratory gaseous exchange" EXACT [] is_a: GO:0003008 ! system process relationship: part_of GO:0007585 ! respiratory gaseous exchange by respiratory system [Term] id: GO:0003133 name: endodermal-mesodermal cell signaling namespace: biological_process def: "Any process that mediates the transfer of information from endodermal cells to mesodermal cells." [GOC:mtg_heart] synonym: "endodermal-mesodermal cell signalling" EXACT [GOC:mah] is_a: GO:0007267 ! cell-cell signaling intersection_of: GO:0007267 ! cell-cell signaling intersection_of: has_end_location UBERON:0000926 ! mesoderm intersection_of: has_start_location UBERON:0000925 ! endoderm relationship: has_end_location UBERON:0000926 ! mesoderm relationship: has_start_location UBERON:0000925 ! endoderm created_by: tb creation_date: 2009-09-22T03:10:29Z [Term] id: GO:0003142 name: cardiogenic plate morphogenesis namespace: biological_process def: "The process in which the anatomical structures of the cardiogenic plate are generated and organized. The cardiogenic plate is the first recognizable structure derived from the heart field." [GOC:mtg_heart] synonym: "cardiac crescent morphogenesis" EXACT [GOC:mtg_heart] is_a: GO:0009653 ! anatomical structure morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0004139 ! cardiogenic plate relationship: part_of GO:0003007 ! heart morphogenesis relationship: results_in_morphogenesis_of UBERON:0004139 ! cardiogenic plate created_by: tb creation_date: 2009-09-22T04:12:18Z [Term] id: GO:0003143 name: embryonic heart tube morphogenesis namespace: biological_process def: "The process in which the anatomical structures of the embryonic heart tube are generated and organized. The embryonic heart tube is an epithelial tube that will give rise to the mature heart." [GOC:mtg_heart] is_a: GO:0048598 ! embryonic morphogenesis is_a: GO:0060562 ! epithelial tube morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0004141 ! heart tube relationship: part_of GO:0003007 ! heart morphogenesis relationship: part_of GO:0035050 ! embryonic heart tube development relationship: part_of GO:0048562 ! embryonic organ morphogenesis relationship: results_in_morphogenesis_of UBERON:0004141 ! heart tube created_by: tb creation_date: 2009-09-22T04:21:17Z [Term] id: GO:0003144 name: embryonic heart tube formation namespace: biological_process def: "The process that gives rise to the embryonic heart tube. This process pertains to the initial formation of a structure from unspecified parts. The embryonic heart tube is an epithelial tube that will give rise to the mature heart." [GOC:mtg_heart] is_a: GO:0001838 ! embryonic epithelial tube formation intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: results_in_formation_of UBERON:0004141 ! heart tube relationship: part_of GO:0003143 ! embryonic heart tube morphogenesis relationship: results_in_formation_of UBERON:0004141 ! heart tube created_by: tb creation_date: 2009-09-22T04:22:34Z [Term] id: GO:0003145 name: embryonic heart tube formation via epithelial folding namespace: biological_process def: "The process that gives rise to the embryonic heart tube by the cells of the heart field along a linear axis." [GOC:mtg_heart] is_a: GO:0003144 ! embryonic heart tube formation created_by: tb creation_date: 2009-09-22T04:26:03Z [Term] id: GO:0003148 name: outflow tract septum morphogenesis namespace: biological_process def: "The process in which the anatomical structures of the outflow tract septum are generated and organized. The outflow tract septum is a partition in the outflow tract." [GOC:mtg_heart] is_a: GO:0060411 ! cardiac septum morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0004142 ! outflow tract septum relationship: part_of GO:0003151 ! outflow tract morphogenesis relationship: results_in_morphogenesis_of UBERON:0004142 ! outflow tract septum created_by: tb creation_date: 2009-09-22T07:51:01Z [Term] id: GO:0003150 name: muscular septum morphogenesis namespace: biological_process def: "The process in which the muscular septum is generated and organized. The muscular septum is the lower part of the ventricular septum." [GOC:mtg_heart] is_a: GO:0060415 ! muscle tissue morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0004667 ! interventricular septum muscular part relationship: part_of GO:0060412 ! ventricular septum morphogenesis relationship: results_in_morphogenesis_of UBERON:0004667 ! interventricular septum muscular part created_by: tb creation_date: 2009-09-22T07:53:28Z [Term] id: GO:0003151 name: outflow tract morphogenesis namespace: biological_process def: "The process in which the anatomical structures of the outflow tract are generated and organized. The outflow tract is the portion of the heart through which blood flows into the arteries." [GOC:mtg_heart, UBERON:0004145] is_a: GO:0009653 ! anatomical structure morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0004145 ! outflow tract relationship: part_of GO:0003007 ! heart morphogenesis relationship: results_in_morphogenesis_of UBERON:0004145 ! outflow tract created_by: tb creation_date: 2009-09-22T07:59:24Z [Term] id: GO:0003152 name: morphogenesis of an epithelial fold involved in embryonic heart tube formation namespace: biological_process def: "The morphogenetic process in which an epithelial sheet bends along a linear axis, contributing to embryonic heart tube formation." [GOC:mtg_heart] is_a: GO:0048598 ! embryonic morphogenesis is_a: GO:0060571 ! morphogenesis of an epithelial fold intersection_of: GO:0060571 ! morphogenesis of an epithelial fold intersection_of: part_of GO:0003144 ! embryonic heart tube formation relationship: part_of GO:0003145 ! embryonic heart tube formation via epithelial folding created_by: tb creation_date: 2009-09-23T10:10:24Z [Term] id: GO:0003156 name: regulation of animal organ formation namespace: biological_process def: "Any process that modulates the rate, frequency or extent of animal organ formation. Organ formation is the process pertaining to the initial formation of an organ from unspecified parts. The process begins with the specific processes that contribute to the appearance of the discrete structure, such as inductive events, and ends when the structural rudiment of the organ is recognizable, such as a condensation of mesenchymal cells into the organ rudiment." [GOC:dph, GOC:mtg_heart, GOC:tb] is_a: GO:2000027 ! regulation of animal organ morphogenesis intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0048645 ! animal organ formation relationship: regulates GO:0048645 ! animal organ formation created_by: tb creation_date: 2009-09-30T11:21:09Z [Term] id: GO:0003157 name: endocardium development namespace: biological_process def: "The process whose specific outcome is the progression of the endocardium over time, from its formation to the mature structure. The endocardium is an anatomical structure comprised of an endothelium and an extracellular matrix that forms the innermost layer of tissue of the heart, and lines the heart chambers." [GOC:mtg_heart] is_a: GO:0048856 ! anatomical structure development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0002165 ! endocardium relationship: part_of GO:0007507 ! heart development relationship: results_in_development_of UBERON:0002165 ! endocardium created_by: dph creation_date: 2009-10-01T12:42:27Z [Term] id: GO:0003158 name: endothelium development namespace: biological_process def: "The process whose specific outcome is the progression of an endothelium over time, from its formation to the mature structure. Endothelium refers to the layer of cells lining blood vessels, lymphatics, the heart, and serous cavities, and is derived from bone marrow or mesoderm. Corneal endothelium is a special case, derived from neural crest cells." [GOC:mtg_heart] is_a: GO:0060429 ! epithelium development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0001986 ! endothelium relationship: results_in_development_of UBERON:0001986 ! endothelium created_by: dph creation_date: 2009-10-01T12:50:57Z [Term] id: GO:0003159 name: morphogenesis of an endothelium namespace: biological_process def: "The process in which the anatomical structure of an endothelium is generated and organized. Endothelium refers to the layer of cells lining blood vessels, lymphatics, the heart, and serous cavities, and is derived from bone marrow or mesoderm. Corneal endothelium is a special case, derived from neural crest cells." [GOC:mtg_heart] is_a: GO:0002009 ! morphogenesis of an epithelium intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0001986 ! endothelium relationship: part_of GO:0003158 ! endothelium development relationship: results_in_morphogenesis_of UBERON:0001986 ! endothelium created_by: dph creation_date: 2009-10-01T01:34:06Z [Term] id: GO:0003160 name: endocardium morphogenesis namespace: biological_process def: "The process in which the anatomical structure of the endocardium is generated and organized. The endocardium is an anatomical structure comprised of an endothelium and an extracellular matrix that forms the innermost layer of tissue of the heart, and lines the heart chambers." [GOC:mtg_heart] is_a: GO:0009653 ! anatomical structure morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0002165 ! endocardium relationship: part_of GO:0003157 ! endocardium development relationship: results_in_morphogenesis_of UBERON:0002165 ! endocardium created_by: dph creation_date: 2009-10-01T01:37:26Z [Term] id: GO:0003161 name: cardiac conduction system development namespace: biological_process def: "The process whose specific outcome is the progression of the cardiac conduction system over time, from its formation to the mature structure. The cardiac conduction system consists of specialized cardiomyocytes that regulate the frequency of heart beat." [GOC:mtg_heart] synonym: "cardiac impulse conducting system development" EXACT [GOC:mtg_heart] synonym: "heart conduction system development" EXACT [GOC:mtg_heart] is_a: GO:0048738 ! cardiac muscle tissue development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0002350 ! conducting system of heart relationship: results_in_development_of UBERON:0002350 ! conducting system of heart created_by: dph creation_date: 2009-10-01T01:57:16Z [Term] id: GO:0003162 name: atrioventricular node development namespace: biological_process def: "The process whose specific outcome is the progression of the atrioventricular (AV) node over time, from its formation to the mature structure. The AV node is part of the cardiac conduction system that controls the timing of ventricle contraction by receiving electrical signals from the sinoatrial (SA) node and relaying them to the His-Purkinje system." [GOC:mtg_heart] synonym: "AV node development" EXACT [GOC:mtg_heart] is_a: GO:0048738 ! cardiac muscle tissue development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0002352 ! atrioventricular node relationship: part_of GO:0003161 ! cardiac conduction system development relationship: results_in_development_of UBERON:0002352 ! atrioventricular node created_by: dph creation_date: 2009-10-01T02:05:13Z [Term] id: GO:0003163 name: sinoatrial node development namespace: biological_process def: "The process whose specific outcome is the progression of the sinoatrial (SA) node over time, from its formation to the mature structure. The SA node is part of the cardiac conduction system that controls the timing of heart muscle contraction. It relays electrical signals to the AV node." [GOC:mtg_heart] synonym: "SA node development" EXACT [GOC:mtg_heart] synonym: "SAN development" EXACT [GOC:BHF, GOC:mtg_cardiac_conduct_nov11] synonym: "sinus node development" NARROW [GOC:BHF, GOC:mtg_cardiac_conduct_nov11] is_a: GO:0003228 ! atrial cardiac muscle tissue development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0002351 ! sinoatrial node relationship: part_of GO:0003161 ! cardiac conduction system development relationship: results_in_development_of UBERON:0002351 ! sinoatrial node created_by: dph creation_date: 2009-10-01T02:06:09Z [Term] id: GO:0003164 name: His-Purkinje system development namespace: biological_process def: "The process whose specific outcome is the progression of the His-Purkinje system over time, from its formation to the mature structure. The His-Purkinje system receives signals from the AV node and is composed of the fibers that regulate cardiac muscle contraction in the ventricles." [GOC:mtg_heart] is_a: GO:0003229 ! ventricular cardiac muscle tissue development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0004146 ! His-Purkinje system relationship: part_of GO:0003161 ! cardiac conduction system development relationship: results_in_development_of UBERON:0004146 ! His-Purkinje system created_by: dph creation_date: 2009-10-01T02:07:12Z [Term] id: GO:0003165 name: Purkinje myocyte development namespace: biological_process def: "The process whose specific outcome is the progression of a Purkinje myocyte over time, from its formation to the mature structure. The Purkinje myocyte (also known as cardiac Purkinje fiber) is part of the cardiac conduction system that receives signals from the bundle of His and innervates the ventricular cardiac muscle." [GOC:mtg_cardiac_conduct_nov11, GOC:mtg_heart] synonym: "cardiac Purkinje fiber development" EXACT [] is_a: GO:0003229 ! ventricular cardiac muscle tissue development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0002354 ! cardiac Purkinje fiber relationship: part_of GO:0003164 ! His-Purkinje system development relationship: results_in_development_of UBERON:0002354 ! cardiac Purkinje fiber created_by: dph creation_date: 2009-10-01T02:07:50Z [Term] id: GO:0003168 name: Purkinje myocyte differentiation namespace: biological_process def: "The process in which a relatively unspecialized cell acquires the specialized structural and/or functional features of a Purkinje myocyte (also known as cardiac Purkinje fiber cell). These cells are specialized cardiomyocytes that receive signals from the bundle of His and innervate the ventricular cardiac muscle." [GOC:mtg_cardiac_conduct_nov11, GOC:mtg_heart] synonym: "cardiac Purkinje fiber cell differentiation" EXACT [] is_a: GO:0060932 ! His-Purkinje system cell differentiation intersection_of: GO:0030154 ! cell differentiation intersection_of: results_in_acquisition_of_features_of CL:0002068 ! Purkinje myocyte relationship: part_of GO:0003165 ! Purkinje myocyte development relationship: results_in_acquisition_of_features_of CL:0002068 ! Purkinje myocyte created_by: dph creation_date: 2009-10-01T02:49:54Z [Term] id: GO:0003169 name: coronary vein morphogenesis namespace: biological_process def: "The process in which the anatomical structures of veins of the heart are generated and organized." [GOC:mtg_heart] is_a: GO:0048845 ! venous blood vessel morphogenesis is_a: GO:0060977 ! coronary vasculature morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0004148 ! cardiac vein relationship: results_in_morphogenesis_of UBERON:0004148 ! cardiac vein created_by: dph creation_date: 2009-10-08T10:45:41Z [Term] id: GO:0003197 name: endocardial cushion development namespace: biological_process def: "The progression of a cardiac cushion over time, from its initial formation to the mature structure. The endocardial cushion is a specialized region of mesenchymal cells that will give rise to the heart septa and valves." [GOC:mtg_heart] is_a: GO:0060485 ! mesenchyme development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0002062 ! endocardial cushion relationship: part_of GO:0007507 ! heart development relationship: results_in_development_of UBERON:0002062 ! endocardial cushion created_by: dph creation_date: 2009-10-08T01:17:43Z [Term] id: GO:0003203 name: endocardial cushion morphogenesis namespace: biological_process def: "The process in which the anatomical structure of the endocardial cushion is generated and organized. The endocardial cushion is a specialized region of mesenchymal cells that will give rise to the heart septa and valves." [GOC:mtg_heart] is_a: GO:0072132 ! mesenchyme morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0002062 ! endocardial cushion relationship: part_of GO:0003007 ! heart morphogenesis relationship: part_of GO:0003197 ! endocardial cushion development relationship: results_in_morphogenesis_of UBERON:0002062 ! endocardial cushion created_by: dph creation_date: 2009-10-08T01:43:22Z [Term] id: GO:0003204 name: cardiac skeleton development namespace: biological_process def: "The progression of the cardiac skeleton over time, from its formation to the mature structure. The cardiac skeleton is a specialized extracellular matrix that separates the atria from the ventricles and provides physical support for the heart." [GOC:mtg_heart] synonym: "heart fibrous skeleton development" EXACT [GOC:mtg_heart] is_a: GO:0061448 ! connective tissue development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0004292 ! cardiac skeleton relationship: part_of GO:0007507 ! heart development relationship: results_in_development_of UBERON:0004292 ! cardiac skeleton created_by: dph creation_date: 2009-10-13T09:05:04Z [Term] id: GO:0003205 name: cardiac chamber development namespace: biological_process def: "The progression of a cardiac chamber over time, from its formation to the mature structure. A cardiac chamber is an enclosed cavity within the heart." [GOC:mtg_heart] is_a: GO:0048856 ! anatomical structure development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0004151 ! cardiac chamber relationship: part_of GO:0007507 ! heart development relationship: results_in_development_of UBERON:0004151 ! cardiac chamber created_by: dph creation_date: 2009-10-13T09:11:18Z [Term] id: GO:0003206 name: cardiac chamber morphogenesis namespace: biological_process def: "The process in which a cardiac chamber is generated and organized. A cardiac chamber is an enclosed cavity within the heart." [GOC:mtg_heart] synonym: "heart chamber morphogenesis" EXACT [GOC:mtg_heart] is_a: GO:0009653 ! anatomical structure morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0004151 ! cardiac chamber relationship: part_of GO:0003007 ! heart morphogenesis relationship: part_of GO:0003205 ! cardiac chamber development relationship: results_in_morphogenesis_of UBERON:0004151 ! cardiac chamber created_by: dph creation_date: 2009-10-13T09:14:51Z [Term] id: GO:0003207 name: cardiac chamber formation namespace: biological_process def: "The developmental process pertaining to the initial formation of a cardiac chamber from unspecified parts. A cardiac chamber is an enclosed cavity within the heart." [GOC:mtg_heart] synonym: "heart chamber formation" EXACT [GOC:mtg_heart] is_a: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: results_in_formation_of UBERON:0004151 ! cardiac chamber relationship: part_of GO:0003206 ! cardiac chamber morphogenesis relationship: results_in_formation_of UBERON:0004151 ! cardiac chamber created_by: dph creation_date: 2009-10-13T09:29:13Z [Term] id: GO:0003208 name: cardiac ventricle morphogenesis namespace: biological_process def: "The process in which the cardiac ventricle is generated and organized. A cardiac ventricle receives blood from a cardiac atrium and pumps it out of the heart." [GOC:mtg_heart] is_a: GO:0003206 ! cardiac chamber morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0002082 ! cardiac ventricle relationship: part_of GO:0003231 ! cardiac ventricle development relationship: results_in_morphogenesis_of UBERON:0002082 ! cardiac ventricle created_by: dph creation_date: 2009-10-13T09:38:44Z [Term] id: GO:0003209 name: cardiac atrium morphogenesis namespace: biological_process def: "The process in which the cardiac atrium is generated and organized. A cardiac atrium receives blood from a vein and pumps it to a cardiac ventricle." [GOC:mtg_heart] is_a: GO:0003206 ! cardiac chamber morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0002081 ! cardiac atrium relationship: part_of GO:0003230 ! cardiac atrium development relationship: results_in_morphogenesis_of UBERON:0002081 ! cardiac atrium created_by: dph creation_date: 2009-10-13T09:39:44Z [Term] id: GO:0003210 name: cardiac atrium formation namespace: biological_process def: "The developmental process pertaining to the initial formation of a cardiac atrium from unspecified parts. A cardiac atrium receives blood from a vein and pumps it to a cardiac ventricle." [GOC:mtg_heart] is_a: GO:0003207 ! cardiac chamber formation intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: results_in_formation_of UBERON:0002081 ! cardiac atrium relationship: part_of GO:0003209 ! cardiac atrium morphogenesis relationship: results_in_formation_of UBERON:0002081 ! cardiac atrium created_by: dph creation_date: 2009-10-13T09:44:25Z [Term] id: GO:0003211 name: cardiac ventricle formation namespace: biological_process def: "The developmental process pertaining to the initial formation of a cardiac ventricle from unspecified parts. A cardiac ventricle receives blood from a cardiac atrium and pumps it out of the heart." [GOC:mtg_heart] is_a: GO:0003207 ! cardiac chamber formation intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: results_in_formation_of UBERON:0002082 ! cardiac ventricle relationship: part_of GO:0003208 ! cardiac ventricle morphogenesis relationship: results_in_formation_of UBERON:0002082 ! cardiac ventricle created_by: dph creation_date: 2009-10-13T09:46:27Z [Term] id: GO:0003212 name: cardiac left atrium morphogenesis namespace: biological_process def: "The process in which the left cardiac atrium is generated and organized." [GOC:mtg_heart] is_a: GO:0003209 ! cardiac atrium morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0002079 ! left cardiac atrium relationship: results_in_morphogenesis_of UBERON:0002079 ! left cardiac atrium created_by: dph creation_date: 2009-10-13T09:48:16Z [Term] id: GO:0003213 name: cardiac right atrium morphogenesis namespace: biological_process def: "The process in which the right cardiac atrium is generated and organized." [GOC:mtg_heart] is_a: GO:0003209 ! cardiac atrium morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0002078 ! right cardiac atrium relationship: results_in_morphogenesis_of UBERON:0002078 ! right cardiac atrium created_by: dph creation_date: 2009-10-13T09:49:03Z [Term] id: GO:0003214 name: cardiac left ventricle morphogenesis namespace: biological_process def: "The process in which the left cardiac ventricle is generated and organized." [GOC:mtg_heart] is_a: GO:0003208 ! cardiac ventricle morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0002084 ! heart left ventricle relationship: results_in_morphogenesis_of UBERON:0002084 ! heart left ventricle created_by: dph creation_date: 2009-10-13T09:50:08Z [Term] id: GO:0003215 name: cardiac right ventricle morphogenesis namespace: biological_process def: "The process in which the right cardiac ventricle is generated and organized." [GOC:mtg_heart] is_a: GO:0003208 ! cardiac ventricle morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0002080 ! heart right ventricle relationship: results_in_morphogenesis_of UBERON:0002080 ! heart right ventricle created_by: dph creation_date: 2009-10-13T09:50:57Z [Term] id: GO:0003216 name: cardiac left atrium formation namespace: biological_process def: "The developmental process pertaining to the initial formation of a left cardiac atrium from unspecified parts." [GOC:mtg_heart] is_a: GO:0003210 ! cardiac atrium formation intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: results_in_formation_of UBERON:0002079 ! left cardiac atrium relationship: part_of GO:0003212 ! cardiac left atrium morphogenesis relationship: results_in_formation_of UBERON:0002079 ! left cardiac atrium created_by: dph creation_date: 2009-10-13T09:52:31Z [Term] id: GO:0003217 name: cardiac right atrium formation namespace: biological_process def: "The developmental process pertaining to the initial formation of a cardiac right atrium from unspecified parts." [GOC:mtg_heart] is_a: GO:0003210 ! cardiac atrium formation intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: results_in_formation_of UBERON:0002078 ! right cardiac atrium relationship: part_of GO:0003213 ! cardiac right atrium morphogenesis relationship: results_in_formation_of UBERON:0002078 ! right cardiac atrium created_by: dph creation_date: 2009-10-13T09:53:12Z [Term] id: GO:0003218 name: cardiac left ventricle formation namespace: biological_process def: "The developmental process pertaining to the initial formation of a left cardiac ventricle from unspecified parts." [GOC:mtg_heart] is_a: GO:0003211 ! cardiac ventricle formation intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: results_in_formation_of UBERON:0002084 ! heart left ventricle relationship: part_of GO:0003214 ! cardiac left ventricle morphogenesis relationship: results_in_formation_of UBERON:0002084 ! heart left ventricle created_by: dph creation_date: 2009-10-13T09:54:33Z [Term] id: GO:0003219 name: cardiac right ventricle formation namespace: biological_process def: "The developmental process pertaining to the initial formation of a right cardiac ventricle from unspecified parts." [GOC:mtg_heart] is_a: GO:0003211 ! cardiac ventricle formation intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: results_in_formation_of UBERON:0002080 ! heart right ventricle relationship: part_of GO:0003215 ! cardiac right ventricle morphogenesis relationship: results_in_formation_of UBERON:0002080 ! heart right ventricle created_by: dph creation_date: 2009-10-13T09:55:38Z [Term] id: GO:0003220 name: left ventricular cardiac muscle tissue morphogenesis namespace: biological_process def: "The process in which the anatomical structures of left cardiac ventricle muscle are generated and organized." [GOC:mtg_heart] synonym: "left ventricular myocardium morphogenesis" EXACT [GOC:mtg_heart] is_a: GO:0055010 ! ventricular cardiac muscle tissue morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0003382 ! cardiac muscle of left ventricle relationship: part_of GO:0003214 ! cardiac left ventricle morphogenesis relationship: results_in_morphogenesis_of UBERON:0003382 ! cardiac muscle of left ventricle created_by: dph creation_date: 2009-10-13T10:18:05Z [Term] id: GO:0003221 name: right ventricular cardiac muscle tissue morphogenesis namespace: biological_process def: "The process in which the anatomical structures of the right cardiac ventricle muscle are generated and organized." [GOC:mtg_heart] synonym: "right ventricle myocardium morphogenesis" EXACT [GOC:mtg_heart] is_a: GO:0055010 ! ventricular cardiac muscle tissue morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0003381 ! cardiac muscle of right ventricle relationship: part_of GO:0003215 ! cardiac right ventricle morphogenesis relationship: results_in_morphogenesis_of UBERON:0003381 ! cardiac muscle of right ventricle created_by: dph creation_date: 2009-10-13T10:26:33Z [Term] id: GO:0003228 name: atrial cardiac muscle tissue development namespace: biological_process def: "The process whose specific outcome is the progression of cardiac muscle of the atrium over time, from its formation to the mature structure." [GOC:mtg_heart] synonym: "atrial myocardium development" EXACT [GOC:mtg_heart] is_a: GO:0048738 ! cardiac muscle tissue development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0004490 ! cardiac muscle tissue of atrium relationship: results_in_development_of UBERON:0004490 ! cardiac muscle tissue of atrium property_value: IAO:0000233 https://github.com/geneontology/go-ontology/issues/22614 xsd:anyURI created_by: dph creation_date: 2009-10-13T10:53:18Z [Term] id: GO:0003229 name: ventricular cardiac muscle tissue development namespace: biological_process def: "The process whose specific outcome is the progression of ventricular cardiac muscle over time, from its formation to the mature structure." [GOC:mtg_heart] synonym: "ventricular myocardium development" EXACT [GOC:mtg_heart] is_a: GO:0048738 ! cardiac muscle tissue development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0018649 ! cardiac muscle tissue of ventricle relationship: results_in_development_of UBERON:0018649 ! cardiac muscle tissue of ventricle created_by: dph creation_date: 2009-10-13T10:56:01Z [Term] id: GO:0003230 name: cardiac atrium development namespace: biological_process def: "The process whose specific outcome is the progression of a cardiac atrium over time, from its formation to the mature structure. A cardiac atrium receives blood from a vein and pumps it to a cardiac ventricle." [GOC:mtg_heart] is_a: GO:0003205 ! cardiac chamber development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0002081 ! cardiac atrium relationship: results_in_development_of UBERON:0002081 ! cardiac atrium created_by: dph creation_date: 2009-10-13T11:02:07Z [Term] id: GO:0003231 name: cardiac ventricle development namespace: biological_process def: "The process whose specific outcome is the progression of a cardiac ventricle over time, from its formation to the mature structure. A cardiac ventricle receives blood from a cardiac atrium and pumps it out of the heart." [GOC:mtg_heart] is_a: GO:0003205 ! cardiac chamber development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0002082 ! cardiac ventricle relationship: results_in_development_of UBERON:0002082 ! cardiac ventricle created_by: dph creation_date: 2009-10-13T11:03:16Z [Term] id: GO:0003235 name: sinus venosus development namespace: biological_process def: "The progression of the sinus venosus over time, from its formation to the mature structure. The sinus venosus is a heart chamber attached to the atrium on the venous side of the embryonic heart." [GOC:mtg_heart] is_a: GO:0003205 ! cardiac chamber development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0002063 ! sinus venosus relationship: results_in_development_of UBERON:0002063 ! sinus venosus created_by: dph creation_date: 2009-10-13T11:12:34Z [Term] id: GO:0003236 name: sinus venosus morphogenesis namespace: biological_process def: "The process in which the sinus venosus is generated and organized. The sinus venosus is a heart chamber attached to the atrium on the venous side of the embryonic heart." [GOC:mtg_heart] is_a: GO:0003206 ! cardiac chamber morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0002063 ! sinus venosus relationship: part_of GO:0003235 ! sinus venosus development relationship: results_in_morphogenesis_of UBERON:0002063 ! sinus venosus created_by: dph creation_date: 2009-10-13T11:16:52Z [Term] id: GO:0003237 name: sinus venosus formation namespace: biological_process def: "The developmental process pertaining to the initial formation of the sinus venosus from unspecified parts. The sinus venosus is a heart chamber attached to the atrium on the venous side of the embryonic heart." [GOC:mtg_heart] is_a: GO:0003207 ! cardiac chamber formation intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: results_in_formation_of UBERON:0002063 ! sinus venosus relationship: part_of GO:0003236 ! sinus venosus morphogenesis relationship: results_in_formation_of UBERON:0002063 ! sinus venosus created_by: dph creation_date: 2009-10-13T11:18:34Z [Term] id: GO:0003241 name: growth involved in heart morphogenesis namespace: biological_process def: "Developmental growth that contributes to the shaping of the heart." [GOC:mtg_heart] is_a: GO:0060560 ! developmental growth involved in morphogenesis intersection_of: GO:0040007 ! growth intersection_of: part_of GO:0003007 ! heart morphogenesis relationship: part_of GO:0003007 ! heart morphogenesis relationship: part_of GO:0060419 ! heart growth created_by: dph creation_date: 2009-10-13T11:28:46Z [Term] id: GO:0003245 name: cardiac muscle tissue growth involved in heart morphogenesis namespace: biological_process def: "The developmental growth of cardiac muscle tissue that contributes to the shaping of the heart." [GOC:mtg_heart] is_a: GO:0003241 ! growth involved in heart morphogenesis is_a: GO:0055017 ! cardiac muscle tissue growth intersection_of: GO:0055017 ! cardiac muscle tissue growth intersection_of: part_of GO:0003007 ! heart morphogenesis relationship: part_of GO:0055008 ! cardiac muscle tissue morphogenesis created_by: dph creation_date: 2009-10-13T11:44:21Z [Term] id: GO:0003248 name: heart capillary growth namespace: biological_process def: "The increase in heart capillaries that accompanies physiological hypertrophy of cardiac muscle." [GOC:mtg_heart] is_a: GO:0048589 ! developmental growth intersection_of: GO:0048589 ! developmental growth intersection_of: results_in_growth_of UBERON:0006966 ! coronary capillary relationship: part_of GO:0060419 ! heart growth relationship: part_of GO:0060976 ! coronary vasculature development relationship: results_in_growth_of UBERON:0006966 ! coronary capillary created_by: dph creation_date: 2009-10-13T11:53:12Z [Term] id: GO:0003272 name: endocardial cushion formation namespace: biological_process def: "The developmental process pertaining to the initial formation of an endocardial cushion. The endocardial cushion is a specialized region of mesenchymal cells that will give rise to the heart septa and valves." [GOC:mtg_heart, PMID:15797462] is_a: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: results_in_formation_of UBERON:0002062 ! endocardial cushion relationship: part_of GO:0003203 ! endocardial cushion morphogenesis relationship: results_in_formation_of UBERON:0002062 ! endocardial cushion created_by: dph creation_date: 2009-10-20T08:53:19Z [Term] id: GO:0003273 name: cell migration involved in endocardial cushion formation namespace: biological_process def: "The orderly movement of a cell from one site to another that will contribute to the formation of an endocardial cushion. The endocardial cushion is a specialized region of mesenchymal cells that will give rise to the heart septa and valves." [GOC:mtg_heart] is_a: GO:0060973 ! cell migration involved in heart development intersection_of: GO:0016477 ! cell migration intersection_of: part_of GO:0003272 ! endocardial cushion formation relationship: part_of GO:0003272 ! endocardial cushion formation created_by: dph creation_date: 2009-10-20T09:08:44Z [Term] id: GO:0003275 name: apoptotic process involved in outflow tract morphogenesis namespace: biological_process def: "Any apoptotic process that contributes to the shaping of the outflow tract. The outflow tract is the portion of the heart through which blood flows into the arteries." [GOC:mtg_apoptosis, GOC:mtg_heart] synonym: "apoptosis involved in outflow tract morphogenesis" NARROW [] is_a: GO:0003278 ! apoptotic process involved in heart morphogenesis intersection_of: GO:0006915 ! apoptotic process intersection_of: part_of GO:0003151 ! outflow tract morphogenesis relationship: part_of GO:0003151 ! outflow tract morphogenesis created_by: dph creation_date: 2009-10-20T09:30:01Z [Term] id: GO:0003277 name: apoptotic process involved in endocardial cushion morphogenesis namespace: biological_process def: "Any apoptotic process that contributes to the shaping of an endocardial cushion. The endocardial cushion is a specialized region of mesenchymal cells that will give rise to the heart septa and valves." [GOC:mtg_apoptosis, GOC:mtg_heart] synonym: "apoptosis involved in endocardial cushion morphogenesis" NARROW [] is_a: GO:0003278 ! apoptotic process involved in heart morphogenesis intersection_of: GO:0006915 ! apoptotic process intersection_of: part_of GO:0003203 ! endocardial cushion morphogenesis relationship: part_of GO:0003203 ! endocardial cushion morphogenesis created_by: dph creation_date: 2009-10-20T09:37:03Z [Term] id: GO:0003278 name: apoptotic process involved in heart morphogenesis namespace: biological_process def: "Any apoptotic process that contributes to the shaping of the heart." [GOC:mtg_apoptosis, GOC:mtg_heart] synonym: "apoptosis involved in heart morphogenesis" NARROW [] is_a: GO:0060561 ! apoptotic process involved in morphogenesis intersection_of: GO:0006915 ! apoptotic process intersection_of: part_of GO:0003007 ! heart morphogenesis relationship: part_of GO:0003007 ! heart morphogenesis created_by: dph creation_date: 2009-10-20T09:40:22Z [Term] id: GO:0003279 name: cardiac septum development namespace: biological_process def: "The progression of a cardiac septum over time, from its initial formation to the mature structure." [GOC:mtg_heart] synonym: "heart septum development" EXACT [GOC:mtg_heart] is_a: GO:0048856 ! anatomical structure development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0002099 ! cardiac septum relationship: part_of GO:0003205 ! cardiac chamber development relationship: results_in_development_of UBERON:0002099 ! cardiac septum created_by: dph creation_date: 2009-10-20T09:45:13Z [Term] id: GO:0003281 name: ventricular septum development namespace: biological_process def: "The progression of the ventricular septum over time from its formation to the mature structure." [GOC:mtg_heart] synonym: "interventricular septum development" EXACT [GOC:mtg_heart] synonym: "septum inferius development" NARROW [GOC:mtg_heart] is_a: GO:0003279 ! cardiac septum development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0002094 ! interventricular septum relationship: part_of GO:0003231 ! cardiac ventricle development relationship: results_in_development_of UBERON:0002094 ! interventricular septum created_by: dph creation_date: 2009-10-20T10:04:51Z [Term] id: GO:0003283 name: atrial septum development namespace: biological_process def: "The progression of the atrial septum over time, from its initial formation to the mature structure." [GOC:mtg_heart] is_a: GO:0003279 ! cardiac septum development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0002085 ! interatrial septum relationship: part_of GO:0003230 ! cardiac atrium development relationship: results_in_development_of UBERON:0002085 ! interatrial septum created_by: dph creation_date: 2009-10-20T10:10:38Z [Term] id: GO:0003292 name: cardiac septum cell differentiation namespace: biological_process def: "The process in which an endocardial cushion cell becomes a cell of a cardiac septum." [GOC:mtg_heart] is_a: GO:0035051 ! cardiocyte differentiation intersection_of: GO:0030154 ! cell differentiation intersection_of: results_in_acquisition_of_features_of CL:2000022 ! cardiac septum cell relationship: part_of GO:0003279 ! cardiac septum development relationship: results_in_acquisition_of_features_of CL:2000022 ! cardiac septum cell created_by: dph creation_date: 2009-10-20T11:03:46Z [Term] id: GO:0003298 name: physiological muscle hypertrophy namespace: biological_process def: "The enlargement or overgrowth of all or part of a muscle organ or tissue due to an increase in the size of its muscle cells. Physiological hypertrophy is a normal process during development." [GOC:mtg_heart] is_a: GO:0014896 ! muscle hypertrophy created_by: dph creation_date: 2009-10-22T09:24:51Z [Term] id: GO:0003300 name: cardiac muscle hypertrophy namespace: biological_process def: "The enlargement or overgrowth of all or part of the heart muscle due to an increase in size of cardiac muscle cells without cell division." [GOC:mtg_heart] is_a: GO:0014897 ! striated muscle hypertrophy created_by: dph creation_date: 2009-10-22T10:33:56Z [Term] id: GO:0003301 name: physiological cardiac muscle hypertrophy namespace: biological_process def: "The enlargement or overgrowth of all or part of the heart muscle due to an increase in size of cardiac muscle cells without cell division. This process contributes to the developmental growth of the heart." [GOC:BHF, GOC:mtg_cardiac_conduct_nov11, GOC:mtg_heart] is_a: GO:0003298 ! physiological muscle hypertrophy is_a: GO:0003300 ! cardiac muscle hypertrophy relationship: part_of GO:0055017 ! cardiac muscle tissue growth created_by: dph creation_date: 2009-10-22T10:38:10Z [Term] id: GO:0003313 name: heart rudiment development namespace: biological_process def: "The progression of the heart rudiment over time, from its initial formation to the mature structure. The heart rudiment is a cone-like structure that is formed when myocardial progenitor cells of the heart field fuse at the midline. The heart rudiment is the first structure of the heart tube." [GOC:mtg_heart] synonym: "heart cone development" EXACT [GOC:mtg_heart] is_a: GO:0060429 ! epithelium development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0004291 ! heart rudiment relationship: part_of GO:0035050 ! embryonic heart tube development relationship: results_in_development_of UBERON:0004291 ! heart rudiment created_by: dph creation_date: 2009-10-27T08:32:40Z [Term] id: GO:0003314 name: heart rudiment morphogenesis namespace: biological_process def: "The process in which the anatomical structures of the heart rudiment are generated and organized." [GOC:mtg_heart] synonym: "heart cone morphogenesis" EXACT [GOC:mtg_heart] is_a: GO:0002009 ! morphogenesis of an epithelium is_a: GO:0048598 ! embryonic morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0004291 ! heart rudiment relationship: part_of GO:0003313 ! heart rudiment development relationship: results_in_morphogenesis_of UBERON:0004291 ! heart rudiment created_by: dph creation_date: 2009-10-27T08:38:04Z [Term] id: GO:0003315 name: heart rudiment formation namespace: biological_process def: "The developmental process pertaining to the initial formation of the heart rudiment." [GOC:mtg_heart] synonym: "heart cone formation" EXACT [GOC:mtg_heart] is_a: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: results_in_formation_of UBERON:0004291 ! heart rudiment relationship: part_of GO:0003314 ! heart rudiment morphogenesis relationship: results_in_formation_of UBERON:0004291 ! heart rudiment created_by: dph creation_date: 2009-10-27T08:43:37Z [Term] id: GO:0003342 name: proepicardium development namespace: biological_process def: "The progression of the proepicardium from its formation to the mature structure. The proepicardium is an outpouching of the septum transversum." [GOC:dph, PMID:18722343] is_a: GO:0060485 ! mesenchyme development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0004160 ! proepicardium relationship: part_of GO:0003343 ! septum transversum development relationship: results_in_development_of UBERON:0004160 ! proepicardium created_by: dph creation_date: 2009-12-01T10:30:17Z [Term] id: GO:0003343 name: septum transversum development namespace: biological_process def: "The progression of the septum transversum from its initial formation to the mature structure. The septum transversum is a portion of the trunk mesenchyme." [GOC:dph, PMID:18722343] is_a: GO:0060485 ! mesenchyme development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0004161 ! septum transversum relationship: results_in_development_of UBERON:0004161 ! septum transversum created_by: dph creation_date: 2009-12-01T10:40:17Z [Term] id: GO:0003344 name: pericardium morphogenesis namespace: biological_process def: "The process in which the anatomical structure of the pericardium is generated and organized." [GOC:dph, PMID:18722343] is_a: GO:0002011 ! morphogenesis of an epithelial sheet is_a: GO:0048598 ! embryonic morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0002407 ! pericardium relationship: part_of GO:0060039 ! pericardium development relationship: results_in_morphogenesis_of UBERON:0002407 ! pericardium created_by: dph creation_date: 2009-12-01T10:46:34Z [Term] id: GO:0003348 name: cardiac endothelial cell differentiation namespace: biological_process def: "The process in which a relatively unspecialized cell acquires the specialized structural and/or functional features of a cardiac endothelial cell." [GOC:dph, PMID:18722343] is_a: GO:0035051 ! cardiocyte differentiation is_a: GO:0045446 ! endothelial cell differentiation intersection_of: GO:0030154 ! cell differentiation intersection_of: results_in_acquisition_of_features_of CL:0010008 ! cardiac endothelial cell relationship: results_in_acquisition_of_features_of CL:0010008 ! cardiac endothelial cell created_by: dph creation_date: 2009-12-01T11:12:05Z [Term] id: GO:0003360 name: brainstem development namespace: biological_process def: "The progression of the brainstem from its formation to the mature structure. The brainstem is the part of the brain that connects the brain with the spinal cord." [GOC:dph] is_a: GO:0048856 ! anatomical structure development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0002298 ! brainstem relationship: results_in_development_of UBERON:0002298 ! brainstem created_by: dph creation_date: 2009-12-03T10:47:20Z [Term] id: GO:0003381 name: epithelial cell morphogenesis involved in gastrulation namespace: biological_process def: "The change in form that occurs when an epithelial cell progresses from it initial formation to its mature state, contributing to the process of gastrulation." [GOC:ascb_2009, GOC:dph, GOC:tb] is_a: GO:0003382 ! epithelial cell morphogenesis intersection_of: GO:0003382 ! epithelial cell morphogenesis intersection_of: part_of GO:0007369 ! gastrulation relationship: part_of GO:0007369 ! gastrulation created_by: dph creation_date: 2009-12-09T07:18:53Z [Term] id: GO:0003382 name: epithelial cell morphogenesis namespace: biological_process def: "The change in form that occurs when an epithelial cell progresses from its initial formation to its mature state." [GOC:ascb_2009, GOC:dph, GOC:tb] is_a: GO:0000904 ! cell morphogenesis involved in differentiation intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_maturation_of CL:0000066 ! epithelial cell relationship: part_of GO:0002064 ! epithelial cell development relationship: results_in_maturation_of CL:0000066 ! epithelial cell created_by: dph creation_date: 2009-12-09T07:21:06Z [Term] id: GO:0003403 name: optic vesicle formation namespace: biological_process def: "The developmental process pertaining to the initial formation of the optic vesicle from the lateral wall of the forebrain. This process begins with the specific processes that contribute to the appearance of the vesicle and ends when the vesicle has evaginated. The optic vesicle is the evagination of neurectoderm that precedes formation of the optic cup." [GOC:ascb_2009, GOC:dph, GOC:tb] is_a: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: results_in_formation_of UBERON:0004128 ! optic vesicle relationship: part_of GO:0003404 ! optic vesicle morphogenesis relationship: part_of GO:0060900 ! embryonic camera-type eye formation relationship: results_in_formation_of UBERON:0004128 ! optic vesicle created_by: dph creation_date: 2009-12-21T01:42:37Z [Term] id: GO:0003404 name: optic vesicle morphogenesis namespace: biological_process def: "The developmental process pertaining to the formation and shaping of the optic vesicle. This process begins with the specific processes that contribute to the appearance of the vesicle and ends when the vesicle has evaginated. The optic vesicle is the evagination of neurectoderm that precedes formation of the optic cup." [GOC:ascb_2009, GOC:dph, GOC:tb] is_a: GO:0048598 ! embryonic morphogenesis is_a: GO:0048729 ! tissue morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0004128 ! optic vesicle relationship: part_of GO:0048596 ! embryonic camera-type eye morphogenesis relationship: results_in_morphogenesis_of UBERON:0004128 ! optic vesicle created_by: dph creation_date: 2009-12-21T01:54:34Z [Term] id: GO:0003407 name: neural retina development namespace: biological_process def: "The progression of the neural retina over time from its initial formation to the mature structure. The neural retina is the part of the retina that contains neurons and photoreceptor cells." [GOC:ascb_2009, GOC:dph, GOC:tb] is_a: GO:0048856 ! anatomical structure development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0003902 ! retinal neural layer relationship: part_of GO:0060041 ! retina development in camera-type eye relationship: results_in_development_of UBERON:0003902 ! retinal neural layer created_by: dph creation_date: 2009-12-21T02:15:14Z [Term] id: GO:0003411 name: cell motility involved in camera-type eye morphogenesis namespace: biological_process def: "Any process involved in the controlled self-propelled movement of a cell that results in translocation of the cell from one place to another and contributes to the physical shaping or formation of the camera-type eye." [GOC:ascb_2009, GOC:dph, GOC:tb] is_a: GO:0048870 ! cell motility intersection_of: GO:0048870 ! cell motility intersection_of: part_of GO:0048593 ! camera-type eye morphogenesis relationship: part_of GO:0048593 ! camera-type eye morphogenesis created_by: dph creation_date: 2009-12-21T03:04:27Z [Term] id: GO:0003413 name: chondrocyte differentiation involved in endochondral bone morphogenesis namespace: biological_process def: "The process in which a chondroblast acquires specialized structural and/or functional features of a chondrocyte that will contribute to the development of a bone. A chondrocyte is a polymorphic cell that forms cartilage." [GOC:ascb_2009, GOC:dph, GOC:tb] is_a: GO:0002062 ! chondrocyte differentiation intersection_of: GO:0002062 ! chondrocyte differentiation intersection_of: part_of GO:0060350 ! endochondral bone morphogenesis relationship: part_of GO:0060351 ! cartilage development involved in endochondral bone morphogenesis created_by: dph creation_date: 2009-12-22T08:39:58Z [Term] id: GO:0003414 name: chondrocyte morphogenesis involved in endochondral bone morphogenesis namespace: biological_process def: "The process in which the structures of a chondrocyte that will contribute to bone development are generated and organized." [GOC:ascb_2009, GOC:dph, GOC:tb] is_a: GO:0090171 ! chondrocyte morphogenesis intersection_of: GO:0090171 ! chondrocyte morphogenesis intersection_of: part_of GO:0060350 ! endochondral bone morphogenesis relationship: part_of GO:0003433 ! chondrocyte development involved in endochondral bone morphogenesis created_by: dph creation_date: 2009-12-22T08:42:55Z [Term] id: GO:0003416 name: endochondral bone growth namespace: biological_process def: "The increase in size or mass of an endochondral bone that contributes to the shaping of the bone." [GOC:ascb_2009, GOC:dph, GOC:tb] is_a: GO:0098868 ! bone growth intersection_of: GO:0048589 ! developmental growth intersection_of: results_in_growth_of UBERON:0002513 ! endochondral bone relationship: results_in_growth_of UBERON:0002513 ! endochondral bone created_by: dph creation_date: 2009-12-22T08:52:55Z [Term] id: GO:0003433 name: chondrocyte development involved in endochondral bone morphogenesis namespace: biological_process def: "The progression of a chondrocyte over time from after its commitment to its mature state where the chondrocyte will contribute to the shaping of an endochondral bone." [GOC:ascb_2009, GOC:dph, GOC:tb] is_a: GO:0002063 ! chondrocyte development intersection_of: GO:0002063 ! chondrocyte development intersection_of: part_of GO:0060350 ! endochondral bone morphogenesis relationship: part_of GO:0003413 ! chondrocyte differentiation involved in endochondral bone morphogenesis created_by: dph creation_date: 2009-12-22T12:42:44Z [Term] id: GO:0003674 name: molecular_function namespace: molecular_function alt_id: GO:0005554 def: "A molecular process that can be carried out by the action of a single macromolecular machine, usually via direct physical interactions with other molecular entities. Function in this sense denotes an action, or activity, that a gene product (or a complex) performs. These actions are described from two distinct but related perspectives: (1) biochemical activity, and (2) role as a component in a larger system/process." [GOC:pdt] comment: Note that, in addition to forming the root of the molecular function ontology, this term is recommended for use for the annotation of gene products whose molecular function is unknown. When this term is used for annotation, it indicates that no information was available about the molecular function of the gene product annotated as of the date the annotation was made; the evidence code 'no data' (ND), is used to indicate this. Despite its name, this is not a type of 'function' in the sense typically defined by upper ontologies such as Basic Formal Ontology (BFO). It is instead a BFO:process carried out by a single gene product or complex. subset: goslim_aspergillus subset: goslim_candida subset: goslim_chembl subset: goslim_metagenomics subset: goslim_pir subset: goslim_plant subset: goslim_yeast synonym: "molecular function" EXACT [] is_a: BFO:0000015 ! process disjoint_from: GO:0005575 ! cellular_component disjoint_from: GO:0008150 ! biological_process property_value: IAO:0000589 "molecular process" xsd:string property_value: isDefinedBy http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0003676 name: nucleic acid binding namespace: molecular_function alt_id: GO:0000496 def: "Binding to a nucleic acid." [GOC:jl] subset: goslim_chembl subset: goslim_metagenomics subset: goslim_pir subset: goslim_plant synonym: "base pairing" NARROW [] is_a: GO:0097159 ! organic cyclic compound binding is_a: GO:1901363 ! heterocyclic compound binding intersection_of: GO:0005488 ! binding intersection_of: has_input CHEBI:33696 ! nucleic acid relationship: has_input CHEBI:33696 ! nucleic acid [Term] id: GO:0003677 name: DNA binding namespace: molecular_function alt_id: GO:0043566 def: "Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid)." [GOC:dph, GOC:jl, GOC:tb, GOC:vw] subset: goslim_agr subset: goslim_aspergillus subset: goslim_candida subset: goslim_chembl subset: goslim_drosophila subset: goslim_flybase_ribbon subset: goslim_generic subset: goslim_mouse subset: goslim_plant subset: goslim_yeast synonym: "microtubule/chromatin interaction" RELATED [] synonym: "plasmid binding" NARROW [] synonym: "structure specific DNA binding" RELATED [] synonym: "structure-specific DNA binding" RELATED [] is_a: GO:0003676 ! nucleic acid binding intersection_of: GO:0005488 ! binding intersection_of: has_input CHEBI:16991 ! deoxyribonucleic acid relationship: has_input CHEBI:16991 ! deoxyribonucleic acid [Term] id: GO:0003682 name: chromatin binding namespace: molecular_function def: "Binding to chromatin, the network of fibers of DNA, protein, and sometimes RNA, that make up the chromosomes of the eukaryotic nucleus during interphase." [GOC:jl, ISBN:0198506732, PMID:20404130] subset: goslim_chembl subset: goslim_drosophila subset: goslim_pir subset: goslim_plant subset: goslim_yeast synonym: "lamin/chromatin binding" NARROW [] synonym: "microtubule/chromatin interaction" NARROW [] synonym: "nuclear membrane vesicle binding to chromatin" NARROW [] is_a: GO:0005488 ! binding intersection_of: GO:0005488 ! binding intersection_of: has_input GO:0000785 ! chromatin relationship: has_input GO:0000785 ! chromatin [Term] id: GO:0003723 name: RNA binding namespace: molecular_function alt_id: GO:0000498 alt_id: GO:0044822 def: "Binding to an RNA molecule or a portion thereof." [GOC:jl, GOC:mah] subset: goslim_agr subset: goslim_aspergillus subset: goslim_candida subset: goslim_chembl subset: goslim_drosophila subset: goslim_flybase_ribbon subset: goslim_generic subset: goslim_mouse subset: goslim_plant subset: goslim_yeast synonym: "base pairing with RNA" NARROW [] synonym: "poly(A) RNA binding" RELATED [] synonym: "poly(A)-RNA binding" RELATED [] synonym: "poly-A RNA binding" RELATED [] xref: Reactome:R-HSA-203922 "Exportin-5 recognizes 3' overhang of pre-miRNA" is_a: GO:0003676 ! nucleic acid binding intersection_of: GO:0005488 ! binding intersection_of: has_input CHEBI:33697 ! ribonucleic acid relationship: has_input CHEBI:33697 ! ribonucleic acid [Term] id: GO:0003824 name: catalytic activity namespace: molecular_function def: "Catalysis of a biochemical reaction at physiological temperatures. In biologically catalyzed reactions, the reactants are known as substrates, and the catalysts are naturally occurring macromolecular substances known as enzymes. Enzymes possess specific binding sites for substrates, and are usually composed wholly or largely of protein, but RNA that has catalytic activity (ribozyme) is often also regarded as enzymatic." [GOC:vw, ISBN:0198506732] subset: goslim_agr subset: goslim_chembl subset: goslim_flybase_ribbon subset: goslim_metagenomics subset: goslim_pir subset: goslim_plant synonym: "enzyme activity" EXACT [GOC:dph, GOC:tb] xref: Wikipedia:Enzyme is_a: GO:0003674 ! molecular_function property_value: isDefinedBy http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0005102 name: signaling receptor binding namespace: molecular_function def: "Binding to one or more specific sites on a receptor molecule, a macromolecule that undergoes combination with a hormone, neurotransmitter, drug or intracellular messenger to initiate a change in cell function." [GOC:bf, GOC:ceb, ISBN:0198506732] comment: Where appropriate, also consider annotating to 'receptor agonist activity ; GO:0048018'. subset: goslim_agr subset: goslim_chembl subset: goslim_flybase_ribbon subset: goslim_mouse subset: goslim_plant synonym: "receptor binding" BROAD [] synonym: "receptor ligand" NARROW [] synonym: "receptor-associated protein activity" RELATED [] xref: Wikipedia:Ligand_(biochemistry) is_a: GO:0005515 ! protein binding [Term] id: GO:0005126 name: cytokine receptor binding namespace: molecular_function def: "Binding to a cytokine receptor." [GOC:mah, GOC:vw] synonym: "hematopoietin/interferon-class (D200-domain) cytokine receptor binding" EXACT [GOC:add, GOC:mah] synonym: "hematopoietin/interferon-class (D200-domain) cytokine receptor ligand" NARROW [] is_a: GO:0005102 ! signaling receptor binding [Term] id: GO:0005172 name: vascular endothelial growth factor receptor binding namespace: molecular_function def: "Binding to a vascular endothelial growth factor receptor." [GOC:ai] synonym: "vascular endothelial growth factor" NARROW [] synonym: "vascular endothelial growth factor receptor ligand" NARROW [] synonym: "VEGF receptor binding" EXACT [] synonym: "VEGFR binding" EXACT [] is_a: GO:0005126 ! cytokine receptor binding is_a: GO:0070851 ! growth factor receptor binding intersection_of: GO:0005488 ! binding intersection_of: has_input PR:000001971 ! vascular endothelial growth factor receptor relationship: has_input PR:000001971 ! vascular endothelial growth factor receptor [Term] id: GO:0005488 name: binding namespace: molecular_function def: "The selective, non-covalent, often stoichiometric, interaction of a molecule with one or more specific sites on another molecule." [GOC:ceb, GOC:mah, ISBN:0198506732] comment: Note that this term is in the subset of terms that should not be used for direct, manual gene product annotation. Please choose a more specific child term, or request a new one if no suitable term is available. For ligands that bind to signal transducing receptors, consider the molecular function term 'receptor binding ; GO:0005102' and its children. subset: gocheck_do_not_annotate subset: goslim_pir subset: goslim_plant synonym: "ligand" NARROW [] xref: Wikipedia:Binding_(molecular) is_a: GO:0003674 ! molecular_function [Term] id: GO:0005496 name: steroid binding namespace: molecular_function def: "Binding to a steroid, any of a large group of substances that have in common a ring system based on 1,2-cyclopentanoperhydrophenanthrene." [GOC:jl, ISBN:0198506732] subset: goslim_pir is_a: GO:0008289 ! lipid binding is_a: GO:0097159 ! organic cyclic compound binding intersection_of: GO:0005488 ! binding intersection_of: has_input CHEBI:35341 ! steroid relationship: has_input CHEBI:35341 ! steroid [Term] id: GO:0005515 name: protein binding namespace: molecular_function alt_id: GO:0001948 alt_id: GO:0045308 def: "Binding to a protein." [GOC:go_curators] subset: goslim_aspergillus subset: goslim_candida subset: goslim_chembl subset: goslim_metagenomics subset: goslim_pir subset: goslim_plant synonym: "glycoprotein binding" NARROW [] synonym: "protein amino acid binding" EXACT [] is_a: GO:0005488 ! binding intersection_of: GO:0005488 ! binding intersection_of: has_input PR:000000001 ! protein relationship: has_input PR:000000001 ! protein [Term] id: GO:0005518 name: collagen binding namespace: molecular_function def: "Binding to collagen, a group of fibrous proteins of very high tensile strength that form the main component of connective tissue in animals. Collagen is highly enriched in glycine (some regions are 33% glycine) and proline, occurring predominantly as 3-hydroxyproline (about 20%)." [GOC:ai, ISBN:0198506732] is_a: GO:0044877 ! protein-containing complex binding intersection_of: GO:0005488 ! binding intersection_of: has_input GO:0005581 ! collagen trimer relationship: has_input GO:0005581 ! collagen trimer [Term] id: GO:0005539 name: glycosaminoglycan binding namespace: molecular_function def: "Binding to a glycan (polysaccharide) containing a substantial proportion of aminomonosaccharide residues." [GOC:jl, ISBN:0198506732] subset: goslim_chembl is_a: GO:0097367 ! carbohydrate derivative binding intersection_of: GO:0005488 ! binding intersection_of: has_input CHEBI:18085 ! glycosaminoglycan relationship: has_input CHEBI:18085 ! glycosaminoglycan [Term] id: GO:0005540 name: hyaluronic acid binding namespace: molecular_function def: "Binding to hyaluronic acid, a polymer composed of repeating dimeric units of glucuronic acid and N-acetyl glucosamine." [GOC:jl] synonym: "hyaluronan binding" EXACT [] is_a: GO:0005539 ! glycosaminoglycan binding intersection_of: GO:0005488 ! binding intersection_of: has_input CHEBI:16336 ! hyaluronic acid relationship: has_input CHEBI:16336 ! hyaluronic acid [Term] id: GO:0005575 name: cellular_component namespace: cellular_component alt_id: GO:0008372 def: "A location, relative to cellular compartments and structures, occupied by a macromolecular machine when it carries out a molecular function. There are two ways in which the gene ontology describes locations of gene products: (1) relative to cellular structures (e.g., cytoplasmic side of plasma membrane) or compartments (e.g., mitochondrion), and (2) the stable macromolecular complexes of which they are parts (e.g., the ribosome)." [GOC:pdt, NIF_Subcellular:sao1337158144] def: "The part of a cell or its extracellular environment in which a gene product is located. A gene product may be located in one or more parts of a cell and its location may be as specific as a particular macromolecular complex, that is, a stable, persistent association of macromolecules that function together." [GOC:go_curators] comment: Note that, in addition to forming the root of the cellular component ontology, this term is recommended for use for the annotation of gene products whose cellular component is unknown. Note that when this term is used for annotation, it indicates that no information was available about the cellular component of the gene product annotated as of the date the annotation was made; the evidence code ND, no data, is used to indicate this. comment: Note that, in addition to forming the root of the cellular component ontology, this term is recommended for use for the annotation of gene products whose cellular component is unknown. When this term is used for annotation, it indicates that no information was available about the cellular component of the gene product annotated as of the date the annotation was made; the evidence code 'no data' (ND), is used to indicate this. subset: goslim_aspergillus subset: goslim_candida subset: goslim_chembl subset: goslim_metagenomics subset: goslim_pir subset: goslim_plant subset: goslim_yeast synonym: "cell or subcellular entity" EXACT [] synonym: "cellular component" EXACT [] synonym: "subcellular entity" RELATED [NIF_Subcellular:nlx_subcell_100315] xref: NIF_Subcellular:sao1337158144 is_a: BFO:0000040 ! material entity disjoint_from: GO:0008150 ! biological_process [Term] id: GO:0005576 name: extracellular region namespace: cellular_component def: "The space external to the outermost structure of a cell. For cells without external protective or external encapsulating structures this refers to space outside of the plasma membrane. This term covers the host cell environment outside an intracellular parasite." [GOC:go_curators] comment: Note that this term is intended to annotate gene products that are not attached to the cell surface. For gene products from multicellular organisms which are secreted from a cell but retained within the organism (i.e. released into the interstitial fluid or blood), consider the cellular component term 'extracellular space ; GO:0005615'. subset: goslim_agr subset: goslim_aspergillus subset: goslim_candida subset: goslim_chembl subset: goslim_flybase_ribbon subset: goslim_generic subset: goslim_metagenomics subset: goslim_mouse subset: goslim_pir subset: goslim_plant subset: goslim_yeast synonym: "extracellular" EXACT [] xref: Wikipedia:Extracellular is_a: GO:0110165 ! cellular anatomical entity [Term] id: GO:0005577 name: fibrinogen complex namespace: cellular_component def: "A highly soluble, elongated protein complex found in blood plasma and involved in clot formation. It is converted into fibrin monomer by the action of thrombin. In the mouse, fibrinogen is a hexamer, 46 nm long and 9 nm maximal diameter, containing two sets of nonidentical chains (alpha, beta, and gamma) linked together by disulfide bonds." [ISBN:0198547684] synonym: "fibrinogen" EXACT [] synonym: "fibrinogen alpha chain" NARROW [] synonym: "fibrinogen beta chain" NARROW [] synonym: "fibrinogen gamma chain" NARROW [] is_a: GO:0032991 ! protein-containing complex relationship: part_of GO:0005615 ! extracellular space [Term] id: GO:0005581 name: collagen trimer namespace: cellular_component def: "A protein complex consisting of three collagen chains assembled into a left-handed triple helix. These trimers typically assemble into higher order structures." [GOC:dos, GOC:mah, ISBN:0721639976, PMID:19693541, PMID:21421911] xref: Wikipedia:Collagen is_a: GO:0032991 ! protein-containing complex relationship: in_taxon NCBITaxon:33208 {source="PMID:12382326"} ! Metazoa relationship: only_in_taxon NCBITaxon:33208 {source="PMID:12382326"} ! Metazoa [Term] id: GO:0005583 name: fibrillar collagen trimer namespace: cellular_component def: "Any triple helical collagen trimer that forms fibrils." [GOC:mah, ISBN:0721639976, PMID:21421911] is_a: GO:0005581 ! collagen trimer intersection_of: GO:0005581 ! collagen trimer intersection_of: part_of GO:0098643 ! banded collagen fibril relationship: part_of GO:0098643 ! banded collagen fibril [Term] id: GO:0005587 name: collagen type IV trimer namespace: cellular_component def: "A collagen heterotrimer containing type IV alpha chains; [alpha1(IV)]2alpha2(IV) trimers are commonly observed, although more type IV alpha chains exist and may be present in type IV trimers; type IV collagen triple helices associate to form 3 dimensional nets within basement membranes." [ISBN:0721639976, PMID:19693541, PMID:21421911] xref: Wikipedia:Collagen_type_IV is_a: GO:0098642 ! network-forming collagen trimer is_a: GO:0098651 ! basement membrane collagen trimer [Term] id: GO:0005604 name: basement membrane namespace: cellular_component alt_id: GO:0005605 alt_id: GO:0008003 def: "A collagen-containing extracellular matrix consisting of a thin layer of dense material found in various animal tissues interposed between the cells and the adjacent connective tissue. It consists of the basal lamina plus an associated layer of reticulin fibers." [ISBN:0198547684, PMID:22505934] comment: Note that this term has no relationship to 'membrane ; GO:0016020' because the basement membrane is not a lipid bilayer. synonym: "basal lamina" RELATED [] synonym: "basement lamina" RELATED [] synonym: "lamina densa" RELATED [] xref: Wikipedia:Basement_membrane is_a: GO:0062023 ! collagen-containing extracellular matrix [Term] id: GO:0005615 name: extracellular space namespace: cellular_component def: "That part of a multicellular organism outside the cells proper, usually taken to be outside the plasma membranes, and occupied by fluid." [ISBN:0198547684] comment: Note that for multicellular organisms, the extracellular space refers to everything outside a cell, but still within the organism (excluding the extracellular matrix). Gene products from a multi-cellular organism that are secreted from a cell into the interstitial fluid or blood can therefore be annotated to this term. subset: goslim_chembl subset: goslim_drosophila subset: goslim_generic synonym: "intercellular space" RELATED [] xref: NIF_Subcellular:sao1425028079 is_a: GO:0110165 ! cellular anatomical entity relationship: part_of GO:0005576 ! extracellular region [Term] id: GO:0005622 name: intracellular anatomical structure namespace: cellular_component def: "A component of a cell contained within (but not including) the plasma membrane. In eukaryotes it includes the nucleus and cytoplasm." [ISBN:0198506732] subset: gocheck_do_not_annotate subset: goslim_chembl subset: goslim_generic subset: goslim_metagenomics subset: goslim_plant synonym: "internal to cell" EXACT [] synonym: "intracellular" EXACT [] synonym: "nucleocytoplasm" RELATED [GOC:mah] synonym: "protoplasm" EXACT [] synonym: "protoplast" RELATED [GOC:mah] xref: Wikipedia:Intracellular is_a: GO:0110165 ! cellular anatomical entity relationship: part_of CL:0000000 ! cell property_value: IAO:0000233 https://github.com/geneontology/go-ontology/issues/17776 xsd:anyURI [Term] id: GO:0005634 name: nucleus namespace: cellular_component def: "A membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated. In most cells, the nucleus contains all of the cell's chromosomes except the organellar chromosomes, and is the site of RNA synthesis and processing. In some species, or in specialized cell types, RNA metabolism or DNA replication may be absent." [GOC:go_curators] subset: goslim_agr subset: goslim_aspergillus subset: goslim_candida subset: goslim_chembl subset: goslim_drosophila subset: goslim_flybase_ribbon subset: goslim_generic subset: goslim_metagenomics subset: goslim_mouse subset: goslim_pir subset: goslim_plant subset: goslim_yeast synonym: "cell nucleus" EXACT [] synonym: "horsetail nucleus" NARROW [GOC:al, GOC:mah, GOC:vw, PMID:15030757] xref: NIF_Subcellular:sao1702920020 xref: Wikipedia:Cell_nucleus is_a: GO:0043231 ! intracellular membrane-bounded organelle disjoint_from: GO:0005737 ! cytoplasm relationship: in_taxon NCBITaxon:2759 ! Eukaryota relationship: only_in_taxon NCBITaxon:2759 ! Eukaryota [Term] id: GO:0005635 name: nuclear envelope namespace: cellular_component alt_id: GO:0005636 def: "The double lipid bilayer enclosing the nucleus and separating its contents from the rest of the cytoplasm; includes the intermembrane space, a gap of width 20-40 nm (also called the perinuclear space)." [ISBN:0198547684] subset: goslim_chembl subset: goslim_generic subset: goslim_plant xref: Wikipedia:Nuclear_envelope is_a: GO:0031967 ! organelle envelope relationship: part_of GO:0005634 ! nucleus relationship: part_of GO:0012505 ! endomembrane system [Term] id: GO:0005640 name: nuclear outer membrane namespace: cellular_component def: "The outer, i.e. cytoplasm-facing, lipid bilayer of the nuclear envelope; continuous with the endoplasmic reticulum of the cell and sometimes studded with ribosomes." [ISBN:0198547684] synonym: "nucleus outer envelope" EXACT [] synonym: "perinuclear membrane" EXACT [] xref: NIF_Subcellular:sao1617136075 is_a: GO:0031965 ! nuclear membrane is_a: GO:0031968 ! organelle outer membrane intersection_of: GO:0016020 ! membrane intersection_of: bounding_layer_of GO:0005634 ! nucleus relationship: bounding_layer_of GO:0005634 ! nucleus relationship: part_of GO:0042175 ! nuclear outer membrane-endoplasmic reticulum membrane network [Term] id: GO:0005677 name: chromatin silencing complex namespace: cellular_component def: "Any protein complex that mediates changes in chromatin structure that result in transcriptional silencing." [GOC:mah] is_a: GO:0140513 ! nuclear protein-containing complex intersection_of: GO:0032991 ! protein-containing complex intersection_of: capable_of_part_of GO:0031507 ! heterochromatin assembly relationship: capable_of_part_of GO:0031507 ! heterochromatin assembly [Term] id: GO:0005694 name: chromosome namespace: cellular_component def: "A structure composed of a very long molecule of DNA and associated proteins (e.g. histones) that carries hereditary information." [ISBN:0198547684] comment: Chromosomes include parts that are not part of the chromatin. Examples include the kinetochore. subset: goslim_agr subset: goslim_aspergillus subset: goslim_candida subset: goslim_chembl subset: goslim_drosophila subset: goslim_flybase_ribbon subset: goslim_generic subset: goslim_metagenomics subset: goslim_pir subset: goslim_yeast synonym: "chromatid" RELATED [] synonym: "interphase chromosome" NARROW [] synonym: "prophase chromosome" NARROW [] xref: Wikipedia:Chromosome is_a: GO:0043232 ! intracellular non-membrane-bounded organelle [Term] id: GO:0005730 name: nucleolus namespace: cellular_component def: "A small, dense body one or more of which are present in the nucleus of eukaryotic cells. It is rich in RNA and protein, is not bounded by a limiting membrane, and is not seen during mitosis. Its prime function is the transcription of the nucleolar DNA into 45S ribosomal-precursor RNA, the processing of this RNA into 5.8S, 18S, and 28S components of ribosomal RNA, and the association of these components with 5S RNA and proteins synthesized outside the nucleolus. This association results in the formation of ribonucleoprotein precursors; these pass into the cytoplasm and mature into the 40S and 60S subunits of the ribosome." [ISBN:0198506732] subset: goslim_aspergillus subset: goslim_candida subset: goslim_chembl subset: goslim_drosophila subset: goslim_generic subset: goslim_pir subset: goslim_plant subset: goslim_yeast xref: NIF_Subcellular:sao1820400233 xref: Wikipedia:Nucleolus is_a: GO:0043232 ! intracellular non-membrane-bounded organelle relationship: part_of GO:0031981 ! nuclear lumen [Term] id: GO:0005737 name: cytoplasm namespace: cellular_component def: "The contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures." [ISBN:0198547684] subset: goslim_candida subset: goslim_chembl subset: goslim_generic subset: goslim_metagenomics subset: goslim_pir subset: goslim_plant subset: goslim_yeast xref: Wikipedia:Cytoplasm is_a: GO:0110165 ! cellular anatomical entity relationship: part_of GO:0005622 ! intracellular anatomical structure [Term] id: GO:0005773 name: vacuole namespace: cellular_component def: "A closed structure, found only in eukaryotic cells, that is completely surrounded by unit membrane and contains liquid material. Cells contain one or several vacuoles, that may have different functions from each other. Vacuoles have a diverse array of functions. They can act as a storage organelle for nutrients or waste products, as a degradative compartment, as a cost-effective way of increasing cell size, and as a homeostatic regulator controlling both turgor pressure and pH of the cytosol." [GOC:mtg_sensu, ISBN:0198506732] subset: goslim_agr subset: goslim_aspergillus subset: goslim_candida subset: goslim_chembl subset: goslim_drosophila subset: goslim_flybase_ribbon subset: goslim_generic subset: goslim_mouse subset: goslim_pir subset: goslim_plant subset: goslim_yeast synonym: "vacuolar carboxypeptidase Y" RELATED [] xref: Wikipedia:Vacuole is_a: GO:0043231 ! intracellular membrane-bounded organelle relationship: part_of GO:0005737 ! cytoplasm [Term] id: GO:0005774 name: vacuolar membrane namespace: cellular_component def: "The lipid bilayer surrounding the vacuole and separating its contents from the cytoplasm of the cell." [GOC:ai] is_a: GO:0098588 ! bounding membrane of organelle intersection_of: GO:0016020 ! membrane intersection_of: bounding_layer_of GO:0005773 ! vacuole relationship: bounding_layer_of GO:0005773 ! vacuole relationship: part_of GO:0005773 ! vacuole [Term] id: GO:0005775 name: vacuolar lumen namespace: cellular_component def: "The volume enclosed within the vacuolar membrane." [ISBN:0198506732] is_a: GO:0070013 ! intracellular organelle lumen intersection_of: GO:0031974 ! membrane-enclosed lumen intersection_of: part_of GO:0005773 ! vacuole relationship: part_of GO:0005773 ! vacuole [Term] id: GO:0005794 name: Golgi apparatus namespace: cellular_component def: "A membrane-bound cytoplasmic organelle of the endomembrane system that further processes the core oligosaccharides (e.g. N-glycans) added to proteins in the endoplasmic reticulum and packages them into membrane-bound vesicles. The Golgi apparatus operates at the intersection of the secretory, lysosomal, and endocytic pathways." [ISBN:0198506732] comment: Note that the Golgi apparatus can be located in various places in the cytoplasm. In plants and lower animal cells, the Golgi apparatus exists as many copies of discrete stacks dispersed throughout the cytoplasm, while the Golgi apparatus of interphase mammalian cells is a juxtanuclear, often pericentriolar reticulum, where the discrete Golgi stacks are stitched together to form a compact and interconnected ribbon, sometimes called the Golgi ribbon. subset: goslim_agr subset: goslim_aspergillus subset: goslim_candida subset: goslim_chembl subset: goslim_drosophila subset: goslim_generic subset: goslim_mouse subset: goslim_pir subset: goslim_plant subset: goslim_yeast synonym: "Golgi" BROAD [] synonym: "Golgi complex" EXACT [] synonym: "Golgi ribbon" NARROW [] xref: NIF_Subcellular:sao451912436 xref: Wikipedia:Golgi_apparatus is_a: GO:0043231 ! intracellular membrane-bounded organelle relationship: in_taxon NCBITaxon:2759 ! Eukaryota relationship: only_in_taxon NCBITaxon:2759 ! Eukaryota relationship: part_of GO:0005737 ! cytoplasm relationship: part_of GO:0012505 ! endomembrane system [Term] id: GO:0005798 name: Golgi-associated vesicle namespace: cellular_component def: "Any vesicle associated with the Golgi complex and involved in mediating transport within the Golgi or between the Golgi and other parts of the cell." [GOC:mah] comment: Note that this definition includes vesicles that are transiently associated with the Golgi. synonym: "Golgi vesicle" RELATED [] synonym: "vesicular component" RELATED [NIF_Subcellular:sao138219748] xref: NIF_Subcellular:sao819927218 is_a: GO:0031410 ! cytoplasmic vesicle [Term] id: GO:0005840 name: ribosome namespace: cellular_component alt_id: GO:0033279 def: "An intracellular organelle, about 200 A in diameter, consisting of RNA and protein. It is the site of protein biosynthesis resulting from translation of messenger RNA (mRNA). It consists of two subunits, one large and one small, each containing only protein and RNA. Both the ribosome and its subunits are characterized by their sedimentation coefficients, expressed in Svedberg units (symbol: S). Hence, the prokaryotic ribosome (70S) comprises a large (50S) subunit and a small (30S) subunit, while the eukaryotic ribosome (80S) comprises a large (60S) subunit and a small (40S) subunit. Two sites on the ribosomal large subunit are involved in translation, namely the aminoacyl site (A site) and peptidyl site (P site). Ribosomes from prokaryotes, eukaryotes, mitochondria, and chloroplasts have characteristically distinct ribosomal proteins." [ISBN:0198506732] subset: goslim_aspergillus subset: goslim_candida subset: goslim_chembl subset: goslim_generic subset: goslim_metagenomics subset: goslim_pir subset: goslim_plant subset: goslim_yeast synonym: "free ribosome" NARROW [NIF_Subcellular:sao1139385046] synonym: "membrane bound ribosome" NARROW [NIF_Subcellular:sao1291545653] synonym: "ribosomal RNA" RELATED [] xref: NIF_Subcellular:sao1429207766 xref: Wikipedia:Ribosome is_a: GO:0043232 ! intracellular non-membrane-bounded organelle relationship: capable_of_part_of GO:0006412 ! translation relationship: has_part CHEBI:33697 ! ribonucleic acid relationship: has_part PR:000000001 ! protein [Term] id: GO:0005856 name: cytoskeleton namespace: cellular_component def: "Any of the various filamentous elements that form the internal framework of cells, and typically remain after treatment of the cells with mild detergent to remove membrane constituents and soluble components of the cytoplasm. The term embraces intermediate filaments, microfilaments, microtubules, the microtrabecular lattice, and other structures characterized by a polymeric filamentous nature and long-range order within the cell. The various elements of the cytoskeleton not only serve in the maintenance of cellular shape but also have roles in other cellular functions, including cellular movement, cell division, endocytosis, and movement of organelles." [GOC:mah, ISBN:0198547684, PMID:16959967] subset: goslim_agr subset: goslim_aspergillus subset: goslim_candida subset: goslim_chembl subset: goslim_drosophila subset: goslim_flybase_ribbon subset: goslim_generic subset: goslim_mouse subset: goslim_pir subset: goslim_plant subset: goslim_yeast xref: Wikipedia:Cytoskeleton is_a: GO:0043232 ! intracellular non-membrane-bounded organelle [Term] id: GO:0005874 name: microtubule namespace: cellular_component def: "Any of the long, generally straight, hollow tubes of internal diameter 12-15 nm and external diameter 24 nm found in a wide variety of eukaryotic cells; each consists (usually) of 13 protofilaments of polymeric tubulin, staggered in such a manner that the tubulin monomers are arranged in a helical pattern on the microtubular surface, and with the alpha/beta axes of the tubulin subunits parallel to the long axis of the tubule; exist in equilibrium with pool of tubulin monomers and can be rapidly assembled or disassembled in response to physiological stimuli; concerned with force generation, e.g. in the spindle." [ISBN:0879693568] subset: goslim_metagenomics synonym: "microtubuli" EXACT [] synonym: "microtubulus" EXACT [] synonym: "neurotubule" NARROW [NIF_Subcellular:sao248349196] xref: NIF_Subcellular:sao1846835077 xref: Wikipedia:Microtubule is_a: GO:0099513 ! polymeric cytoskeletal fiber relationship: part_of GO:0015630 ! microtubule cytoskeleton [Term] id: GO:0005879 name: axonemal microtubule namespace: cellular_component def: "A microtubule in the axoneme of a eukaryotic cilium or flagellum; an axoneme contains nine modified doublet microtubules, which may or may not surround a pair of single microtubules." [GOC:cilia, ISBN:0815316194] is_a: GO:0005881 ! cytoplasmic microtubule intersection_of: GO:0005874 ! microtubule intersection_of: part_of GO:0005930 ! axoneme relationship: part_of GO:0005930 ! axoneme [Term] id: GO:0005880 name: nuclear microtubule namespace: cellular_component def: "Any microtubule in the nucleus of a cell." [GOC:mah] is_a: GO:0005874 ! microtubule intersection_of: GO:0005874 ! microtubule intersection_of: part_of GO:0005634 ! nucleus relationship: part_of GO:0005634 ! nucleus [Term] id: GO:0005881 name: cytoplasmic microtubule namespace: cellular_component def: "Any microtubule in the cytoplasm of a cell." [GOC:mah] synonym: "non-spindle-associated astral microtubule" NARROW [] is_a: GO:0005874 ! microtubule intersection_of: GO:0005874 ! microtubule intersection_of: part_of GO:0005737 ! cytoplasm relationship: part_of GO:0005737 ! cytoplasm [Term] id: GO:0005886 name: plasma membrane namespace: cellular_component alt_id: GO:0005904 def: "The membrane surrounding a cell that separates the cell from its external environment. It consists of a phospholipid bilayer and associated proteins." [ISBN:0716731363] subset: goslim_agr subset: goslim_aspergillus subset: goslim_candida subset: goslim_chembl subset: goslim_drosophila subset: goslim_generic subset: goslim_metagenomics subset: goslim_mouse subset: goslim_plant subset: goslim_yeast synonym: "bacterial inner membrane" NARROW [] synonym: "cell membrane" EXACT [] synonym: "cellular membrane" EXACT [NIF_Subcellular:sao6433132645] synonym: "cytoplasmic membrane" EXACT [] synonym: "inner endospore membrane" NARROW [] synonym: "juxtamembrane" BROAD [] synonym: "plasma membrane lipid bilayer" NARROW [GOC:mah] synonym: "plasmalemma" EXACT [] xref: NIF_Subcellular:sao1663586795 xref: Wikipedia:Cell_membrane is_a: GO:0016020 ! membrane relationship: part_of GO:0071944 ! cell periphery [Term] id: GO:0005911 name: cell-cell junction namespace: cellular_component def: "A cell junction that forms a connection between two or more cells of an organism; excludes direct cytoplasmic intercellular bridges, such as ring canals in insects." [GOC:aruk, GOC:bc, GOC:dgh, GOC:hb, GOC:mah, PMID:21422226, PMID:28096264] synonym: "cell-cell contact region" BROAD [] synonym: "cell-cell contact zone" BROAD [] synonym: "intercellular junction" EXACT [NIF_Subcellular:sao1395777368] xref: NIF_Subcellular:sao1922892319 is_a: GO:0070161 ! anchoring junction property_value: IAO:0000233 https://github.com/geneontology/go-ontology/issues/22122 xsd:anyURI [Term] id: GO:0005929 name: cilium namespace: cellular_component alt_id: GO:0072372 def: "A specialized eukaryotic organelle that consists of a filiform extrusion of the cell surface and of some cytoplasmic parts. Each cilium is largely bounded by an extrusion of the cytoplasmic (plasma) membrane, and contains a regular longitudinal array of microtubules, anchored to a basal body." [GOC:cilia, GOC:curators, GOC:kmv, GOC:vw, ISBN:0198547684, PMID:16824949, PMID:17009929, PMID:20144998] comment: Note that we deem cilium and microtubule-based flagellum to be equivalent. In most eukaryotic species, intracellular sub-components of the cilium, such as the ciliary base and rootlet, are located near the plasma membrane. In Diplomonads such as Giardia, instead, the same ciliary parts are located further intracellularly. Also, 'cilium' may be used when axonemal structure and/or motility are unknown, or when axonemal structure is unusual. For all other cases, please refer to children of 'cilium'. Finally, note that any role of ciliary proteins in sensory events should be captured by annotating to relevant biological process terms. subset: goslim_chembl subset: goslim_drosophila subset: goslim_generic subset: goslim_pir synonym: "eukaryotic flagellum" EXACT [] synonym: "flagellum" RELATED [] synonym: "microtubule-based flagellum" EXACT [] synonym: "primary cilium" NARROW [] xref: FMA:67181 xref: NIF_Subcellular:sao787716553 xref: Wikipedia:Cilium is_a: GO:0043227 ! membrane-bounded organelle is_a: GO:0120025 ! plasma membrane bounded cell projection relationship: has_part GO:0030990 ! intraciliary transport particle relationship: in_taxon NCBITaxon:2759 ! Eukaryota relationship: only_in_taxon NCBITaxon:2759 ! Eukaryota property_value: RO:0002161 NCBITaxon:3176 property_value: RO:0002161 NCBITaxon:3312 property_value: RO:0002161 NCBITaxon:3378 property_value: RO:0002161 NCBITaxon:3398 property_value: RO:0002161 NCBITaxon:4890 property_value: RO:0002161 NCBITaxon:5782 [Term] id: GO:0005930 name: axoneme namespace: cellular_component alt_id: GO:0035085 alt_id: GO:0035086 def: "The bundle of microtubules and associated proteins that forms the core of cilia (also called flagella) in eukaryotic cells and is responsible for their movements." [GOC:bf, GOC:cilia, ISBN:0198547684] comment: Note that cilia and eukaryotic flagella are deemed to be equivalent. In diplomonad species, such as Giardia, the axoneme may extend intracellularly up to 5um away from the plane of the plasma membrane. subset: goslim_pir synonym: "ciliary axoneme" EXACT [] synonym: "cilium axoneme" EXACT [] synonym: "flagellar axoneme" EXACT [] synonym: "flagellum axoneme" EXACT [] xref: Wikipedia:Axoneme is_a: GO:0110165 ! cellular anatomical entity relationship: has_part GO:0005874 ! microtubule relationship: part_of GO:0005856 ! cytoskeleton relationship: part_of GO:0097014 ! ciliary plasm [Term] id: GO:0005938 name: cell cortex namespace: cellular_component def: "The region of a cell that lies just beneath the plasma membrane and often, but not always, contains a network of actin filaments and associated proteins." [GOC:mah, ISBN:0815316194] subset: goslim_aspergillus subset: goslim_candida subset: goslim_yeast synonym: "cell periphery" RELATED [] synonym: "peripheral cytoplasm" RELATED [] xref: Wikipedia:Cell_cortex is_a: GO:0005737 ! cytoplasm intersection_of: GO:0005737 ! cytoplasm intersection_of: part_of GO:0071944 ! cell periphery relationship: part_of GO:0071944 ! cell periphery [Term] id: GO:0005975 name: carbohydrate metabolic process namespace: biological_process alt_id: GO:0044261 alt_id: GO:0044723 def: "The chemical reactions and pathways involving carbohydrates, any of a group of organic compounds based of the general formula Cx(H2O)y. Includes the formation of carbohydrate derivatives by the addition of a carbohydrate residue to another molecule." [GOC:mah, ISBN:0198506732] subset: goslim_agr subset: goslim_aspergillus subset: goslim_candida subset: goslim_chembl subset: goslim_drosophila subset: goslim_generic subset: goslim_metagenomics subset: goslim_pir subset: goslim_plant subset: goslim_pombe subset: goslim_yeast synonym: "carbohydrate metabolism" EXACT [] synonym: "multicellular organismal carbohydrate metabolic process" NARROW [] synonym: "single-organism carbohydrate metabolic process" RELATED [] xref: Wikipedia:Carbohydrate_metabolism is_a: GO:0044238 ! primary metabolic process is_a: GO:0071704 ! organic substance metabolic process intersection_of: GO:0008152 ! metabolic process intersection_of: has_primary_input_or_output CHEBI:16646 ! carbohydrate relationship: has_primary_input_or_output CHEBI:16646 ! carbohydrate created_by: jl creation_date: 2012-10-23T15:40:34Z [Term] id: GO:0005976 name: polysaccharide metabolic process namespace: biological_process alt_id: GO:0044263 def: "The chemical reactions and pathways involving a polysaccharide, a polymer of many (typically more than 10) monosaccharide residues linked glycosidically." [ISBN:0198547684] subset: goslim_pir synonym: "glycan metabolic process" NARROW [] synonym: "glycan metabolism" NARROW [] synonym: "multicellular organismal polysaccharide metabolic process" NARROW [] synonym: "polysaccharide metabolism" EXACT [] is_a: GO:0005975 ! carbohydrate metabolic process is_a: GO:0043170 ! macromolecule metabolic process intersection_of: GO:0008152 ! metabolic process intersection_of: has_primary_input_or_output CHEBI:18154 ! polysaccharide relationship: has_primary_input_or_output CHEBI:18154 ! polysaccharide [Term] id: GO:0005977 name: glycogen metabolic process namespace: biological_process def: "The chemical reactions and pathways involving glycogen, a polydisperse, highly branched glucan composed of chains of D-glucose residues in alpha-(1->4) glycosidic linkage, joined together by alpha-(1->6) glycosidic linkages." [ISBN:0198506732] synonym: "glycogen metabolism" EXACT [] is_a: GO:0006073 ! cellular glucan metabolic process is_a: GO:0006112 ! energy reserve metabolic process [Term] id: GO:0005982 name: starch metabolic process namespace: biological_process def: "The chemical reactions and pathways involving starch, the most important reserve polysaccharide in plants. It is a glucan consisting of two components, amylose and amylopectin, which are both glucose homopolymers. Starch is synthesized as a temporary storage form of carbon and can be catabolized to produce sucrose." [ISBN:0198506732] synonym: "starch metabolism" EXACT [] is_a: GO:0006073 ! cellular glucan metabolic process [Term] id: GO:0006022 name: aminoglycan metabolic process namespace: biological_process def: "The chemical reactions and pathways involving aminoglycans, any polymer containing amino groups that consists of more than about 10 monosaccharide residues joined to each other by glycosidic linkages." [GOC:ai, ISBN:0198506732] synonym: "aminoglycan metabolism" EXACT [] is_a: GO:0043170 ! macromolecule metabolic process is_a: GO:1901135 ! carbohydrate derivative metabolic process is_a: GO:1901564 ! organonitrogen compound metabolic process intersection_of: GO:0008152 ! metabolic process intersection_of: has_primary_input_or_output CHEBI:22506 ! aminoglycan relationship: has_primary_input_or_output CHEBI:22506 ! aminoglycan [Term] id: GO:0006023 name: aminoglycan biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of aminoglycans, any polymer containing amino groups that consists of more than about 10 monosaccharide residues joined to each other by glycosidic linkages." [GOC:ai, ISBN:0198506732] synonym: "aminoglycan anabolism" EXACT [] synonym: "aminoglycan biosynthesis" EXACT [] synonym: "aminoglycan formation" EXACT [] synonym: "aminoglycan synthesis" EXACT [] is_a: GO:0006022 ! aminoglycan metabolic process is_a: GO:0009059 ! macromolecule biosynthetic process is_a: GO:1901137 ! carbohydrate derivative biosynthetic process is_a: GO:1901566 ! organonitrogen compound biosynthetic process intersection_of: GO:0009058 ! biosynthetic process intersection_of: has_primary_output CHEBI:22506 ! aminoglycan relationship: has_primary_output CHEBI:22506 ! aminoglycan [Term] id: GO:0006024 name: glycosaminoglycan biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of glycosaminoglycans, any of a group of polysaccharides that contain amino sugars." [ISBN:0192800981] synonym: "glycosaminoglycan anabolism" EXACT [] synonym: "glycosaminoglycan biosynthesis" EXACT [] synonym: "glycosaminoglycan formation" EXACT [] synonym: "glycosaminoglycan synthesis" EXACT [] is_a: GO:0006023 ! aminoglycan biosynthetic process is_a: GO:0030203 ! glycosaminoglycan metabolic process intersection_of: GO:0009058 ! biosynthetic process intersection_of: has_primary_output CHEBI:18085 ! glycosaminoglycan relationship: has_primary_output CHEBI:18085 ! glycosaminoglycan [Term] id: GO:0006073 name: cellular glucan metabolic process namespace: biological_process def: "The chemical reactions and pathways involving glucans, polysaccharides consisting only of glucose residues, occurring at the level of an individual cell." [ISBN:0198547684] synonym: "cellular glucan metabolism" EXACT [] is_a: GO:0044042 ! glucan metabolic process is_a: GO:0044264 ! cellular polysaccharide metabolic process [Term] id: GO:0006082 name: organic acid metabolic process namespace: biological_process def: "The chemical reactions and pathways involving organic acids, any acidic compound containing carbon in covalent linkage." [ISBN:0198506732] subset: goslim_pir synonym: "organic acid metabolism" EXACT [] is_a: GO:0044237 ! cellular metabolic process is_a: GO:0044281 ! small molecule metabolic process is_a: GO:0071704 ! organic substance metabolic process intersection_of: GO:0008152 ! metabolic process intersection_of: has_primary_input_or_output CHEBI:64709 ! organic acid relationship: has_primary_input_or_output CHEBI:64709 ! organic acid [Term] id: GO:0006091 name: generation of precursor metabolites and energy namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of precursor metabolites, substances from which energy is derived, and any process involved in the liberation of energy from these substances." [GOC:jl] subset: goslim_candida subset: goslim_chembl subset: goslim_drosophila subset: goslim_generic subset: goslim_metagenomics subset: goslim_pir subset: goslim_plant subset: goslim_pombe subset: goslim_yeast synonym: "energy pathways" BROAD [] synonym: "intermediary metabolism" RELATED [GOC:mah] synonym: "metabolic energy generation" RELATED [] is_a: GO:0044237 ! cellular metabolic process [Term] id: GO:0006109 name: regulation of carbohydrate metabolic process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways involving carbohydrates." [GOC:go_curators] synonym: "regulation of carbohydrate metabolism" EXACT [] is_a: GO:0080090 ! regulation of primary metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0005975 ! carbohydrate metabolic process relationship: regulates GO:0005975 ! carbohydrate metabolic process [Term] id: GO:0006112 name: energy reserve metabolic process namespace: biological_process def: "The chemical reactions and pathways by which a cell derives energy from stored compounds such as fats or glycogen." [GOC:mah] subset: goslim_pir synonym: "energy reserve metabolism" EXACT [] is_a: GO:0015980 ! energy derivation by oxidation of organic compounds [Term] id: GO:0006113 name: fermentation namespace: biological_process def: "The anaerobic enzymatic conversion of organic compounds, especially carbohydrates, coupling the oxidation and reduction of NAD/H and the generation of adenosine triphosphate (ATP)." [GOC:curators, ISBN:0201090910, MetaCyc:Fermentation] subset: goslim_pir xref: MetaCyc:FERMENTATION-PWY xref: Wikipedia:Fermentation_(biochemistry) is_a: GO:0015980 ! energy derivation by oxidation of organic compounds [Term] id: GO:0006139 name: nucleobase-containing compound metabolic process namespace: biological_process alt_id: GO:0055134 def: "Any cellular metabolic process involving nucleobases, nucleosides, nucleotides and nucleic acids." [GOC:ai] subset: goslim_pir subset: goslim_plant synonym: "cellular nucleobase, nucleoside, nucleotide and nucleic acid metabolic process" EXACT [] synonym: "cellular nucleobase, nucleoside, nucleotide and nucleic acid metabolism" EXACT [] synonym: "nucleobase, nucleoside and nucleotide metabolic process" RELATED [] synonym: "nucleobase, nucleoside, nucleotide and nucleic acid metabolic process" RELATED [GOC:dph, GOC:tb] synonym: "nucleobase, nucleoside, nucleotide and nucleic acid metabolism" EXACT [] is_a: GO:0006725 ! cellular aromatic compound metabolic process is_a: GO:0034641 ! cellular nitrogen compound metabolic process is_a: GO:0044238 ! primary metabolic process is_a: GO:0046483 ! heterocycle metabolic process is_a: GO:1901360 ! organic cyclic compound metabolic process intersection_of: GO:0008152 ! metabolic process intersection_of: has_primary_input_or_output CHEBI:61120 ! nucleobase-containing molecular entity relationship: has_primary_input_or_output CHEBI:61120 ! nucleobase-containing molecular entity [Term] id: GO:0006259 name: DNA metabolic process namespace: biological_process alt_id: GO:0055132 def: "Any cellular metabolic process involving deoxyribonucleic acid. This is one of the two main types of nucleic acid, consisting of a long, unbranched macromolecule formed from one, or more commonly, two, strands of linked deoxyribonucleotides." [ISBN:0198506732] subset: goslim_agr subset: goslim_aspergillus subset: goslim_candida subset: goslim_chembl subset: goslim_flybase_ribbon subset: goslim_metagenomics subset: goslim_pir subset: goslim_plant synonym: "cellular DNA metabolism" EXACT [] synonym: "DNA metabolism" EXACT [] is_a: GO:0044260 ! cellular macromolecule metabolic process is_a: GO:0090304 ! nucleic acid metabolic process intersection_of: GO:0008152 ! metabolic process intersection_of: has_primary_input_or_output CHEBI:16991 ! deoxyribonucleic acid relationship: has_primary_input_or_output CHEBI:16991 ! deoxyribonucleic acid [Term] id: GO:0006323 name: DNA packaging namespace: biological_process def: "Any process in which DNA and associated proteins are formed into a compact, orderly structure." [GOC:mah, ISBN:0815316194] subset: goslim_pir synonym: "DNA condensation" EXACT [] synonym: "DNA organisation" EXACT [] synonym: "DNA organization" EXACT [] is_a: GO:0071103 ! DNA conformation change relationship: has_part GO:0008301 ! DNA binding, bending [Term] id: GO:0006325 name: chromatin organization namespace: biological_process alt_id: GO:0016568 def: "Any process that results in the specification, formation or maintenance of the physical structure of eukaryotic chromatin." [GOC:mah, GOC:vw, PMID:20404130] subset: goslim_generic subset: goslim_pombe subset: goslim_yeast synonym: "chromatin modification" RELATED [] synonym: "chromatin organisation" EXACT [GOC:mah] synonym: "establishment or maintenance of chromatin architecture" EXACT [GOC:mah] is_a: GO:0016043 ! cellular component organization intersection_of: GO:0009987 ! cellular process intersection_of: results_in_organization_of GO:0000785 ! chromatin relationship: part_of GO:0051276 ! chromosome organization relationship: results_in_organization_of GO:0000785 ! chromatin [Term] id: GO:0006333 name: chromatin assembly or disassembly namespace: biological_process def: "The formation or destruction of chromatin structures." [GOC:mah] synonym: "chromatin assembly/disassembly" EXACT [] is_a: GO:0006325 ! chromatin organization [Term] id: GO:0006403 name: RNA localization namespace: biological_process def: "A process in which RNA is transported to, or maintained in, a specific location." [GOC:ai] subset: goslim_drosophila synonym: "establishment and maintenance of RNA localization" EXACT [] synonym: "RNA localisation" EXACT [GOC:mah] is_a: GO:0033036 ! macromolecule localization [Term] id: GO:0006412 name: translation namespace: biological_process alt_id: GO:0006416 alt_id: GO:0006453 alt_id: GO:0043037 def: "The cellular metabolic process in which a protein is formed, using the sequence of a mature mRNA or circRNA molecule to specify the sequence of amino acids in a polypeptide chain. Translation is mediated by the ribosome, and begins with the formation of a ternary complex between aminoacylated initiator methionine tRNA, GTP, and initiation factor 2, which subsequently associates with the small subunit of the ribosome and an mRNA or circRNA. Translation ends with the release of a polypeptide chain from the ribosome." [GOC:go_curators] subset: goslim_aspergillus subset: goslim_candida subset: goslim_chembl subset: goslim_drosophila subset: goslim_metagenomics subset: goslim_pir subset: goslim_plant synonym: "protein anabolism" EXACT [] synonym: "protein biosynthesis" EXACT [] synonym: "protein biosynthetic process" EXACT [] synonym: "protein formation" EXACT [] synonym: "protein synthesis" EXACT [] synonym: "protein translation" EXACT [] xref: Wikipedia:Translation_(genetics) is_a: GO:0034645 ! cellular macromolecule biosynthetic process is_a: GO:0043043 ! peptide biosynthetic process is_a: GO:0044267 ! cellular protein metabolic process intersection_of: GO:0009058 ! biosynthetic process intersection_of: has_primary_output CHEBI:16541 ! protein polypeptide chain intersection_of: part_of GO:0010467 ! gene expression relationship: ends_with GO:0006415 ! translational termination relationship: has_part GO:0006414 ! translational elongation relationship: has_primary_output CHEBI:16541 ! protein polypeptide chain relationship: part_of GO:0010467 ! gene expression relationship: starts_with GO:0006413 ! translational initiation [Term] id: GO:0006413 name: translational initiation namespace: biological_process alt_id: GO:0006440 alt_id: GO:0006454 def: "The process preceding formation of the peptide bond between the first two amino acids of a protein. This includes the formation of a complex of the ribosome, mRNA or circRNA, and an initiation complex that contains the first aminoacyl-tRNA." [ISBN:019879276X] subset: goslim_yeast synonym: "biopolymerisation" BROAD [] synonym: "biopolymerization" BROAD [] synonym: "protein synthesis initiation" BROAD [] synonym: "translation initiation" EXACT [] is_a: GO:0044237 ! cellular metabolic process relationship: part_of GO:0006412 ! translation relationship: starts_with GO:0001677 ! formation of translation initiation ternary complex [Term] id: GO:0006414 name: translational elongation namespace: biological_process alt_id: GO:0006442 alt_id: GO:0006455 def: "The successive addition of amino acid residues to a nascent polypeptide chain during protein biosynthesis." [GOC:ems] subset: goslim_yeast synonym: "protein synthesis elongation" BROAD [] synonym: "translation elongation" EXACT [] is_a: GO:0034645 ! cellular macromolecule biosynthetic process relationship: part_of GO:0006412 ! translation [Term] id: GO:0006415 name: translational termination namespace: biological_process alt_id: GO:0006443 alt_id: GO:0006456 def: "The process resulting in the release of a polypeptide chain from the ribosome, usually in response to a termination codon (UAA, UAG, or UGA in the universal genetic code)." [GOC:hjd, ISBN:019879276X] synonym: "protein synthesis termination" BROAD [] synonym: "translation termination" EXACT [] synonym: "translational complex disassembly" EXACT [] is_a: GO:0032984 ! protein-containing complex disassembly relationship: part_of GO:0006412 ! translation [Term] id: GO:0006417 name: regulation of translation namespace: biological_process alt_id: GO:0006445 def: "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of proteins by the translation of mRNA or circRNA." [GOC:isa_complete] subset: goslim_yeast synonym: "regulation of protein anabolism" EXACT [] synonym: "regulation of protein biosynthesis" EXACT [] synonym: "regulation of protein formation" EXACT [] synonym: "regulation of protein synthesis" EXACT [] is_a: GO:0010608 ! posttranscriptional regulation of gene expression is_a: GO:0032268 ! regulation of cellular protein metabolic process is_a: GO:0034248 ! regulation of cellular amide metabolic process is_a: GO:2000112 ! regulation of cellular macromolecule biosynthetic process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0006412 ! translation relationship: regulates GO:0006412 ! translation [Term] id: GO:0006446 name: regulation of translational initiation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of translational initiation." [GOC:go_curators] is_a: GO:0006417 ! regulation of translation intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0006413 ! translational initiation relationship: regulates GO:0006413 ! translational initiation [Term] id: GO:0006448 name: regulation of translational elongation namespace: biological_process def: "Any process that modulates the frequency, rate, extent or accuracy of translational elongation." [GOC:go_curators] is_a: GO:0006417 ! regulation of translation intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0006414 ! translational elongation relationship: regulates GO:0006414 ! translational elongation [Term] id: GO:0006449 name: regulation of translational termination namespace: biological_process def: "Any process that modulates the frequency, rate or extent of translational termination." [GOC:go_curators] is_a: GO:0006417 ! regulation of translation is_a: GO:0043244 ! regulation of protein-containing complex disassembly intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0006415 ! translational termination relationship: regulates GO:0006415 ! translational termination [Term] id: GO:0006518 name: peptide metabolic process namespace: biological_process def: "The chemical reactions and pathways involving peptides, compounds of two or more amino acids where the alpha carboxyl group of one is bound to the alpha amino group of another." [GOC:go_curators] subset: goslim_pir synonym: "peptide metabolism" EXACT [] is_a: GO:0043603 ! cellular amide metabolic process is_a: GO:1901564 ! organonitrogen compound metabolic process intersection_of: GO:0008152 ! metabolic process intersection_of: has_primary_input_or_output CHEBI:16670 ! peptide relationship: has_primary_input_or_output CHEBI:16670 ! peptide [Term] id: GO:0006520 name: cellular amino acid metabolic process namespace: biological_process alt_id: GO:0006519 def: "The chemical reactions and pathways involving amino acids, carboxylic acids containing one or more amino groups, as carried out by individual cells." [ISBN:0198506732] subset: goslim_aspergillus subset: goslim_chembl subset: goslim_drosophila subset: goslim_generic subset: goslim_pir subset: goslim_pombe subset: goslim_yeast synonym: "amino acid and derivative metabolism" EXACT [] synonym: "amino acid metabolic process" EXACT [] synonym: "cellular amino acid and derivative metabolic process" EXACT [] synonym: "cellular amino acid metabolism" EXACT [] is_a: GO:0019752 ! carboxylic acid metabolic process is_a: GO:0044238 ! primary metabolic process is_a: GO:1901564 ! organonitrogen compound metabolic process intersection_of: GO:0008152 ! metabolic process intersection_of: has_primary_input_or_output CHEBI:37022 ! amino-acid anion relationship: has_primary_input_or_output CHEBI:37022 ! amino-acid anion [Term] id: GO:0006521 name: regulation of cellular amino acid metabolic process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways involving amino acids." [GOC:go_curators] synonym: "regulation of amino acid metabolism" EXACT [] is_a: GO:0010565 ! regulation of cellular ketone metabolic process is_a: GO:0033238 ! regulation of cellular amine metabolic process is_a: GO:0080090 ! regulation of primary metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0006520 ! cellular amino acid metabolic process relationship: regulates GO:0006520 ! cellular amino acid metabolic process [Term] id: GO:0006576 name: cellular biogenic amine metabolic process namespace: biological_process def: "The chemical reactions and pathways occurring at the level of individual cells involving any of a group of naturally occurring, biologically active amines, such as norepinephrine, histamine, and serotonin, many of which act as neurotransmitters." [GOC:jl, ISBN:0395825172] synonym: "biogenic amine metabolism" EXACT [] is_a: GO:0044106 ! cellular amine metabolic process [Term] id: GO:0006584 name: catecholamine metabolic process namespace: biological_process def: "The chemical reactions and pathways involving any of a group of physiologically important biogenic amines that possess a catechol (3,4-dihydroxyphenyl) nucleus and are derivatives of 3,4-dihydroxyphenylethylamine." [GOC:jl, ISBN:0198506732] synonym: "catecholamine metabolism" EXACT [] is_a: GO:0006576 ! cellular biogenic amine metabolic process is_a: GO:0009712 ! catechol-containing compound metabolic process intersection_of: GO:0008152 ! metabolic process intersection_of: has_primary_input_or_output CHEBI:33567 ! catecholamine relationship: has_primary_input_or_output CHEBI:33567 ! catecholamine [Term] id: GO:0006586 name: indolalkylamine metabolic process namespace: biological_process def: "The chemical reactions and pathways involving indolalkylamines, indole or indole derivatives containing a primary, secondary, or tertiary amine group." [GOC:curators] synonym: "indolalkylamine metabolism" EXACT [] synonym: "indolamine metabolic process" BROAD [] synonym: "indolamine metabolism" BROAD [] is_a: GO:0006576 ! cellular biogenic amine metabolic process is_a: GO:0042430 ! indole-containing compound metabolic process intersection_of: GO:0008152 ! metabolic process intersection_of: has_primary_input_or_output CHEBI:38631 ! aminoalkylindole relationship: has_primary_input_or_output CHEBI:38631 ! aminoalkylindole [Term] id: GO:0006629 name: lipid metabolic process namespace: biological_process def: "The chemical reactions and pathways involving lipids, compounds soluble in an organic solvent but not, or sparingly, in an aqueous solvent. Includes fatty acids; neutral fats, other fatty-acid esters, and soaps; long-chain (fatty) alcohols and waxes; sphingoids and other long-chain bases; glycolipids, phospholipids and sphingolipids; and carotenes, polyprenols, sterols, terpenes and other isoprenoids." [GOC:ma] subset: goslim_agr subset: goslim_aspergillus subset: goslim_candida subset: goslim_chembl subset: goslim_drosophila subset: goslim_generic subset: goslim_metagenomics subset: goslim_mouse subset: goslim_pir subset: goslim_plant subset: goslim_pombe subset: goslim_yeast synonym: "lipid metabolism" EXACT [] xref: Wikipedia:Lipid_metabolism is_a: GO:0044238 ! primary metabolic process is_a: GO:0071704 ! organic substance metabolic process intersection_of: GO:0008152 ! metabolic process intersection_of: has_primary_input_or_output CHEBI:18059 ! lipid relationship: has_primary_input_or_output CHEBI:18059 ! lipid [Term] id: GO:0006694 name: steroid biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of steroids, compounds with a 1,2,cyclopentanoperhydrophenanthrene nucleus; includes de novo formation and steroid interconversion by modification." [GOC:go_curators] synonym: "steroid anabolism" EXACT [] synonym: "steroid biosynthesis" EXACT [] synonym: "steroid formation" EXACT [] synonym: "steroid synthesis" EXACT [] synonym: "steroidogenesis" EXACT [] xref: Wikipedia:Steroid_metabolisms#Steroid_biosynthesis is_a: GO:0008202 ! steroid metabolic process is_a: GO:0008610 ! lipid biosynthetic process is_a: GO:1901362 ! organic cyclic compound biosynthetic process intersection_of: GO:0009058 ! biosynthetic process intersection_of: has_primary_output CHEBI:35341 ! steroid relationship: has_primary_output CHEBI:35341 ! steroid [Term] id: GO:0006725 name: cellular aromatic compound metabolic process namespace: biological_process def: "The chemical reactions and pathways involving aromatic compounds, any organic compound characterized by one or more planar rings, each of which contains conjugated double bonds and delocalized pi electrons, as carried out by individual cells." [GOC:ai, ISBN:0198506732] subset: goslim_pir synonym: "aromatic compound metabolism" EXACT [] synonym: "aromatic hydrocarbon metabolic process" NARROW [] synonym: "aromatic hydrocarbon metabolism" NARROW [] is_a: GO:0044237 ! cellular metabolic process intersection_of: GO:0008152 ! metabolic process intersection_of: has_primary_input_or_output CHEBI:33655 ! aromatic compound relationship: has_primary_input_or_output CHEBI:33655 ! aromatic compound [Term] id: GO:0006790 name: sulfur compound metabolic process namespace: biological_process def: "The chemical reactions and pathways involving the nonmetallic element sulfur or compounds that contain sulfur, such as the amino acids methionine and cysteine or the tripeptide glutathione." [GOC:ai] subset: goslim_chembl subset: goslim_drosophila subset: goslim_generic subset: goslim_pir subset: goslim_pombe synonym: "sulfur metabolism" EXACT [] synonym: "sulphur metabolic process" EXACT [] synonym: "sulphur metabolism" EXACT [] xref: Wikipedia:Sulfur_metabolism is_a: GO:0044237 ! cellular metabolic process intersection_of: GO:0008152 ! metabolic process intersection_of: has_primary_input_or_output CHEBI:26835 ! sulfur molecular entity relationship: has_primary_input_or_output CHEBI:26835 ! sulfur molecular entity [Term] id: GO:0006793 name: phosphorus metabolic process namespace: biological_process def: "The chemical reactions and pathways involving the nonmetallic element phosphorus or compounds that contain phosphorus, usually in the form of a phosphate group (PO4)." [GOC:ai] subset: goslim_pir synonym: "phosphorus metabolism" EXACT [] is_a: GO:0044237 ! cellular metabolic process intersection_of: GO:0008152 ! metabolic process intersection_of: has_primary_input_or_output CHEBI:26082 ! phosphorus molecular entity relationship: has_primary_input_or_output CHEBI:26082 ! phosphorus molecular entity [Term] id: GO:0006796 name: phosphate-containing compound metabolic process namespace: biological_process def: "The chemical reactions and pathways involving the phosphate group, the anion or salt of any phosphoric acid." [GOC:ai] synonym: "phosphate metabolic process" RELATED [] synonym: "phosphate metabolism" EXACT [] is_a: GO:0006793 ! phosphorus metabolic process intersection_of: GO:0008152 ! metabolic process intersection_of: has_primary_input_or_output CHEBI:26020 ! phosphate relationship: has_primary_input_or_output CHEBI:26020 ! phosphate [Term] id: GO:0006807 name: nitrogen compound metabolic process namespace: biological_process def: "The chemical reactions and pathways involving organic or inorganic compounds that contain nitrogen." [GOC:jl, ISBN:0198506732] subset: goslim_metagenomics subset: goslim_pir synonym: "nitrogen compound metabolism" EXACT [] is_a: GO:0008152 ! metabolic process intersection_of: GO:0008152 ! metabolic process intersection_of: has_primary_input_or_output CHEBI:51143 ! nitrogen molecular entity relationship: has_primary_input_or_output CHEBI:51143 ! nitrogen molecular entity [Term] id: GO:0006810 name: transport namespace: biological_process alt_id: GO:0015457 alt_id: GO:0015460 alt_id: GO:0044765 def: "The directed movement of substances (such as macromolecules, small molecules, ions) or cellular components (such as complexes and organelles) into, out of or within a cell, or between cells, or within a multicellular organism by means of some agent such as a transporter, pore or motor protein." [GOC:dos, GOC:dph, GOC:jl, GOC:mah] comment: Note that this term should not be used for direct annotation. It should be possible to make a more specific annotation to one of the children of this term, for e.g. to transmembrane transport, to microtubule-based transport or to vesicle-mediated transport. subset: gocheck_do_not_annotate subset: goslim_aspergillus subset: goslim_candida subset: goslim_chembl subset: goslim_metagenomics subset: goslim_pir subset: goslim_plant synonym: "single-organism transport" RELATED [] synonym: "small molecule transport" NARROW [] synonym: "solute:solute exchange" NARROW [] is_a: GO:0051234 ! establishment of localization created_by: jl creation_date: 2012-12-13T16:25:32Z [Term] id: GO:0006811 name: ion transport namespace: biological_process def: "The directed movement of charged atoms or small charged molecules into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." [GOC:ai] subset: goslim_drosophila subset: goslim_pir subset: goslim_yeast is_a: GO:0006810 ! transport intersection_of: GO:0006810 ! transport intersection_of: transports_or_maintains_localization_of CHEBI:24870 ! ion relationship: transports_or_maintains_localization_of CHEBI:24870 ! ion [Term] id: GO:0006812 name: cation transport namespace: biological_process alt_id: GO:0006819 alt_id: GO:0015674 alt_id: GO:0072512 def: "The directed movement of cations, atoms or small molecules with a net positive charge, into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." [GOC:ai] synonym: "di-, tri-valent inorganic cation transport" NARROW [GOC:mah] synonym: "trivalent inorganic cation transport" NARROW [] is_a: GO:0006811 ! ion transport intersection_of: GO:0006810 ! transport intersection_of: transports_or_maintains_localization_of CHEBI:36916 ! cation relationship: transports_or_maintains_localization_of CHEBI:36916 ! cation [Term] id: GO:0006817 name: phosphate ion transport namespace: biological_process def: "The directed movement of phosphate into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." [GOC:krc] synonym: "phosphate transport" RELATED [] is_a: GO:0015698 ! inorganic anion transport intersection_of: GO:0006810 ! transport intersection_of: transports_or_maintains_localization_of CHEBI:35780 ! phosphate ion relationship: transports_or_maintains_localization_of CHEBI:35780 ! phosphate ion [Term] id: GO:0006820 name: anion transport namespace: biological_process alt_id: GO:0006822 def: "The directed movement of anions, atoms or small molecules with a net negative charge, into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." [GOC:ai] is_a: GO:0006811 ! ion transport intersection_of: GO:0006810 ! transport intersection_of: transports_or_maintains_localization_of CHEBI:22563 ! anion relationship: transports_or_maintains_localization_of CHEBI:22563 ! anion [Term] id: GO:0006837 name: serotonin transport namespace: biological_process def: "The directed movement of serotonin into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore. Serotonin (5-hydroxytryptamine) is a monoamine neurotransmitter occurring in the peripheral and central nervous systems." [GOC:ai] is_a: GO:0006812 ! cation transport is_a: GO:0071705 ! nitrogen compound transport intersection_of: GO:0006810 ! transport intersection_of: transports_or_maintains_localization_of CHEBI:350546 ! serotonin(1+) relationship: transports_or_maintains_localization_of CHEBI:350546 ! serotonin(1+) [Term] id: GO:0006858 name: extracellular transport namespace: biological_process def: "The transport of substances that occurs outside cells." [GOC:go_curators] is_a: GO:0006810 ! transport intersection_of: GO:0006810 ! transport intersection_of: occurs_in GO:0005576 ! extracellular region relationship: occurs_in GO:0005576 ! extracellular region [Term] id: GO:0006859 name: extracellular carbohydrate transport namespace: biological_process def: "The directed extracellular movement of carbohydrates." [GOC:ai] is_a: GO:0006858 ! extracellular transport is_a: GO:0008643 ! carbohydrate transport intersection_of: GO:0008643 ! carbohydrate transport intersection_of: occurs_in GO:0005576 ! extracellular region [Term] id: GO:0006860 name: extracellular amino acid transport namespace: biological_process def: "The directed extracellular movement of amino acids." [GOC:ai] is_a: GO:0006858 ! extracellular transport is_a: GO:0006865 ! amino acid transport intersection_of: GO:0006865 ! amino acid transport intersection_of: occurs_in GO:0005576 ! extracellular region [Term] id: GO:0006865 name: amino acid transport namespace: biological_process alt_id: GO:0006866 def: "The directed movement of amino acids, organic acids containing one or more amino substituents, into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." [GOC:ai] subset: goslim_pir subset: goslim_yeast is_a: GO:0015849 ! organic acid transport is_a: GO:0071705 ! nitrogen compound transport intersection_of: GO:0006810 ! transport intersection_of: transports_or_maintains_localization_of CHEBI:33709 ! amino acid relationship: transports_or_maintains_localization_of CHEBI:33709 ! amino acid [Term] id: GO:0006869 name: lipid transport namespace: biological_process def: "The directed movement of lipids into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore. Lipids are compounds soluble in an organic solvent but not, or sparingly, in an aqueous solvent." [ISBN:0198506732] subset: goslim_drosophila subset: goslim_pir subset: goslim_yeast is_a: GO:0071702 ! organic substance transport intersection_of: GO:0006810 ! transport intersection_of: transports_or_maintains_localization_of CHEBI:18059 ! lipid relationship: part_of GO:0010876 ! lipid localization relationship: transports_or_maintains_localization_of CHEBI:18059 ! lipid [Term] id: GO:0006886 name: intracellular protein transport namespace: biological_process alt_id: GO:0032779 def: "The directed movement of proteins in a cell, including the movement of proteins between specific compartments or structures within a cell, such as organelles of a eukaryotic cell." [GOC:mah] subset: goslim_generic synonym: "copper-induced intracellular protein transport" RELATED [GOC:al] is_a: GO:0015031 ! protein transport is_a: GO:0046907 ! intracellular transport intersection_of: GO:0006810 ! transport intersection_of: occurs_in GO:0005622 ! intracellular anatomical structure intersection_of: transports_or_maintains_localization_of PR:000000001 ! protein relationship: part_of GO:0034613 ! cellular protein localization [Term] id: GO:0006887 name: exocytosis namespace: biological_process alt_id: GO:0016194 alt_id: GO:0016195 def: "A process of secretion by a cell that results in the release of intracellular molecules (e.g. hormones, matrix proteins) contained within a membrane-bounded vesicle. Exocytosis can occur either by full fusion, when the vesicle collapses into the plasma membrane, or by a kiss-and-run mechanism that involves the formation of a transient contact, a pore, between a granule (for exemple of chromaffin cells) and the plasma membrane. The latter process most of the time leads to only partial secretion of the granule content. Exocytosis begins with steps that prepare vesicles for fusion with the membrane (tethering and docking) and ends when molecules are secreted from the cell." [GOC:mah, ISBN:0716731363, PMID:22323285] subset: goslim_yeast synonym: "nonselective vesicle exocytosis" RELATED [] synonym: "vesicle exocytosis" EXACT [] xref: Wikipedia:Exocytosis is_a: GO:0016192 ! vesicle-mediated transport is_a: GO:0032940 ! secretion by cell intersection_of: GO:0006810 ! transport intersection_of: process_has_causal_agent GO:0070382 ! exocytic vesicle relationship: has_part GO:0099500 ! vesicle fusion to plasma membrane relationship: process_has_causal_agent GO:0070382 ! exocytic vesicle [Term] id: GO:0006892 name: post-Golgi vesicle-mediated transport namespace: biological_process def: "The directed movement of substances from the Golgi to other parts of the cell, including organelles and the plasma membrane, mediated by small transport vesicles." [GOC:ai, GOC:mah] synonym: "post-Golgi transport" EXACT [] is_a: GO:0048193 ! Golgi vesicle transport [Term] id: GO:0006893 name: Golgi to plasma membrane transport namespace: biological_process def: "The directed movement of substances from the Golgi to the plasma membrane in transport vesicles that move from the trans-Golgi network to the plasma membrane, where they fuse and release their contents by exocytosis." [ISBN:0716731363] synonym: "Golgi to plasma membrane vesicle-mediated transport" EXACT [] is_a: GO:0006892 ! post-Golgi vesicle-mediated transport is_a: GO:0098876 ! vesicle-mediated transport to the plasma membrane intersection_of: GO:0016192 ! vesicle-mediated transport intersection_of: has_target_end_location GO:0005886 ! plasma membrane intersection_of: has_target_start_location GO:0005794 ! Golgi apparatus relationship: has_target_start_location GO:0005794 ! Golgi apparatus [Term] id: GO:0006896 name: Golgi to vacuole transport namespace: biological_process def: "The directed movement of substances from the Golgi to the vacuole." [GOC:ai] synonym: "Golgi to vacuole vesicle-mediated transport" EXACT [] is_a: GO:0006892 ! post-Golgi vesicle-mediated transport is_a: GO:0007034 ! vacuolar transport intersection_of: GO:0016192 ! vesicle-mediated transport intersection_of: has_target_end_location GO:0005773 ! vacuole intersection_of: has_target_start_location GO:0005794 ! Golgi apparatus intersection_of: occurs_in GO:0005622 ! intracellular anatomical structure relationship: has_target_end_location GO:0005773 ! vacuole relationship: has_target_start_location GO:0005794 ! Golgi apparatus [Term] id: GO:0006903 name: vesicle targeting namespace: biological_process def: "The process in which vesicles are directed to specific destination membranes. Targeting involves coordinated interactions among cytoskeletal elements (microtubules or actin filaments), motor proteins, molecules at the vesicle membrane and target membrane surfaces, and vesicle cargo." [GOC:mah, PMID:17335816] is_a: GO:0009987 ! cellular process relationship: part_of GO:0016192 ! vesicle-mediated transport relationship: part_of GO:0051650 ! establishment of vesicle localization [Term] id: GO:0006906 name: vesicle fusion namespace: biological_process def: "Fusion of the membrane of a transport vesicle with its target membrane." [GOC:jid] is_a: GO:0016050 ! vesicle organization is_a: GO:0090174 ! organelle membrane fusion intersection_of: GO:0009987 ! cellular process intersection_of: results_in_fusion_of GO:0012506 ! vesicle membrane relationship: part_of GO:0016192 ! vesicle-mediated transport relationship: results_in_fusion_of GO:0012506 ! vesicle membrane [Term] id: GO:0006915 name: apoptotic process namespace: biological_process alt_id: GO:0006917 alt_id: GO:0008632 def: "A programmed cell death process which begins when a cell receives an internal (e.g. DNA damage) or external signal (e.g. an extracellular death ligand), and proceeds through a series of biochemical events (signaling pathway phase) which trigger an execution phase. The execution phase is the last step of an apoptotic process, and is typically characterized by rounding-up of the cell, retraction of pseudopodes, reduction of cellular volume (pyknosis), chromatin condensation, nuclear fragmentation (karyorrhexis), plasma membrane blebbing and fragmentation of the cell into apoptotic bodies. When the execution phase is completed, the cell has died." [GOC:cjm, GOC:dhl, GOC:ecd, GOC:go_curators, GOC:mtg_apoptosis, GOC:tb, ISBN:0198506732, PMID:18846107, PMID:21494263] synonym: "activation of apoptosis" NARROW [] synonym: "apoptosis" NARROW [] synonym: "apoptosis activator activity" RELATED [] synonym: "apoptosis signaling" NARROW [] synonym: "apoptotic cell death" EXACT [GOC:sl] synonym: "apoptotic program" NARROW [GOC:add] synonym: "apoptotic programmed cell death" EXACT [] synonym: "caspase-dependent programmed cell death" RELATED [] synonym: "cell suicide" BROAD [] synonym: "cellular suicide" BROAD [] synonym: "commitment to apoptosis" RELATED [] synonym: "induction of apoptosis" RELATED [] synonym: "induction of apoptosis by p53" RELATED [] synonym: "programmed cell death by apoptosis" EXACT [] synonym: "signaling (initiator) caspase activity" RELATED [] synonym: "type I programmed cell death" NARROW [] xref: Wikipedia:Apoptosis is_a: GO:0012501 ! programmed cell death relationship: ends_with GO:0097194 ! execution phase of apoptosis relationship: in_taxon NCBITaxon:33154 ! Opisthokonta relationship: only_in_taxon NCBITaxon:33154 ! Opisthokonta relationship: starts_with GO:0097190 ! apoptotic signaling pathway property_value: RO:0002161 NCBITaxon:2 property_value: RO:0002161 NCBITaxon:4896 [Term] id: GO:0006921 name: cellular component disassembly involved in execution phase of apoptosis namespace: biological_process def: "The breakdown of structures such as organelles, proteins, or other macromolecular structures during apoptosis." [GOC:dph, GOC:mah, GOC:mtg_apoptosis, GOC:tb] synonym: "cellular component disassembly involved in apoptosis" NARROW [] synonym: "cellular component disassembly involved in apoptotic process" BROAD [] synonym: "disassembly of cell structures" BROAD [] is_a: GO:0022411 ! cellular component disassembly intersection_of: GO:0022411 ! cellular component disassembly intersection_of: part_of GO:0097194 ! execution phase of apoptosis relationship: part_of GO:0097194 ! execution phase of apoptosis [Term] id: GO:0006928 name: movement of cell or subcellular component namespace: biological_process def: "The directed, self-propelled movement of a cell or subcellular component without the involvement of an external agent such as a transporter or a pore." [GOC:dgh, GOC:dph, GOC:jl, GOC:mlg] comment: Note that in GO cellular components include whole cells (cell is_a cellular component). subset: gocheck_do_not_annotate subset: goslim_pir synonym: "cell movement" RELATED [] synonym: "cellular component motion" EXACT [GOC:dph, GOC:jl] synonym: "cellular component movement" EXACT [] is_a: GO:0009987 ! cellular process [Term] id: GO:0006935 name: chemotaxis namespace: biological_process def: "The directed movement of a motile cell or organism, or the directed growth of a cell guided by a specific chemical concentration gradient. Movement may be towards a higher concentration (positive chemotaxis) or towards a lower concentration (negative chemotaxis)." [ISBN:0198506732] synonym: "taxis in response to chemical stimulus" EXACT [] xref: Wikipedia:Chemotaxis is_a: GO:0042330 ! taxis relationship: part_of GO:0042221 ! response to chemical [Term] id: GO:0006936 name: muscle contraction namespace: biological_process def: "A process in which force is generated within muscle tissue, resulting in a change in muscle geometry. Force generation involves a chemo-mechanical energy conversion step that is carried out by the actin/myosin complex activity, which generates force through ATP hydrolysis." [GOC:ef, GOC:mtg_muscle, ISBN:0198506732] subset: goslim_pir xref: Wikipedia:Muscle_contraction is_a: GO:0003012 ! muscle system process relationship: occurs_in UBERON:0002385 ! muscle tissue [Term] id: GO:0006937 name: regulation of muscle contraction namespace: biological_process def: "Any process that modulates the frequency, rate or extent of muscle contraction." [GOC:go_curators] is_a: GO:0090257 ! regulation of muscle system process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0006936 ! muscle contraction relationship: regulates GO:0006936 ! muscle contraction [Term] id: GO:0006939 name: smooth muscle contraction namespace: biological_process def: "A process in which force is generated within smooth muscle tissue, resulting in a change in muscle geometry. Force generation involves a chemo-mechanical energy conversion step that is carried out by the actin/myosin complex activity, which generates force through ATP hydrolysis. Smooth muscle differs from striated muscle in the much higher actin/myosin ratio, the absence of conspicuous sarcomeres and the ability to contract to a much smaller fraction of its resting length." [GOC:ef, GOC:jl, GOC:mtg_muscle, ISBN:0198506732] synonym: "visceral muscle contraction" EXACT [] is_a: GO:0006936 ! muscle contraction intersection_of: GO:0006936 ! muscle contraction intersection_of: occurs_in UBERON:0001135 ! smooth muscle tissue relationship: occurs_in UBERON:0001135 ! smooth muscle tissue [Term] id: GO:0006940 name: regulation of smooth muscle contraction namespace: biological_process def: "Any process that modulates the frequency, rate or extent of smooth muscle contraction." [GOC:go_curators] is_a: GO:0006937 ! regulation of muscle contraction intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0006939 ! smooth muscle contraction relationship: regulates GO:0006939 ! smooth muscle contraction [Term] id: GO:0006941 name: striated muscle contraction namespace: biological_process def: "A process in which force is generated within striated muscle tissue, resulting in the shortening of the muscle. Force generation involves a chemo-mechanical energy conversion step that is carried out by the actin/myosin complex activity, which generates force through ATP hydrolysis. Striated muscle is a type of muscle in which the repeating units (sarcomeres) of the contractile myofibrils are arranged in registry throughout the cell, resulting in transverse or oblique striations observable at the level of the light microscope." [GOC:jl, GOC:mtg_muscle, ISBN:0198506732] synonym: "sarcomeric muscle contraction" EXACT [] is_a: GO:0006936 ! muscle contraction relationship: occurs_in UBERON:0002036 ! striated muscle tissue [Term] id: GO:0006942 name: regulation of striated muscle contraction namespace: biological_process def: "Any process that modulates the frequency, rate or extent of striated muscle contraction." [GOC:go_curators] is_a: GO:0006937 ! regulation of muscle contraction intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0006941 ! striated muscle contraction relationship: regulates GO:0006941 ! striated muscle contraction [Term] id: GO:0006949 name: syncytium formation namespace: biological_process def: "The formation of a syncytium, a mass of cytoplasm containing several nuclei enclosed within a single plasma membrane. Syncytia are normally derived from single cells that fuse or fail to complete cell division." [ISBN:0198506732] subset: goslim_pir is_a: GO:0009987 ! cellular process is_a: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: results_in_formation_of CL:0000228 ! multinucleate cell relationship: results_in_formation_of CL:0000228 ! multinucleate cell [Term] id: GO:0006996 name: organelle organization namespace: biological_process alt_id: GO:1902589 def: "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of an organelle within a cell. An organelle is an organized structure of distinctive morphology and function. Includes the nucleus, mitochondria, plastids, vacuoles, vesicles, ribosomes and the cytoskeleton. Excludes the plasma membrane." [GOC:mah] subset: goslim_aspergillus subset: goslim_candida subset: goslim_pir synonym: "organelle organisation" EXACT [] synonym: "organelle organization and biogenesis" RELATED [GOC:dph, GOC:jl, GOC:mah] synonym: "single organism organelle organization" EXACT [GOC:TermGenie] synonym: "single-organism organelle organization" RELATED [] is_a: GO:0016043 ! cellular component organization intersection_of: GO:0016043 ! cellular component organization intersection_of: results_in_organization_of GO:0043226 ! organelle relationship: results_in_organization_of GO:0043226 ! organelle created_by: jl creation_date: 2013-12-19T15:25:51Z [Term] id: GO:0006997 name: nucleus organization namespace: biological_process alt_id: GO:0048287 def: "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of the nucleus." [GOC:dph, GOC:ems, GOC:jl, GOC:mah] subset: goslim_aspergillus subset: goslim_candida subset: goslim_drosophila subset: goslim_pir subset: goslim_yeast synonym: "nuclear morphology" RELATED [] synonym: "nuclear organisation" EXACT [] synonym: "nuclear organization" EXACT [] synonym: "nuclear organization and biogenesis" RELATED [GOC:mah] synonym: "nucleus organization and biogenesis" RELATED [GOC:mah] is_a: GO:0006996 ! organelle organization intersection_of: GO:0016043 ! cellular component organization intersection_of: results_in_organization_of GO:0005634 ! nucleus relationship: results_in_organization_of GO:0005634 ! nucleus [Term] id: GO:0006998 name: nuclear envelope organization namespace: biological_process def: "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of the nuclear envelope." [GOC:dph, GOC:ems, GOC:jl, GOC:mah] synonym: "nuclear envelope organisation" EXACT [GOC:mah] synonym: "nuclear envelope organization and biogenesis" RELATED [GOC:mah] is_a: GO:0061024 ! membrane organization intersection_of: GO:0016043 ! cellular component organization intersection_of: results_in_organization_of GO:0005635 ! nuclear envelope relationship: part_of GO:0006997 ! nucleus organization relationship: part_of GO:0010256 ! endomembrane system organization relationship: results_in_organization_of GO:0005635 ! nuclear envelope [Term] id: GO:0007000 name: nucleolus organization namespace: biological_process def: "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of the nucleolus." [GOC:dph, GOC:jid, GOC:jl, GOC:mah] synonym: "nucleolus organisation" EXACT [] synonym: "nucleolus organization and biogenesis" RELATED [GOC:mah] is_a: GO:0006997 ! nucleus organization intersection_of: GO:0016043 ! cellular component organization intersection_of: results_in_organization_of GO:0005730 ! nucleolus relationship: results_in_organization_of GO:0005730 ! nucleolus [Term] id: GO:0007009 name: plasma membrane organization namespace: biological_process def: "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of the plasma membrane." [GOC:dph, GOC:jl, GOC:mah] subset: goslim_chembl synonym: "plasma membrane organisation" EXACT [] synonym: "plasma membrane organization and biogenesis" RELATED [GOC:mah] is_a: GO:0061024 ! membrane organization intersection_of: GO:0016043 ! cellular component organization intersection_of: results_in_organization_of GO:0005886 ! plasma membrane relationship: part_of GO:0010256 ! endomembrane system organization relationship: results_in_organization_of GO:0005886 ! plasma membrane [Term] id: GO:0007010 name: cytoskeleton organization namespace: biological_process def: "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of cytoskeletal structures." [GOC:dph, GOC:jl, GOC:mah] subset: goslim_aspergillus subset: goslim_candida subset: goslim_chembl subset: goslim_drosophila subset: goslim_generic subset: goslim_yeast synonym: "cytoskeletal organization and biogenesis" RELATED [GOC:mah] synonym: "cytoskeletal regulator activity" RELATED [] synonym: "cytoskeleton organisation" EXACT [] synonym: "cytoskeleton organization and biogenesis" RELATED [GOC:mah] is_a: GO:0006996 ! organelle organization intersection_of: GO:0016043 ! cellular component organization intersection_of: results_in_organization_of GO:0005856 ! cytoskeleton relationship: results_in_organization_of GO:0005856 ! cytoskeleton [Term] id: GO:0007017 name: microtubule-based process namespace: biological_process def: "Any cellular process that depends upon or alters the microtubule cytoskeleton, that part of the cytoskeleton comprising microtubules and their associated proteins." [GOC:mah] subset: goslim_chembl is_a: GO:0009987 ! cellular process relationship: has_participant GO:0005874 ! microtubule [Term] id: GO:0007018 name: microtubule-based movement namespace: biological_process def: "A microtubule-based process that results in the movement of organelles, other microtubules, or other cellular components. Examples include motor-driven movement along microtubules and movement driven by polymerization or depolymerization of microtubules." [GOC:cjm, ISBN:0815316194] subset: goslim_drosophila subset: goslim_generic is_a: GO:0006928 ! movement of cell or subcellular component is_a: GO:0007017 ! microtubule-based process intersection_of: GO:0006928 ! movement of cell or subcellular component intersection_of: process_has_causal_agent GO:0005874 ! microtubule relationship: process_has_causal_agent GO:0005874 ! microtubule [Term] id: GO:0007019 name: microtubule depolymerization namespace: biological_process def: "The removal of tubulin heterodimers from one or both ends of a microtubule." [ISBN:0815316194] synonym: "microtubule catastrophe" NARROW [GOC:dph, GOC:tb] synonym: "microtubule depolymerization during nuclear congression" NARROW [] synonym: "microtubule disassembly" EXACT [] synonym: "microtubule shortening" EXACT [] is_a: GO:0031109 ! microtubule polymerization or depolymerization is_a: GO:0051261 ! protein depolymerization is_a: GO:0097435 ! supramolecular fiber organization intersection_of: GO:0022411 ! cellular component disassembly intersection_of: results_in_disassembly_of GO:0005874 ! microtubule relationship: results_in_disassembly_of GO:0005874 ! microtubule [Term] id: GO:0007020 name: microtubule nucleation namespace: biological_process def: "The process in which tubulin alpha-beta heterodimers begin aggregation to form an oligomeric tubulin structure (a microtubule seed). Microtubule nucleation is the initiating step in the formation of a microtubule in the absence of any existing microtubules ('de novo' microtubule formation)." [GOC:go_curators, ISBN:0815316194, PMID:12517712] xref: Wikipedia:Microtubule_nucleation is_a: GO:0000226 ! microtubule cytoskeleton organization relationship: part_of GO:0046785 ! microtubule polymerization [Term] id: GO:0007026 name: negative regulation of microtubule depolymerization namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of microtubule depolymerization; prevention of depolymerization of a microtubule can result from binding by 'capping' at the plus end (e.g. by interaction with another cellular protein of structure) or by exposing microtubules to a stabilizing drug such as taxol." [GOC:mah, ISBN:0815316194] synonym: "down regulation of microtubule depolymerization" EXACT [] synonym: "down-regulation of microtubule depolymerization" EXACT [] synonym: "downregulation of microtubule depolymerization" EXACT [] synonym: "inhibition of microtubule depolymerization" NARROW [] synonym: "microtubule rescue" NARROW [GOC:dph, GOC:tb] synonym: "microtubule stabilization" EXACT [] synonym: "negative regulation of microtubule catastrophe" NARROW [GOC:dph, GOC:tb] synonym: "negative regulation of microtubule disassembly" EXACT [] is_a: GO:0031111 ! negative regulation of microtubule polymerization or depolymerization is_a: GO:0031114 ! regulation of microtubule depolymerization is_a: GO:1901880 ! negative regulation of protein depolymerization is_a: GO:1902904 ! negative regulation of supramolecular fiber organization intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0007019 ! microtubule depolymerization relationship: negatively_regulates GO:0007019 ! microtubule depolymerization [Term] id: GO:0007027 name: negative regulation of axonemal microtubule depolymerization namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of the depolymerization of the specialized microtubules of the axoneme." [GOC:dph, GOC:mah] synonym: "axonemal microtubule stabilization" EXACT [] synonym: "negative regulation of microtubule depolymerization in axoneme" RELATED [GOC:dph] is_a: GO:0007026 ! negative regulation of microtubule depolymerization is_a: GO:0010937 ! regulation of cytoplasmic microtubule depolymerization is_a: GO:0031345 ! negative regulation of cell projection organization is_a: GO:0120035 ! regulation of plasma membrane bounded cell projection organization intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0060404 ! axonemal microtubule depolymerization relationship: negatively_regulates GO:0060404 ! axonemal microtubule depolymerization [Term] id: GO:0007028 name: cytoplasm organization namespace: biological_process def: "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of the cytoplasm. The cytoplasm is all of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures." [GOC:curators, GOC:dph, GOC:jl, GOC:mah] subset: goslim_pir synonym: "cytoplasm organisation" EXACT [] synonym: "cytoplasm organization and biogenesis" RELATED [GOC:mah] is_a: GO:0016043 ! cellular component organization intersection_of: GO:0016043 ! cellular component organization intersection_of: results_in_organization_of GO:0005737 ! cytoplasm relationship: results_in_organization_of GO:0005737 ! cytoplasm [Term] id: GO:0007030 name: Golgi organization namespace: biological_process def: "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of the Golgi apparatus." [GOC:dph, GOC:jl, GOC:mah] subset: goslim_pir synonym: "Golgi organisation" EXACT [] synonym: "Golgi organization and biogenesis" RELATED [GOC:mah] is_a: GO:0006996 ! organelle organization intersection_of: GO:0016043 ! cellular component organization intersection_of: results_in_organization_of GO:0005794 ! Golgi apparatus relationship: part_of GO:0010256 ! endomembrane system organization relationship: results_in_organization_of GO:0005794 ! Golgi apparatus [Term] id: GO:0007033 name: vacuole organization namespace: biological_process alt_id: GO:0044086 def: "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of a vacuole." [GOC:mah] subset: goslim_drosophila subset: goslim_pir subset: goslim_yeast synonym: "vacuolar assembly" NARROW [GOC:mah] synonym: "vacuole biogenesis" RELATED [GOC:mah] synonym: "vacuole organisation" EXACT [] synonym: "vacuole organization and biogenesis" RELATED [GOC:mah] is_a: GO:0006996 ! organelle organization intersection_of: GO:0016043 ! cellular component organization intersection_of: results_in_organization_of GO:0005773 ! vacuole relationship: results_in_organization_of GO:0005773 ! vacuole [Term] id: GO:0007034 name: vacuolar transport namespace: biological_process def: "The directed movement of substances into, out of or within a vacuole." [GOC:ai] subset: goslim_chembl is_a: GO:0046907 ! intracellular transport intersection_of: GO:0046907 ! intracellular transport intersection_of: results_in_transport_to_from_or_in GO:0005773 ! vacuole relationship: results_in_transport_to_from_or_in GO:0005773 ! vacuole [Term] id: GO:0007043 name: cell-cell junction assembly namespace: biological_process def: "The aggregation, arrangement and bonding together of a set of components to form a junction between cells." [GOC:ai] synonym: "intercellular junction assembly" EXACT [] is_a: GO:0034329 ! cell junction assembly is_a: GO:0045216 ! cell-cell junction organization intersection_of: GO:0034329 ! cell junction assembly intersection_of: results_in_assembly_of GO:0005911 ! cell-cell junction relationship: results_in_assembly_of GO:0005911 ! cell-cell junction [Term] id: GO:0007049 name: cell cycle namespace: biological_process def: "The progression of biochemical and morphological phases and events that occur in a cell during successive cell replication or nuclear replication events. Canonically, the cell cycle comprises the replication and segregation of genetic material followed by the division of the cell, but in endocycles or syncytial cells nuclear replication or nuclear division may not be followed by cell division." [GOC:go_curators, GOC:mtg_cell_cycle] subset: gocheck_do_not_manually_annotate subset: goslim_agr subset: goslim_aspergillus subset: goslim_candida subset: goslim_chembl subset: goslim_flybase_ribbon subset: goslim_pir subset: goslim_plant synonym: "cell-division cycle" EXACT [] xref: Wikipedia:Cell_cycle is_a: GO:0009987 ! cellular process [Term] id: GO:0007059 name: chromosome segregation namespace: biological_process def: "The process in which genetic material, in the form of chromosomes, is organized into specific structures and then physically separated and apportioned to two or more sets. In eukaryotes, chromosome segregation begins with the condensation of chromosomes, includes chromosome separation, and ends when chromosomes have completed movement to the spindle poles." [GOC:jl, GOC:mah, GOC:mtg_cell_cycle, GOC:vw] subset: goslim_chembl subset: goslim_drosophila subset: goslim_generic subset: goslim_pir subset: goslim_yeast synonym: "chromosome division" EXACT [] synonym: "chromosome transmission" RELATED [] xref: Wikipedia:Chromosome_segregation is_a: GO:0009987 ! cellular process [Term] id: GO:0007076 name: mitotic chromosome condensation namespace: biological_process def: "The cell cycle process in which chromatin structure is compacted prior to and during mitosis in eukaryotic cells." [GOC:mah, ISBN:0815316194] is_a: GO:0030261 ! chromosome condensation is_a: GO:1903047 ! mitotic cell cycle process intersection_of: GO:0030261 ! chromosome condensation intersection_of: part_of GO:0000278 ! mitotic cell cycle relationship: part_of GO:0000070 ! mitotic sister chromatid segregation [Term] id: GO:0007077 name: mitotic nuclear membrane disassembly namespace: biological_process def: "The mitotic cell cycle process in which the controlled partial or complete breakdown of the nuclear membranes during occurs during mitosis." [GOC:bf, PMID:32848252] synonym: "local NEB" BROAD [] synonym: "mitotic nuclear envelope breakdown" EXACT [] synonym: "mitotic nuclear envelope catabolism" RELATED [] synonym: "mitotic nuclear envelope degradation" RELATED [] synonym: "mitotic nuclear envelope disassembly" RELATED [] synonym: "NEB" BROAD [] synonym: "nuclear envelope breakdown" BROAD [] is_a: GO:0051081 ! nuclear membrane disassembly is_a: GO:1903047 ! mitotic cell cycle process intersection_of: GO:0051081 ! nuclear membrane disassembly intersection_of: part_of GO:0000278 ! mitotic cell cycle [Term] id: GO:0007088 name: regulation of mitotic nuclear division namespace: biological_process def: "Any process that modulates the frequency, rate or extent of mitosis." [GOC:go_curators] synonym: "regulation of mitosis" EXACT [] is_a: GO:0007346 ! regulation of mitotic cell cycle is_a: GO:0010564 ! regulation of cell cycle process is_a: GO:0051783 ! regulation of nuclear division intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0140014 ! mitotic nuclear division relationship: regulates GO:0140014 ! mitotic nuclear division [Term] id: GO:0007097 name: nuclear migration namespace: biological_process alt_id: GO:0040023 def: "The directed movement of the nucleus to a specific location within a cell." [GOC:ai] subset: goslim_aspergillus synonym: "establishment of cell nucleus localization" RELATED [] synonym: "establishment of localization of nucleus" RELATED [] synonym: "establishment of nucleus localisation" RELATED [GOC:mah] synonym: "establishment of nucleus localization" RELATED [] synonym: "establishment of position of nucleus" EXACT [] synonym: "nuclear movement" EXACT [] synonym: "nuclear positioning" EXACT [] synonym: "nucleus migration" EXACT [] synonym: "nucleus positioning" EXACT [] synonym: "positioning of nucleus" EXACT [] is_a: GO:0046907 ! intracellular transport is_a: GO:0051647 ! nucleus localization is_a: GO:0051656 ! establishment of organelle localization intersection_of: GO:0046907 ! intracellular transport intersection_of: transports_or_maintains_localization_of GO:0005634 ! nucleus [Term] id: GO:0007113 name: endomitotic cell cycle namespace: biological_process def: "A mitotic cell cycle in which chromosomes are replicated and sister chromatids separate, but spindle formation, nuclear membrane breakdown and nuclear division do not occur, resulting in an increased number of chromosomes in the cell." [GOC:curators, GOC:dos, GOC:expert_vm] comment: Note that this term should not be confused with 'abortive mitotic cell cycle ; GO:0033277'. Although abortive mitosis is sometimes called endomitosis, GO:0033277 refers to a process in which a mitotic spindle forms and chromosome separation begins. synonym: "endomitosis" RELATED [] xref: Wikipedia:Mitosis#Endomitosis is_a: GO:0000278 ! mitotic cell cycle [Term] id: GO:0007154 name: cell communication namespace: biological_process def: "Any process that mediates interactions between a cell and its surroundings. Encompasses interactions such as signaling or attachment between one cell and another cell, between a cell and an extracellular matrix, or between a cell and any other aspect of its environment." [GOC:mah] subset: goslim_pir subset: goslim_plant xref: Wikipedia:Cell_signaling is_a: GO:0009987 ! cellular process [Term] id: GO:0007165 name: signal transduction namespace: biological_process alt_id: GO:0023014 alt_id: GO:0023015 alt_id: GO:0023016 alt_id: GO:0023033 alt_id: GO:0023045 def: "The cellular process in which a signal is conveyed to trigger a change in the activity or state of a cell. Signal transduction begins with reception of a signal (e.g. a ligand binding to a receptor or receptor activation by a stimulus such as light), or for signal transduction in the absence of ligand, signal-withdrawal or the activity of a constitutively active receptor. Signal transduction ends with regulation of a downstream cellular process, e.g. regulation of transcription or regulation of a metabolic process. Signal transduction covers signaling from receptors located on the surface of the cell and signaling via molecules located within the cell. For signaling between cells, signal transduction is restricted to events at and within the receiving cell." [GOC:go_curators, GOC:mtg_signaling_feb11] comment: Note that signal transduction is defined broadly to include a ligand interacting with a receptor, downstream signaling steps and a response being triggered. A change in form of the signal in every step is not necessary. Note that in many cases the end of this process is regulation of the initiation of transcription. Note that specific transcription factors may be annotated to this term, but core/general transcription machinery such as RNA polymerase should not. subset: goslim_aspergillus subset: goslim_candida subset: goslim_chembl subset: goslim_metagenomics subset: goslim_plant synonym: "signal transduction by cis-phosphorylation" NARROW [] synonym: "signal transduction by conformational transition" NARROW [] synonym: "signal transduction by protein phosphorylation" NARROW [] synonym: "signal transduction by trans-phosphorylation" NARROW [] synonym: "signaling cascade" NARROW [] synonym: "signaling pathway" RELATED [] synonym: "signalling cascade" NARROW [] synonym: "signalling pathway" RELATED [GOC:mah] xref: Wikipedia:Signal_transduction is_a: GO:0009987 ! cellular process is_a: GO:0050794 ! regulation of cellular process relationship: part_of GO:0007154 ! cell communication relationship: part_of GO:0023052 ! signaling relationship: part_of GO:0051716 ! cellular response to stimulus [Term] id: GO:0007267 name: cell-cell signaling namespace: biological_process def: "Any process that mediates the transfer of information from one cell to another. This process includes signal transduction in the receiving cell and, where applicable, release of a ligand and any processes that actively facilitate its transport and presentation to the receiving cell. Examples include signaling via soluble ligands, via cell adhesion molecules and via gap junctions." [GOC:dos, GOC:mah] subset: goslim_chembl subset: goslim_plant synonym: "cell-cell signalling" EXACT [] is_a: GO:0007154 ! cell communication is_a: GO:0023052 ! signaling [Term] id: GO:0007268 name: chemical synaptic transmission namespace: biological_process def: "The vesicular release of classical neurotransmitter molecules from a presynapse, across a chemical synapse, the subsequent activation of neurotransmitter receptors at the postsynapse of a target cell (neuron, muscle, or secretory cell) and the effects of this activation on the postsynaptic membrane potential and ionic composition of the postsynaptic cytosol. This process encompasses both spontaneous and evoked release of neurotransmitter and all parts of synaptic vesicle exocytosis. Evoked transmission starts with the arrival of an action potential at the presynapse." [GOC:jl, MeSH:D009435] subset: goslim_synapse synonym: "neurotransmission" RELATED [GOC:dph] synonym: "signal transmission across a synapse" BROAD [] synonym: "synaptic transmission" BROAD [] xref: Wikipedia:Neurotransmission is_a: GO:0098916 ! anterograde trans-synaptic signaling relationship: has_participant GO:0045202 ! synapse [Term] id: GO:0007275 name: multicellular organism development namespace: biological_process def: "The biological process whose specific outcome is the progression of a multicellular organism over time from an initial condition (e.g. a zygote or a young adult) to a later condition (e.g. a multicellular animal or an aged adult)." [GOC:dph, GOC:ems, GOC:isa_complete, GOC:tb] comment: Note that this term was 'developmental process'. subset: gocheck_do_not_annotate subset: goslim_chembl subset: goslim_plant is_a: GO:0032501 ! multicellular organismal process is_a: GO:0048856 ! anatomical structure development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_developmental_progression_of UBERON:0000468 ! multicellular organism relationship: results_in_developmental_progression_of UBERON:0000468 ! multicellular organism property_value: IAO:0000233 https://github.com/geneontology/go-ontology/issues/21234 xsd:anyURI [Term] id: GO:0007276 name: gamete generation namespace: biological_process alt_id: GO:0009552 def: "The generation and maintenance of gametes in a multicellular organism. A gamete is a haploid reproductive cell." [GOC:ems, GOC:mtg_sensu] synonym: "gametogenesis" RELATED [] is_a: GO:0048609 ! multicellular organismal reproductive process relationship: part_of GO:0019953 ! sexual reproduction [Term] id: GO:0007281 name: germ cell development namespace: biological_process def: "The process whose specific outcome is the progression of an immature germ cell over time, from its formation to the mature structure (gamete). A germ cell is any reproductive cell in a multicellular organism." [GOC:go_curators] synonym: "germ-cell development" EXACT [] synonym: "primordial germ cell development" NARROW [] is_a: GO:0003006 ! developmental process involved in reproduction is_a: GO:0022412 ! cellular process involved in reproduction in multicellular organism is_a: GO:0048468 ! cell development intersection_of: GO:0032502 ! developmental process intersection_of: results_in_development_of CL:0000586 ! germ cell relationship: part_of GO:0007276 ! gamete generation relationship: results_in_development_of CL:0000586 ! germ cell [Term] id: GO:0007346 name: regulation of mitotic cell cycle namespace: biological_process def: "Any process that modulates the rate or extent of progress through the mitotic cell cycle." [GOC:dph, GOC:go_curators, GOC:tb] synonym: "mitotic cell cycle modulation" EXACT [] synonym: "mitotic cell cycle regulation" EXACT [] synonym: "mitotic cell cycle regulator" RELATED [] synonym: "modulation of mitotic cell cycle progression" EXACT [] synonym: "regulation of mitotic cell cycle progression" EXACT [] synonym: "regulation of progression through mitotic cell cycle" EXACT [GOC:dph, GOC:tb] is_a: GO:0051726 ! regulation of cell cycle intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0000278 ! mitotic cell cycle relationship: regulates GO:0000278 ! mitotic cell cycle [Term] id: GO:0007369 name: gastrulation namespace: biological_process def: "A complex and coordinated series of cellular movements that occurs at the end of cleavage during embryonic development of most animals. The details of gastrulation vary from species to species, but usually result in the formation of the three primary germ layers, ectoderm, mesoderm and endoderm." [GOC:curators, ISBN:9780878933846] subset: goslim_drosophila xref: Wikipedia:Gastrulation is_a: GO:0048598 ! embryonic morphogenesis relationship: has_part GO:0001705 ! ectoderm formation relationship: has_part GO:0001706 ! endoderm formation relationship: has_part GO:0001707 ! mesoderm formation [Term] id: GO:0007389 name: pattern specification process namespace: biological_process def: "Any developmental process that results in the creation of defined areas or spaces within an organism to which cells respond and eventually are instructed to differentiate." [GOC:go_curators, GOC:isa_complete, ISBN:0521436125] subset: goslim_drosophila synonym: "pattern biosynthesis" RELATED [] synonym: "pattern formation" RELATED [] is_a: GO:0032501 ! multicellular organismal process relationship: part_of GO:0007275 ! multicellular organism development [Term] id: GO:0007398 name: ectoderm development namespace: biological_process def: "The process whose specific outcome is the progression of the ectoderm over time, from its formation to the mature structure. In animal embryos, the ectoderm is the outer germ layer of the embryo, formed during gastrulation." [GOC:dph, GOC:tb] is_a: GO:0009888 ! tissue development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0000924 ! ectoderm relationship: results_in_development_of UBERON:0000924 ! ectoderm [Term] id: GO:0007399 name: nervous system development namespace: biological_process def: "The process whose specific outcome is the progression of nervous tissue over time, from its formation to its mature state." [GOC:dgh] subset: goslim_drosophila synonym: "pan-neural process" RELATED [] is_a: GO:0048731 ! system development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0001016 ! nervous system relationship: results_in_development_of UBERON:0001016 ! nervous system [Term] id: GO:0007405 name: neuroblast proliferation namespace: biological_process alt_id: GO:0043349 alt_id: GO:0043350 def: "The expansion of a neuroblast population by cell division. A neuroblast is any cell that will divide and give rise to a neuron." [GOC:ai, GOC:mtg_sensu, GOC:sart] is_a: GO:0061351 ! neural precursor cell proliferation intersection_of: GO:0008283 ! cell population proliferation intersection_of: acts_on_population_of CL:0000031 ! neuroblast (sensu Vertebrata) relationship: acts_on_population_of CL:0000031 ! neuroblast (sensu Vertebrata) relationship: in_taxon NCBITaxon:33208 ! Metazoa relationship: only_in_taxon NCBITaxon:33208 ! Metazoa relationship: part_of GO:0048699 ! generation of neurons [Term] id: GO:0007406 name: negative regulation of neuroblast proliferation namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of the proliferation of neuroblasts." [GOC:ai] synonym: "down regulation of neuroblast proliferation" EXACT [] synonym: "down-regulation of neuroblast proliferation" EXACT [] synonym: "downregulation of neuroblast proliferation" EXACT [] synonym: "inhibition of neuroblast proliferation" NARROW [] synonym: "suppression of neuroblast proliferation" EXACT [] is_a: GO:0050768 ! negative regulation of neurogenesis is_a: GO:1902692 ! regulation of neuroblast proliferation is_a: GO:2000178 ! negative regulation of neural precursor cell proliferation intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0007405 ! neuroblast proliferation relationship: negatively_regulates GO:0007405 ! neuroblast proliferation [Term] id: GO:0007416 name: synapse assembly namespace: biological_process def: "The aggregation, arrangement and bonding together of a set of components to form a synapse. This process ends when the synapse is mature (functional)." [GOC:mah] subset: goslim_synapse synonym: "synapse biogenesis" EXACT [GOC:mah] synonym: "synaptogenesis" EXACT [GOC:mah] xref: Wikipedia:Synaptogenesis is_a: GO:0034329 ! cell junction assembly is_a: GO:0050808 ! synapse organization intersection_of: GO:0009987 ! cellular process intersection_of: results_in_assembly_of GO:0045202 ! synapse relationship: part_of GO:0007399 ! nervous system development relationship: results_in_assembly_of GO:0045202 ! synapse [Term] id: GO:0007417 name: central nervous system development namespace: biological_process def: "The process whose specific outcome is the progression of the central nervous system over time, from its formation to the mature structure. The central nervous system is the core nervous system that serves an integrating and coordinating function. In vertebrates it consists of the brain and spinal cord. In those invertebrates with a central nervous system it typically consists of a brain, cerebral ganglia and a nerve cord." [GOC:bf, GOC:jid, ISBN:0582227089] synonym: "CNS development" EXACT [] xref: Wikipedia:Neural_development is_a: GO:0048731 ! system development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0001017 ! central nervous system relationship: part_of GO:0007399 ! nervous system development relationship: results_in_development_of UBERON:0001017 ! central nervous system [Term] id: GO:0007420 name: brain development namespace: biological_process def: "The process whose specific outcome is the progression of the brain over time, from its formation to the mature structure. Brain development begins with patterning events in the neural tube and ends with the mature structure that is the center of thought and emotion. The brain is responsible for the coordination and control of bodily activities and the interpretation of information from the senses (sight, hearing, smell, etc.)." [GOC:dph, GOC:jid, GOC:tb, UBERON:0000955] is_a: GO:0048513 ! animal organ development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0000955 ! brain relationship: part_of GO:0007417 ! central nervous system development relationship: part_of GO:0060322 ! head development relationship: results_in_development_of UBERON:0000955 ! brain [Term] id: GO:0007422 name: peripheral nervous system development namespace: biological_process def: "The process whose specific outcome is the progression of the peripheral nervous system over time, from its formation to the mature structure. The peripheral nervous system is one of the two major divisions of the nervous system. Nerves in the PNS connect the central nervous system (CNS) with sensory organs, other organs, muscles, blood vessels and glands." [GOC:go_curators, UBERON:0000010] is_a: GO:0048731 ! system development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0000010 ! peripheral nervous system relationship: part_of GO:0007399 ! nervous system development relationship: results_in_development_of UBERON:0000010 ! peripheral nervous system [Term] id: GO:0007423 name: sensory organ development namespace: biological_process def: "The process whose specific outcome is the progression of sensory organs over time, from its formation to the mature structure." [GOC:go_curators] subset: goslim_drosophila synonym: "sense organ development" EXACT [GOC:dph] is_a: GO:0048513 ! animal organ development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0000020 ! sense organ relationship: results_in_development_of UBERON:0000020 ! sense organ [Term] id: GO:0007439 name: ectodermal digestive tract development namespace: biological_process def: "The process whose specific outcome is the progression of the ectodermal digestive tract over time, from its formation to the mature structure. The ectodermal digestive tract includes those portions that are derived from ectoderm." [GOC:curators] synonym: "ectodermal gut development" RELATED [GOC:dph] is_a: GO:0048729 ! tissue morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_formation_of UBERON:0004906 ! ectodermal part of digestive tract relationship: part_of GO:0048565 ! digestive tract development relationship: results_in_formation_of UBERON:0004906 ! ectodermal part of digestive tract [Term] id: GO:0007440 name: foregut morphogenesis namespace: biological_process def: "The process in which the anatomical structures of the foregut are generated and organized." [GOC:jid] is_a: GO:0009653 ! anatomical structure morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0001041 ! foregut relationship: part_of GO:0048546 ! digestive tract morphogenesis relationship: results_in_morphogenesis_of UBERON:0001041 ! foregut [Term] id: GO:0007492 name: endoderm development namespace: biological_process def: "The process whose specific outcome is the progression of the endoderm over time, from its formation to the mature structure. The endoderm is the innermost germ layer that develops into the gastrointestinal tract, the lungs and associated tissues." [GOC:dph, GOC:tb] is_a: GO:0009888 ! tissue development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0000925 ! endoderm relationship: results_in_development_of UBERON:0000925 ! endoderm [Term] id: GO:0007498 name: mesoderm development namespace: biological_process def: "The process whose specific outcome is the progression of the mesoderm over time, from its formation to the mature structure. The mesoderm is the middle germ layer that develops into muscle, bone, cartilage, blood and connective tissue." [GOC:dph, GOC:tb] subset: goslim_drosophila is_a: GO:0009888 ! tissue development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0000926 ! mesoderm relationship: results_in_development_of UBERON:0000926 ! mesoderm [Term] id: GO:0007506 name: gonadal mesoderm development namespace: biological_process def: "The process whose specific outcome is the progression of the gonadal mesoderm over time, from its formation to the mature structure. The gonadal mesoderm is the middle layer of the three primary germ layers of the embryo which will go on to form the gonads of the organism." [GOC:ai] is_a: GO:0007498 ! mesoderm development is_a: GO:0048608 ! reproductive structure development is_a: GO:0060485 ! mesenchyme development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0003855 ! gonad mesenchyme relationship: part_of GO:0008406 ! gonad development relationship: results_in_development_of UBERON:0003855 ! gonad mesenchyme [Term] id: GO:0007507 name: heart development namespace: biological_process alt_id: GO:0007511 def: "The process whose specific outcome is the progression of the heart over time, from its formation to the mature structure. The heart is a hollow, muscular organ, which, by contracting rhythmically, keeps up the circulation of the blood." [GOC:jid, UBERON:0000948] synonym: "cardiac development" RELATED [] synonym: "dorsal vessel development" NARROW [] xref: Wikipedia:Heart_development is_a: GO:0048513 ! animal organ development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0007100 ! primary circulatory organ relationship: part_of GO:0072359 ! circulatory system development relationship: results_in_development_of UBERON:0007100 ! primary circulatory organ [Term] id: GO:0007517 name: muscle organ development namespace: biological_process def: "The process whose specific outcome is the progression of the muscle over time, from its formation to the mature structure. The muscle is an organ consisting of a tissue made up of various elongated cells that are specialized to contract and thus to produce movement and mechanical work." [GOC:jid, ISBN:0198506732] is_a: GO:0048513 ! animal organ development is_a: GO:0061061 ! muscle structure development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0001630 ! muscle organ relationship: results_in_development_of UBERON:0001630 ! muscle organ [Term] id: GO:0007519 name: skeletal muscle tissue development namespace: biological_process alt_id: GO:0048637 def: "The developmental sequence of events leading to the formation of adult skeletal muscle tissue. The main events are: the fusion of myoblasts to form myotubes that increase in size by further fusion to them of myoblasts, the formation of myofibrils within their cytoplasm and the establishment of functional neuromuscular junctions with motor neurons. At this stage they can be regarded as mature muscle fibers." [GOC:mtg_muscle] synonym: "myogenesis" RELATED [] is_a: GO:0014706 ! striated muscle tissue development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0001134 ! skeletal muscle tissue relationship: part_of GO:0060538 ! skeletal muscle organ development relationship: results_in_development_of UBERON:0001134 ! skeletal muscle tissue [Term] id: GO:0007528 name: neuromuscular junction development namespace: biological_process def: "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of a neuromuscular junction." [GOC:mtg_OBO2OWL_2013] synonym: "neuromuscular junction organization" EXACT [] synonym: "neuromuscular junction stability" RELATED [GOC:pr] synonym: "NMJ stability" RELATED [GOC:pr] is_a: GO:0050808 ! synapse organization intersection_of: GO:0016043 ! cellular component organization intersection_of: results_in_organization_of GO:0031594 ! neuromuscular junction relationship: results_in_organization_of GO:0031594 ! neuromuscular junction [Term] id: GO:0007548 name: sex differentiation namespace: biological_process def: "The establishment of the sex of an organism by physical differentiation." [GOC:ai] xref: Wikipedia:Sexual_differentiation is_a: GO:0003006 ! developmental process involved in reproduction [Term] id: GO:0007565 name: female pregnancy is_a: GO:0044703 ! multi-organism reproductive process is_a: GO:0044706 ! multi-multicellular organism process [Term] id: GO:0007585 name: respiratory gaseous exchange by respiratory system namespace: biological_process def: "The process of gaseous exchange between an organism and its environment. In plants, microorganisms, and many small animals, air or water makes direct contact with the organism's cells or tissue fluids, and the processes of diffusion supply the organism with dioxygen (O2) and remove carbon dioxide (CO2). In larger animals the efficiency of gaseous exchange is improved by specialized respiratory organs, such as lungs and gills, which are ventilated by breathing mechanisms." [ISBN:0198506732] subset: goslim_chembl synonym: "breathing" BROAD [] synonym: "respiration" BROAD [] is_a: GO:0032501 ! multicellular organismal process [Term] id: GO:0007586 name: digestion namespace: biological_process def: "The whole of the physical, chemical, and biochemical processes carried out by multicellular organisms to break down ingested nutrients into components that may be easily absorbed and directed into metabolism." [GOC:isa_complete, ISBN:0198506732] subset: goslim_chembl subset: goslim_pir xref: Wikipedia:Digestion is_a: GO:0032501 ! multicellular organismal process [Term] id: GO:0007600 name: sensory perception namespace: biological_process def: "The series of events required for an organism to receive a sensory stimulus, convert it to a molecular signal, and recognize and characterize the signal. This is a neurological process." [GOC:ai, GOC:dph] subset: goslim_drosophila xref: Wikipedia:Perception is_a: GO:0050877 ! nervous system process [Term] id: GO:0007601 name: visual perception namespace: biological_process def: "The series of events required for an organism to receive a visual stimulus, convert it to a molecular signal, and recognize and characterize the signal. Visual stimuli are detected in the form of photons and are processed to form an image." [GOC:ai] synonym: "sense of sight" EXACT [] synonym: "sensory visual perception" EXACT [] synonym: "vision" EXACT [] xref: Wikipedia:Visual_perception is_a: GO:0050953 ! sensory perception of light stimulus [Term] id: GO:0007605 name: sensory perception of sound namespace: biological_process def: "The series of events required for an organism to receive an auditory stimulus, convert it to a molecular signal, and recognize and characterize the signal. Sonic stimuli are detected in the form of vibrations and are processed to form a sound." [GOC:ai] synonym: "hearing" EXACT [] synonym: "perception of sound" EXACT [] xref: Wikipedia:Hearing_(sense) is_a: GO:0050954 ! sensory perception of mechanical stimulus [Term] id: GO:0007610 name: behavior namespace: biological_process alt_id: GO:0023032 alt_id: GO:0044708 alt_id: GO:0044709 def: "The internally coordinated responses (actions or inactions) of animals (individuals or groups) to internal or external stimuli, via a mechanism that involves nervous system activity." [GOC:ems, GOC:jl, ISBN:0395448956, PMID:20160973] comment: 1. Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation reviews.\n2. While a broader definition of behavior encompassing plants and single cell organisms would be justified on the basis of some usage (see PMID:20160973 for discussion), GO uses a tight definition that limits behavior to animals and to responses involving the nervous system, excluding plant responses that GO classifies under development, and responses of unicellular organisms that has general classifications for covering the responses of cells in multicellular organisms (e.g. cell chemotaxis). subset: gocheck_do_not_manually_annotate subset: goslim_agr subset: goslim_flybase_ribbon synonym: "behavioral response to stimulus" EXACT [] synonym: "behaviour" EXACT [] synonym: "behavioural response to stimulus" EXACT [] synonym: "single-organism behavior" RELATED [] xref: Wikipedia:Behavior is_a: GO:0050896 ! response to stimulus disjoint_from: GO:0032502 ! developmental process created_by: jl creation_date: 2012-09-20T14:06:08Z [Term] id: GO:0007631 name: feeding behavior namespace: biological_process alt_id: GO:0044366 alt_id: GO:0044367 alt_id: GO:0044368 alt_id: GO:0044369 alt_id: GO:0044370 alt_id: GO:0044371 alt_id: GO:0044372 def: "Behavior associated with the intake of food." [GOC:mah] comment: See also the biological process term 'behavior ; GO:0007610'. synonym: "behavioral response to food" EXACT [] synonym: "behavioural response to food" EXACT [] synonym: "eating" NARROW [] synonym: "feeding behaviour" EXACT [] synonym: "feeding from phloem of other organism" NARROW [] synonym: "feeding from plant phloem" NARROW [] synonym: "feeding from tissue of other organism" NARROW [] synonym: "feeding from vascular tissue of another organism" NARROW [] synonym: "feeding from xylem of other organism" NARROW [] synonym: "feeding on blood of other organism" NARROW [] synonym: "feeding on or from other organism" NARROW [] synonym: "feeding on plant sap" NARROW [] synonym: "hematophagy" NARROW [] synonym: "injection of substance into other organism during feeding on blood of other organism" NARROW [] synonym: "taking of blood meal" NARROW [] xref: Wikipedia:List_of_feeding_behaviours is_a: GO:0007610 ! behavior property_value: IAO:0000233 https://github.com/geneontology/go-ontology/issues/18547 xsd:anyURI created_by: jl creation_date: 2011-10-27T03:53:33Z [Term] id: GO:0008015 name: blood circulation namespace: biological_process alt_id: GO:0070261 def: "The flow of blood through the body of an animal, enabling the transport of nutrients to the tissues and the removal of waste products." [GOC:mtg_heart, ISBN:0192800825] subset: goslim_pir synonym: "hemolymph circulation" RELATED [] is_a: GO:0003013 ! circulatory system process [Term] id: GO:0008016 name: regulation of heart contraction namespace: biological_process def: "Any process that modulates the frequency, rate or extent of heart contraction. Heart contraction is the process in which the heart decreases in volume in a characteristic way to propel blood through the body." [GOC:dph, GOC:go_curators, GOC:tb] synonym: "regulation of cardiac contraction" EXACT [] is_a: GO:1903522 ! regulation of blood circulation intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0060047 ! heart contraction relationship: regulates GO:0060047 ! heart contraction [Term] id: GO:0008017 name: microtubule binding namespace: molecular_function def: "Binding to a microtubule, a filament composed of tubulin monomers." [GOC:krc] synonym: "microtubule severing activity" RELATED [] synonym: "microtubule/chromatin interaction" RELATED [] xref: Reactome:R-HSA-9614343 "Viral UL47:UL48 Proteins Bind HCMV Tegumented Virion to Host Microtuble and Dynein complexs" is_a: GO:0015631 ! tubulin binding intersection_of: GO:0005488 ! binding intersection_of: has_input GO:0005874 ! microtubule relationship: has_input GO:0005874 ! microtubule [Term] id: GO:0008088 name: axo-dendritic transport namespace: biological_process def: "The directed movement of organelles or molecules along microtubules in neuron projections." [ISBN:0815316194] subset: goslim_synapse synonym: "axon cargo transport" NARROW [] synonym: "axonal transport" NARROW [] synonym: "axoplasmic transport" NARROW [] xref: Wikipedia:Axoplasmic_transport is_a: GO:0010970 ! transport along microtubule intersection_of: GO:0046907 ! intracellular transport intersection_of: occurs_in GO:0043005 ! neuron projection intersection_of: results_in_transport_along GO:0005874 ! microtubule relationship: occurs_in GO:0043005 ! neuron projection [Term] id: GO:0008092 name: cytoskeletal protein binding namespace: molecular_function def: "Binding to a protein component of a cytoskeleton (actin, microtubule, or intermediate filament cytoskeleton)." [GOC:mah] subset: goslim_agr subset: goslim_chembl subset: goslim_drosophila subset: goslim_flybase_ribbon subset: goslim_generic subset: goslim_mouse subset: goslim_yeast is_a: GO:0005515 ! protein binding [Term] id: GO:0008104 name: protein localization namespace: biological_process alt_id: GO:0008105 def: "Any process in which a protein is transported to, or maintained in, a specific location." [GOC:ai] subset: goslim_drosophila synonym: "asymmetric protein localisation" RELATED [GOC:mah] synonym: "asymmetric protein localization" RELATED [] synonym: "establishment and maintenance of asymmetric protein localization" RELATED [] synonym: "establishment and maintenance of protein localization" RELATED [] synonym: "protein localisation" EXACT [GOC:mah] is_a: GO:0033036 ! macromolecule localization intersection_of: GO:0051179 ! localization intersection_of: transports_or_maintains_localization_of PR:000000001 ! protein relationship: transports_or_maintains_localization_of PR:000000001 ! protein [Term] id: GO:0008150 name: biological_process namespace: biological_process alt_id: GO:0000004 alt_id: GO:0007582 alt_id: GO:0044699 def: "A biological process represents a specific objective that the organism is genetically programmed to achieve. Biological processes are often described by their outcome or ending state, e.g., the biological process of cell division results in the creation of two daughter cells (a divided cell) from a single parent cell. A biological process is accomplished by a particular set of molecular functions carried out by specific gene products (or macromolecular complexes), often in a highly regulated manner and in a particular temporal sequence." [GOC:pdt] comment: Note that, in addition to forming the root of the biological process ontology, this term is recommended for use for the annotation of gene products whose biological process is unknown. When this term is used for annotation, it indicates that no information was available about the biological process of the gene product annotated as of the date the annotation was made; the evidence code 'no data' (ND), is used to indicate this. subset: goslim_aspergillus subset: goslim_candida subset: goslim_chembl subset: goslim_generic subset: goslim_metagenomics subset: goslim_pir subset: goslim_plant subset: goslim_pombe subset: goslim_yeast synonym: "biological process" EXACT [] synonym: "physiological process" EXACT [] synonym: "single organism process" RELATED [] synonym: "single-organism process" RELATED [] xref: Wikipedia:Biological_process is_a: BFO:0000015 ! process created_by: jl creation_date: 2012-09-19T15:05:24Z [Term] id: GO:0008152 name: metabolic process namespace: biological_process alt_id: GO:0044236 alt_id: GO:0044710 def: "The chemical reactions and pathways, including anabolism and catabolism, by which living organisms transform chemical substances. Metabolic processes typically transform small molecules, but also include macromolecular processes such as DNA repair and replication, and protein synthesis and degradation." [GOC:go_curators, ISBN:0198547684] comment: Note that metabolic processes do not include single functions or processes such as protein-protein interactions, protein-nucleic acids, nor receptor-ligand interactions. subset: gocheck_do_not_manually_annotate subset: goslim_chembl subset: goslim_metagenomics subset: goslim_pir subset: goslim_plant synonym: "metabolic process resulting in cell growth" NARROW [] synonym: "metabolism" EXACT [] synonym: "metabolism resulting in cell growth" NARROW [] synonym: "multicellular organism metabolic process" NARROW [] synonym: "single-organism metabolic process" RELATED [] xref: Wikipedia:Metabolism is_a: GO:0008150 ! biological_process created_by: jl creation_date: 2012-10-17T15:46:40Z [Term] id: GO:0008202 name: steroid metabolic process namespace: biological_process def: "The chemical reactions and pathways involving steroids, compounds with a 1,2,cyclopentanoperhydrophenanthrene nucleus." [ISBN:0198547684] synonym: "steroid metabolism" EXACT [] xref: Wikipedia:Steroid_metabolism is_a: GO:0006629 ! lipid metabolic process is_a: GO:1901360 ! organic cyclic compound metabolic process intersection_of: GO:0008152 ! metabolic process intersection_of: has_primary_input_or_output CHEBI:35341 ! steroid relationship: has_primary_input_or_output CHEBI:35341 ! steroid [Term] id: GO:0008219 name: cell death namespace: biological_process def: "Any biological process that results in permanent cessation of all vital functions of a cell. A cell should be considered dead when any one of the following molecular or morphological criteria is met: (1) the cell has lost the integrity of its plasma membrane; (2) the cell, including its nucleus, has undergone complete fragmentation into discrete bodies (frequently referred to as apoptotic bodies). The cell corpse (or its fragments) may be engulfed by an adjacent cell in vivo, but engulfment of whole cells should not be considered a strict criteria to define cell death as, under some circumstances, live engulfed cells can be released from phagosomes (see PMID:18045538)." [GOC:mah, GOC:mtg_apoptosis, PMID:25236395] comment: This term should not be used for direct annotation. The only exception should be when experimental data (e.g., staining with trypan blue or propidium iodide) show that cell death has occurred, but fail to provide details on death modality (accidental versus programmed). When information is provided on the cell death mechanism, annotations should be made to the appropriate descendant of 'cell death' (such as, but not limited to, GO:0097300 'programmed necrotic cell death' or GO:0006915 'apoptotic process'). Also, if experimental data suggest that a gene product influences cell death indirectly, rather than being involved in the death process directly, consider annotating to a 'regulation' term. subset: goslim_agr subset: goslim_chembl subset: goslim_drosophila subset: goslim_mouse subset: goslim_plant synonym: "accidental cell death" RELATED [] synonym: "necrosis" RELATED [] is_a: GO:0009987 ! cellular process [Term] id: GO:0008272 name: sulfate transport namespace: biological_process alt_id: GO:0006870 def: "The directed movement of sulfate into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." [GOC:krc] synonym: "sulphate transport" EXACT [] is_a: GO:0015698 ! inorganic anion transport is_a: GO:0072348 ! sulfur compound transport intersection_of: GO:0006810 ! transport intersection_of: transports_or_maintains_localization_of CHEBI:16189 ! sulfate relationship: transports_or_maintains_localization_of CHEBI:16189 ! sulfate [Term] id: GO:0008283 name: cell population proliferation namespace: biological_process def: "The multiplication or reproduction of cells, resulting in the expansion of a cell population." [GOC:mah, GOC:mb] comment: This term was moved out from being a child of 'cellular process' because it is a cell population-level process, and cellular processes are restricted to those processes that involve individual cells. Also note that this term is intended to be used for the proliferation of cells within a multicellular organism, not for the expansion of a population of single-celled organisms. subset: goslim_agr subset: goslim_chembl subset: goslim_drosophila subset: goslim_flybase_ribbon subset: goslim_mouse subset: goslim_pir synonym: "cell proliferation" RELATED [] is_a: GO:0009987 ! cellular process property_value: RO:0002161 NCBITaxon:4751 [Term] id: GO:0008284 name: positive regulation of cell population proliferation namespace: biological_process def: "Any process that activates or increases the rate or extent of cell proliferation." [GOC:go_curators] synonym: "activation of cell proliferation" NARROW [] synonym: "positive regulation of cell proliferation" RELATED [] synonym: "stimulation of cell proliferation" NARROW [] synonym: "up regulation of cell proliferation" EXACT [] synonym: "up-regulation of cell proliferation" EXACT [] synonym: "upregulation of cell proliferation" EXACT [] is_a: GO:0042127 ! regulation of cell population proliferation is_a: GO:0048522 ! positive regulation of cellular process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0008283 ! cell population proliferation relationship: positively_regulates GO:0008283 ! cell population proliferation property_value: RO:0002161 NCBITaxon:4751 [Term] id: GO:0008285 name: negative regulation of cell population proliferation namespace: biological_process def: "Any process that stops, prevents or reduces the rate or extent of cell proliferation." [GOC:go_curators] synonym: "down regulation of cell proliferation" EXACT [] synonym: "down-regulation of cell proliferation" EXACT [] synonym: "downregulation of cell proliferation" EXACT [] synonym: "inhibition of cell proliferation" NARROW [] synonym: "negative regulation of cell proliferation" RELATED [] is_a: GO:0042127 ! regulation of cell population proliferation is_a: GO:0048523 ! negative regulation of cellular process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0008283 ! cell population proliferation relationship: negatively_regulates GO:0008283 ! cell population proliferation property_value: RO:0002161 NCBITaxon:4751 [Term] id: GO:0008289 name: lipid binding namespace: molecular_function def: "Binding to a lipid." [GOC:ai] subset: goslim_agr subset: goslim_candida subset: goslim_chembl subset: goslim_drosophila subset: goslim_flybase_ribbon subset: goslim_generic subset: goslim_mouse subset: goslim_pir subset: goslim_plant subset: goslim_yeast is_a: GO:0005488 ! binding intersection_of: GO:0005488 ! binding intersection_of: has_input CHEBI:18059 ! lipid relationship: has_input CHEBI:18059 ! lipid [Term] id: GO:0008301 name: DNA binding, bending namespace: molecular_function def: "The activity of binding selectively and non-covalently to and distorting the original structure of DNA, typically a straight helix, into a bend, or increasing the bend if the original structure was intrinsically bent due to its sequence." [GOC:krc, GOC:vw, PMID:10710711, PMID:19037758] synonym: "DNA bending activity" EXACT [] synonym: "DNA bending involving DNA binding" EXACT [] is_a: GO:0003677 ! DNA binding [Term] id: GO:0008406 name: gonad development namespace: biological_process def: "The process whose specific outcome is the progression of the gonad over time, from its formation to the mature structure. The gonad is an animal organ that produces gametes; in some species it also produces hormones." [GOC:ems, ISBN:0198506732] synonym: "gonadogenesis" EXACT [GOC:cjm] is_a: GO:0048513 ! animal organ development is_a: GO:0048608 ! reproductive structure development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0000991 ! gonad relationship: part_of GO:0045137 ! development of primary sexual characteristics relationship: results_in_development_of UBERON:0000991 ! gonad [Term] id: GO:0008544 name: epidermis development namespace: biological_process def: "The process whose specific outcome is the progression of the epidermis over time, from its formation to the mature structure. The epidermis is the outer epithelial layer of an animal, it may be a single layer that produces an extracellular material (e.g. the cuticle of arthropods) or a complex stratified squamous epithelium, as in the case of many vertebrate species." [GOC:go_curators, UBERON:0001003] synonym: "hypodermis development" RELATED [GOC:kmv, GOC:rk] is_a: GO:0009888 ! tissue development property_value: RO:0002161 NCBITaxon:33090 [Term] id: GO:0008585 name: female gonad development namespace: biological_process alt_id: GO:0061039 def: "The process whose specific outcome is the progression of the female gonad over time, from its formation to the mature structure." [GOC:dph, GOC:jid, GOC:tb] synonym: "ovarian development" RELATED [GOC:sl] synonym: "ovary development" RELATED [GOC:sl] is_a: GO:0008406 ! gonad development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0000992 ! ovary relationship: part_of GO:0046545 ! development of primary female sexual characteristics relationship: results_in_development_of UBERON:0000992 ! ovary property_value: RO:0002161 NCBITaxon:3398 [Term] id: GO:0008594 name: photoreceptor cell morphogenesis namespace: biological_process def: "The process in which the structures of a photoreceptor cell are generated and organized. This process occurs while the initially relatively unspecialized cell is acquiring the specialized features of a photoreceptor cell, a sensory cell that reacts to the presence of light. An example of this is found in Drosophila melanogaster." [GOC:jid, GOC:mah] synonym: "photoreceptor development" RELATED [] is_a: GO:0048667 ! cell morphogenesis involved in neuron differentiation intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of CL:0000210 ! photoreceptor cell relationship: part_of GO:0042461 ! photoreceptor cell development relationship: results_in_morphogenesis_of CL:0000210 ! photoreceptor cell [Term] id: GO:0008610 name: lipid biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of lipids, compounds soluble in an organic solvent but not, or sparingly, in an aqueous solvent." [GOC:go_curators] synonym: "lipid anabolism" EXACT [] synonym: "lipid biosynthesis" EXACT [] synonym: "lipid formation" EXACT [] synonym: "lipid synthesis" EXACT [] synonym: "lipogenesis" EXACT [GOC:sl] is_a: GO:0006629 ! lipid metabolic process is_a: GO:1901576 ! organic substance biosynthetic process intersection_of: GO:0009058 ! biosynthetic process intersection_of: has_primary_output CHEBI:18059 ! lipid relationship: has_primary_output CHEBI:18059 ! lipid [Term] id: GO:0008643 name: carbohydrate transport namespace: biological_process alt_id: GO:0006861 alt_id: GO:0008644 def: "The directed movement of carbohydrate into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore. Carbohydrates are a group of organic compounds based of the general formula Cx(H2O)y." [GOC:ai] subset: goslim_pir subset: goslim_yeast synonym: "sugar transport" NARROW [] is_a: GO:0071702 ! organic substance transport intersection_of: GO:0006810 ! transport intersection_of: transports_or_maintains_localization_of CHEBI:16646 ! carbohydrate relationship: transports_or_maintains_localization_of CHEBI:16646 ! carbohydrate [Term] id: GO:0008652 name: cellular amino acid biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of amino acids, organic acids containing one or more amino substituents." [ISBN:0198506732] synonym: "amino acid biosynthetic process" EXACT [] synonym: "cellular amino acid anabolism" EXACT [] synonym: "cellular amino acid biosynthesis" EXACT [] synonym: "cellular amino acid formation" EXACT [] synonym: "cellular amino acid synthesis" EXACT [] xref: Wikipedia:Amino_acid_synthesis is_a: GO:0006520 ! cellular amino acid metabolic process is_a: GO:0046394 ! carboxylic acid biosynthetic process is_a: GO:1901566 ! organonitrogen compound biosynthetic process intersection_of: GO:0009058 ! biosynthetic process intersection_of: has_primary_output CHEBI:37022 ! amino-acid anion relationship: has_primary_output CHEBI:37022 ! amino-acid anion [Term] id: GO:0009058 name: biosynthetic process namespace: biological_process alt_id: GO:0044274 alt_id: GO:0044711 def: "The chemical reactions and pathways resulting in the formation of substances; typically the energy-requiring part of metabolism in which simpler substances are transformed into more complex ones." [GOC:curators, ISBN:0198547684] subset: goslim_chembl subset: goslim_metagenomics subset: goslim_plant synonym: "anabolism" EXACT [] synonym: "biosynthesis" EXACT [] synonym: "formation" BROAD [] synonym: "multicellular organismal biosynthetic process" NARROW [] synonym: "single-organism biosynthetic process" RELATED [] synonym: "synthesis" EXACT [] xref: Wikipedia:Anabolism is_a: GO:0008152 ! metabolic process created_by: jl creation_date: 2012-10-17T15:52:18Z [Term] id: GO:0009059 name: macromolecule biosynthetic process namespace: biological_process alt_id: GO:0043284 def: "The chemical reactions and pathways resulting in the formation of a macromolecule, any molecule of high relative molecular mass, the structure of which essentially comprises the multiple repetition of units derived, actually or conceptually, from molecules of low relative molecular mass." [GOC:mah] subset: goslim_pir synonym: "biopolymer biosynthetic process" EXACT [GOC:mtg_chebi_dec09] synonym: "macromolecule anabolism" EXACT [] synonym: "macromolecule biosynthesis" EXACT [] synonym: "macromolecule formation" EXACT [] synonym: "macromolecule synthesis" EXACT [] is_a: GO:0043170 ! macromolecule metabolic process is_a: GO:1901576 ! organic substance biosynthetic process intersection_of: GO:0009058 ! biosynthetic process intersection_of: has_primary_output CHEBI:33694 ! biomacromolecule relationship: has_primary_output CHEBI:33694 ! biomacromolecule [Term] id: GO:0009060 name: aerobic respiration namespace: biological_process def: "The enzymatic release of energy from inorganic and organic compounds (especially carbohydrates and fats) which requires oxygen as the terminal electron acceptor." [GOC:das, GOC:jl, ISBN:0140513590] xref: MetaCyc:PWY-3781 xref: Wikipedia:Cellular_respiration#Aerobic_respiration is_a: GO:0045333 ! cellular respiration [Term] id: GO:0009061 name: anaerobic respiration namespace: biological_process def: "The enzymatic release of energy from inorganic and organic compounds (especially carbohydrates and fats) which uses compounds other than oxygen (e.g. nitrate, sulfate) as the terminal electron acceptor." [GOC:das, GOC:jl, ISBN:0140513590] xref: MetaCyc:ANARESP1-PWY xref: Wikipedia:Anaerobic_respiration xref: Wikipedia:Cellular_respiration#Anaerobic_respiration is_a: GO:0045333 ! cellular respiration [Term] id: GO:0009100 name: glycoprotein metabolic process namespace: biological_process def: "The chemical reactions and pathways involving glycoproteins, a protein that contains covalently bound glycose (i.e. monosaccharide) residues; the glycose occurs most commonly as oligosaccharide or fairly small polysaccharide but occasionally as monosaccharide." [GOC:go_curators, ISBN:0198506732] subset: goslim_drosophila synonym: "glycoprotein metabolism" EXACT [] is_a: GO:0019538 ! protein metabolic process is_a: GO:0044260 ! cellular macromolecule metabolic process is_a: GO:1901135 ! carbohydrate derivative metabolic process intersection_of: GO:0008152 ! metabolic process intersection_of: has_primary_input_or_output CHEBI:17089 ! glycoprotein relationship: has_primary_input_or_output CHEBI:17089 ! glycoprotein [Term] id: GO:0009101 name: glycoprotein biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of glycoproteins, a protein that contains covalently bound glycose (i.e. monosaccharide) residues; the glycose occurs most commonly as oligosaccharide or fairly small polysaccharide but occasionally as monosaccharide." [GOC:go_curators, ISBN:0198506732] synonym: "glycoprotein anabolism" EXACT [] synonym: "glycoprotein biosynthesis" EXACT [] synonym: "glycoprotein formation" EXACT [] synonym: "glycoprotein synthesis" EXACT [] is_a: GO:0009100 ! glycoprotein metabolic process is_a: GO:0034645 ! cellular macromolecule biosynthetic process is_a: GO:1901137 ! carbohydrate derivative biosynthetic process is_a: GO:1901566 ! organonitrogen compound biosynthetic process intersection_of: GO:0009058 ! biosynthetic process intersection_of: has_primary_output CHEBI:17089 ! glycoprotein relationship: has_primary_output CHEBI:17089 ! glycoprotein [Term] id: GO:0009112 name: nucleobase metabolic process namespace: biological_process def: "The chemical reactions and pathways involving a nucleobase, a nitrogenous base that is a constituent of a nucleic acid, e.g. the purines: adenine, guanine, hypoxanthine, xanthine and the pyrimidines: cytosine, uracil, thymine." [GOC:ma] synonym: "nucleobase metabolism" EXACT [] is_a: GO:0055086 ! nucleobase-containing small molecule metabolic process is_a: GO:1901564 ! organonitrogen compound metabolic process intersection_of: GO:0008152 ! metabolic process intersection_of: has_primary_input_or_output CHEBI:18282 ! nucleobase relationship: has_primary_input_or_output CHEBI:18282 ! nucleobase [Term] id: GO:0009250 name: glucan biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of glucans, polysaccharides consisting only of glucose residues." [GOC:go_curators] synonym: "glucan anabolism" EXACT [] synonym: "glucan biosynthesis" EXACT [] synonym: "glucan formation" EXACT [] synonym: "glucan synthesis" EXACT [] is_a: GO:0006073 ! cellular glucan metabolic process is_a: GO:0033692 ! cellular polysaccharide biosynthetic process [Term] id: GO:0009306 name: protein secretion namespace: biological_process alt_id: GO:0045166 alt_id: GO:0045731 def: "The controlled release of proteins from a cell." [GOC:ai] synonym: "glycoprotein secretion" NARROW [] synonym: "protein secretion during cell fate commitment" NARROW [] synonym: "protein secretion resulting in cell fate commitment" NARROW [] is_a: GO:0015031 ! protein transport is_a: GO:0032940 ! secretion by cell is_a: GO:0035592 ! establishment of protein localization to extracellular region intersection_of: GO:0046903 ! secretion intersection_of: transports_or_maintains_localization_of PR:000000001 ! protein [Term] id: GO:0009308 name: amine metabolic process namespace: biological_process def: "The chemical reactions and pathways involving any organic compound that is weakly basic in character and contains an amino or a substituted amino group. Amines are called primary, secondary, or tertiary according to whether one, two, or three carbon atoms are attached to the nitrogen atom." [GOC:jl, ISBN:0198506732] subset: goslim_chembl subset: goslim_pir synonym: "amine metabolism" EXACT [] is_a: GO:1901564 ! organonitrogen compound metabolic process intersection_of: GO:0008152 ! metabolic process intersection_of: has_primary_input_or_output CHEBI:32952 ! amine relationship: has_primary_input_or_output CHEBI:32952 ! amine [Term] id: GO:0009309 name: amine biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of any organic compound that is weakly basic in character and contains an amino or a substituted amino group. Amines are called primary, secondary, or tertiary according to whether one, two, or three carbon atoms are attached to the nitrogen atom." [GOC:jl, ISBN:0198506732] synonym: "amine anabolism" EXACT [] synonym: "amine biosynthesis" EXACT [] synonym: "amine formation" EXACT [] synonym: "amine synthesis" EXACT [] is_a: GO:0009308 ! amine metabolic process is_a: GO:0044271 ! cellular nitrogen compound biosynthetic process is_a: GO:1901566 ! organonitrogen compound biosynthetic process intersection_of: GO:0009058 ! biosynthetic process intersection_of: has_primary_output CHEBI:32952 ! amine relationship: has_primary_output CHEBI:32952 ! amine [Term] id: GO:0009314 name: response to radiation namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an electromagnetic radiation stimulus. Electromagnetic radiation is a propagating wave in space with electric and magnetic components. These components oscillate at right angles to each other and to the direction of propagation." [GOC:jl, Wikipedia:Electromagnetic_radiation] comment: Note that 'radiation' refers to electromagnetic radiation of any wavelength. synonym: "response to electromagnetic radiation stimulus" EXACT [] synonym: "response to radiation stimulus" EXACT [] is_a: GO:0009628 ! response to abiotic stimulus [Term] id: GO:0009405 name: obsolete pathogenesis namespace: biological_process def: "OBSOLETE. The set of specific processes that generate the ability of an organism to induce an abnormal, generally detrimental state in another organism." [GOC:go_curators] comment: This term was obsoleted because it does not describe a single, normal biological process; rather it is the effect of an interaction between two organisms, under specific conditions. subset: goslim_aspergillus subset: goslim_candida subset: goslim_chembl subset: goslim_metagenomics synonym: "virulence" RELATED [] property_value: IAO:0000233 https://github.com/geneontology/go-ontology/issues/11057 xsd:anyURI is_obsolete: true consider: GO:0044003 consider: GO:0052031 consider: GO:0052042 [Term] id: GO:0009416 name: response to light stimulus namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a light stimulus, electromagnetic radiation of wavelengths classified as infrared, visible or ultraviolet light." [GOC:go_curators, ISBN:0582227089] subset: goslim_plant is_a: GO:0009314 ! response to radiation intersection_of: GO:0050896 ! response to stimulus intersection_of: has_input CHEBI:30212 ! photon relationship: has_input CHEBI:30212 ! photon [Term] id: GO:0009453 name: energy taxis namespace: biological_process def: "The directed movement of a motile cell or organism in response to physical parameters involved in energy generation, such as light, oxygen, and oxidizable substrates." [GOC:jl, PMID:11029423] synonym: "energytaxis" EXACT [] synonym: "taxis in response to energy source" EXACT [] is_a: GO:0042330 ! taxis [Term] id: GO:0009454 name: aerotaxis namespace: biological_process def: "The directed movement of a motile cell or organism in response to environmental oxygen." [GOC:jl, ISBN:0192801023] synonym: "taxis in response to atmospheric oxygen" EXACT [] is_a: GO:0006935 ! chemotaxis is_a: GO:0009453 ! energy taxis [Term] id: GO:0009581 name: detection of external stimulus namespace: biological_process def: "The series of events in which an external stimulus is received by a cell and converted into a molecular signal." [GOC:hb] synonym: "perception of external stimulus" RELATED [] is_a: GO:0009605 ! response to external stimulus is_a: GO:0051606 ! detection of stimulus [Term] id: GO:0009582 name: detection of abiotic stimulus namespace: biological_process def: "The series of events in which an (non-living) abiotic stimulus is received by a cell and converted into a molecular signal." [GOC:hb] synonym: "perception of abiotic stimulus" RELATED [] is_a: GO:0009628 ! response to abiotic stimulus is_a: GO:0051606 ! detection of stimulus [Term] id: GO:0009583 name: detection of light stimulus namespace: biological_process def: "The series of events in which a light stimulus (in the form of photons) is received and converted into a molecular signal." [GOC:go_curators] synonym: "detection of light" EXACT [] synonym: "perception of light" RELATED [] is_a: GO:0009416 ! response to light stimulus is_a: GO:0009581 ! detection of external stimulus is_a: GO:0009582 ! detection of abiotic stimulus [Term] id: GO:0009584 name: detection of visible light namespace: biological_process def: "The series of events in which a visible light stimulus is received by a cell and converted into a molecular signal. A visible light stimulus is electromagnetic radiation that can be perceived visually by an organism; for organisms lacking a visual system, this can be defined as light with a wavelength within the range 380 to 780 nm." [GOC:go_curators, ISBN:0198506732] synonym: "perception of visible light" RELATED [] is_a: GO:0009583 ! detection of light stimulus [Term] id: GO:0009605 name: response to external stimulus namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an external stimulus." [GOC:hb] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. subset: gocheck_do_not_manually_annotate subset: goslim_drosophila subset: goslim_plant synonym: "response to environmental stimulus" EXACT [] is_a: GO:0050896 ! response to stimulus [Term] id: GO:0009607 name: response to biotic stimulus namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a biotic stimulus, a stimulus caused or produced by a living organism." [GOC:hb] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. subset: gocheck_do_not_manually_annotate subset: goslim_metagenomics subset: goslim_plant synonym: "response to biotic stress" NARROW [] is_a: GO:0050896 ! response to stimulus [Term] id: GO:0009617 name: response to bacterium namespace: biological_process alt_id: GO:0009618 alt_id: GO:0009680 def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus from a bacterium." [GOC:hb] synonym: "response to bacteria" EXACT [] is_a: GO:0051707 ! response to other organism intersection_of: GO:0050896 ! response to stimulus intersection_of: has_input NCBITaxon:2 ! Bacteria relationship: has_input NCBITaxon:2 ! Bacteria [Term] id: GO:0009620 name: response to fungus namespace: biological_process alt_id: GO:0009621 def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus from a fungus." [GOC:hb] synonym: "response to fungi" EXACT [] is_a: ECOCORE:00000016 ! fungivory is_a: GO:0051707 ! response to other organism intersection_of: GO:0050896 ! response to stimulus intersection_of: has_input NCBITaxon:4751 ! Fungi [Term] id: GO:0009628 name: response to abiotic stimulus namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an abiotic (not derived from living organisms) stimulus." [GOC:hb] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. subset: gocheck_do_not_manually_annotate subset: goslim_metagenomics subset: goslim_plant synonym: "response to abiotic stress" NARROW [] is_a: GO:0050896 ! response to stimulus property_value: IAO:0000233 https://github.com/geneontology/go-ontology/issues/16572 xsd:anyURI [Term] id: GO:0009636 name: response to toxic substance namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a toxic stimulus." [GOC:lr] subset: goslim_chembl synonym: "detoxification response" NARROW [] synonym: "toxin resistance" RELATED [] synonym: "toxin susceptibility/resistance" RELATED [] is_a: GO:0042221 ! response to chemical [Term] id: GO:0009653 name: anatomical structure morphogenesis namespace: biological_process def: "The process in which anatomical structures are generated and organized. Morphogenesis pertains to the creation of form." [GOC:go_curators, ISBN:0521436125] synonym: "anatomical structure organization" EXACT [] synonym: "embryogenesis and morphogenesis" BROAD [] synonym: "morphogenesis" EXACT [] xref: Wikipedia:Morphogenesis is_a: GO:0032502 ! developmental process disjoint_from: GO:0048856 ! anatomical structure development relationship: part_of GO:0048856 ! anatomical structure development [Term] id: GO:0009712 name: catechol-containing compound metabolic process namespace: biological_process def: "The chemical reactions and pathways involving a compound containing a pyrocatechol (1,2-benzenediol) nucleus or substituent." [GOC:sm, ISBN:0198547684] synonym: "catechol metabolic process" RELATED [] synonym: "catechol metabolism" RELATED [] is_a: GO:0018958 ! phenol-containing compound metabolic process intersection_of: GO:0008152 ! metabolic process intersection_of: has_primary_input_or_output CHEBI:33566 ! catechols relationship: has_primary_input_or_output CHEBI:33566 ! catechols [Term] id: GO:0009713 name: catechol-containing compound biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of catechol-containing compounds. Catechol is a compound containing a pyrocatechol nucleus or substituent." [GOC:go_curators] synonym: "catechol anabolism" RELATED [] synonym: "catechol biosynthesis" RELATED [] synonym: "catechol biosynthetic process" RELATED [] synonym: "catechol formation" RELATED [] synonym: "catechol synthesis" RELATED [] is_a: GO:0009712 ! catechol-containing compound metabolic process is_a: GO:0046189 ! phenol-containing compound biosynthetic process intersection_of: GO:0009058 ! biosynthetic process intersection_of: has_primary_output CHEBI:33566 ! catechols relationship: has_primary_output CHEBI:33566 ! catechols [Term] id: GO:0009719 name: response to endogenous stimulus namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus arising within the organism." [GOC:sm] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. subset: gocheck_do_not_manually_annotate subset: goslim_plant is_a: GO:0050896 ! response to stimulus [Term] id: GO:0009725 name: response to hormone namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a hormone stimulus." [GOC:jl] synonym: "growth regulator" RELATED [] synonym: "response to hormone stimulus" EXACT [GOC:dos] is_a: GO:0009719 ! response to endogenous stimulus is_a: GO:0010033 ! response to organic substance [Term] id: GO:0009743 name: response to carbohydrate namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a carbohydrate stimulus." [GOC:jl] synonym: "response to carbohydrate stimulus" EXACT [GOC:dos] is_a: GO:0010033 ! response to organic substance is_a: GO:1901700 ! response to oxygen-containing compound intersection_of: GO:0050896 ! response to stimulus intersection_of: has_input CHEBI:16646 ! carbohydrate relationship: has_input CHEBI:16646 ! carbohydrate [Term] id: GO:0009790 name: embryo development namespace: biological_process alt_id: GO:0009795 def: "The process whose specific outcome is the progression of an embryo from its formation until the end of its embryonic life stage. The end of the embryonic stage is organism-specific. For example, for mammals, the process would begin with zygote formation and end with birth. For insects, the process would begin at zygote formation and end with larval hatching. For plant zygotic embryos, this would be from zygote formation to the end of seed dormancy. For plant vegetative embryos, this would be from the initial determination of the cell or group of cells to form an embryo until the point when the embryo becomes independent of the parent plant." [GOC:go_curators, GOC:isa_complete, GOC:mtg_sensu] subset: gocheck_do_not_manually_annotate subset: goslim_chembl subset: goslim_plant synonym: "embryogenesis" EXACT [] synonym: "embryogenesis and morphogenesis" BROAD [] synonym: "embryonal development" EXACT [] xref: Wikipedia:Embryogenesis is_a: GO:0007275 ! multicellular organism development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0000922 ! embryo relationship: results_in_development_of UBERON:0000922 ! embryo [Term] id: GO:0009791 name: post-embryonic development namespace: biological_process def: "The process whose specific outcome is the progression of the organism over time, from the completion of embryonic development to the mature structure. See embryonic development." [GOC:go_curators] subset: goslim_plant is_a: GO:0032501 ! multicellular organismal process relationship: part_of GO:0007275 ! multicellular organism development [Term] id: GO:0009792 name: embryo development ending in birth or egg hatching namespace: biological_process def: "The process whose specific outcome is the progression of an embryo over time, from zygote formation until the end of the embryonic life stage. The end of the embryonic life stage is organism-specific and may be somewhat arbitrary; for mammals it is usually considered to be birth, for insects the hatching of the first instar larva from the eggshell." [GOC:go_curators, GOC:isa_complete, GOC:mtg_sensu] synonym: "embryogenesis" BROAD [] is_a: GO:0009790 ! embryo development relationship: in_taxon NCBITaxon:33208 ! Metazoa relationship: only_in_taxon NCBITaxon:33208 ! Metazoa [Term] id: GO:0009820 name: alkaloid metabolic process namespace: biological_process def: "The chemical reactions and pathways involving alkaloids, nitrogen containing natural products which are not otherwise classified as peptides, nonprotein amino acids, amines, cyanogenic glycosides, glucosinolates, cofactors, phytohormones or primary metabolites (such as purine or pyrimidine bases)." [GOC:lr, ISBN:0122146743] subset: goslim_chembl synonym: "alkaloid metabolism" EXACT [] is_a: GO:1901564 ! organonitrogen compound metabolic process intersection_of: GO:0008152 ! metabolic process intersection_of: has_primary_input_or_output CHEBI:22315 ! alkaloid relationship: has_primary_input_or_output CHEBI:22315 ! alkaloid [Term] id: GO:0009821 name: alkaloid biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of alkaloids, nitrogen-containing natural products which are not otherwise classified as nonprotein amino acids, amines, peptides, amines, cyanogenic glycosides, glucosinolates, cofactors, phytohormones, or primary metabolite (such as purine or pyrimidine bases)." [EC:1.1.1.51, GOC:lr, ISBN:0122146743] synonym: "alkaloid anabolism" EXACT [] synonym: "alkaloid biosynthesis" EXACT [] synonym: "alkaloid formation" EXACT [] synonym: "alkaloid synthesis" EXACT [] xref: UM-BBD_enzymeID:e0711 is_a: GO:0009820 ! alkaloid metabolic process is_a: GO:0044271 ! cellular nitrogen compound biosynthetic process is_a: GO:1901566 ! organonitrogen compound biosynthetic process intersection_of: GO:0009058 ! biosynthetic process intersection_of: has_primary_output CHEBI:22315 ! alkaloid relationship: has_primary_output CHEBI:22315 ! alkaloid [Term] id: GO:0009887 name: animal organ morphogenesis namespace: biological_process def: "Morphogenesis of an animal organ. An organ is defined as a tissue or set of tissues that work together to perform a specific function or functions. Morphogenesis is the process in which anatomical structures are generated and organized. Organs are commonly observed as visibly distinct structures, but may also exist as loosely associated clusters of cells that work together to perform a specific function or functions." [GOC:dgh, GOC:go_curators, ISBN:0471245208, ISBN:0721662544] synonym: "histogenesis and organogenesis" BROAD [] is_a: GO:0009653 ! anatomical structure morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0000062 ! organ relationship: part_of GO:0048513 ! animal organ development relationship: results_in_morphogenesis_of UBERON:0000062 ! organ [Term] id: GO:0009888 name: tissue development namespace: biological_process def: "The process whose specific outcome is the progression of a tissue over time, from its formation to the mature structure." [ISBN:0471245208] synonym: "histogenesis" EXACT [] synonym: "histogenesis and organogenesis" BROAD [] xref: Wikipedia:Histogenesis is_a: GO:0048856 ! anatomical structure development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0000479 ! tissue relationship: in_taxon NCBITaxon:2759 ! Eukaryota relationship: only_in_taxon NCBITaxon:2759 ! Eukaryota relationship: results_in_development_of UBERON:0000479 ! tissue property_value: RO:0002161 NCBITaxon:147554 property_value: RO:0002161 NCBITaxon:33630 property_value: RO:0002161 NCBITaxon:33682 property_value: RO:0002161 NCBITaxon:38254 property_value: RO:0002161 NCBITaxon:4891 [Term] id: GO:0009889 name: regulation of biosynthetic process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of substances." [GOC:go_curators] synonym: "regulation of anabolism" EXACT [] synonym: "regulation of biosynthesis" EXACT [] synonym: "regulation of formation" EXACT [] synonym: "regulation of synthesis" EXACT [] is_a: GO:0019222 ! regulation of metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0009058 ! biosynthetic process relationship: regulates GO:0009058 ! biosynthetic process [Term] id: GO:0009890 name: negative regulation of biosynthetic process namespace: biological_process def: "Any process that stops, prevents, or reduces the rate of the chemical reactions and pathways resulting in the formation of substances." [GOC:go_curators] synonym: "down regulation of biosynthetic process" EXACT [] synonym: "down-regulation of biosynthetic process" EXACT [] synonym: "downregulation of biosynthetic process" EXACT [] synonym: "inhibition of biosynthetic process" NARROW [] synonym: "negative regulation of anabolism" EXACT [] synonym: "negative regulation of biosynthesis" EXACT [] synonym: "negative regulation of formation" EXACT [] synonym: "negative regulation of synthesis" EXACT [] is_a: GO:0009889 ! regulation of biosynthetic process is_a: GO:0009892 ! negative regulation of metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0009058 ! biosynthetic process relationship: negatively_regulates GO:0009058 ! biosynthetic process [Term] id: GO:0009891 name: positive regulation of biosynthetic process namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of substances." [GOC:go_curators] synonym: "activation of biosynthetic process" NARROW [] synonym: "positive regulation of anabolism" EXACT [] synonym: "positive regulation of biosynthesis" EXACT [] synonym: "positive regulation of formation" EXACT [] synonym: "positive regulation of synthesis" EXACT [] synonym: "stimulation of biosynthetic process" NARROW [] synonym: "up regulation of biosynthetic process" EXACT [] synonym: "up-regulation of biosynthetic process" EXACT [] synonym: "upregulation of biosynthetic process" EXACT [] is_a: GO:0009889 ! regulation of biosynthetic process is_a: GO:0009893 ! positive regulation of metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0009058 ! biosynthetic process relationship: positively_regulates GO:0009058 ! biosynthetic process [Term] id: GO:0009892 name: negative regulation of metabolic process namespace: biological_process alt_id: GO:0044252 def: "Any process that stops, prevents, or reduces the frequency, rate or extent of the chemical reactions and pathways within a cell or an organism." [GOC:go_curators] synonym: "down regulation of metabolic process" EXACT [] synonym: "down-regulation of metabolic process" EXACT [] synonym: "downregulation of metabolic process" EXACT [] synonym: "inhibition of metabolic process" NARROW [] synonym: "inhibition of organismal metabolic process" NARROW [] synonym: "negative regulation of metabolism" EXACT [] synonym: "negative regulation of multicellular organismal metabolic process" NARROW [] synonym: "negative regulation of organismal metabolism" EXACT [] is_a: GO:0019222 ! regulation of metabolic process is_a: GO:0048519 ! negative regulation of biological process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0008152 ! metabolic process relationship: negatively_regulates GO:0008152 ! metabolic process [Term] id: GO:0009893 name: positive regulation of metabolic process namespace: biological_process alt_id: GO:0044253 def: "Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways within a cell or an organism." [GOC:go_curators] synonym: "activation of metabolic process" NARROW [] synonym: "positive regulation of metabolism" EXACT [] synonym: "positive regulation of multicellular organismal metabolic process" NARROW [] synonym: "positive regulation of organismal metabolism" NARROW [] synonym: "stimulation of metabolic process" NARROW [] synonym: "stimulation of organismal metabolic process" NARROW [] synonym: "up regulation of metabolic process" EXACT [] synonym: "up-regulation of metabolic process" EXACT [] synonym: "up-regulation of organismal metabolic process" NARROW [] synonym: "upregulation of metabolic process" EXACT [] is_a: GO:0019222 ! regulation of metabolic process is_a: GO:0048518 ! positive regulation of biological process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0008152 ! metabolic process relationship: positively_regulates GO:0008152 ! metabolic process [Term] id: GO:0009913 name: epidermal cell differentiation namespace: biological_process alt_id: GO:0043355 def: "The process in which a relatively unspecialized cell acquires specialized features of an epidermal cell, any of the cells making up the epidermis." [GOC:dph, GOC:go_curators, GOC:mtg_sensu, GOC:sdb_2009, GOC:tb] synonym: "hypodermal cell differentiation" RELATED [GOC:kmv, GOC:rk] is_a: GO:0030855 ! epithelial cell differentiation intersection_of: GO:0030154 ! cell differentiation intersection_of: results_in_acquisition_of_features_of CL:0000362 ! epidermal cell relationship: part_of GO:0008544 ! epidermis development relationship: results_in_acquisition_of_features_of CL:0000362 ! epidermal cell [Term] id: GO:0009914 name: hormone transport namespace: biological_process def: "The directed movement of hormones into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." [GOC:tb] subset: goslim_pir is_a: GO:0006810 ! transport is_a: GO:0010817 ! regulation of hormone levels [Term] id: GO:0009952 name: anterior/posterior pattern specification namespace: biological_process def: "The regionalization process in which specific areas of cell differentiation are determined along the anterior-posterior axis. The anterior-posterior axis is defined by a line that runs from the head or mouth of an organism to the tail or opposite end of the organism." [GOC:dph, GOC:go_curators, GOC:isa_complete, GOC:tb] synonym: "anterior/posterior pattern formation" RELATED [] is_a: GO:0003002 ! regionalization [Term] id: GO:0009966 name: regulation of signal transduction namespace: biological_process alt_id: GO:0035466 def: "Any process that modulates the frequency, rate or extent of signal transduction." [GOC:sm] synonym: "regulation of signaling pathway" RELATED [] synonym: "regulation of signalling pathway" RELATED [GOC:mah] is_a: GO:0010646 ! regulation of cell communication is_a: GO:0023051 ! regulation of signaling is_a: GO:0048583 ! regulation of response to stimulus intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0007165 ! signal transduction relationship: regulates GO:0007165 ! signal transduction [Term] id: GO:0009967 name: positive regulation of signal transduction namespace: biological_process alt_id: GO:0035468 def: "Any process that activates or increases the frequency, rate or extent of signal transduction." [GOC:sm] synonym: "activation of signal transduction" NARROW [] synonym: "positive regulation of signaling pathway" RELATED [] synonym: "positive regulation of signalling pathway" RELATED [GOC:mah] synonym: "stimulation of signal transduction" NARROW [] synonym: "up regulation of signal transduction" EXACT [] synonym: "up-regulation of signal transduction" EXACT [] synonym: "upregulation of signal transduction" EXACT [] is_a: GO:0009966 ! regulation of signal transduction is_a: GO:0010647 ! positive regulation of cell communication is_a: GO:0023056 ! positive regulation of signaling is_a: GO:0048584 ! positive regulation of response to stimulus intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0007165 ! signal transduction relationship: positively_regulates GO:0007165 ! signal transduction [Term] id: GO:0009968 name: negative regulation of signal transduction namespace: biological_process alt_id: GO:0035467 def: "Any process that stops, prevents, or reduces the frequency, rate or extent of signal transduction." [GOC:sm] synonym: "down regulation of signal transduction" EXACT [] synonym: "down-regulation of signal transduction" EXACT [] synonym: "downregulation of signal transduction" EXACT [] synonym: "inhibition of signal transduction" NARROW [] synonym: "negative regulation of signaling pathway" RELATED [] synonym: "negative regulation of signalling pathway" RELATED [GOC:mah] is_a: GO:0009966 ! regulation of signal transduction is_a: GO:0010648 ! negative regulation of cell communication is_a: GO:0023057 ! negative regulation of signaling is_a: GO:0048585 ! negative regulation of response to stimulus intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0007165 ! signal transduction relationship: negatively_regulates GO:0007165 ! signal transduction [Term] id: GO:0009987 name: cellular process namespace: biological_process alt_id: GO:0008151 alt_id: GO:0044763 alt_id: GO:0050875 def: "Any process that is carried out at the cellular level, but not necessarily restricted to a single cell. For example, cell communication occurs among more than one cell, but occurs at the cellular level." [GOC:go_curators, GOC:isa_complete] subset: gocheck_do_not_annotate subset: goslim_plant synonym: "cell growth and/or maintenance" NARROW [] synonym: "cell physiology" EXACT [] synonym: "cellular physiological process" EXACT [] synonym: "single-organism cellular process" RELATED [] is_a: GO:0008150 ! biological_process created_by: jl creation_date: 2012-12-11T16:56:55Z [Term] id: GO:0010001 name: glial cell differentiation namespace: biological_process alt_id: GO:0007404 alt_id: GO:0043360 def: "The process in which a relatively unspecialized cell acquires the specialized features of a glial cell." [GOC:go_curators, GOC:mtg_sensu] synonym: "glia cell differentiation" EXACT [] synonym: "neuroglia differentiation" EXACT [] is_a: GO:0030154 ! cell differentiation intersection_of: GO:0030154 ! cell differentiation intersection_of: results_in_acquisition_of_features_of CL:0000125 ! glial cell relationship: in_taxon NCBITaxon:33208 ! Metazoa relationship: only_in_taxon NCBITaxon:33208 ! Metazoa relationship: part_of GO:0042063 ! gliogenesis relationship: results_in_acquisition_of_features_of CL:0000125 ! glial cell [Term] id: GO:0010002 name: cardioblast differentiation namespace: biological_process def: "The process in which a relatively unspecialized mesodermal cell acquires the specialized structural and/or functional features of a cardioblast. A cardioblast is a cardiac precursor cell. It is a cell that has been committed to a cardiac fate, but will undergo more cell division rather than terminally differentiating." [GOC:go_curators] synonym: "cardiac precursor cell differentiation" EXACT [GOC:mtg_heart] synonym: "cardioblast cell differentiation" EXACT [] synonym: "cardiomyocyte generation" RELATED [] is_a: GO:0035051 ! cardiocyte differentiation is_a: GO:0048863 ! stem cell differentiation intersection_of: GO:0030154 ! cell differentiation intersection_of: results_in_acquisition_of_features_of CL:0002664 ! cardioblast relationship: results_in_acquisition_of_features_of CL:0002664 ! cardioblast [Term] id: GO:0010033 name: response to organic substance namespace: biological_process alt_id: GO:1990367 def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an organic substance stimulus." [GOC:sm, PMID:23356676] synonym: "process resulting in tolerance to organic substance" NARROW [] is_a: GO:0042221 ! response to chemical intersection_of: GO:0042221 ! response to chemical intersection_of: has_input CHEBI:50860 ! organic molecular entity relationship: has_input CHEBI:50860 ! organic molecular entity [Term] id: GO:0010035 name: response to inorganic substance namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an inorganic substance stimulus." [GOC:sm] is_a: GO:0042221 ! response to chemical intersection_of: GO:0050896 ! response to stimulus intersection_of: has_input CHEBI:24835 ! inorganic molecular entity relationship: has_input CHEBI:24835 ! inorganic molecular entity [Term] id: GO:0010160 name: formation of animal organ boundary namespace: biological_process alt_id: GO:0048862 def: "The regionalization process that specifies animal organ primordium boundaries resulting in a restriction of organogenesis to a limited spatial domain and keeping the organ separate from surrounding tissues." [GOC:dph, GOC:isa_complete, PMID:9611175] synonym: "organ boundary specification" EXACT [] is_a: GO:0003002 ! regionalization is_a: GO:0048859 ! formation of anatomical boundary intersection_of: GO:0048859 ! formation of anatomical boundary intersection_of: occurs_in UBERON:0000062 ! organ relationship: occurs_in UBERON:0000062 ! organ relationship: part_of GO:0048645 ! animal organ formation [Term] id: GO:0010171 name: body morphogenesis namespace: biological_process def: "The process in which the anatomical structures of the soma are generated and organized." [GOC:ems, ISBN:0140512888] is_a: GO:0009653 ! anatomical structure morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0000468 ! multicellular organism relationship: results_in_morphogenesis_of UBERON:0000468 ! multicellular organism [Term] id: GO:0010243 name: response to organonitrogen compound namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an organonitrogen stimulus. An organonitrogen compound is formally a compound containing at least one carbon-nitrogen bond." [PMID:9869419] synonym: "response to organic nitrogen" EXACT [] is_a: GO:0010033 ! response to organic substance is_a: GO:1901698 ! response to nitrogen compound intersection_of: GO:0050896 ! response to stimulus intersection_of: has_input CHEBI:35352 ! organonitrogen compound relationship: has_input CHEBI:35352 ! organonitrogen compound [Term] id: GO:0010256 name: endomembrane system organization namespace: biological_process def: "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of the endomembrane system." [GOC:mah, GOC:sm] subset: goslim_drosophila synonym: "endomembrane organization" EXACT [] synonym: "endomembrane system organisation" EXACT [GOC:mah] is_a: GO:0016043 ! cellular component organization intersection_of: GO:0016043 ! cellular component organization intersection_of: results_in_organization_of GO:0012505 ! endomembrane system relationship: results_in_organization_of GO:0012505 ! endomembrane system [Term] id: GO:0010463 name: mesenchymal cell proliferation namespace: biological_process def: "The multiplication or reproduction of cells, resulting in the expansion of a mesenchymal cell population. A mesenchymal cell is a cell that normally gives rise to other cells that are organized as three-dimensional masses, rather than sheets." [GOC:dph, GOC:tb] is_a: GO:0008283 ! cell population proliferation intersection_of: GO:0008283 ! cell population proliferation intersection_of: acts_on_population_of CL:0008019 ! mesenchymal cell relationship: acts_on_population_of CL:0008019 ! mesenchymal cell [Term] id: GO:0010464 name: regulation of mesenchymal cell proliferation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of mesenchymal cell proliferation. A mesenchymal cell is a cell that normally gives rise to other cells that are organized as three-dimensional masses, rather than sheets." [GOC:dph, GOC:tb] is_a: GO:0042127 ! regulation of cell population proliferation intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0010463 ! mesenchymal cell proliferation relationship: regulates GO:0010463 ! mesenchymal cell proliferation [Term] id: GO:0010467 name: gene expression namespace: biological_process def: "The process in which a gene's sequence is converted into a mature gene product (protein or RNA). This includes the production of an RNA transcript and its processing, translation and maturation for protein-coding genes." [GOC:txnOH-2018, PMID:25934543, PMID:31580950] subset: goslim_flybase_ribbon xref: Wikipedia:Gene_expression is_a: GO:0043170 ! macromolecule metabolic process property_value: IAO:0000233 https://github.com/geneontology/go-ontology/issues/22557 xsd:anyURI [Term] id: GO:0010468 name: regulation of gene expression namespace: biological_process def: "Any process that modulates the frequency, rate or extent of gene expression. Gene expression is the process in which a gene's coding sequence is converted into a mature gene product (protein or RNA)." [GOC:txnOH-2018] comment: This class covers any process that regulates the rate of production of a mature gene product, and so includes processes that regulate that rate by regulating the level, stability or availability of intermediates in the process of gene expression. For example, it covers any process that regulates the level, stability or availability of mRNA or circRNA for translation and thereby regulates the rate of production of the encoded protein via translation. synonym: "gene regulation" RELATED [GOC:cjm] synonym: "regulation of gene product expression" RELATED [] synonym: "regulation of protein expression" NARROW [] xref: Wikipedia:Regulation_of_gene_expression is_a: GO:0060255 ! regulation of macromolecule metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0010467 ! gene expression relationship: regulates GO:0010467 ! gene expression property_value: IAO:0000233 https://github.com/geneontology/go-ontology/issues/22557 xsd:anyURI [Term] id: GO:0010470 name: regulation of gastrulation namespace: biological_process def: "Any process that modulates the rate or extent of gastrulation. Gastrulation is the complex and coordinated series of cellular movements that occurs at the end of cleavage during embryonic development of most animals." [GOC:dph, GOC:tb] is_a: GO:0022603 ! regulation of anatomical structure morphogenesis is_a: GO:0045995 ! regulation of embryonic development intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0007369 ! gastrulation relationship: regulates GO:0007369 ! gastrulation [Term] id: GO:0010481 name: epidermal cell division namespace: biological_process def: "Any process resulting in the physical partitioning and separation of an epidermal cell, any of the cells making up the epidermis, into daughter cells." [PMID:17450124] synonym: "hypodermal cell division" RELATED [GOC:kmv, GOC:rk] is_a: GO:0051301 ! cell division intersection_of: GO:0051301 ! cell division intersection_of: has_input CL:0000362 ! epidermal cell relationship: has_input CL:0000362 ! epidermal cell [Term] id: GO:0010482 name: regulation of epidermal cell division namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the physical partitioning and separation of an epidermal cell into daughter cells. An epidermal cell is any of the cells that make up the epidermis." [PMID:17450124] synonym: "regulation of hypodermal cell division" RELATED [GOC:kmv, GOC:rk] is_a: GO:0051302 ! regulation of cell division intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0010481 ! epidermal cell division relationship: regulates GO:0010481 ! epidermal cell division [Term] id: GO:0010549 name: regulation of membrane disassembly namespace: biological_process def: "Any process that modulates the frequency, rate or extent of membrane disassembly." [GOC:dph, GOC:tb] is_a: GO:0051128 ! regulation of cellular component organization intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0030397 ! membrane disassembly relationship: regulates GO:0030397 ! membrane disassembly [Term] id: GO:0010556 name: regulation of macromolecule biosynthetic process namespace: biological_process def: "Any process that modulates the rate, frequency or extent of the chemical reactions and pathways resulting in the formation of a macromolecule, any molecule of high relative molecular mass, the structure of which essentially comprises the multiple repetition of units derived, actually or conceptually, from molecules of low relative molecular mass." [GOC:dph, GOC:tb] is_a: GO:0009889 ! regulation of biosynthetic process is_a: GO:0060255 ! regulation of macromolecule metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0009059 ! macromolecule biosynthetic process relationship: regulates GO:0009059 ! macromolecule biosynthetic process [Term] id: GO:0010557 name: positive regulation of macromolecule biosynthetic process namespace: biological_process def: "Any process that increases the rate, frequency or extent of the chemical reactions and pathways resulting in the formation of a macromolecule, any molecule of high relative molecular mass, the structure of which essentially comprises the multiple repetition of units derived, actually or conceptually, from molecules of low relative molecular mass." [GOC:dph, GOC:tb] is_a: GO:0009891 ! positive regulation of biosynthetic process is_a: GO:0010556 ! regulation of macromolecule biosynthetic process is_a: GO:0010604 ! positive regulation of macromolecule metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0009059 ! macromolecule biosynthetic process relationship: positively_regulates GO:0009059 ! macromolecule biosynthetic process [Term] id: GO:0010558 name: negative regulation of macromolecule biosynthetic process namespace: biological_process def: "Any process that decreases the rate, frequency or extent of the chemical reactions and pathways resulting in the formation of a macromolecule, any molecule of high relative molecular mass, the structure of which essentially comprises the multiple repetition of units derived, actually or conceptually, from molecules of low relative molecular mass." [GOC:dph, GOC:tb] is_a: GO:0009890 ! negative regulation of biosynthetic process is_a: GO:0010556 ! regulation of macromolecule biosynthetic process is_a: GO:0010605 ! negative regulation of macromolecule metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0009059 ! macromolecule biosynthetic process relationship: negatively_regulates GO:0009059 ! macromolecule biosynthetic process [Term] id: GO:0010559 name: regulation of glycoprotein biosynthetic process namespace: biological_process def: "Any process that modulates the rate, frequency, or extent of the chemical reactions and pathways resulting in the formation of a glycoprotein, a protein that contains covalently bound glycose (i.e. monosaccharide) residues; the glycose occurs most commonly as oligosaccharide or fairly small polysaccharide but occasionally as monosaccharide." [GOC:dph, GOC:tb] is_a: GO:1903018 ! regulation of glycoprotein metabolic process is_a: GO:2000112 ! regulation of cellular macromolecule biosynthetic process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0009101 ! glycoprotein biosynthetic process relationship: regulates GO:0009101 ! glycoprotein biosynthetic process [Term] id: GO:0010560 name: positive regulation of glycoprotein biosynthetic process namespace: biological_process def: "Any process that increases the rate, frequency, or extent of the chemical reactions and pathways resulting in the formation of a glycoprotein, a protein that contains covalently bound glycose (i.e. monosaccharide) residues; the glycose occurs most commonly as oligosaccharide or fairly small polysaccharide but occasionally as monosaccharide." [GOC:dph, GOC:tb] is_a: GO:0010557 ! positive regulation of macromolecule biosynthetic process is_a: GO:0010559 ! regulation of glycoprotein biosynthetic process is_a: GO:0031328 ! positive regulation of cellular biosynthetic process is_a: GO:1903020 ! positive regulation of glycoprotein metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0009101 ! glycoprotein biosynthetic process relationship: positively_regulates GO:0009101 ! glycoprotein biosynthetic process [Term] id: GO:0010561 name: negative regulation of glycoprotein biosynthetic process namespace: biological_process def: "Any process that decreases the rate, frequency, or extent of the chemical reactions and pathways resulting in the formation of a glycoprotein, a protein that contains covalently bound glycose (i.e. monosaccharide) residues; the glycose occurs most commonly as oligosaccharide or fairly small polysaccharide but occasionally as monosaccharide." [GOC:dph, GOC:tb] is_a: GO:0010559 ! regulation of glycoprotein biosynthetic process is_a: GO:1903019 ! negative regulation of glycoprotein metabolic process is_a: GO:2000113 ! negative regulation of cellular macromolecule biosynthetic process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0009101 ! glycoprotein biosynthetic process relationship: negatively_regulates GO:0009101 ! glycoprotein biosynthetic process [Term] id: GO:0010562 name: positive regulation of phosphorus metabolic process namespace: biological_process def: "Any process that increases the frequency, rate or extent of the chemical reactions and pathways involving phosphorus or compounds containing phosphorus." [GOC:dph, GOC:tb] is_a: GO:0031325 ! positive regulation of cellular metabolic process is_a: GO:0051174 ! regulation of phosphorus metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0006793 ! phosphorus metabolic process relationship: positively_regulates GO:0006793 ! phosphorus metabolic process [Term] id: GO:0010563 name: negative regulation of phosphorus metabolic process namespace: biological_process def: "Any process that decreases the frequency, rate or extent of the chemical reactions and pathways involving phosphorus or compounds containing phosphorus." [GOC:dph, GOC:tb] is_a: GO:0031324 ! negative regulation of cellular metabolic process is_a: GO:0051174 ! regulation of phosphorus metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0006793 ! phosphorus metabolic process relationship: negatively_regulates GO:0006793 ! phosphorus metabolic process [Term] id: GO:0010564 name: regulation of cell cycle process namespace: biological_process def: "Any process that modulates a cellular process that is involved in the progression of biochemical and morphological phases and events that occur in a cell during successive cell replication or nuclear replication events." [GOC:dph, GOC:tb] is_a: GO:0051726 ! regulation of cell cycle intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0022402 ! cell cycle process relationship: regulates GO:0022402 ! cell cycle process [Term] id: GO:0010565 name: regulation of cellular ketone metabolic process namespace: biological_process def: "Any process that modulates the chemical reactions and pathways involving any of a class of organic compounds that contain the carbonyl group, CO, and in which the carbonyl group is bonded only to carbon atoms. The general formula for a ketone is RCOR, where R and R are alkyl or aryl groups." [GOC:dph, GOC:tb] is_a: GO:0031323 ! regulation of cellular metabolic process is_a: GO:0062012 ! regulation of small molecule metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0042180 ! cellular ketone metabolic process relationship: regulates GO:0042180 ! cellular ketone metabolic process [Term] id: GO:0010566 name: regulation of ketone biosynthetic process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of a ketone, carried out by individual cells." [GOC:dph, GOC:tb] is_a: GO:0010565 ! regulation of cellular ketone metabolic process is_a: GO:0031326 ! regulation of cellular biosynthetic process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0042181 ! ketone biosynthetic process relationship: regulates GO:0042181 ! ketone biosynthetic process [Term] id: GO:0010604 name: positive regulation of macromolecule metabolic process namespace: biological_process def: "Any process that increases the frequency, rate or extent of the chemical reactions and pathways involving macromolecules, any molecule of high relative molecular mass, the structure of which essentially comprises the multiple repetition of units derived, actually or conceptually, from molecules of low relative molecular mass." [GOC:dph, GOC:tb] is_a: GO:0009893 ! positive regulation of metabolic process is_a: GO:0060255 ! regulation of macromolecule metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0043170 ! macromolecule metabolic process relationship: positively_regulates GO:0043170 ! macromolecule metabolic process [Term] id: GO:0010605 name: negative regulation of macromolecule metabolic process namespace: biological_process def: "Any process that decreases the frequency, rate or extent of the chemical reactions and pathways involving macromolecules, any molecule of high relative molecular mass, the structure of which essentially comprises the multiple repetition of units derived, actually or conceptually, from molecules of low relative molecular mass." [GOC:dph, GOC:tb] is_a: GO:0009892 ! negative regulation of metabolic process is_a: GO:0060255 ! regulation of macromolecule metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0043170 ! macromolecule metabolic process relationship: negatively_regulates GO:0043170 ! macromolecule metabolic process [Term] id: GO:0010608 name: posttranscriptional regulation of gene expression namespace: biological_process def: "Any process that modulates the frequency, rate or extent of gene expression after the production of an RNA transcript." [GOC:dph, GOC:tb] is_a: GO:0010468 ! regulation of gene expression [Term] id: GO:0010611 name: regulation of cardiac muscle hypertrophy namespace: biological_process def: "Any process that modulates the rate, frequency or extent of the enlargement or overgrowth of all or part of the heart due to an increase in size (not length) of individual cardiac muscle fibers, without cell division." [GOC:dph, GOC:tb] is_a: GO:0014743 ! regulation of muscle hypertrophy is_a: GO:0043502 ! regulation of muscle adaptation intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0003300 ! cardiac muscle hypertrophy relationship: regulates GO:0003300 ! cardiac muscle hypertrophy [Term] id: GO:0010612 name: regulation of cardiac muscle adaptation namespace: biological_process def: "Any process that modulates the rate, extent or frequency of the process in which cardiac muscle adapts, with consequent modifications to structural and/or functional phenotypes, in response to a stimulus. Stimuli include contractile activity, loading conditions, substrate supply, and environmental factors." [GOC:dph, GOC:tb] is_a: GO:0043502 ! regulation of muscle adaptation intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0014887 ! cardiac muscle adaptation relationship: regulates GO:0014887 ! cardiac muscle adaptation [Term] id: GO:0010613 name: positive regulation of cardiac muscle hypertrophy namespace: biological_process def: "Any process that increases the rate, frequency or extent of the enlargement or overgrowth of all or part of the heart due to an increase in size (not length) of individual cardiac muscle fibers, without cell division." [GOC:BHF, GOC:dph, GOC:tb] is_a: GO:0010611 ! regulation of cardiac muscle hypertrophy is_a: GO:0014742 ! positive regulation of muscle hypertrophy intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0003300 ! cardiac muscle hypertrophy relationship: positively_regulates GO:0003300 ! cardiac muscle hypertrophy [Term] id: GO:0010614 name: negative regulation of cardiac muscle hypertrophy namespace: biological_process def: "Any process that decreases the rate, frequency or extent of the enlargement or overgrowth of all or part of the heart due to an increase in size (not length) of individual cardiac muscle fibers, without cell division." [GOC:BHF, GOC:dph, GOC:tb] is_a: GO:0010611 ! regulation of cardiac muscle hypertrophy is_a: GO:0014741 ! negative regulation of muscle hypertrophy intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0003300 ! cardiac muscle hypertrophy relationship: negatively_regulates GO:0003300 ! cardiac muscle hypertrophy [Term] id: GO:0010615 name: positive regulation of cardiac muscle adaptation namespace: biological_process def: "Any process that increases the rate, extent or frequency of the process in which cardiac muscle adapts, with consequent modifications to structural and/or functional phenotypes, in response to a stimulus. Stimuli include contractile activity, loading conditions, substrate supply, and environmental factors." [GOC:BHF, GOC:dph, GOC:tb] is_a: GO:0010612 ! regulation of cardiac muscle adaptation is_a: GO:0014744 ! positive regulation of muscle adaptation intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0014887 ! cardiac muscle adaptation relationship: positively_regulates GO:0014887 ! cardiac muscle adaptation [Term] id: GO:0010616 name: negative regulation of cardiac muscle adaptation namespace: biological_process def: "Any process that decreases the rate, extent or frequency of the process in which cardiac muscle adapts, with consequent modifications to structural and/or functional phenotypes, in response to a stimulus. Stimuli include contractile activity, loading conditions, substrate supply, and environmental factors." [GOC:BHF, GOC:dph, GOC:tb] is_a: GO:0010612 ! regulation of cardiac muscle adaptation is_a: GO:0014745 ! negative regulation of muscle adaptation intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0014887 ! cardiac muscle adaptation relationship: negatively_regulates GO:0014887 ! cardiac muscle adaptation [Term] id: GO:0010623 name: programmed cell death involved in cell development namespace: biological_process def: "The activation of endogenous cellular processes that result in the death of a cell as part of its development." [GOC:dph, GOC:mtg_apoptosis, GOC:tb] comment: This process is part of the natural developmental program of some cell types, but it does not always happen as part of the development or shaping of a gross anatomical structure. synonym: "developmental programmed cell death" BROAD [] synonym: "programmed cell death involved in development" BROAD [] is_a: GO:0012501 ! programmed cell death is_a: GO:0048869 ! cellular developmental process intersection_of: GO:0012501 ! programmed cell death intersection_of: part_of GO:0048468 ! cell development relationship: part_of GO:0048468 ! cell development [Term] id: GO:0010628 name: positive regulation of gene expression namespace: biological_process def: "Any process that increases the frequency, rate or extent of gene expression. Gene expression is the process in which a gene's coding sequence is converted into a mature gene product (protein or RNA)." [GOC:txnOH-2018] is_a: GO:0010468 ! regulation of gene expression is_a: GO:0010604 ! positive regulation of macromolecule metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0010467 ! gene expression relationship: positively_regulates GO:0010467 ! gene expression property_value: IAO:0000233 https://github.com/geneontology/go-ontology/issues/22557 xsd:anyURI [Term] id: GO:0010629 name: negative regulation of gene expression namespace: biological_process def: "Any process that decreases the frequency, rate or extent of gene expression. Gene expression is the process in which a gene's coding sequence is converted into a mature gene product (protein or RNA)." [GOC:txnOH-2018] comment: This term covers any process that negatively regulates the rate of production of a mature gene product, and so includes processes that negatively regulate that rate by reducing the level, stability or availability of intermediates in the process of gene expression. For example, it covers any process that reduces the level, stability or availability of mRNA or circRNA for translation and thereby reduces the rate of production of the encoded protein via translation. synonym: "gene silencing" RELATED [] is_a: GO:0010468 ! regulation of gene expression is_a: GO:0010605 ! negative regulation of macromolecule metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0010467 ! gene expression relationship: negatively_regulates GO:0010467 ! gene expression property_value: IAO:0000233 https://github.com/geneontology/go-ontology/issues/22557 xsd:anyURI [Term] id: GO:0010638 name: positive regulation of organelle organization namespace: biological_process def: "Any process that increases the frequency, rate or extent of a process involved in the formation, arrangement of constituent parts, or disassembly of an organelle." [GOC:dph, GOC:tb] synonym: "positive regulation of organelle organisation" EXACT [GOC:mah] synonym: "positive regulation of organelle organization and biogenesis" RELATED [GOC:mah] is_a: GO:0033043 ! regulation of organelle organization is_a: GO:0051130 ! positive regulation of cellular component organization intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0006996 ! organelle organization relationship: positively_regulates GO:0006996 ! organelle organization [Term] id: GO:0010639 name: negative regulation of organelle organization namespace: biological_process def: "Any process that decreases the frequency, rate or extent of a process involved in the formation, arrangement of constituent parts, or disassembly of an organelle." [GOC:dph, GOC:tb] synonym: "negative regulation of organelle organisation" EXACT [GOC:mah] synonym: "negative regulation of organelle organization and biogenesis" RELATED [GOC:mah] is_a: GO:0033043 ! regulation of organelle organization is_a: GO:0051129 ! negative regulation of cellular component organization intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0006996 ! organelle organization relationship: negatively_regulates GO:0006996 ! organelle organization [Term] id: GO:0010646 name: regulation of cell communication namespace: biological_process def: "Any process that modulates the frequency, rate or extent of cell communication. Cell communication is the process that mediates interactions between a cell and its surroundings. Encompasses interactions such as signaling or attachment between one cell and another cell, between a cell and an extracellular matrix, or between a cell and any other aspect of its environment." [GOC:dph, GOC:tb] is_a: GO:0050794 ! regulation of cellular process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0007154 ! cell communication relationship: regulates GO:0007154 ! cell communication [Term] id: GO:0010647 name: positive regulation of cell communication namespace: biological_process def: "Any process that increases the frequency, rate or extent of cell communication. Cell communication is the process that mediates interactions between a cell and its surroundings. Encompasses interactions such as signaling or attachment between one cell and another cell, between a cell and an extracellular matrix, or between a cell and any other aspect of its environment." [GOC:dph, GOC:tb] is_a: GO:0010646 ! regulation of cell communication is_a: GO:0048522 ! positive regulation of cellular process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0007154 ! cell communication relationship: positively_regulates GO:0007154 ! cell communication [Term] id: GO:0010648 name: negative regulation of cell communication namespace: biological_process def: "Any process that decreases the frequency, rate or extent of cell communication. Cell communication is the process that mediates interactions between a cell and its surroundings. Encompasses interactions such as signaling or attachment between one cell and another cell, between a cell and an extracellular matrix, or between a cell and any other aspect of its environment." [GOC:dph, GOC:tb] is_a: GO:0010646 ! regulation of cell communication is_a: GO:0048523 ! negative regulation of cellular process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0007154 ! cell communication relationship: negatively_regulates GO:0007154 ! cell communication [Term] id: GO:0010656 name: negative regulation of muscle cell apoptotic process namespace: biological_process def: "Any process that decreases the rate or frequency of muscle cell apoptotic process, a form of programmed cell death induced by external or internal signals that trigger the activity of proteolytic caspases whose actions dismantle a muscle cell and result in its death." [GOC:dph, GOC:mtg_apoptosis, GOC:tb] synonym: "negative regulation of muscle cell apoptosis" NARROW [] is_a: GO:0010660 ! regulation of muscle cell apoptotic process is_a: GO:0043066 ! negative regulation of apoptotic process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0010657 ! muscle cell apoptotic process relationship: negatively_regulates GO:0010657 ! muscle cell apoptotic process [Term] id: GO:0010657 name: muscle cell apoptotic process namespace: biological_process def: "A form of programmed cell death induced by external or internal signals that trigger the activity of proteolytic caspases, whose actions dismantle a muscle cell and result in its death. A muscle cell is a mature contractile cell, commonly known as a myocyte, that forms one of three kinds of muscle." [CL:0000187, GOC:dph, GOC:mtg_apoptosis, GOC:tb] synonym: "muscle cell apoptosis" NARROW [] is_a: GO:0006915 ! apoptotic process intersection_of: GO:0006915 ! apoptotic process intersection_of: occurs_in CL:0000187 ! muscle cell relationship: in_taxon NCBITaxon:33208 ! Metazoa relationship: occurs_in CL:0000187 ! muscle cell relationship: only_in_taxon NCBITaxon:33208 ! Metazoa [Term] id: GO:0010658 name: striated muscle cell apoptotic process namespace: biological_process def: "A form of programmed cell death induced by external or internal signals that trigger the activity of proteolytic caspases, whose actions dismantle a striated muscle cell and result in its death. Striated muscle cells make up striated muscle fibers which are divided by transverse bands into striations." [CL:0000737, GOC:dph, GOC:mtg_apoptosis, GOC:tb] synonym: "striated muscle cell apoptosis" NARROW [] is_a: GO:0010657 ! muscle cell apoptotic process intersection_of: GO:0006915 ! apoptotic process intersection_of: occurs_in CL:0000737 ! striated muscle cell relationship: occurs_in CL:0000737 ! striated muscle cell [Term] id: GO:0010659 name: cardiac muscle cell apoptotic process namespace: biological_process def: "A form of programmed cell death induced by external or internal signals that trigger the activity of proteolytic caspases, whose actions dismantle a cardiac muscle cell and result in its death. Cardiac muscle cells are striated muscle cells that are responsible for heart contraction." [CL:0000746, GOC:dph, GOC:mtg_apoptosis, GOC:tb] synonym: "cardiac muscle cell apoptosis" NARROW [] is_a: GO:0010658 ! striated muscle cell apoptotic process intersection_of: GO:0006915 ! apoptotic process intersection_of: occurs_in CL:0000746 ! cardiac muscle cell relationship: occurs_in CL:0000746 ! cardiac muscle cell [Term] id: GO:0010660 name: regulation of muscle cell apoptotic process namespace: biological_process def: "Any process that modulates the rate or frequency of muscle cell apoptotic process, a form of programmed cell death induced by external or internal signals that trigger the activity of proteolytic caspases whose actions dismantle a muscle cell and result in its death." [GOC:dph, GOC:mtg_apoptosis, GOC:tb] synonym: "regulation of muscle cell apoptosis" NARROW [] is_a: GO:0042981 ! regulation of apoptotic process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0010657 ! muscle cell apoptotic process relationship: regulates GO:0010657 ! muscle cell apoptotic process [Term] id: GO:0010661 name: positive regulation of muscle cell apoptotic process namespace: biological_process def: "Any process that increases the rate or frequency of muscle cell apoptotic process, a form of programmed cell death induced by external or internal signals that trigger the activity of proteolytic caspases whose actions dismantle a muscle cell and result in its death." [GOC:dph, GOC:mtg_apoptosis, GOC:tb] synonym: "positive regulation of muscle cell apoptosis" NARROW [] is_a: GO:0010660 ! regulation of muscle cell apoptotic process is_a: GO:0043065 ! positive regulation of apoptotic process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0010657 ! muscle cell apoptotic process relationship: positively_regulates GO:0010657 ! muscle cell apoptotic process [Term] id: GO:0010662 name: regulation of striated muscle cell apoptotic process namespace: biological_process def: "Any process that modulates the rate or extent of striated muscle cell apoptotic process, a form of programmed cell death induced by external or internal signals that trigger the activity of proteolytic caspases whose actions dismantle a striated muscle cell and result in its death." [GOC:dph, GOC:mtg_apoptosis, GOC:tb] synonym: "regulation of striated muscle cell apoptosis" NARROW [] is_a: GO:0010660 ! regulation of muscle cell apoptotic process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0010658 ! striated muscle cell apoptotic process relationship: regulates GO:0010658 ! striated muscle cell apoptotic process [Term] id: GO:0010663 name: positive regulation of striated muscle cell apoptotic process namespace: biological_process def: "Any process that increases the rate or extent of striated muscle cell apoptotic process, a form of programmed cell death induced by external or internal signals that trigger the activity of proteolytic caspases whose actions dismantle a striated muscle cell and result in its death." [GOC:dph, GOC:mtg_apoptosis, GOC:tb] synonym: "positive regulation of striated muscle cell apoptosis" NARROW [] is_a: GO:0010661 ! positive regulation of muscle cell apoptotic process is_a: GO:0010662 ! regulation of striated muscle cell apoptotic process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0010658 ! striated muscle cell apoptotic process relationship: positively_regulates GO:0010658 ! striated muscle cell apoptotic process [Term] id: GO:0010664 name: negative regulation of striated muscle cell apoptotic process namespace: biological_process def: "Any process that decreases the rate or extent of striated muscle cell apoptotic process, a form of programmed cell death induced by external or internal signals that trigger the activity of proteolytic caspases whose actions dismantle a striated muscle cell and result in its death." [GOC:BHF, GOC:dph, GOC:mtg_apoptosis, GOC:rl, GOC:tb] synonym: "down regulation of striated muscle cell apoptosis" EXACT [GOC:dph, GOC:rl, GOC:tb] synonym: "down-regulation of striated muscle cell apoptosis" EXACT [GOC:dph, GOC:rl, GOC:tb] synonym: "downregulation of striated muscle cell apoptosis" EXACT [GOC:dph, GOC:rl, GOC:tb] synonym: "inhibition of striated muscle cell apoptosis" NARROW [GOC:dph, GOC:rl, GOC:tb] synonym: "negative regulation of striated muscle cell apoptosis" NARROW [] is_a: GO:0010656 ! negative regulation of muscle cell apoptotic process is_a: GO:0010662 ! regulation of striated muscle cell apoptotic process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0010658 ! striated muscle cell apoptotic process relationship: negatively_regulates GO:0010658 ! striated muscle cell apoptotic process [Term] id: GO:0010665 name: regulation of cardiac muscle cell apoptotic process namespace: biological_process def: "Any process that modulates the rate or extent of cardiac cell apoptotic process, a form of programmed cell death induced by external or internal signals that trigger the activity of proteolytic caspases whose actions dismantle a cardiac muscle cell and result in its death." [GOC:dph, GOC:mtg_apoptosis, GOC:tb] synonym: "regulation of cardiac muscle cell apoptosis" NARROW [] is_a: GO:0010662 ! regulation of striated muscle cell apoptotic process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0010659 ! cardiac muscle cell apoptotic process relationship: regulates GO:0010659 ! cardiac muscle cell apoptotic process [Term] id: GO:0010666 name: positive regulation of cardiac muscle cell apoptotic process namespace: biological_process def: "Any process that increases the rate or extent of cardiac cell apoptotic process, a form of programmed cell death induced by external or internal signals that trigger the activity of proteolytic caspases whose actions dismantle a cardiac muscle cell and result in its death." [GOC:dph, GOC:mtg_apoptosis, GOC:tb] synonym: "positive regulation of cardiac muscle cell apoptosis" NARROW [] is_a: GO:0010663 ! positive regulation of striated muscle cell apoptotic process is_a: GO:0010665 ! regulation of cardiac muscle cell apoptotic process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0010659 ! cardiac muscle cell apoptotic process relationship: positively_regulates GO:0010659 ! cardiac muscle cell apoptotic process [Term] id: GO:0010667 name: negative regulation of cardiac muscle cell apoptotic process namespace: biological_process def: "Any process that decreases the rate or extent of cardiac cell apoptotic process, a form of programmed cell death induced by external or internal signals that trigger the activity of proteolytic caspases whose actions dismantle a cardiac muscle cell and result in its death." [GOC:BHF, GOC:dph, GOC:mtg_apoptosis, GOC:rl, GOC:tb] synonym: "down regulation of cardiac muscle cell apoptosis" EXACT [GOC:dph, GOC:rl, GOC:tb] synonym: "down-regulation of cardiac muscle cell apoptosis" EXACT [GOC:dph, GOC:rl, GOC:tb] synonym: "downregulation of cardiac muscle cell apoptosis" EXACT [GOC:dph, GOC:rl, GOC:tb] synonym: "inhibition of cardiac muscle cell apoptosis" NARROW [GOC:dph, GOC:rl, GOC:tb] synonym: "negative regulation of cardiac muscle cell apoptosis" NARROW [] is_a: GO:0010664 ! negative regulation of striated muscle cell apoptotic process is_a: GO:0010665 ! regulation of cardiac muscle cell apoptotic process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0010659 ! cardiac muscle cell apoptotic process relationship: negatively_regulates GO:0010659 ! cardiac muscle cell apoptotic process [Term] id: GO:0010668 name: ectodermal cell differentiation namespace: biological_process def: "The process in which relatively unspecialized cells acquire specialized structural and/or functional features of an ectodermal cell. Differentiation includes the processes involved in commitment of a cell to a specific fate." [GOC:dph, GOC:tb] is_a: GO:0030154 ! cell differentiation intersection_of: GO:0030154 ! cell differentiation intersection_of: results_in_acquisition_of_features_of CL:0000221 ! ectodermal cell relationship: part_of GO:0007398 ! ectoderm development relationship: results_in_acquisition_of_features_of CL:0000221 ! ectodermal cell [Term] id: GO:0010700 name: negative regulation of norepinephrine secretion namespace: biological_process def: "Any process that decreases the frequency, rate or extent of the regulated release of norepinephrine." [GOC:dph, GOC:tb] is_a: GO:0014061 ! regulation of norepinephrine secretion is_a: GO:0033604 ! negative regulation of catecholamine secretion intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0048243 ! norepinephrine secretion relationship: negatively_regulates GO:0048243 ! norepinephrine secretion [Term] id: GO:0010701 name: positive regulation of norepinephrine secretion namespace: biological_process def: "Any process that increases the frequency, rate or extent of the regulated release of norepinephrine." [GOC:dph, GOC:tb] is_a: GO:0014061 ! regulation of norepinephrine secretion is_a: GO:0033605 ! positive regulation of catecholamine secretion intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0048243 ! norepinephrine secretion relationship: positively_regulates GO:0048243 ! norepinephrine secretion [Term] id: GO:0010712 name: regulation of collagen metabolic process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways resulting in the metabolism of collagen, any of a group of fibrous proteins of very high tensile strength that form the main component of connective tissue in animals." [GOC:dph, GOC:tb] synonym: "regulation of collagen metabolism" EXACT [GOC:dph, GOC:tb] is_a: GO:0019222 ! regulation of metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0032963 ! collagen metabolic process relationship: regulates GO:0032963 ! collagen metabolic process [Term] id: GO:0010713 name: negative regulation of collagen metabolic process namespace: biological_process def: "Any process that decreases the frequency, rate or extent of the chemical reactions and pathways resulting in the metabolism of collagen, any of a group of fibrous proteins of very high tensile strength that form the main component of connective tissue in animals." [GOC:dph, GOC:tb] is_a: GO:0009892 ! negative regulation of metabolic process is_a: GO:0010712 ! regulation of collagen metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0032963 ! collagen metabolic process relationship: negatively_regulates GO:0032963 ! collagen metabolic process [Term] id: GO:0010714 name: positive regulation of collagen metabolic process namespace: biological_process def: "Any process that increases the frequency, rate or extent of the chemical reactions and pathways resulting in the metabolism of collagen, any of a group of fibrous proteins of very high tensile strength that form the main component of connective tissue in animals." [GOC:dph, GOC:tb] synonym: "positive regulation of collagen metabolism" EXACT [GOC:dph, GOC:tb] is_a: GO:0009893 ! positive regulation of metabolic process is_a: GO:0010712 ! regulation of collagen metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0032963 ! collagen metabolic process relationship: positively_regulates GO:0032963 ! collagen metabolic process [Term] id: GO:0010715 name: regulation of extracellular matrix disassembly namespace: biological_process def: "Any process that modulates the rate, frequency or extent of extracellular matrix disassembly. Extracellular matrix disassembly is a process that results in the breakdown of the extracellular matrix." [GOC:BHF, GOC:dph, GOC:tb] synonym: "regulation of extracellular matrix breakdown" EXACT [GOC:dph, GOC:tb] synonym: "regulation of extracellular matrix degradation" EXACT [GOC:dph, GOC:tb] is_a: GO:1903053 ! regulation of extracellular matrix organization intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0022617 ! extracellular matrix disassembly relationship: regulates GO:0022617 ! extracellular matrix disassembly [Term] id: GO:0010716 name: negative regulation of extracellular matrix disassembly namespace: biological_process def: "Any process that decreases the rate, frequency or extent of extracellular matrix disassembly. Extracellular matrix disassembly is a process that results in the breakdown of the extracellular matrix." [GOC:BHF, GOC:dph, GOC:tb] synonym: "down regulation of extracellular matrix disassembly" EXACT [GOC:dph, GOC:tb] synonym: "down-regulation of extracellular matrix disassembly" EXACT [GOC:dph, GOC:tb] synonym: "downregulation of extracellular matrix disassembly" EXACT [GOC:dph, GOC:tb] synonym: "inhibition of extracellular matrix disassembly" NARROW [GOC:dph, GOC:tb] synonym: "negative regulation of extracellular matrix breakdown" EXACT [GOC:dph, GOC:tb] synonym: "negative regulation of extracellular matrix degradation" EXACT [GOC:dph, GOC:tb] is_a: GO:0010715 ! regulation of extracellular matrix disassembly is_a: GO:1903054 ! negative regulation of extracellular matrix organization intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0022617 ! extracellular matrix disassembly relationship: negatively_regulates GO:0022617 ! extracellular matrix disassembly [Term] id: GO:0010717 name: regulation of epithelial to mesenchymal transition namespace: biological_process def: "Any process that modulates the rate, frequency, or extent of epithelial to mesenchymal transition. Epithelial to mesenchymal transition where an epithelial cell loses apical/basolateral polarity, severs intercellular adhesive junctions, degrades basement membrane components and becomes a migratory mesenchymal cell." [GOC:BHF, GOC:dph, GOC:tb] is_a: GO:0045595 ! regulation of cell differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0001837 ! epithelial to mesenchymal transition relationship: regulates GO:0001837 ! epithelial to mesenchymal transition [Term] id: GO:0010718 name: positive regulation of epithelial to mesenchymal transition namespace: biological_process def: "Any process that increases the rate, frequency, or extent of epithelial to mesenchymal transition. Epithelial to mesenchymal transition is where an epithelial cell loses apical/basolateral polarity, severs intercellular adhesive junctions, degrades basement membrane components and becomes a migratory mesenchymal cell." [GOC:BHF, GOC:dph, GOC:tb] is_a: GO:0010717 ! regulation of epithelial to mesenchymal transition is_a: GO:0045597 ! positive regulation of cell differentiation is_a: GO:0051240 ! positive regulation of multicellular organismal process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0001837 ! epithelial to mesenchymal transition relationship: positively_regulates GO:0001837 ! epithelial to mesenchymal transition [Term] id: GO:0010719 name: negative regulation of epithelial to mesenchymal transition namespace: biological_process def: "Any process that decreases the rate, frequency, or extent of epithelial to mesenchymal transition. Epithelial to mesenchymal transition where an epithelial cell loses apical/basolateral polarity, severs intercellular adhesive junctions, degrades basement membrane components and becomes a migratory mesenchymal cell." [GOC:BHF, GOC:dph, GOC:tb] is_a: GO:0010717 ! regulation of epithelial to mesenchymal transition is_a: GO:0045596 ! negative regulation of cell differentiation is_a: GO:0051241 ! negative regulation of multicellular organismal process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0001837 ! epithelial to mesenchymal transition relationship: negatively_regulates GO:0001837 ! epithelial to mesenchymal transition [Term] id: GO:0010720 name: positive regulation of cell development namespace: biological_process def: "Any process that increases the rate, frequency or extent of the progression of the cell over time, from its formation to the mature structure. Cell development does not include the steps involved in committing a cell to a specific fate." [GOC:BHF, GOC:dph, GOC:tb] is_a: GO:0045597 ! positive regulation of cell differentiation is_a: GO:0060284 ! regulation of cell development intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0048468 ! cell development relationship: positively_regulates GO:0048468 ! cell development [Term] id: GO:0010721 name: negative regulation of cell development namespace: biological_process def: "Any process that decreases the rate, frequency or extent of the progression of the cell over time, from its formation to the mature structure. Cell development does not include the steps involved in committing a cell to a specific fate." [GOC:BHF, GOC:dph, GOC:tb] is_a: GO:0045596 ! negative regulation of cell differentiation is_a: GO:0060284 ! regulation of cell development intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0048468 ! cell development relationship: negatively_regulates GO:0048468 ! cell development [Term] id: GO:0010769 name: regulation of cell morphogenesis involved in differentiation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of cell morphogenesis contributing to cell differentiation. Cell morphogenesis involved in differentiation is the change in form (cell shape and size) that occurs when relatively unspecialized cells acquire specialized structural and/or functional features that characterize the cells, tissues, or organs of the mature organism or some other relatively stable phase of the organism's life history." [GOC:dph, GOC:tb] is_a: GO:0022604 ! regulation of cell morphogenesis intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0000904 ! cell morphogenesis involved in differentiation relationship: regulates GO:0000904 ! cell morphogenesis involved in differentiation [Term] id: GO:0010770 name: positive regulation of cell morphogenesis involved in differentiation namespace: biological_process def: "Any process that increases the frequency, rate or extent of cell morphogenesis contributing to cell differentiation. Cell morphogenesis involved in differentiation is the change in form (cell shape and size) that occurs when relatively unspecialized cells acquire specialized structural and/or functional features that characterize the cells, tissues, or organs of the mature organism or some other relatively stable phase of the organism's life history." [GOC:dph, GOC:tb] is_a: GO:0010720 ! positive regulation of cell development is_a: GO:0010769 ! regulation of cell morphogenesis involved in differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0000904 ! cell morphogenesis involved in differentiation relationship: positively_regulates GO:0000904 ! cell morphogenesis involved in differentiation [Term] id: GO:0010771 name: negative regulation of cell morphogenesis involved in differentiation namespace: biological_process def: "Any process that decreases the frequency, rate or extent of cell morphogenesis contributing to cell differentiation. Cell morphogenesis involved in differentiation is the change in form (cell shape and size) that occurs when relatively unspecialized cells acquire specialized structural and/or functional features that characterize the cells, tissues, or organs of the mature organism or some other relatively stable phase of the organism's life history." [GOC:dph, GOC:tb] is_a: GO:0010721 ! negative regulation of cell development is_a: GO:0010769 ! regulation of cell morphogenesis involved in differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0000904 ! cell morphogenesis involved in differentiation relationship: negatively_regulates GO:0000904 ! cell morphogenesis involved in differentiation [Term] id: GO:0010817 name: regulation of hormone levels namespace: biological_process def: "Any process that modulates the levels of hormone within an organism or a tissue. A hormone is any substance formed in very small amounts in one specialized organ or group of cells and carried (sometimes in the bloodstream) to another organ or group of cells in the same organism, upon which it has a specific regulatory action." [GOC:BHF, GOC:dph, GOC:tb] is_a: GO:0065008 ! regulation of biological quality [Term] id: GO:0010830 name: regulation of myotube differentiation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of myotube differentiation. Myotube differentiation is the process in which a relatively unspecialized cell acquires specialized features of a myotube cell. Myotubes are multinucleated cells that are formed when proliferating myoblasts exit the cell cycle, differentiate and fuse." [GOC:dph, GOC:tb] is_a: GO:0051153 ! regulation of striated muscle cell differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0014902 ! myotube differentiation relationship: regulates GO:0014902 ! myotube differentiation [Term] id: GO:0010831 name: positive regulation of myotube differentiation namespace: biological_process def: "Any process that activates, maintains or increases the frequency, rate or extent of myotube differentiation. Myotube differentiation is the process in which a relatively unspecialized cell acquires specialized features of a myotube cell. Myotubes are multinucleated cells that are formed when proliferating myoblasts exit the cell cycle, differentiate and fuse." [GOC:dph, GOC:tb] is_a: GO:0010830 ! regulation of myotube differentiation is_a: GO:0051155 ! positive regulation of striated muscle cell differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0014902 ! myotube differentiation relationship: positively_regulates GO:0014902 ! myotube differentiation [Term] id: GO:0010832 name: negative regulation of myotube differentiation namespace: biological_process def: "Any process that decreases the frequency, rate or extent of myotube differentiation. Myotube differentiation is the process in which a relatively unspecialized cell acquires specialized features of a myotube cell. Myotubes are multinucleated cells that are formed when proliferating myoblasts exit the cell cycle, differentiate and fuse." [GOC:dph, GOC:tb] is_a: GO:0010830 ! regulation of myotube differentiation is_a: GO:0051154 ! negative regulation of striated muscle cell differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0014902 ! myotube differentiation relationship: negatively_regulates GO:0014902 ! myotube differentiation [Term] id: GO:0010842 name: retina layer formation namespace: biological_process def: "The process in which the vertebrate retina is organized into three laminae: the outer nuclear layer (ONL), which contains photoreceptor nuclei; the inner nuclear layer (INL), which contains amacrine, bipolar and horizontal cells; and the retinal ganglion cell (RGC) layer. Between the inner and outer nuclear layers, the outer plexiform layer (OPL) contains connections between the photoreceptors and bipolar and horizontal cells. The inner plexiform layer (IPL) is positioned between the INL and the ganglion cell layer and contains the dendrites of RGCs and processes of bipolar and amacrine cells. Spanning all layers of the retina are the radially oriented Mueller glia." [GOC:ascb_2009, GOC:dph, GOC:tb, PMID:1270266] synonym: "retinal lamination" EXACT [GOC:dph, GOC:tb] synonym: "retinal layer formation" EXACT [GOC:dph, GOC:tb] is_a: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: results_in_formation_of UBERON:0001781 ! layer of retina relationship: part_of GO:0003407 ! neural retina development relationship: part_of GO:0060042 ! retina morphogenesis in camera-type eye relationship: results_in_formation_of UBERON:0001781 ! layer of retina [Term] id: GO:0010847 name: regulation of chromatin assembly namespace: biological_process def: "Any process the modulates the frequency, rate or extent of chromatin assembly. Chromatin assembly is the assembly of DNA, histone proteins, and other associated proteins into chromatin structure, beginning with the formation of the basic unit, the nucleosome, followed by organization of the nucleosomes into higher order structures, ultimately giving rise to a complex organization of specific domains within the nucleus." [GOC:dph, GOC:tb] is_a: GO:0001672 ! regulation of chromatin assembly or disassembly is_a: GO:0044087 ! regulation of cellular component biogenesis intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0031497 ! chromatin assembly relationship: regulates GO:0031497 ! chromatin assembly [Term] id: GO:0010848 name: regulation of chromatin disassembly namespace: biological_process def: "Any process that modulates the frequency, rate or extent of chromatin disassembly. Chromatin disassembly is the controlled breakdown of chromatin from a higher order structure into its simpler subcomponents, DNA, histones, and other proteins." [GOC:dph, GOC:tb] is_a: GO:0001672 ! regulation of chromatin assembly or disassembly intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0031498 ! chromatin disassembly relationship: regulates GO:0031498 ! chromatin disassembly [Term] id: GO:0010876 name: lipid localization namespace: biological_process def: "Any process in which a lipid is transported to, or maintained in, a specific location." [GOC:BHF, GOC:dph, GOC:tb] synonym: "lipid localisation" EXACT [GOC:mah] is_a: GO:0033036 ! macromolecule localization intersection_of: GO:0033036 ! macromolecule localization intersection_of: transports_or_maintains_localization_of CHEBI:18059 ! lipid relationship: transports_or_maintains_localization_of CHEBI:18059 ! lipid [Term] id: GO:0010893 name: positive regulation of steroid biosynthetic process namespace: biological_process def: "Any process that increases the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of steroids, compounds with a 1,2,cyclopentanoperhydrophenanthrene nucleus." [GOC:tb] is_a: GO:0045940 ! positive regulation of steroid metabolic process is_a: GO:0046889 ! positive regulation of lipid biosynthetic process is_a: GO:0050810 ! regulation of steroid biosynthetic process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0006694 ! steroid biosynthetic process relationship: positively_regulates GO:0006694 ! steroid biosynthetic process [Term] id: GO:0010894 name: negative regulation of steroid biosynthetic process namespace: biological_process def: "Any process that decreases the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of steroids, compounds with a 1,2,cyclopentanoperhydrophenanthrene nucleus." [GOC:BHF, GOC:tb] is_a: GO:0045939 ! negative regulation of steroid metabolic process is_a: GO:0050810 ! regulation of steroid biosynthetic process is_a: GO:0051055 ! negative regulation of lipid biosynthetic process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0006694 ! steroid biosynthetic process relationship: negatively_regulates GO:0006694 ! steroid biosynthetic process [Term] id: GO:0010927 name: cellular component assembly involved in morphogenesis namespace: biological_process def: "The cellular component assembly that is part of the initial shaping of the component during its developmental progression." [GOC:dph, GOC:tb] is_a: GO:0022607 ! cellular component assembly is_a: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: GO:0022607 ! cellular component assembly intersection_of: part_of GO:0009653 ! anatomical structure morphogenesis relationship: part_of GO:0032989 ! cellular component morphogenesis [Term] id: GO:0010937 name: regulation of cytoplasmic microtubule depolymerization namespace: biological_process def: "Any process that modulates the frequency, rate or extent of cytoplasmic microtubule depolymerization." [GOC:dph, GOC:tb] is_a: GO:0031114 ! regulation of microtubule depolymerization intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0010938 ! cytoplasmic microtubule depolymerization relationship: regulates GO:0010938 ! cytoplasmic microtubule depolymerization [Term] id: GO:0010938 name: cytoplasmic microtubule depolymerization namespace: biological_process def: "The removal of tubulin heterodimers from one or both ends of a cytoplasmic microtubule." [GOC:dph, GOC:tb] is_a: GO:0007019 ! microtubule depolymerization is_a: GO:0031122 ! cytoplasmic microtubule organization intersection_of: GO:0007019 ! microtubule depolymerization intersection_of: occurs_in GO:0005737 ! cytoplasm relationship: occurs_in GO:0005737 ! cytoplasm [Term] id: GO:0010941 name: regulation of cell death namespace: biological_process def: "Any process that modulates the rate or frequency of cell death. Cell death is the specific activation or halting of processes within a cell so that its vital functions markedly cease, rather than simply deteriorating gradually over time, which culminates in cell death." [GOC:dph, GOC:tb] is_a: GO:0050794 ! regulation of cellular process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0008219 ! cell death relationship: regulates GO:0008219 ! cell death [Term] id: GO:0010942 name: positive regulation of cell death namespace: biological_process def: "Any process that increases the rate or frequency of cell death. Cell death is the specific activation or halting of processes within a cell so that its vital functions markedly cease, rather than simply deteriorating gradually over time, which culminates in cell death." [GOC:dph, GOC:tb] is_a: GO:0010941 ! regulation of cell death is_a: GO:0048522 ! positive regulation of cellular process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0008219 ! cell death relationship: positively_regulates GO:0008219 ! cell death [Term] id: GO:0010948 name: negative regulation of cell cycle process namespace: biological_process def: "Any process that decreases the rate, frequency or extent of a cellular process that is involved in the progression of biochemical and morphological phases and events that occur in a cell during successive cell replication or nuclear replication events." [GOC:dph, GOC:tb] is_a: GO:0010564 ! regulation of cell cycle process is_a: GO:0045786 ! negative regulation of cell cycle intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0022402 ! cell cycle process relationship: negatively_regulates GO:0022402 ! cell cycle process created_by: tb creation_date: 2009-04-27T09:53:22Z [Term] id: GO:0010966 name: regulation of phosphate transport namespace: biological_process def: "Any process that modulates the frequency, rate or extent of phosphate transport. Phosphate transport is the directed movement of phosphate into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." [GOC:dph, GOC:tb] is_a: GO:0044070 ! regulation of anion transport intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0006817 ! phosphate ion transport relationship: regulates GO:0006817 ! phosphate ion transport created_by: tb creation_date: 2009-05-20T11:42:50Z [Term] id: GO:0010968 name: regulation of microtubule nucleation namespace: biological_process def: "Any process that modulates the rate, frequency or extent of microtubule nucleation. Microtubule nucleation is the 'de novo' formation of a microtubule, in which tubulin heterodimers form metastable oligomeric aggregates, some of which go on to support formation of a complete microtubule. Microtubule nucleation usually occurs from a specific site within a cell." [GOC:dph, GOC:tb] is_a: GO:0031113 ! regulation of microtubule polymerization intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0007020 ! microtubule nucleation relationship: regulates GO:0007020 ! microtubule nucleation created_by: tb creation_date: 2009-05-20T11:51:21Z [Term] id: GO:0010970 name: transport along microtubule namespace: biological_process def: "The movement of organelles or other particles from one location in the cell to another along microtubules, driven by motor activity." [GOC:dph, GOC:mah, GOC:tb] synonym: "establishment of localization by movement along microtubule" EXACT [GOC:dph] synonym: "microtubule-based transport" BROAD [] synonym: "movement along microtubule" EXACT [] is_a: GO:0030705 ! cytoskeleton-dependent intracellular transport is_a: GO:0099111 ! microtubule-based transport intersection_of: GO:0006810 ! transport intersection_of: results_in_transport_along GO:0005874 ! microtubule relationship: results_in_transport_along GO:0005874 ! microtubule created_by: tb creation_date: 2009-05-27T10:56:08Z [Term] id: GO:0010975 name: regulation of neuron projection development namespace: biological_process def: "Any process that modulates the rate, frequency or extent of neuron projection development. Neuron projection development is the process whose specific outcome is the progression of a neuron projection over time, from its formation to the mature structure. A neuron projection is any process extending from a neural cell, such as axons or dendrites (collectively called neurites)." [GOC:dph, GOC:tb] synonym: "regulation of neurite biosynthesis" NARROW [GOC:mah] synonym: "regulation of neurite development" NARROW [GOC:mah] synonym: "regulation of neurite formation" NARROW [GOC:mah] synonym: "regulation of neurite growth" NARROW [GOC:mah] is_a: GO:0120035 ! regulation of plasma membrane bounded cell projection organization intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0031175 ! neuron projection development relationship: regulates GO:0031175 ! neuron projection development created_by: tb creation_date: 2009-06-01T10:44:45Z [Term] id: GO:0010976 name: positive regulation of neuron projection development namespace: biological_process def: "Any process that increases the rate, frequency or extent of neuron projection development. Neuron projection development is the process whose specific outcome is the progression of a neuron projection over time, from its formation to the mature structure. A neuron projection is any process extending from a neural cell, such as axons or dendrites (collectively called neurites)." [GOC:dph, GOC:tb] synonym: "positive regulation of neurite biosynthesis" NARROW [GOC:mah] synonym: "positive regulation of neurite development" NARROW [GOC:mah] synonym: "positive regulation of neurite formation" NARROW [GOC:mah] synonym: "positive regulation of neurite growth" NARROW [GOC:mah] is_a: GO:0010975 ! regulation of neuron projection development is_a: GO:0031346 ! positive regulation of cell projection organization intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0031175 ! neuron projection development relationship: positively_regulates GO:0031175 ! neuron projection development created_by: tb creation_date: 2009-06-01T10:46:44Z [Term] id: GO:0010977 name: negative regulation of neuron projection development namespace: biological_process def: "Any process that decreases the rate, frequency or extent of neuron projection development. Neuron projection development is the process whose specific outcome is the progression of a neuron projection over time, from its formation to the mature structure. A neuron projection is any process extending from a neural cell, such as axons or dendrites (collectively called neurites)." [GOC:dph, GOC:tb] synonym: "growth cone collapse" RELATED [GOC:pr] synonym: "negative regulation of neurite biosynthesis" NARROW [GOC:mah] synonym: "negative regulation of neurite development" NARROW [GOC:mah] synonym: "negative regulation of neurite formation" NARROW [GOC:mah] synonym: "negative regulation of neurite growth" NARROW [GOC:mah] is_a: GO:0010975 ! regulation of neuron projection development is_a: GO:0031345 ! negative regulation of cell projection organization intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0031175 ! neuron projection development relationship: negatively_regulates GO:0031175 ! neuron projection development created_by: tb creation_date: 2009-06-01T10:47:42Z [Term] id: GO:0012501 name: programmed cell death namespace: biological_process alt_id: GO:0016244 def: "A process which begins when a cell receives an internal or external signal and activates a series of biochemical events (signaling pathway). The process ends with the death of the cell." [GOC:lr, GOC:mtg_apoptosis] comment: Note that this term should be used to annotate gene products in the organism undergoing the programmed cell death. To annotate genes in another organism whose products modulate programmed cell death in a host organism, consider the term 'modulation by symbiont of host programmed cell death ; GO:0052040'. Also, note that 'programmed cell death ; GO:0012501' should be used to refer to instances of caspase-independent cell death mechanisms, in the absence of further indications on the process taking place. At present, caspase-independent cell death is not yet represented in GO due to the lack of consensus and in-depth research on the topic. 'programmed cell death ; GO:0012501' may also be used to annotate gene products in taxa where apoptosis as defined in GO:0006915 does not occur, such as plants. You may also consider these specific children: GO:0097468 'programmed cell death in response to reactive oxygen species' (with descendants GO:0010421 'hydrogen peroxide-mediated programmed cell death' and GO:0010343 'singlet oxygen-mediated programmed cell death'), and GO:0009626 'plant-type hypersensitive response' and its children. subset: goslim_generic synonym: "caspase-independent apoptosis" RELATED [] synonym: "caspase-independent cell death" NARROW [] synonym: "non-apoptotic programmed cell death" NARROW [] synonym: "nonapoptotic programmed cell death" NARROW [] synonym: "PCD" RELATED [] synonym: "RCD" RELATED [] synonym: "regulated cell death" BROAD [] xref: Wikipedia:Programmed_cell_death is_a: GO:0008219 ! cell death intersection_of: GO:0008219 ! cell death intersection_of: starts_with GO:0007165 ! signal transduction relationship: starts_with GO:0007165 ! signal transduction [Term] id: GO:0012505 name: endomembrane system namespace: cellular_component def: "A collection of membranous structures involved in transport within the cell. The main components of the endomembrane system are endoplasmic reticulum, Golgi bodies, vesicles, cell membrane and nuclear envelope. Members of the endomembrane system pass materials through each other or though the use of vesicles." [GOC:lh] subset: goslim_aspergillus subset: goslim_candida subset: goslim_flybase_ribbon subset: goslim_yeast xref: Wikipedia:Endomembrane_system is_a: GO:0110165 ! cellular anatomical entity relationship: has_part GO:0005773 ! vacuole relationship: has_part GO:0005886 ! plasma membrane relationship: part_of CL:0000000 ! cell [Term] id: GO:0012506 name: vesicle membrane namespace: cellular_component def: "The lipid bilayer surrounding any membrane-bounded vesicle in the cell." [GOC:mah, GOC:vesicle] xref: NIF_Subcellular:sao1153182838 is_a: GO:0031090 ! organelle membrane intersection_of: GO:0016020 ! membrane intersection_of: part_of GO:0031982 ! vesicle relationship: part_of GO:0031982 ! vesicle [Term] id: GO:0014009 name: glial cell proliferation namespace: biological_process def: "The multiplication or reproduction of glial cells by cell division, resulting in the expansion of their population. Glial cells exist throughout the nervous system, and include Schwann cells, astrocytes, and oligodendrocytes among others." [GOC:ef, ISBN:0878932585] synonym: "glia proliferation" EXACT [] is_a: GO:0008283 ! cell population proliferation intersection_of: GO:0008283 ! cell population proliferation intersection_of: acts_on_population_of CL:0000125 ! glial cell relationship: acts_on_population_of CL:0000125 ! glial cell relationship: part_of GO:0042063 ! gliogenesis [Term] id: GO:0014013 name: regulation of gliogenesis namespace: biological_process def: "Any process that modulates the frequency, rate or extent of gliogenesis, the formation of mature glia." [GOC:ef] is_a: GO:0050767 ! regulation of neurogenesis intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0042063 ! gliogenesis relationship: regulates GO:0042063 ! gliogenesis [Term] id: GO:0014014 name: negative regulation of gliogenesis namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of gliogenesis, the formation of mature glia." [GOC:ef] synonym: "down regulation of gliogenesis" EXACT [] synonym: "down-regulation of gliogenesis" EXACT [] synonym: "downregulation of gliogenesis" EXACT [] synonym: "inhibition of gliogenesis" NARROW [] is_a: GO:0014013 ! regulation of gliogenesis is_a: GO:0050768 ! negative regulation of neurogenesis intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0042063 ! gliogenesis relationship: negatively_regulates GO:0042063 ! gliogenesis [Term] id: GO:0014015 name: positive regulation of gliogenesis namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of gliogenesis, the formation of mature glia." [GOC:ef] synonym: "activation of gliogenesis" NARROW [] synonym: "stimulation of gliogenesis" NARROW [] synonym: "up regulation of gliogenesis" EXACT [] synonym: "up-regulation of gliogenesis" EXACT [] synonym: "upregulation of gliogenesis" EXACT [] is_a: GO:0014013 ! regulation of gliogenesis is_a: GO:0050769 ! positive regulation of neurogenesis intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0042063 ! gliogenesis relationship: positively_regulates GO:0042063 ! gliogenesis [Term] id: GO:0014016 name: neuroblast differentiation namespace: biological_process def: "The process in which a relatively unspecialized cell acquires specialized features of a neuroblast. There are at least four stages through which the pluripotent cells of epiblast or blastula become neuroblasts." [GOC:ef, ISBN:0878932585] is_a: GO:0030154 ! cell differentiation intersection_of: GO:0030154 ! cell differentiation intersection_of: results_in_acquisition_of_features_of CL:0000031 ! neuroblast (sensu Vertebrata) relationship: part_of GO:0048699 ! generation of neurons relationship: results_in_acquisition_of_features_of CL:0000031 ! neuroblast (sensu Vertebrata) [Term] id: GO:0014019 name: neuroblast development namespace: biological_process def: "The process aimed at the progression of a neuroblast over time, from initial commitment of the cell to a specific state, to the mature neuroblast. It does not include processes where the neuroblast turns into a glial cell or a neuron." [GOC:ef, ISBN:0878932585] is_a: GO:0048468 ! cell development intersection_of: GO:0032502 ! developmental process intersection_of: results_in_development_of CL:0000031 ! neuroblast (sensu Vertebrata) relationship: part_of GO:0014016 ! neuroblast differentiation relationship: results_in_development_of CL:0000031 ! neuroblast (sensu Vertebrata) [Term] id: GO:0014020 name: primary neural tube formation namespace: biological_process def: "The formation of the neural tube from an epithelial cell sheet (the neuroepithelium or neural plate). In primary neurulation, the cells surrounding the neural plate direct the neural plate cells to proliferate, invaginate, and pinch off from the surface to form a hollow epithelial tube. Primary neurulation is the typical mechanism of formation of the anterior neural tube." [GOC:ef, ISBN:0878932585] synonym: "primary neural tube morphogenesis" EXACT [GOC:dph] synonym: "primary neurulation" EXACT [] is_a: GO:0001838 ! embryonic epithelial tube formation relationship: part_of GO:0001841 ! neural tube formation [Term] id: GO:0014023 name: neural rod formation namespace: biological_process def: "The formation of a solid rod of neurectoderm derived from the neural keel. The neural rod is roughly circular in cross section. Neural rod formation occurs during primary neurulation in teleosts." [GOC:dh, GOC:ef] is_a: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: results_in_formation_of UBERON:0005068 ! neural rod relationship: in_taxon NCBITaxon:32443 ! Teleostei relationship: only_in_taxon NCBITaxon:32443 ! Teleostei relationship: part_of GO:0014020 ! primary neural tube formation relationship: results_in_formation_of UBERON:0005068 ! neural rod [Term] id: GO:0014024 name: neural rod cavitation namespace: biological_process def: "The process of rod cavitation, which is the formation of a lumen in the neural rod during primary neurulation, producing the neural tube." [GOC:ef, PMID:15327780] is_a: GO:0060605 ! tube lumen cavitation intersection_of: GO:0060605 ! tube lumen cavitation intersection_of: part_of GO:0014020 ! primary neural tube formation intersection_of: results_in_formation_of UBERON:0003842 ! neural tube lumen relationship: part_of GO:0014020 ! primary neural tube formation relationship: results_in_formation_of UBERON:0003842 ! neural tube lumen [Term] id: GO:0014025 name: neural keel formation namespace: biological_process def: "The formation of a thickened region of the neurectoderm that is roughly triangular in cross section. The neural keel develops from the neural plate and develops into the neural rod. Neural keel formation occurs during primary neurulation in teleosts." [GOC:dh, GOC:ef] is_a: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: results_in_formation_of UBERON:0007135 ! neural keel relationship: part_of GO:0014023 ! neural rod formation relationship: results_in_formation_of UBERON:0007135 ! neural keel [Term] id: GO:0014028 name: notochord formation namespace: biological_process def: "The formation of the notochord from the chordamesoderm. The notochord is composed of large cells packed within a firm connective tissue sheath and is found in all chordates at the ventral surface of the neural tube. In vertebrates, the notochord contributes to the vertebral column." [GOC:dh, GOC:ef] is_a: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: results_in_formation_of UBERON:0002328 ! notochord relationship: part_of GO:0007399 ! nervous system development relationship: part_of GO:0048570 ! notochord morphogenesis relationship: results_in_formation_of UBERON:0002328 ! notochord [Term] id: GO:0014029 name: neural crest formation namespace: biological_process def: "The formation of the specialized region of ectoderm between the neural ectoderm (neural plate) and non-neural ectoderm. The neural crest gives rise to the neural crest cells that migrate away from this region as neural tube formation procedes." [GOC:dh, GOC:ef] is_a: GO:0001837 ! epithelial to mesenchymal transition is_a: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: results_in_formation_of UBERON:0002342 ! neural crest relationship: part_of GO:0043009 ! chordate embryonic development relationship: results_in_formation_of UBERON:0002342 ! neural crest [Term] id: GO:0014031 name: mesenchymal cell development namespace: biological_process def: "The process aimed at the progression of a mesenchymal cell over time, from initial commitment of the cell to its specific fate, to the fully functional differentiated cell." [GOC:dh, GOC:ef] is_a: GO:0048468 ! cell development intersection_of: GO:0032502 ! developmental process intersection_of: results_in_development_of CL:0008019 ! mesenchymal cell relationship: part_of GO:0048762 ! mesenchymal cell differentiation relationship: results_in_development_of CL:0008019 ! mesenchymal cell [Term] id: GO:0014032 name: neural crest cell development namespace: biological_process def: "The process aimed at the progression of a neural crest cell over time, from initial commitment of the cell to its specific fate, to the fully functional differentiated cell." [GOC:dh, GOC:ef] is_a: GO:0014031 ! mesenchymal cell development is_a: GO:0048864 ! stem cell development intersection_of: GO:0032502 ! developmental process intersection_of: results_in_development_of CL:0000333 ! migratory neural crest cell relationship: part_of GO:0014033 ! neural crest cell differentiation relationship: results_in_development_of CL:0000333 ! migratory neural crest cell [Term] id: GO:0014033 name: neural crest cell differentiation namespace: biological_process def: "The process in which a relatively unspecialized cell acquires specialized features of a neural crest cell." [GOC:dh, GOC:ef] is_a: GO:0048762 ! mesenchymal cell differentiation is_a: GO:0048863 ! stem cell differentiation intersection_of: GO:0030154 ! cell differentiation intersection_of: results_in_acquisition_of_features_of CL:0000333 ! migratory neural crest cell relationship: results_in_acquisition_of_features_of CL:0000333 ! migratory neural crest cell [Term] id: GO:0014061 name: regulation of norepinephrine secretion namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the regulated release of norepinephrine." [GOC:ef] synonym: "regulation of noradrenaline secretion" EXACT [] is_a: GO:0050433 ! regulation of catecholamine secretion intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0048243 ! norepinephrine secretion relationship: regulates GO:0048243 ! norepinephrine secretion [Term] id: GO:0014062 name: regulation of serotonin secretion namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the regulated release of serotonin." [GOC:ef] synonym: "regulation of serotonin release" RELATED [GOC:tb] is_a: GO:0043269 ! regulation of ion transport is_a: GO:1903530 ! regulation of secretion by cell intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0001820 ! serotonin secretion relationship: regulates GO:0001820 ! serotonin secretion [Term] id: GO:0014063 name: negative regulation of serotonin secretion namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of the regulated release of serotonin." [GOC:ef] synonym: "down regulation of serotonin secretion" EXACT [] synonym: "down-regulation of serotonin secretion" EXACT [] synonym: "downregulation of serotonin secretion" EXACT [] synonym: "inhibition of serotonin secretion" NARROW [] synonym: "positive regulation of serotonin release" RELATED [GOC:tb] is_a: GO:0014062 ! regulation of serotonin secretion is_a: GO:0043271 ! negative regulation of ion transport is_a: GO:1903531 ! negative regulation of secretion by cell intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0001820 ! serotonin secretion relationship: negatively_regulates GO:0001820 ! serotonin secretion [Term] id: GO:0014064 name: positive regulation of serotonin secretion namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of the regulated release of serotonin." [GOC:ef] synonym: "activation of serotonin secretion" NARROW [] synonym: "positive regulation of serotonin release" RELATED [GOC:tb] synonym: "stimulation of serotonin secretion" NARROW [] synonym: "up regulation of serotonin secretion" EXACT [] synonym: "up-regulation of serotonin secretion" EXACT [] synonym: "upregulation of serotonin secretion" EXACT [] is_a: GO:0014062 ! regulation of serotonin secretion is_a: GO:0043270 ! positive regulation of ion transport is_a: GO:1903532 ! positive regulation of secretion by cell intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0001820 ! serotonin secretion relationship: positively_regulates GO:0001820 ! serotonin secretion [Term] id: GO:0014070 name: response to organic cyclic compound namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an organic cyclic compound stimulus." [GOC:ef] synonym: "response to organic cyclic substance" EXACT [GOC:mah] is_a: GO:0010033 ! response to organic substance intersection_of: GO:0050896 ! response to stimulus intersection_of: has_input CHEBI:33832 ! organic cyclic compound relationship: has_input CHEBI:33832 ! organic cyclic compound [Term] id: GO:0014075 name: response to amine namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an amine stimulus. An amine is a compound formally derived from ammonia by replacing one, two or three hydrogen atoms by hydrocarbyl groups." [GOC:ef] synonym: "response to amine stimulus" EXACT [GOC:dos] is_a: GO:0010243 ! response to organonitrogen compound intersection_of: GO:0050896 ! response to stimulus intersection_of: has_input CHEBI:32952 ! amine relationship: has_input CHEBI:32952 ! amine [Term] id: GO:0014706 name: striated muscle tissue development namespace: biological_process def: "The process whose specific outcome is the progression of a striated muscle over time, from its formation to the mature structure. Striated muscle contain fibers that are divided by transverse bands into striations, and cardiac and skeletal muscle are types of striated muscle. Skeletal muscle myoblasts fuse to form myotubes and eventually multinucleated muscle fibers. The fusion of cardiac cells is very rare and can only form binucleate cells." [CL:0000737, GOC:dph, GOC:mtg_muscle] is_a: GO:0060537 ! muscle tissue development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0002036 ! striated muscle tissue relationship: results_in_development_of UBERON:0002036 ! striated muscle tissue [Term] id: GO:0014733 name: regulation of skeletal muscle adaptation namespace: biological_process def: "Any process in which skeletal muscle adapts, with consequent modifications to structural and/or functional phenotypes, in response to a stimulus. Stimuli include contractile activity, loading conditions, substrate supply, and environmental factors. These adaptive events occur in both muscle fibers and associated structures (motoneurons and capillaries), and they involve alterations in regulatory mechanisms, contractile properties and metabolic capacities." [GOC:mtg_muscle] synonym: "regulation of skeletal muscle plasticity" RELATED [] is_a: GO:0043502 ! regulation of muscle adaptation intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0043501 ! skeletal muscle adaptation relationship: regulates GO:0043501 ! skeletal muscle adaptation [Term] id: GO:0014734 name: skeletal muscle hypertrophy namespace: biological_process def: "The enlargement or overgrowth of all or part of an organ due to an increase in size (not length) of individual muscle fibers without cell division. In the case of skeletal muscle cells this happens due to the additional synthesis of sarcomeric proteins and assembly of myofibrils." [GOC:mtg_muscle] is_a: GO:0014897 ! striated muscle hypertrophy is_a: GO:0043501 ! skeletal muscle adaptation intersection_of: GO:0014896 ! muscle hypertrophy intersection_of: occurs_in UBERON:0001134 ! skeletal muscle tissue [Term] id: GO:0014741 name: negative regulation of muscle hypertrophy namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of muscle hypertrophy." [GOC:mtg_muscle] is_a: GO:0014743 ! regulation of muscle hypertrophy is_a: GO:0051241 ! negative regulation of multicellular organismal process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0014896 ! muscle hypertrophy relationship: negatively_regulates GO:0014896 ! muscle hypertrophy [Term] id: GO:0014742 name: positive regulation of muscle hypertrophy namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of muscle hypertrophy." [GOC:mtg_muscle] is_a: GO:0014743 ! regulation of muscle hypertrophy is_a: GO:0051240 ! positive regulation of multicellular organismal process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0014896 ! muscle hypertrophy relationship: positively_regulates GO:0014896 ! muscle hypertrophy [Term] id: GO:0014743 name: regulation of muscle hypertrophy namespace: biological_process def: "Any process that modulates the frequency, rate or extent of muscle hypertrophy." [GOC:mtg_muscle] is_a: GO:0090257 ! regulation of muscle system process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0014896 ! muscle hypertrophy relationship: regulates GO:0014896 ! muscle hypertrophy [Term] id: GO:0014744 name: positive regulation of muscle adaptation namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of muscle adaptation." [GOC:mtg_muscle] synonym: "positive regulation of muscle plasticity" RELATED [] is_a: GO:0043502 ! regulation of muscle adaptation is_a: GO:0048584 ! positive regulation of response to stimulus is_a: GO:0051240 ! positive regulation of multicellular organismal process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0043500 ! muscle adaptation relationship: positively_regulates GO:0043500 ! muscle adaptation [Term] id: GO:0014745 name: negative regulation of muscle adaptation namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of muscle adaptation." [GOC:mtg_muscle] synonym: "negative regulation of muscle plasticity" RELATED [] is_a: GO:0043502 ! regulation of muscle adaptation is_a: GO:0048585 ! negative regulation of response to stimulus is_a: GO:0051241 ! negative regulation of multicellular organismal process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0043500 ! muscle adaptation relationship: negatively_regulates GO:0043500 ! muscle adaptation [Term] id: GO:0014805 name: smooth muscle adaptation namespace: biological_process def: "Any process in which smooth muscle adapts, with consequent modifications to structural and/or functional phenotypes, in response to a stimulus. Stimuli include contractile activity, loading conditions, substrate supply, and environmental factors. These adaptive events occur in both muscle fibers and associated structures (motoneurons and capillaries), and they involve alterations in regulatory mechanisms, contractile properties and metabolic capacities." [GOC:mtg_muscle] synonym: "smooth muscle plasticity" RELATED [] is_a: GO:0043500 ! muscle adaptation intersection_of: GO:0043500 ! muscle adaptation intersection_of: occurs_in UBERON:0001135 ! smooth muscle tissue relationship: occurs_in UBERON:0001135 ! smooth muscle tissue [Term] id: GO:0014807 name: regulation of somitogenesis namespace: biological_process def: "Any process that modulates the frequency, rate or extent of somitogenesis." [GOC:mtg_muscle] is_a: GO:0022603 ! regulation of anatomical structure morphogenesis is_a: GO:0051239 ! regulation of multicellular organismal process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0001756 ! somitogenesis relationship: regulates GO:0001756 ! somitogenesis [Term] id: GO:0014819 name: regulation of skeletal muscle contraction namespace: biological_process def: "Any process that modulates the frequency, rate or extent of skeletal muscle contraction." [GOC:ef, GOC:mtg_muscle] is_a: GO:0006942 ! regulation of striated muscle contraction intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0003009 ! skeletal muscle contraction relationship: regulates GO:0003009 ! skeletal muscle contraction [Term] id: GO:0014855 name: striated muscle cell proliferation namespace: biological_process def: "The multiplication or reproduction of striated muscle cells, resulting in the expansion of a cell population. Striated muscles contain fibers that are divided by transverse bands into striations, and cardiac and skeletal muscle are types of striated muscle." [CL:0000737, GOC:ef, GOC:mtg_muscle] is_a: GO:0033002 ! muscle cell proliferation intersection_of: GO:0008283 ! cell population proliferation intersection_of: acts_on_population_of CL:0000737 ! striated muscle cell relationship: acts_on_population_of CL:0000737 ! striated muscle cell [Term] id: GO:0014856 name: skeletal muscle cell proliferation namespace: biological_process def: "The multiplication or reproduction of skeletal muscle cells, resulting in the expansion of a cell population." [CL:0000188, GOC:ef, GOC:mtg_muscle] is_a: GO:0014855 ! striated muscle cell proliferation intersection_of: GO:0008283 ! cell population proliferation intersection_of: acts_on_population_of CL:0000188 ! cell of skeletal muscle relationship: acts_on_population_of CL:0000188 ! cell of skeletal muscle [Term] id: GO:0014857 name: regulation of skeletal muscle cell proliferation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of skeletal muscle cell proliferation." [CL:0000188, GOC:ef, GOC:mtg_muscle] is_a: GO:0042127 ! regulation of cell population proliferation intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0014856 ! skeletal muscle cell proliferation relationship: regulates GO:0014856 ! skeletal muscle cell proliferation [Term] id: GO:0014858 name: positive regulation of skeletal muscle cell proliferation namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of skeletal muscle cell proliferation." [CL:0000188, GOC:ef, GOC:mtg_muscle] is_a: GO:0008284 ! positive regulation of cell population proliferation is_a: GO:0014857 ! regulation of skeletal muscle cell proliferation intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0014856 ! skeletal muscle cell proliferation relationship: positively_regulates GO:0014856 ! skeletal muscle cell proliferation [Term] id: GO:0014859 name: negative regulation of skeletal muscle cell proliferation namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of skeletal muscle cell proliferation." [CL:0000188, GOC:ef, GOC:mtg_muscle] is_a: GO:0008285 ! negative regulation of cell population proliferation is_a: GO:0014857 ! regulation of skeletal muscle cell proliferation intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0014856 ! skeletal muscle cell proliferation relationship: negatively_regulates GO:0014856 ! skeletal muscle cell proliferation [Term] id: GO:0014861 name: regulation of skeletal muscle contraction via regulation of action potential namespace: biological_process def: "Any process that modulates the frequency, rate or extent of skeletal muscle contraction by depolarization of muscle membrane and ionic fluxes." [GOC:BHF, GOC:mtg_cardiac_conduct_nov11, GOC:mtg_muscle] synonym: "regulation of skeletal muscle contraction via membrane action potential" RELATED [] is_a: GO:0014819 ! regulation of skeletal muscle contraction is_a: GO:0098900 ! regulation of action potential intersection_of: GO:0050789 ! regulation of biological process intersection_of: regulates GO:0100001 ! regulation of skeletal muscle contraction by action potential relationship: regulates GO:0100001 ! regulation of skeletal muscle contraction by action potential [Term] id: GO:0014866 name: skeletal myofibril assembly namespace: biological_process def: "The process whose specific outcome is the progression of the skeletal myofibril over time, from its formation to the mature structure. A skeletal myofibril is a myofibril specific to skeletal muscle cells." [GOC:ef, GOC:mtg_muscle] is_a: GO:0030239 ! myofibril assembly intersection_of: GO:0022607 ! cellular component assembly intersection_of: results_in_assembly_of GO:0098723 ! skeletal muscle myofibril relationship: results_in_assembly_of GO:0098723 ! skeletal muscle myofibril [Term] id: GO:0014872 name: myoblast division namespace: biological_process def: "The process resulting in the physical partitioning and separation of a myoblast into daughter cells. A myoblast is a mononucleate cell type that, by fusion with other myoblasts, gives rise to the myotubes that eventually develop into skeletal muscle fibers." [CL:0000056, GOC:ef, GOC:mtg_muscle] is_a: GO:0051301 ! cell division intersection_of: GO:0051301 ! cell division intersection_of: has_input CL:0000056 ! myoblast relationship: has_input CL:0000056 ! myoblast [Term] id: GO:0014874 name: response to stimulus involved in regulation of muscle adaptation namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus. This occurs as part of the regulation of muscle adaptation." [GOC:ef, GOC:mtg_muscle] synonym: "response to stimulus involved in regulation of muscle plasticity" RELATED [] is_a: GO:0050896 ! response to stimulus intersection_of: GO:0050896 ! response to stimulus intersection_of: part_of GO:0043502 ! regulation of muscle adaptation relationship: part_of GO:0043502 ! regulation of muscle adaptation [Term] id: GO:0014887 name: cardiac muscle adaptation namespace: biological_process def: "The process in which cardiac muscle adapts, with consequent modifications to structural and/or functional phenotypes, in response to a stimulus. Stimuli include contractile activity, loading conditions, substrate supply, and environmental factors." [GOC:mtg_muscle] synonym: "cardiac muscle plasticity" RELATED [] is_a: GO:0014888 ! striated muscle adaptation intersection_of: GO:0043500 ! muscle adaptation intersection_of: occurs_in UBERON:0001133 ! cardiac muscle tissue relationship: occurs_in UBERON:0001133 ! cardiac muscle tissue [Term] id: GO:0014888 name: striated muscle adaptation namespace: biological_process def: "Any process in which striated muscle adapts, with consequent modifications to structural and/or functional phenotypes, in response to a stimulus. Stimuli include contractile activity, loading conditions, substrate supply, and environmental factors. These adaptive events occur in both muscle fibers and associated structures (motoneurons and capillaries), and they involve alterations in regulatory mechanisms, contractile properties and metabolic capacities." [GOC:mtg_muscle] synonym: "striated muscle plasticity" RELATED [] is_a: GO:0043500 ! muscle adaptation intersection_of: GO:0043500 ! muscle adaptation intersection_of: occurs_in UBERON:0002036 ! striated muscle tissue relationship: occurs_in UBERON:0002036 ! striated muscle tissue [Term] id: GO:0014895 name: smooth muscle hypertrophy namespace: biological_process def: "The enlargement or overgrowth of all or part of an organ due to an increase in size of its smooth muscle cells without cell division. Physiological hypertrophy is a normal process during development, and can also occur in mature structures on demand. In the uterus, smooth muscle cells undergo hypertrophy during pregnancy." [GOC:mtg_muscle] is_a: GO:0014805 ! smooth muscle adaptation is_a: GO:0014896 ! muscle hypertrophy intersection_of: GO:0014896 ! muscle hypertrophy intersection_of: occurs_in UBERON:0001135 ! smooth muscle tissue [Term] id: GO:0014896 name: muscle hypertrophy namespace: biological_process def: "The muscle system process that results in enlargement or overgrowth of all or part of a muscle organ due to an increase in the size of its muscle cells. Physiological hypertrophy is a normal process during development (it stops in cardiac muscle after adolescence) and can also be brought on in response to demand. In athletes cardiac and skeletal muscles undergo hypertrophy stimulated by increasing muscle activity on exercise. Smooth muscle cells in the uterus undergo hypertrophy during pregnancy." [GOC:mtg_muscle] xref: Wikipedia:Muscle_hypertrophy is_a: GO:0003012 ! muscle system process relationship: occurs_in UBERON:0002385 ! muscle tissue [Term] id: GO:0014897 name: striated muscle hypertrophy namespace: biological_process def: "The enlargement or overgrowth of all or part of an organ due to an increase in size of muscle cells without cell division. In the case of striated muscle, this happens due to the additional synthesis of sarcomeric proteins and assembly of myofibrils." [GOC:mtg_muscle] is_a: GO:0014896 ! muscle hypertrophy intersection_of: GO:0014896 ! muscle hypertrophy intersection_of: has_input UBERON:0002036 ! striated muscle tissue relationship: has_input UBERON:0002036 ! striated muscle tissue [Term] id: GO:0014902 name: myotube differentiation namespace: biological_process def: "The process in which a relatively unspecialized cell acquires specialized features of a myotube cell. Myotube differentiation starts with myoblast fusion and the appearance of specific cell markers (this is the cell development step). Then individual myotubes can fuse to form bigger myotubes and start to contract. Myotubes are multinucleated cells that are formed when proliferating myoblasts exit the cell cycle, differentiate and fuse." [GOC:mtg_muscle] is_a: GO:0051146 ! striated muscle cell differentiation intersection_of: GO:0030154 ! cell differentiation intersection_of: results_in_acquisition_of_features_of CL:0002372 ! myotube relationship: results_in_acquisition_of_features_of CL:0002372 ! myotube [Term] id: GO:0014904 name: myotube cell development namespace: biological_process def: "The process aimed at the progression of a myotube cell over time, from initial commitment of the cell to a specific fate, to the fully functional differentiated cell. Myotubes are multinucleated cells that are formed when proliferating myoblasts exit the cell cycle, differentiate and fuse." [GOC:mtg_muscle] is_a: GO:0055002 ! striated muscle cell development intersection_of: GO:0032502 ! developmental process intersection_of: results_in_development_of CL:0002372 ! myotube relationship: part_of GO:0014902 ! myotube differentiation relationship: results_in_development_of CL:0002372 ! myotube [Term] id: GO:0015031 name: protein transport namespace: biological_process alt_id: GO:0015831 def: "The directed movement of proteins into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." [GOC:ai] subset: goslim_chembl subset: goslim_pir subset: goslim_yeast synonym: "enzyme transport" NARROW [] is_a: GO:0045184 ! establishment of protein localization is_a: GO:0071702 ! organic substance transport is_a: GO:0071705 ! nitrogen compound transport intersection_of: GO:0006810 ! transport intersection_of: transports_or_maintains_localization_of PR:000000001 ! protein [Term] id: GO:0015629 name: actin cytoskeleton namespace: cellular_component def: "The part of the cytoskeleton (the internal framework of a cell) composed of actin and associated proteins. Includes actin cytoskeleton-associated complexes." [GOC:jl, ISBN:0395825172, ISBN:0815316194] subset: goslim_aspergillus is_a: GO:0005856 ! cytoskeleton [Term] id: GO:0015630 name: microtubule cytoskeleton namespace: cellular_component def: "The part of the cytoskeleton (the internal framework of a cell) composed of microtubules and associated proteins." [GOC:jl, ISBN:0395825172] subset: goslim_aspergillus is_a: GO:0005856 ! cytoskeleton [Term] id: GO:0015631 name: tubulin binding namespace: molecular_function def: "Binding to monomeric or multimeric forms of tubulin, including microtubules." [GOC:clt] is_a: GO:0008092 ! cytoskeletal protein binding [Term] id: GO:0015669 name: gas transport namespace: biological_process def: "The directed movement of substances that are gaseous in normal living conditions into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." [GOC:ai] subset: goslim_pir is_a: GO:0006810 ! transport [Term] id: GO:0015671 name: oxygen transport namespace: biological_process def: "The directed movement of oxygen (O2) into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." [GOC:ai] is_a: GO:0015669 ! gas transport intersection_of: GO:0006810 ! transport intersection_of: transports_or_maintains_localization_of CHEBI:15379 ! dioxygen relationship: transports_or_maintains_localization_of CHEBI:15379 ! dioxygen [Term] id: GO:0015695 name: organic cation transport namespace: biological_process def: "The directed movement of organic cations into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore. Organic cations are atoms or small molecules with a positive charge which contain carbon in covalent linkage." [GOC:ai] is_a: GO:0006812 ! cation transport is_a: GO:0071702 ! organic substance transport intersection_of: GO:0006810 ! transport intersection_of: transports_or_maintains_localization_of CHEBI:25697 ! organic cation relationship: transports_or_maintains_localization_of CHEBI:25697 ! organic cation [Term] id: GO:0015698 name: inorganic anion transport namespace: biological_process def: "The directed movement of inorganic anions into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore. Inorganic anions are atoms or small molecules with a negative charge which do not contain carbon in covalent linkage." [GOC:krc] is_a: GO:0006820 ! anion transport intersection_of: GO:0006810 ! transport intersection_of: transports_or_maintains_localization_of CHEBI:24834 ! inorganic anion relationship: transports_or_maintains_localization_of CHEBI:24834 ! inorganic anion [Term] id: GO:0015711 name: organic anion transport namespace: biological_process def: "The directed movement of organic anions into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore. Organic anions are atoms or small molecules with a negative charge which contain carbon in covalent linkage." [GOC:ai, GOC:krc] is_a: GO:0006820 ! anion transport is_a: GO:0071702 ! organic substance transport intersection_of: GO:0006810 ! transport intersection_of: transports_or_maintains_localization_of CHEBI:25696 ! organic anion relationship: transports_or_maintains_localization_of CHEBI:25696 ! organic anion [Term] id: GO:0015774 name: polysaccharide transport namespace: biological_process def: "The directed movement of polysaccharides into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore. A polysaccharide is a polymer of many (typically more than 10) monosaccharide residues linked glycosidically." [GOC:ai] is_a: GO:0008643 ! carbohydrate transport intersection_of: GO:0006810 ! transport intersection_of: transports_or_maintains_localization_of CHEBI:18154 ! polysaccharide relationship: part_of GO:0033037 ! polysaccharide localization relationship: transports_or_maintains_localization_of CHEBI:18154 ! polysaccharide [Term] id: GO:0015833 name: peptide transport namespace: biological_process def: "The directed movement of peptides, compounds of two or more amino acids where the alpha carboxyl group of one is bound to the alpha amino group of another, into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." [GOC:ai] subset: goslim_pir is_a: GO:0042886 ! amide transport is_a: GO:0071702 ! organic substance transport intersection_of: GO:0006810 ! transport intersection_of: transports_or_maintains_localization_of CHEBI:16670 ! peptide relationship: transports_or_maintains_localization_of CHEBI:16670 ! peptide [Term] id: GO:0015837 name: amine transport namespace: biological_process def: "The directed movement of amines, including polyamines, organic compounds containing one or more amino groups, into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." [GOC:ai, ISBN:0198506732] subset: goslim_pir synonym: "amine/polyamine transport" RELATED [] is_a: GO:0071702 ! organic substance transport is_a: GO:0071705 ! nitrogen compound transport intersection_of: GO:0006810 ! transport intersection_of: transports_or_maintains_localization_of CHEBI:32952 ! amine relationship: transports_or_maintains_localization_of CHEBI:32952 ! amine [Term] id: GO:0015844 name: monoamine transport namespace: biological_process alt_id: GO:0015873 def: "The directed movement of monoamines, organic compounds that contain one amino group that is connected to an aromatic ring by an ethylene group (-CH2-CH2-), into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." [GOC:mah] is_a: GO:0071702 ! organic substance transport is_a: GO:0071705 ! nitrogen compound transport intersection_of: GO:0006810 ! transport intersection_of: transports_or_maintains_localization_of CHEBI:63534 ! monoamine relationship: transports_or_maintains_localization_of CHEBI:63534 ! monoamine [Term] id: GO:0015849 name: organic acid transport namespace: biological_process def: "The directed movement of organic acids, any acidic compound containing carbon in covalent linkage, into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." [ISBN:0198506732] subset: goslim_pir is_a: GO:0071702 ! organic substance transport intersection_of: GO:0006810 ! transport intersection_of: transports_or_maintains_localization_of CHEBI:64709 ! organic acid relationship: transports_or_maintains_localization_of CHEBI:64709 ! organic acid [Term] id: GO:0015850 name: organic hydroxy compound transport namespace: biological_process def: "The directed movement of an organic hydroxy compound (organic alcohol) into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore. An organic hydroxy compound is an organic compound having at least one hydroxy group attached to a carbon atom." [GOC:ai] synonym: "organic alcohol transport" EXACT [] is_a: GO:0071702 ! organic substance transport intersection_of: GO:0006810 ! transport intersection_of: transports_or_maintains_localization_of CHEBI:33822 ! organic hydroxy compound relationship: transports_or_maintains_localization_of CHEBI:33822 ! organic hydroxy compound [Term] id: GO:0015851 name: nucleobase transport namespace: biological_process def: "The directed movement of a nucleobase, any nitrogenous base that is a constituent of a nucleoside, nucleotide, or nucleic acid, into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." [ISBN:0198506732] synonym: "nucleobase transmembrane transport" EXACT [GOC:mah] is_a: GO:0071702 ! organic substance transport is_a: GO:0071705 ! nitrogen compound transport intersection_of: GO:0006810 ! transport intersection_of: transports_or_maintains_localization_of CHEBI:18282 ! nucleobase relationship: transports_or_maintains_localization_of CHEBI:18282 ! nucleobase [Term] id: GO:0015874 name: norepinephrine transport namespace: biological_process def: "The directed movement of norepinephrine into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore. Norepinephrine (3,4-dihydroxyphenyl-2-aminoethanol) is a hormone secreted by the adrenal medulla and a neurotransmitter in the sympathetic peripheral nervous system and in some tracts of the CNS. It is also the biosynthetic precursor of epinephrine." [GOC:ai, ISBN:0198506732] synonym: "levarterenol transport" EXACT [] synonym: "noradrenaline transport" EXACT [] is_a: GO:0051937 ! catecholamine transport intersection_of: GO:0006810 ! transport intersection_of: transports_or_maintains_localization_of CHEBI:33569 ! noradrenaline relationship: transports_or_maintains_localization_of CHEBI:33569 ! noradrenaline [Term] id: GO:0015931 name: nucleobase-containing compound transport namespace: biological_process def: "The directed movement of nucleobases, nucleosides, nucleotides and nucleic acids, into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." [GOC:ai] subset: goslim_pir subset: goslim_yeast synonym: "nucleobase, nucleoside, nucleotide and nucleic acid transport" RELATED [GOC:dph, GOC:tb] is_a: GO:0071702 ! organic substance transport is_a: GO:0071705 ! nitrogen compound transport intersection_of: GO:0006810 ! transport intersection_of: transports_or_maintains_localization_of CHEBI:61120 ! nucleobase-containing molecular entity relationship: transports_or_maintains_localization_of CHEBI:61120 ! nucleobase-containing molecular entity [Term] id: GO:0015975 name: energy derivation by oxidation of reduced inorganic compounds namespace: biological_process def: "The chemical reactions and pathways by which a cell derives energy from inorganic compounds; results in the oxidation of the compounds from which energy is released." [GOC:mah] synonym: "chemolithotrophie" EXACT [] synonym: "chemolithotrophy" EXACT [] synonym: "lithotrophy" EXACT [Wikipedia:Lithotrophy] xref: Wikipedia:Lithotrophy is_a: GO:0006091 ! generation of precursor metabolites and energy [Term] id: GO:0015979 name: photosynthesis namespace: biological_process def: "The synthesis by organisms of organic chemical compounds, especially carbohydrates, from carbon dioxide (CO2) using energy obtained from light rather than from the oxidation of chemical compounds." [ISBN:0198547684] subset: envoPolar subset: goslim_chembl subset: goslim_generic subset: goslim_metagenomics subset: goslim_pir subset: goslim_plant xref: Wikipedia:Photosynthesis is_a: GO:0044237 ! cellular metabolic process property_value: RO:0002161 NCBITaxon:33208 property_value: RO:0002161 NCBITaxon:4895 [Term] id: GO:0015980 name: energy derivation by oxidation of organic compounds namespace: biological_process def: "The chemical reactions and pathways by which a cell derives energy from organic compounds; results in the oxidation of the compounds from which energy is released." [GOC:mah] synonym: "chemoorganotrophy" EXACT [] is_a: GO:0006091 ! generation of precursor metabolites and energy [Term] id: GO:0016020 name: membrane namespace: cellular_component alt_id: GO:0098589 alt_id: GO:0098805 def: "A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it." [GOC:dos, GOC:mah, ISBN:0815316194] subset: goslim_aspergillus subset: goslim_candida subset: goslim_chembl subset: goslim_flybase_ribbon subset: goslim_metagenomics subset: goslim_pir subset: goslim_plant subset: goslim_yeast synonym: "membrane region" NARROW [] synonym: "region of membrane" NARROW [] synonym: "whole membrane" NARROW [] xref: Wikipedia:Biological_membrane is_a: GO:0110165 ! cellular anatomical entity disjoint_from: GO:0031012 ! extracellular matrix creation_date: 2014-03-06T11:37:54Z [Term] id: GO:0016043 name: cellular component organization namespace: biological_process alt_id: GO:0044235 alt_id: GO:0071842 def: "A process that results in the assembly, arrangement of constituent parts, or disassembly of a cellular component." [GOC:ai, GOC:jl, GOC:mah] subset: goslim_agr subset: goslim_mouse subset: goslim_pir subset: goslim_plant synonym: "cell organisation" EXACT [] synonym: "cell organization and biogenesis" RELATED [GOC:mah] synonym: "cellular component organisation at cellular level" EXACT [GOC:mah] synonym: "cellular component organisation in other organism" EXACT [GOC:mah] synonym: "cellular component organization at cellular level" EXACT [] synonym: "cellular component organization in other organism" EXACT [] is_a: GO:0071840 ! cellular component organization or biogenesis intersection_of: GO:0009987 ! cellular process intersection_of: results_in_organization_of GO:0005575 ! cellular_component relationship: results_in_organization_of GO:0005575 ! cellular_component [Term] id: GO:0016049 name: cell growth namespace: biological_process alt_id: GO:0048591 def: "The process in which a cell irreversibly increases in size over time by accretion and biosynthetic production of matter similar to that already present." [GOC:ai] subset: gocheck_do_not_annotate subset: goslim_drosophila subset: goslim_pir subset: goslim_plant synonym: "cell expansion" RELATED [] synonym: "cellular growth" EXACT [] synonym: "growth of cell" EXACT [] synonym: "metabolic process resulting in cell growth" RELATED [] synonym: "metabolism resulting in cell growth" RELATED [] synonym: "non-developmental cell growth" RELATED [GOC:mah] synonym: "non-developmental growth of a unicellular organism" RELATED [GOC:mah] is_a: GO:0009987 ! cellular process is_a: GO:0040007 ! growth intersection_of: GO:0040007 ! growth intersection_of: results_in_growth_of CL:0000000 ! cell relationship: results_in_growth_of CL:0000000 ! cell [Term] id: GO:0016050 name: vesicle organization namespace: biological_process def: "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of a vesicle." [GOC:mah] subset: goslim_pir subset: goslim_yeast synonym: "vesicle organisation" EXACT [] synonym: "vesicle organization and biogenesis" RELATED [GOC:mah] is_a: GO:0006996 ! organelle organization intersection_of: GO:0016043 ! cellular component organization intersection_of: results_in_organization_of GO:0031982 ! vesicle relationship: results_in_organization_of GO:0031982 ! vesicle [Term] id: GO:0016051 name: carbohydrate biosynthetic process namespace: biological_process alt_id: GO:0006093 def: "The chemical reactions and pathways resulting in the formation of carbohydrates, any of a group of organic compounds based of the general formula Cx(H2O)y." [ISBN:0198506732] synonym: "anabolic carbohydrate metabolic process" EXACT [] synonym: "anabolic carbohydrate metabolism" EXACT [] synonym: "carbohydrate anabolism" EXACT [] synonym: "carbohydrate biosynthesis" EXACT [] synonym: "carbohydrate formation" EXACT [] synonym: "carbohydrate synthesis" EXACT [] is_a: GO:0005975 ! carbohydrate metabolic process is_a: GO:1901576 ! organic substance biosynthetic process intersection_of: GO:0009058 ! biosynthetic process intersection_of: has_primary_output CHEBI:16646 ! carbohydrate relationship: has_primary_output CHEBI:16646 ! carbohydrate [Term] id: GO:0016053 name: organic acid biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of organic acids, any acidic compound containing carbon in covalent linkage." [ISBN:0198506732] synonym: "organic acid anabolism" EXACT [] synonym: "organic acid biosynthesis" EXACT [] synonym: "organic acid formation" EXACT [] synonym: "organic acid synthesis" EXACT [] is_a: GO:0006082 ! organic acid metabolic process is_a: GO:0044249 ! cellular biosynthetic process is_a: GO:0044283 ! small molecule biosynthetic process is_a: GO:1901576 ! organic substance biosynthetic process intersection_of: GO:0009058 ! biosynthetic process intersection_of: has_primary_output CHEBI:64709 ! organic acid relationship: has_primary_output CHEBI:64709 ! organic acid [Term] id: GO:0016057 name: regulation of membrane potential in photoreceptor cell namespace: biological_process def: "Hyperpolarization (vertebrates) or depolarization (invertebrates) of the photoreceptor cell membrane via closing/opening of cation specific channels as a result of signals generated by rhodopsin activation by a photon." [GOC:dph, GOC:hb, GOC:tb] synonym: "changes in polarization state of photoreceptor cell membrane" EXACT [GOC:dph, GOC:tb] is_a: GO:0042391 ! regulation of membrane potential intersection_of: GO:0042391 ! regulation of membrane potential intersection_of: occurs_in CL:0000210 ! photoreceptor cell relationship: occurs_in CL:0000210 ! photoreceptor cell [Term] id: GO:0016070 name: RNA metabolic process namespace: biological_process def: "The cellular chemical reactions and pathways involving RNA, ribonucleic acid, one of the two main type of nucleic acid, consisting of a long, unbranched macromolecule formed from ribonucleotides joined in 3',5'-phosphodiester linkage." [ISBN:0198506732] subset: goslim_agr subset: goslim_aspergillus subset: goslim_candida subset: goslim_metagenomics subset: goslim_pir synonym: "RNA metabolism" EXACT [] is_a: GO:0090304 ! nucleic acid metabolic process intersection_of: GO:0008152 ! metabolic process intersection_of: has_primary_input_or_output CHEBI:33697 ! ribonucleic acid relationship: has_primary_input_or_output CHEBI:33697 ! ribonucleic acid [Term] id: GO:0016192 name: vesicle-mediated transport namespace: biological_process alt_id: GO:0006899 def: "A cellular transport process in which transported substances are moved in membrane-bounded vesicles; transported substances are enclosed in the vesicle lumen or located in the vesicle membrane. The process begins with a step that directs a substance to the forming vesicle, and includes vesicle budding and coating. Vesicles are then targeted to, and fuse with, an acceptor membrane." [GOC:ai, GOC:mah, ISBN:08789310662000] subset: goslim_aspergillus subset: goslim_candida subset: goslim_chembl subset: goslim_drosophila subset: goslim_generic subset: goslim_pir subset: goslim_pombe synonym: "nonselective vesicle transport" NARROW [] synonym: "protein sorting along secretory pathway" RELATED [] synonym: "vesicle trafficking" RELATED [] synonym: "vesicle transport" EXACT [] synonym: "vesicular transport" EXACT [GOC:mah] is_a: GO:0006810 ! transport intersection_of: GO:0006810 ! transport intersection_of: process_has_causal_agent GO:0031982 ! vesicle relationship: process_has_causal_agent GO:0031982 ! vesicle [Term] id: GO:0016202 name: regulation of striated muscle tissue development namespace: biological_process def: "Any process that modulates the frequency, rate or extent of striated muscle development." [GOC:go_curators] is_a: GO:0048634 ! regulation of muscle organ development is_a: GO:1901861 ! regulation of muscle tissue development intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0014706 ! striated muscle tissue development relationship: regulates GO:0014706 ! striated muscle tissue development [Term] id: GO:0016265 name: obsolete death namespace: biological_process def: "OBSOLETE. A permanent cessation of all vital functions: the end of life; can be applied to a whole organism or to a part of an organism." [GOC:mah, GOC:mtg_apoptosis, ISBN:0877797099] comment: This term was made obsolete because it refers to a phenotype. When death of a cell or tissue is a result of a true biological process, this should be captured using 'programmed cell death' or one of its descendants. xref: Wikipedia:Death is_obsolete: true consider: GO:0008219 consider: GO:0012501 [Term] id: GO:0016301 name: kinase activity namespace: molecular_function def: "Catalysis of the transfer of a phosphate group, usually from ATP, to a substrate molecule." [ISBN:0198506732] comment: Note that this term encompasses all activities that transfer a single phosphate group; although ATP is by far the most common phosphate donor, reactions using other phosphate donors are included in this term. subset: goslim_chembl subset: goslim_drosophila subset: goslim_metagenomics subset: goslim_plant subset: goslim_yeast synonym: "phosphokinase activity" EXACT [] xref: Reactome:R-HSA-6788855 "FN3KRP phosphorylates PsiAm, RibAm" xref: Reactome:R-HSA-6788867 "FN3K phosphorylates ketosamines" is_a: GO:0016772 ! transferase activity, transferring phosphorus-containing groups relationship: part_of GO:0016310 ! phosphorylation property_value: isDefinedBy http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0016310 name: phosphorylation namespace: biological_process def: "The process of introducing a phosphate group into a molecule, usually with the formation of a phosphoric ester, a phosphoric anhydride or a phosphoric amide." [ISBN:0198506732] subset: goslim_chembl subset: goslim_metagenomics xref: Wikipedia:Phosphorylation is_a: GO:0006796 ! phosphate-containing compound metabolic process [Term] id: GO:0016331 name: morphogenesis of embryonic epithelium namespace: biological_process def: "The process in which the anatomical structures of embryonic epithelia are generated and organized." [GOC:jl] is_a: GO:0002009 ! morphogenesis of an epithelium is_a: GO:0048598 ! embryonic morphogenesis [Term] id: GO:0016477 name: cell migration namespace: biological_process def: "The controlled self-propelled movement of a cell from one site to a destination guided by molecular cues. Cell migration is a central process in the development and maintenance of multicellular organisms." [GOC:cjm, GOC:dph, GOC:ems, GOC:pf, Wikipedia:Cell_migration] xref: Wikipedia:Cell_migration is_a: GO:0048870 ! cell motility [Term] id: GO:0016525 name: negative regulation of angiogenesis namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of angiogenesis." [GOC:go_curators] synonym: "down regulation of angiogenesis" EXACT [] synonym: "down-regulation of angiogenesis" EXACT [] synonym: "downregulation of angiogenesis" EXACT [] synonym: "inhibition of angiogenesis" NARROW [] is_a: GO:0045765 ! regulation of angiogenesis is_a: GO:2000181 ! negative regulation of blood vessel morphogenesis intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0001525 ! angiogenesis relationship: negatively_regulates GO:0001525 ! angiogenesis [Term] id: GO:0016528 name: sarcoplasm namespace: cellular_component def: "The cytoplasm of a muscle cell; includes the sarcoplasmic reticulum." [ISBN:0198547684] xref: Wikipedia:Sarcoplasm is_a: CARO:0000000 ! anatomical entity is_a: GO:0005737 ! cytoplasm intersection_of: GO:0005737 ! cytoplasm intersection_of: part_of CL:0000187 ! muscle cell relationship: part_of CL:0000187 ! muscle cell property_value: RO:0002161 NCBITaxon:4751 [Term] id: GO:0016597 name: amino acid binding namespace: molecular_function def: "Binding to an amino acid, organic acids containing one or more amino substituents." [GOC:ai] subset: goslim_metagenomics subset: goslim_pir is_a: GO:0043177 ! organic acid binding intersection_of: GO:0005488 ! binding intersection_of: has_input CHEBI:33709 ! amino acid relationship: has_input CHEBI:33709 ! amino acid [Term] id: GO:0016740 name: transferase activity namespace: molecular_function def: "Catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from one compound (generally regarded as the donor) to another compound (generally regarded as the acceptor). Transferase is the systematic name for any enzyme of EC class 2." [ISBN:0198506732] subset: goslim_aspergillus subset: goslim_candida subset: goslim_chembl subset: goslim_drosophila subset: goslim_generic subset: goslim_metagenomics subset: goslim_mouse subset: goslim_pir subset: goslim_plant subset: goslim_yeast xref: EC:2.-.-.- xref: Reactome:R-HSA-1483089 "PE is converted to PS by PTDSS2" xref: Reactome:R-HSA-1483186 "PC is converted to PS by PTDSS1" xref: Reactome:R-HSA-5668414 "TRAF2 ubiquitinates cIAP1,2 in cIAP1,2:TRAF1:TRAF2:TRAF3:NIK" xref: Reactome:R-HSA-8868783 "TSR3 transfers aminocarboxypropyl group from S-adenosylmethionine to N(1)-methylpseudouridine-1248 of 18SE rRNA yielding N(1)-methyl-N(3)-aminocarboxypropylpseudouridine-1248" is_a: GO:0003824 ! catalytic activity property_value: isDefinedBy http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0016772 name: transferase activity, transferring phosphorus-containing groups namespace: molecular_function def: "Catalysis of the transfer of a phosphorus-containing group from one compound (donor) to another (acceptor)." [GOC:jl, ISBN:0198506732] comment: Note that this term encompasses all kinase activities, as well as activities that transfer other phosphorus-containing groups such as diphosphate or nucleotides. subset: goslim_chembl xref: EC:2.7.-.- is_a: GO:0016740 ! transferase activity property_value: isDefinedBy http://purl.obolibrary.org/obo/go.owl [Term] id: GO:0017046 name: peptide hormone binding namespace: molecular_function def: "Binding to a peptide with hormonal activity in animals." [GOC:jl, ISBN:0198506732] synonym: "polypeptide hormone binding" EXACT [] is_a: GO:0042277 ! peptide binding is_a: GO:0042562 ! hormone binding intersection_of: GO:0005488 ! binding intersection_of: has_input CHEBI:25905 ! peptide hormone relationship: has_input CHEBI:25905 ! peptide hormone [Term] id: GO:0017085 name: response to insecticide namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an insecticide stimulus. Insecticides are chemicals used to kill insects." [GOC:curators] synonym: "insecticide resistance" RELATED [] synonym: "insecticide susceptibility/resistance" RELATED [] is_a: GO:0009636 ! response to toxic substance [Term] id: GO:0017126 name: nucleologenesis namespace: biological_process def: "A cellular process that results in the biosynthesis of constituent macromolecules, assembly, and arrangement of constituent parts of a nucleolus, a small, dense body one or more of which are present in the nucleus of eukaryotic cells." [GOC:jl, ISBN:0198506732] synonym: "nucleolus assembly" NARROW [GOC:mah] synonym: "nucleolus biogenesis" EXACT [] is_a: GO:0007000 ! nucleolus organization is_a: GO:0044085 ! cellular component biogenesis intersection_of: GO:0044085 ! cellular component biogenesis intersection_of: has_output GO:0005730 ! nucleolus relationship: has_output GO:0005730 ! nucleolus [Term] id: GO:0017145 name: stem cell division namespace: biological_process def: "The self-renewing division of a stem cell. A stem cell is an undifferentiated cell, in the embryo or adult, that can undergo unlimited division and give rise to one or several different cell types." [GOC:jid, ISBN:0582227089] synonym: "stem cell renewal" EXACT [] is_a: GO:0051301 ! cell division intersection_of: GO:0051301 ! cell division intersection_of: has_input CL:0000034 ! stem cell relationship: has_input CL:0000034 ! stem cell [Term] id: GO:0017148 name: negative regulation of translation namespace: biological_process alt_id: GO:0016478 def: "Any process that stops, prevents, or reduces the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of proteins by the translation of mRNA or circRNA." [GOC:isa_complete] synonym: "down regulation of protein biosynthetic process" EXACT [] synonym: "down-regulation of protein biosynthetic process" EXACT [] synonym: "downregulation of protein biosynthetic process" EXACT [] synonym: "inhibition of protein biosynthetic process" NARROW [] synonym: "negative regulation of protein anabolism" EXACT [] synonym: "negative regulation of protein biosynthesis" EXACT [] synonym: "negative regulation of protein biosynthetic process" EXACT [] synonym: "negative regulation of protein formation" EXACT [] synonym: "negative regulation of protein synthesis" EXACT [] synonym: "protein biosynthesis inhibitor activity" RELATED [] synonym: "protein biosynthetic process inhibitor activity" RELATED [] is_a: GO:0006417 ! regulation of translation is_a: GO:0010629 ! negative regulation of gene expression is_a: GO:0032269 ! negative regulation of cellular protein metabolic process is_a: GO:0034249 ! negative regulation of cellular amide metabolic process is_a: GO:2000113 ! negative regulation of cellular macromolecule biosynthetic process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0006412 ! translation relationship: negatively_regulates GO:0006412 ! translation [Term] id: GO:0017157 name: regulation of exocytosis namespace: biological_process def: "Any process that modulates the frequency, rate or extent of exocytosis." [GOC:go_curators] is_a: GO:0060627 ! regulation of vesicle-mediated transport is_a: GO:1903530 ! regulation of secretion by cell intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0006887 ! exocytosis relationship: regulates GO:0006887 ! exocytosis [Term] id: GO:0018130 name: heterocycle biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of heterocyclic compounds, those with a cyclic molecular structure and at least two different atoms in the ring (or rings)." [ISBN:0198547684] synonym: "heterocycle anabolism" EXACT [] synonym: "heterocycle biosynthesis" EXACT [] synonym: "heterocycle formation" EXACT [] synonym: "heterocycle synthesis" EXACT [] is_a: GO:0044249 ! cellular biosynthetic process is_a: GO:0046483 ! heterocycle metabolic process intersection_of: GO:0009058 ! biosynthetic process intersection_of: has_primary_output CHEBI:5686 ! heterocyclic compound relationship: has_primary_output CHEBI:5686 ! heterocyclic compound [Term] id: GO:0018958 name: phenol-containing compound metabolic process namespace: biological_process def: "The chemical reactions and pathways involving a phenol, any compound containing one or more hydroxyl groups directly attached to an aromatic carbon ring." [ISBN:0198506732] comment: Note that phenol metabolism is not included as a child of 'xenobiotic metabolism' because although it is synthesized industrially, phenol is also found naturally in animal wastes and other organic materials. It is often formed by the activity of microorganisms, which can chemically modify a variety of xenobiotic and naturally occurring phenolic compounds. synonym: "carbolic acid metabolic process" EXACT [] synonym: "carbolic acid metabolism" EXACT [] synonym: "hydroxybenzene metabolic process" EXACT [] synonym: "hydroxybenzene metabolism" EXACT [] synonym: "phenol-containing compound metabolism" EXACT [] xref: UM-BBD_pathwayID:phe is_a: GO:0006725 ! cellular aromatic compound metabolic process is_a: GO:1901360 ! organic cyclic compound metabolic process is_a: GO:1901615 ! organic hydroxy compound metabolic process intersection_of: GO:0008152 ! metabolic process intersection_of: has_primary_input_or_output CHEBI:33853 ! phenols relationship: has_primary_input_or_output CHEBI:33853 ! phenols [Term] id: GO:0019098 name: reproductive behavior namespace: biological_process alt_id: GO:0033057 alt_id: GO:0044704 alt_id: GO:0044705 def: "The specific behavior of an organism that is associated with reproduction." [GOC:jl, GOC:pr] subset: goslim_drosophila synonym: "multi-organism reproductive behavior" NARROW [] synonym: "multicellular organism reproductive behavior" NARROW [] synonym: "reproductive behavior in a multicellular organism" EXACT [] synonym: "reproductive behaviour" EXACT [] synonym: "single-organism reproductive behavior" RELATED [] is_a: GO:0007610 ! behavior is_a: GO:0048609 ! multicellular organismal reproductive process intersection_of: GO:0007610 ! behavior intersection_of: part_of GO:0000003 ! reproduction created_by: jl creation_date: 2012-09-19T16:01:37Z [Term] id: GO:0019216 name: regulation of lipid metabolic process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways involving lipids." [GOC:go_curators] synonym: "regulation of lipid metabolism" EXACT [] is_a: GO:0080090 ! regulation of primary metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0006629 ! lipid metabolic process relationship: regulates GO:0006629 ! lipid metabolic process [Term] id: GO:0019218 name: regulation of steroid metabolic process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways involving steroids." [GOC:go_curators] synonym: "regulation of steroid metabolism" EXACT [] is_a: GO:0019216 ! regulation of lipid metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0008202 ! steroid metabolic process relationship: regulates GO:0008202 ! steroid metabolic process [Term] id: GO:0019219 name: regulation of nucleobase-containing compound metabolic process namespace: biological_process def: "Any cellular process that modulates the frequency, rate or extent of the chemical reactions and pathways involving nucleobases, nucleosides, nucleotides and nucleic acids." [GOC:go_curators] synonym: "regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process" RELATED [GOC:dph, GOC:tb] synonym: "regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolism" EXACT [] is_a: GO:0031323 ! regulation of cellular metabolic process is_a: GO:0051171 ! regulation of nitrogen compound metabolic process is_a: GO:0080090 ! regulation of primary metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0006139 ! nucleobase-containing compound metabolic process relationship: regulates GO:0006139 ! nucleobase-containing compound metabolic process [Term] id: GO:0019220 name: regulation of phosphate metabolic process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways involving phosphates." [GOC:go_curators] synonym: "regulation of phosphate metabolism" EXACT [] is_a: GO:0051174 ! regulation of phosphorus metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0006796 ! phosphate-containing compound metabolic process relationship: regulates GO:0006796 ! phosphate-containing compound metabolic process [Term] id: GO:0019222 name: regulation of metabolic process namespace: biological_process alt_id: GO:0044246 def: "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways within a cell or an organism." [GOC:go_curators] subset: goslim_metagenomics synonym: "regulation of metabolism" EXACT [] synonym: "regulation of multicellular organismal metabolic process" NARROW [] synonym: "regulation of organismal metabolic process" NARROW [GOC:tb] is_a: GO:0050789 ! regulation of biological process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0008152 ! metabolic process relationship: regulates GO:0008152 ! metabolic process [Term] id: GO:0019226 name: transmission of nerve impulse namespace: biological_process def: "The neurological system process in which a signal is transmitted through the nervous system by a combination of action potential propagation and synaptic transmission." [GOC:curators, ISBN:0815316194] synonym: "conduction of nerve impulse" EXACT [GOC:dph] synonym: "signal transmission along a neuron" EXACT [] is_a: GO:0035637 ! multicellular organismal signaling is_a: GO:0050877 ! nervous system process relationship: has_part GO:0001508 ! action potential relationship: has_part GO:0007268 ! chemical synaptic transmission relationship: part_of GO:0007154 ! cell communication [Term] id: GO:0019228 name: neuronal action potential namespace: biological_process def: "An action potential that occurs in a neuron." [GOC:dph, GOC:isa_complete, GOC:tb] synonym: "generation of action potential" RELATED [GOC:dph, GOC:tb] is_a: GO:0001508 ! action potential intersection_of: GO:0001508 ! action potential intersection_of: occurs_in CL:0000540 ! neuron relationship: occurs_in CL:0000540 ! neuron relationship: part_of GO:0019226 ! transmission of nerve impulse [Term] id: GO:0019252 name: starch biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of starch, the most important reserve polysaccharide in plants." [GOC:ai] synonym: "starch anabolism" EXACT [] synonym: "starch biosynthesis" EXACT [] synonym: "starch formation" EXACT [] synonym: "starch synthesis" EXACT [] xref: MetaCyc:PWY-622 is_a: GO:0005982 ! starch metabolic process is_a: GO:0009250 ! glucan biosynthetic process [Term] id: GO:0019329 name: ammonia oxidation namespace: biological_process def: "The chemical reactions and pathways by which ammonia or ammonium is converted to molecular nitrogen or another nitrogen compound, with accompanying loss of electrons." [GOC:mah, MetaCyc:AMMOXID-PWY, MetaCyc:P303-PWY, MetaCyc:PWY-2242] is_a: GO:0006807 ! nitrogen compound metabolic process is_a: GO:0044281 ! small molecule metabolic process [Term] id: GO:0019331 name: anaerobic respiration, using ammonium as electron donor namespace: biological_process def: "The oxidation of ammonium (NH4) to nitrogen (N2) in the absence of oxygen, using nitrite (NO2) as the electron acceptor. It is suggested that hydroxylamine and ammonium are combined to yield hydrazine, which is subsequently oxidized to N2." [MetaCyc:P303-PWY] synonym: "anaerobic ammonium oxidation" BROAD [] synonym: "anammox" EXACT [] xref: MetaCyc:P303-PWY xref: Wikipedia:Anammox is_a: GO:0009061 ! anaerobic respiration is_a: GO:0015975 ! energy derivation by oxidation of reduced inorganic compounds is_a: GO:0019329 ! ammonia oxidation is_a: GO:0034641 ! cellular nitrogen compound metabolic process [Term] id: GO:0019332 name: aerobic respiration, using nitrite as electron donor namespace: biological_process def: "The oxidation of nitrite (NO2) to nitrate (NO3), using oxygen (O2) as the electron acceptor. Nitrite oxidation is the final step in nitrification, the oxidation of ammonia to nitrate, and nitrite oxidoreductase (NOR) is the key enzyme complex that catalyzes the conversion of nitrite to nitrate in nitrite oxidizing species." [MetaCyc:P282-PWY] synonym: "nitrite oxidation" BROAD [] xref: MetaCyc:P282-PWY is_a: GO:0009060 ! aerobic respiration is_a: GO:0015975 ! energy derivation by oxidation of reduced inorganic compounds is_a: GO:0034641 ! cellular nitrogen compound metabolic process [Term] id: GO:0019409 name: aerobic respiration, using ammonia as electron donor namespace: biological_process def: "The metabolic process in which ammonia (NH3) is oxidized to nitrite (NO2) in the presence of oxygen; enzymatic reactions convert ammonia to hydrazine, and hydrazine to nitrite." [MetaCyc:AMMOXID-PWY] synonym: "aerobic ammonia oxidation to nitrite via hydrazine" EXACT [GOC:mah] xref: MetaCyc:AMMOXID-PWY is_a: GO:0009060 ! aerobic respiration is_a: GO:0015975 ! energy derivation by oxidation of reduced inorganic compounds is_a: GO:0019329 ! ammonia oxidation is_a: GO:0034641 ! cellular nitrogen compound metabolic process [Term] id: GO:0019410 name: aerobic respiration, using carbon monoxide as electron donor namespace: biological_process def: "The metabolic process in which carbon monoxide (CO) is oxidized to carbon dioxide (CO2) to generate energy. Conservation of energy in this process likely uses sodium ion gradients for ATP synthesis and is coupled to quantitative sulfide methylation." [PMID:18024677] is_a: GO:0009060 ! aerobic respiration is_a: GO:0015975 ! energy derivation by oxidation of reduced inorganic compounds [Term] id: GO:0019412 name: aerobic respiration, using hydrogen as electron donor namespace: biological_process def: "The oxidation of hydrogen (H2) to water (H2O), using oxygen (O2) as the electron acceptor. A hydrogenase enzyme binds H2 and the hydrogen atoms are passed through an electron transfer chain to O2 to form water." [MetaCyc:P283-PWY] synonym: "hydrogen oxidation" BROAD [] xref: MetaCyc:P283-PWY is_a: GO:0009060 ! aerobic respiration is_a: GO:0015975 ! energy derivation by oxidation of reduced inorganic compounds [Term] id: GO:0019414 name: aerobic respiration, using sulfur or sulfate as electron donor namespace: biological_process def: "An aerobic respiration process in which a sulfur-containing molecule (hydrogen sulfide, sulfur, sulfite, thiosulfate, and various polythionates) is oxidized." [PMID:11425697] synonym: "aerobic respiration, using sulphur or sulphate as electron donor" EXACT [] is_a: GO:0009060 ! aerobic respiration is_a: GO:0015975 ! energy derivation by oxidation of reduced inorganic compounds [Term] id: GO:0019438 name: aromatic compound biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of aromatic compounds, any substance containing an aromatic carbon ring." [GOC:ai] synonym: "aromatic compound anabolism" EXACT [] synonym: "aromatic compound biosynthesis" EXACT [] synonym: "aromatic compound formation" EXACT [] synonym: "aromatic compound synthesis" EXACT [] synonym: "aromatic hydrocarbon biosynthesis" NARROW [] synonym: "aromatic hydrocarbon biosynthetic process" NARROW [] is_a: GO:0006725 ! cellular aromatic compound metabolic process is_a: GO:0044249 ! cellular biosynthetic process intersection_of: GO:0009058 ! biosynthetic process intersection_of: has_primary_output CHEBI:33655 ! aromatic compound relationship: has_primary_output CHEBI:33655 ! aromatic compound [Term] id: GO:0019538 name: protein metabolic process namespace: biological_process alt_id: GO:0006411 alt_id: GO:0044268 def: "The chemical reactions and pathways involving a protein. Includes protein modification." [GOC:ma] subset: goslim_agr subset: goslim_flybase_ribbon subset: goslim_mouse subset: goslim_pir subset: goslim_plant synonym: "multicellular organismal protein metabolic process" NARROW [] synonym: "protein metabolic process and modification" EXACT [] synonym: "protein metabolism" EXACT [] synonym: "protein metabolism and modification" EXACT [] xref: Wikipedia:Protein_metabolism is_a: GO:0043170 ! macromolecule metabolic process is_a: GO:0044238 ! primary metabolic process is_a: GO:1901564 ! organonitrogen compound metabolic process intersection_of: GO:0008152 ! metabolic process intersection_of: has_primary_input_or_output PR:000000001 ! protein relationship: has_primary_input_or_output PR:000000001 ! protein [Term] id: GO:0019725 name: cellular homeostasis namespace: biological_process def: "Any process involved in the maintenance of an internal steady state at the level of the cell." [GOC:isa_complete, GOC:jl, ISBN:0395825172] subset: goslim_aspergillus subset: goslim_candida subset: goslim_plant is_a: GO:0009987 ! cellular process is_a: GO:0042592 ! homeostatic process intersection_of: GO:0042592 ! homeostatic process intersection_of: occurs_in CL:0000000 ! cell disjoint_from: GO:0048872 ! homeostasis of number of cells relationship: in_taxon NCBITaxon:131567 ! cellular organisms relationship: occurs_in CL:0000000 ! cell relationship: only_in_taxon NCBITaxon:131567 ! cellular organisms [Term] id: GO:0019752 name: carboxylic acid metabolic process namespace: biological_process def: "The chemical reactions and pathways involving carboxylic acids, any organic acid containing one or more carboxyl (COOH) groups or anions (COO-)." [ISBN:0198506732] synonym: "carboxylic acid metabolism" EXACT [] is_a: GO:0043436 ! oxoacid metabolic process intersection_of: GO:0008152 ! metabolic process intersection_of: has_primary_input_or_output CHEBI:29067 ! carboxylic acid anion relationship: has_primary_input_or_output CHEBI:29067 ! carboxylic acid anion [Term] id: GO:0019755 name: one-carbon compound transport namespace: biological_process def: "The directed movement of one-carbon compounds into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." [GOC:ai] synonym: "one carbon compound transport" EXACT [] is_a: GO:0071702 ! organic substance transport intersection_of: GO:0006810 ! transport intersection_of: transports_or_maintains_localization_of CHEBI:64708 ! one-carbon compound relationship: transports_or_maintains_localization_of CHEBI:64708 ! one-carbon compound [Term] id: GO:0019825 name: oxygen binding namespace: molecular_function def: "Binding to oxygen (O2)." [GOC:jl] subset: goslim_pir subset: goslim_plant synonym: "cytochrome P450" NARROW [] synonym: "cytochrome P450 activity" RELATED [] is_a: GO:0036094 ! small molecule binding intersection_of: GO:0005488 ! binding intersection_of: has_input CHEBI:15379 ! dioxygen relationship: has_input CHEBI:15379 ! dioxygen [Term] id: GO:0019867 name: outer membrane namespace: cellular_component def: "The external membrane of Gram-negative bacteria or certain organelles such as mitochondria and chloroplasts; freely permeable to most ions and metabolites." [GOC:go_curators] subset: goslim_metagenomics is_a: GO:0016020 ! membrane [Term] id: GO:0019953 name: sexual reproduction namespace: biological_process def: "A reproduction process that creates a new organism by combining the genetic material of two gametes, which may come from two organisms or from a single organism, in the case of self-fertilizing hermaphrodites, e.g. C. elegans, or self-fertilization in plants. It occurs both in eukaryotes and prokaryotes: in multicellular eukaryotic organisms, an individual is created anew; in prokaryotes, the initial cell has additional or transformed genetic material. In a process called genetic recombination, genetic material (DNA) originating from two gametes join up so that homologous sequences are aligned with each other, and this is followed by exchange of genetic information. After the new recombinant chromosome is formed, it is passed on to progeny." [GOC:jl, GOC:kmv, GOC:krc, GOC:tb, ISBN:0387520546, Wikipedia:Sexual_reproduction] comment: Sexual reproduction may be seen as the regular alternation, in the life cycle of haplontic, diplontic and diplohaplontic organisms, of meiosis and fertilization which provides for the production offspring. In diplontic organisms there is a life cycle in which the products of meiosis behave directly as gametes, fusing to form a zygote from which the diploid, or sexually reproductive polyploid, adult organism will develop. In diplohaplontic organisms a haploid phase (gametophyte) exists in the life cycle between meiosis and fertilization (e.g. higher plants, many algae and Fungi); the products of meiosis are spores that develop as haploid individuals from which haploid gametes develop to form a diploid zygote; diplohaplontic organisms show an alternation of haploid and diploid generations. In haplontic organisms meiosis occurs in the zygote, giving rise to four haploid cells (e.g. many algae and protozoa), only the zygote is diploid and this may form a resistant spore, tiding organisms over hard times. xref: Wikipedia:Sexual_reproduction is_a: GO:0000003 ! reproduction is_a: GO:0044703 ! multi-organism reproductive process [Term] id: GO:0021501 name: prechordal plate formation namespace: biological_process def: "The formation of the prechordal plate. The prechordal plate is a thickening of the endoderm at the cranial end of the primitive streak formed by the involution of Spemann's organizer cells. The prechordal plate and the notochord induce the formation of the neural plate from the overlying ectodermal cells." [GO_REF:0000021, GOC:cls, GOC:dgh, GOC:dph, GOC:jid] is_a: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: results_in_formation_of UBERON:0003063 ! prechordal plate relationship: part_of GO:0007399 ! nervous system development relationship: results_in_formation_of UBERON:0003063 ! prechordal plate [Term] id: GO:0021510 name: spinal cord development namespace: biological_process def: "The process whose specific outcome is the progression of the spinal cord over time, from its formation to the mature structure. The spinal cord primarily conducts sensory and motor nerve impulses between the brain and the peripheral nervous tissues." [GO_REF:0000021, GOC:cls, GOC:dgh, GOC:dph, GOC:jid] is_a: GO:0048513 ! animal organ development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0002240 ! spinal cord relationship: part_of GO:0007417 ! central nervous system development relationship: results_in_development_of UBERON:0002240 ! spinal cord [Term] id: GO:0021514 name: ventral spinal cord interneuron differentiation namespace: biological_process def: "The process in which neuroepithelial cells in the neural tube acquire specialized structural and/or functional features of ventral spinal cord interneurons. Ventral spinal cord interneurons are cells located in the ventral portion of the spinal cord that transmit signals between sensory and motor neurons and are required for reflexive responses. Differentiation includes the processes involved in commitment of a cell to a specific fate." [GO_REF:0000021, GOC:cls, GOC:dgh, GOC:dph, GOC:jid, PMID:11262869] is_a: GO:0021515 ! cell differentiation in spinal cord is_a: GO:0021953 ! central nervous system neuron differentiation intersection_of: GO:0030154 ! cell differentiation intersection_of: occurs_in UBERON:0002240 ! spinal cord intersection_of: results_in_acquisition_of_features_of CL:0000099 ! interneuron relationship: part_of GO:0021517 ! ventral spinal cord development relationship: results_in_acquisition_of_features_of CL:0000099 ! interneuron [Term] id: GO:0021515 name: cell differentiation in spinal cord namespace: biological_process def: "The process in which relatively unspecialized cells acquire specialized structural and/or functional features that characterize the cells of the spinal cord. Differentiation includes the processes involved in commitment of a cell to a specific fate." [GO_REF:0000021, GOC:cls, GOC:dgh, GOC:dph, GOC:jid, PMID:11262869] is_a: GO:0030154 ! cell differentiation intersection_of: GO:0030154 ! cell differentiation intersection_of: occurs_in UBERON:0002240 ! spinal cord relationship: occurs_in UBERON:0002240 ! spinal cord relationship: part_of GO:0021510 ! spinal cord development [Term] id: GO:0021517 name: ventral spinal cord development namespace: biological_process def: "The process whose specific outcome is the progression of the ventral region of the spinal cord over time, from its formation to the mature structure. The neurons of the ventral region of the mature spinal cord participate in motor output." [GO_REF:0000021, GOC:cls, GOC:dgh, GOC:dph, GOC:jid] is_a: GO:0048856 ! anatomical structure development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0002257 ! ventral horn of spinal cord relationship: part_of GO:0021510 ! spinal cord development relationship: results_in_development_of UBERON:0002257 ! ventral horn of spinal cord [Term] id: GO:0021522 name: spinal cord motor neuron differentiation namespace: biological_process def: "The process in which neuroepithelial cells in the ventral neural tube acquire specialized structural and/or functional features of motor neurons. Motor neurons innervate an effector (muscle or glandular) tissue and are responsible for transmission of motor impulses from the brain to the periphery. Differentiation includes the processes involved in commitment of a cell to a specific fate." [GO_REF:0000021, GOC:cls, GOC:dgh, GOC:dph, GOC:jid, PMID:11262869] is_a: GO:0021515 ! cell differentiation in spinal cord is_a: GO:0021953 ! central nervous system neuron differentiation intersection_of: GO:0030154 ! cell differentiation intersection_of: results_in_acquisition_of_features_of CL:0011001 ! spinal cord motor neuron relationship: part_of GO:0021517 ! ventral spinal cord development relationship: results_in_acquisition_of_features_of CL:0011001 ! spinal cord motor neuron [Term] id: GO:0021532 name: neural tube patterning namespace: biological_process def: "The regionalization process that regulates the coordinated growth that establishes the non-random spatial arrangement of the neural tube." [GO_REF:0000021, GOC:cls, GOC:dgh, GOC:dph, GOC:jid] is_a: GO:0003002 ! regionalization relationship: part_of GO:0021915 ! neural tube development [Term] id: GO:0021533 name: cell differentiation in hindbrain namespace: biological_process def: "The process in which relatively unspecialized cells acquire specialized structural and/or functional features that characterize the mature cells of the hindbrain. Differentiation includes the processes involved in commitment of a cell to a specific fate." [GO_REF:0000021, GOC:cls, GOC:dgh, GOC:dph, GOC:jid] is_a: GO:0030154 ! cell differentiation intersection_of: GO:0030154 ! cell differentiation intersection_of: occurs_in UBERON:0002028 ! hindbrain relationship: in_taxon NCBITaxon:89593 ! Craniata relationship: occurs_in UBERON:0002028 ! hindbrain relationship: only_in_taxon NCBITaxon:89593 ! Craniata relationship: part_of GO:0030902 ! hindbrain development [Term] id: GO:0021534 name: cell proliferation in hindbrain namespace: biological_process def: "The multiplication or reproduction of cells, resulting in the expansion of a cell population in the hindbrain." [GO_REF:0000021, GOC:cls, GOC:dgh, GOC:dph, GOC:jid] is_a: GO:0061351 ! neural precursor cell proliferation intersection_of: GO:0008283 ! cell population proliferation intersection_of: occurs_in UBERON:0002028 ! hindbrain relationship: in_taxon NCBITaxon:89593 ! Craniata relationship: occurs_in UBERON:0002028 ! hindbrain relationship: only_in_taxon NCBITaxon:89593 ! Craniata relationship: part_of GO:0030902 ! hindbrain development [Term] id: GO:0021535 name: cell migration in hindbrain namespace: biological_process def: "The orderly movement of a cell that will reside in the hindbrain." [GO_REF:0000021, GOC:cls, GOC:dgh, GOC:dph, GOC:jid] is_a: GO:0016477 ! cell migration intersection_of: GO:0016477 ! cell migration intersection_of: occurs_in UBERON:0002028 ! hindbrain relationship: in_taxon NCBITaxon:89593 ! Craniata relationship: occurs_in UBERON:0002028 ! hindbrain relationship: only_in_taxon NCBITaxon:89593 ! Craniata relationship: part_of GO:0030902 ! hindbrain development [Term] id: GO:0021545 name: cranial nerve development namespace: biological_process def: "The process whose specific outcome is the progression of the cranial nerves over time, from its formation to the mature structure. The cranial nerves are composed of twelve pairs of nerves that emanate from the nervous tissue of the hindbrain. These nerves are sensory, motor, or mixed in nature, and provide the motor and general sensory innervation of the head, neck and viscera. They mediate vision, hearing, olfaction and taste and carry the parasympathetic innervation of the autonomic ganglia that control visceral functions." [GO_REF:0000021, GOC:cls, GOC:dgh, GOC:dph, GOC:jid, ISBN:0838580343] is_a: GO:0021675 ! nerve development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0001785 ! cranial nerve relationship: results_in_development_of UBERON:0001785 ! cranial nerve [Term] id: GO:0021546 name: rhombomere development namespace: biological_process def: "The process whose specific outcome is the progression of the rhombomere over time, from its formation to the mature structure. Rhombomeres are transverse segments of the developing rhombencephalon. Rhombomeres are lineage restricted, express different genes from one another, and adopt different developmental fates." [GO_REF:0000021, GOC:cls, GOC:dgh, GOC:dph, GOC:jid, ISBN:0838580343] is_a: GO:0048856 ! anatomical structure development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0001892 ! rhombomere relationship: part_of GO:0030902 ! hindbrain development relationship: results_in_development_of UBERON:0001892 ! rhombomere [Term] id: GO:0021547 name: midbrain-hindbrain boundary initiation namespace: biological_process def: "The regionalization process that gives rise to the midbrain-hindbrain boundary. The midbrain-hindbrain domain of the embryonic brain is comprised of the mesencephalic vesicle and the first rhombencephalic vesicle at early somitogenesis stages. An organizing center at the boundary patterns the midbrain and hindbrain primordia of the neural plate." [GO_REF:0000021, GOC:cls, GOC:dgh, GOC:dph, GOC:isa_complete, GOC:jid, PMID:15541513] synonym: "isthmus biosynthesis" RELATED [GOC:cls] synonym: "isthmus formation" RELATED [GOC:cls] synonym: "MHB biosynthesis" EXACT [GOC:cls] synonym: "MHB formation" EXACT [GOC:cls] synonym: "midbrain-hindbrain boundary biosynthesis" EXACT [GOC:cls] synonym: "midbrain-hindbrain boundary formation" EXACT [GOC:cls] is_a: GO:0003002 ! regionalization is_a: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: results_in_formation_of UBERON:0003052 ! midbrain-hindbrain boundary relationship: part_of GO:0021999 ! neural plate anterior/posterior regionalization relationship: part_of GO:0030917 ! midbrain-hindbrain boundary development relationship: results_in_formation_of UBERON:0003052 ! midbrain-hindbrain boundary [Term] id: GO:0021548 name: pons development namespace: biological_process def: "The process whose specific outcome is the progression of the pons over time, from its formation to the mature structure. The pons lies above the medulla and next to the cerebellum. The pons conveys information about movement from the cerebral hemisphere to the cerebellum." [GO_REF:0000021, GOC:cls, GOC:dgh, GOC:dph, GOC:jid, ISBN:0838580343] is_a: GO:0048856 ! anatomical structure development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0000988 ! pons relationship: part_of GO:0022037 ! metencephalon development relationship: results_in_development_of UBERON:0000988 ! pons [Term] id: GO:0021550 name: medulla oblongata development namespace: biological_process def: "The process whose specific outcome is the progression of the medulla oblongata over time, from its formation to the mature structure. The medulla oblongata lies directly above the spinal cord and controls vital autonomic functions such as digestion, breathing and the control of heart rate." [GO_REF:0000021, GOC:cls, GOC:dgh, GOC:dph, GOC:jid, ISBN:0838580343] synonym: "medulla development" RELATED [GOC:cls] synonym: "myelencephalon development" RELATED [GOC:cls] is_a: GO:0048856 ! anatomical structure development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0001896 ! medulla oblongata relationship: part_of GO:0030902 ! hindbrain development relationship: results_in_development_of UBERON:0001896 ! medulla oblongata [Term] id: GO:0021551 name: central nervous system morphogenesis namespace: biological_process def: "The process in which the anatomical structure of the central nervous system is generated and organized. The central nervous system is the core nervous system that serves an integrating and coordinating function. In vertebrates it consists of the brain and spinal cord. In those invertebrates with a central nervous system it typically consists of a brain, cerebral ganglia and a nerve cord." [GO_REF:0000021, GOC:cls, GOC:dgh, GOC:dph, GOC:jid, ISBN:0582227089] is_a: GO:0009653 ! anatomical structure morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0001017 ! central nervous system relationship: part_of GO:0007417 ! central nervous system development relationship: results_in_morphogenesis_of UBERON:0001017 ! central nervous system [Term] id: GO:0021555 name: midbrain-hindbrain boundary morphogenesis namespace: biological_process def: "The process in which the anatomical structure of the midbrain-hindbrain boundary is generated and organized. The midbrain-hindbrain domain of the embryonic brain is comprised of the mesencephalic vesicle and the first rhombencephalic vesicle at early somitogenesis stages. An organizing center at the boundary patterns the midbrain and hindbrain primordia of the neural plate." [GO_REF:0000021, GOC:cls, GOC:dgh, GOC:dph, GOC:jid, PMID:15541513] synonym: "isthmus morphogenesis" EXACT [GOC:cls] synonym: "MHB morphogenesis" EXACT [GOC:cls] is_a: GO:0048598 ! embryonic morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0003052 ! midbrain-hindbrain boundary relationship: part_of GO:0030917 ! midbrain-hindbrain boundary development relationship: results_in_morphogenesis_of UBERON:0003052 ! midbrain-hindbrain boundary [Term] id: GO:0021556 name: central nervous system formation namespace: biological_process def: "The process that gives rise to the central nervous system. This process pertains to the initial formation of a structure from unspecified parts. The central nervous system is the core nervous system that serves an integrating and coordinating function. In vertebrates it consists of the brain, spinal cord and spinal nerves. In those invertebrates with a central nervous system it typically consists of a brain, cerebral ganglia and a nerve cord." [GO_REF:0000021, GOC:cls, GOC:dgh, GOC:dph, GOC:jid, ISBN:0582227089] is_a: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: results_in_formation_of UBERON:0001017 ! central nervous system relationship: part_of GO:0021551 ! central nervous system morphogenesis relationship: results_in_formation_of UBERON:0001017 ! central nervous system [Term] id: GO:0021559 name: trigeminal nerve development namespace: biological_process def: "The process whose specific outcome is the progression of the trigeminal nerve over time, from its formation to the mature structure. The trigeminal nerve is composed of three large branches. They are the ophthalmic (V1, sensory), maxillary (V2, sensory) and mandibular (V3, motor and sensory) branches. The sensory ophthalmic branch travels through the superior orbital fissure and passes through the orbit to reach the skin of the forehead and top of the head. The maxillary nerve contains sensory branches that reach the pterygopalatine fossa via the inferior orbital fissure (face, cheek and upper teeth) and pterygopalatine canal (soft and hard palate, nasal cavity and pharynx). The motor part of the mandibular branch is distributed to the muscles of mastication, the mylohyoid muscle and the anterior belly of the digastric. The mandibular nerve also innervates the tensor veli palatini and tensor tympani muscles. The sensory part of the mandibular nerve is composed of branches that carry general sensory information from the mucous membranes of the mouth and cheek, anterior two-thirds of the tongue, lower teeth, skin of the lower jaw, side of the head and scalp and meninges of the anterior and middle cranial fossae." [GO_REF:0000021, GOC:cls, GOC:dgh, GOC:dph, GOC:jid, ISBN:0838580343] synonym: "CN V development" RELATED [GOC:cls] synonym: "cranial nerve 5 development" EXACT [GOC:cls] synonym: "cranial nerve V development" EXACT [GOC:cls] is_a: GO:0021545 ! cranial nerve development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0001645 ! trigeminal nerve relationship: results_in_development_of UBERON:0001645 ! trigeminal nerve [Term] id: GO:0021575 name: hindbrain morphogenesis namespace: biological_process def: "The process in which the anatomical structure of the hindbrain is generated and organized. The hindbrain is the region consisting of the medulla, pons and cerebellum. Areas of the hindbrain control motor and autonomic functions." [GO_REF:0000021, GOC:cls, GOC:dgh, GOC:dph, GOC:jid, ISBN:0838580343] synonym: "rhombencephalon morphogenesis" RELATED [] is_a: GO:0009653 ! anatomical structure morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0002028 ! hindbrain relationship: part_of GO:0030902 ! hindbrain development relationship: results_in_morphogenesis_of UBERON:0002028 ! hindbrain [Term] id: GO:0021576 name: hindbrain formation namespace: biological_process def: "The process that gives rise to the hindbrain. This process pertains to the initial formation of a structure from unspecified parts. The hindbrain is the region consisting of the medulla, pons and cerebellum. Areas of the hindbrain control motor and autonomic functions." [GO_REF:0000021, GOC:cls, GOC:dgh, GOC:dph, GOC:jid, ISBN:0838580343] is_a: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: results_in_formation_of UBERON:0002028 ! hindbrain relationship: part_of GO:0021575 ! hindbrain morphogenesis relationship: results_in_formation_of UBERON:0002028 ! hindbrain [Term] id: GO:0021579 name: medulla oblongata morphogenesis namespace: biological_process def: "The process in which the anatomical structure of the medulla oblongata is generated and organized. The medulla oblongata lies directly above the spinal cord and controls vital autonomic functions such as digestion, breathing and the control of heart rate." [GO_REF:0000021, GOC:cls, GOC:dgh, GOC:dph, GOC:jid, ISBN:0838580343] synonym: "medulla morphogenesis" RELATED [] synonym: "myelencephalon morphogenesis" RELATED [] is_a: GO:0009653 ! anatomical structure morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0001896 ! medulla oblongata relationship: part_of GO:0021550 ! medulla oblongata development relationship: part_of GO:0021575 ! hindbrain morphogenesis relationship: results_in_morphogenesis_of UBERON:0001896 ! medulla oblongata [Term] id: GO:0021580 name: medulla oblongata formation namespace: biological_process def: "The process that gives rise to the medulla oblongata. This process pertains to the initial formation of a structure from unspecified parts. The medulla oblongata lies directly above the spinal cord and controls vital autonomic functions such as digestion, breathing and the control of heart rate." [GO_REF:0000021, GOC:cls, GOC:dgh, GOC:dph, GOC:jid, ISBN:0838580343] synonym: "medulla biosynthesis" RELATED [] synonym: "medulla formation" RELATED [] synonym: "myelencephalon biosynthesis" RELATED [] synonym: "myelencephalon formation" RELATED [] is_a: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: results_in_formation_of UBERON:0001896 ! medulla oblongata relationship: part_of GO:0021576 ! hindbrain formation relationship: part_of GO:0021579 ! medulla oblongata morphogenesis relationship: results_in_formation_of UBERON:0001896 ! medulla oblongata [Term] id: GO:0021583 name: pons morphogenesis namespace: biological_process def: "The process in which the anatomical structure of the pons is generated and organized. The pons lies above the medulla and next to the cerebellum. The pons conveys information about movement from the cerebral hemisphere to the cerebellum." [GO_REF:0000021, GOC:cls, GOC:dgh, GOC:dph, GOC:jid, ISBN:0838580343] is_a: GO:0009653 ! anatomical structure morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0000988 ! pons relationship: part_of GO:0021548 ! pons development relationship: part_of GO:0021575 ! hindbrain morphogenesis relationship: results_in_morphogenesis_of UBERON:0000988 ! pons [Term] id: GO:0021584 name: pons formation namespace: biological_process def: "The process that gives rise to the pons. This process pertains to the initial formation of a structure from unspecified parts. The pons lies above the medulla and next to the cerebellum. The pons conveys information about movement from the cerebral hemisphere to the cerebellum." [GO_REF:0000021, GOC:cls, GOC:dgh, GOC:dph, GOC:jid, ISBN:0838580343] is_a: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: results_in_formation_of UBERON:0000988 ! pons relationship: part_of GO:0021576 ! hindbrain formation relationship: part_of GO:0021583 ! pons morphogenesis relationship: results_in_formation_of UBERON:0000988 ! pons [Term] id: GO:0021593 name: rhombomere morphogenesis namespace: biological_process def: "The process in which the anatomical structure of the rhombomere is generated and organized. Rhombomeres are transverse segments of the developing rhombencephalon. Rhombomeres are lineage restricted, express different genes from one another, and adopt different developmental fates." [GO_REF:0000021, GOC:cls, GOC:dgh, GOC:dph, GOC:jid, ISBN:0838580343] is_a: GO:0009653 ! anatomical structure morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0001892 ! rhombomere relationship: part_of GO:0021546 ! rhombomere development relationship: results_in_morphogenesis_of UBERON:0001892 ! rhombomere [Term] id: GO:0021594 name: rhombomere formation namespace: biological_process def: "The process that gives rise to the rhombomere. This process pertains to the initial formation of a structure from unspecified parts. Rhombomeres are transverse segments of the developing rhombencephalon. Rhombomeres are lineage restricted, express different genes from one another, and adopt different developmental fates." [GO_REF:0000021, GOC:cls, GOC:dgh, GOC:dph, GOC:jid, ISBN:0838580343] is_a: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: results_in_formation_of UBERON:0001892 ! rhombomere relationship: part_of GO:0021593 ! rhombomere morphogenesis relationship: results_in_formation_of UBERON:0001892 ! rhombomere [Term] id: GO:0021602 name: cranial nerve morphogenesis namespace: biological_process def: "The process in which the anatomical structure of the cranial nerves are generated and organized. The cranial nerves are composed of twelve pairs of nerves that emanate from the nervous tissue of the hindbrain. These nerves are sensory, motor, or mixed in nature, and provide the motor and general sensory innervation of the head, neck and viscera. They mediate vision, hearing, olfaction and taste and carry the parasympathetic innervation of the autonomic ganglia that control visceral functions." [GO_REF:0000021, GOC:cls, GOC:dgh, GOC:dph, GOC:jid, ISBN:0838580343] is_a: GO:0009653 ! anatomical structure morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0001785 ! cranial nerve relationship: part_of GO:0021545 ! cranial nerve development relationship: results_in_morphogenesis_of UBERON:0001785 ! cranial nerve [Term] id: GO:0021603 name: cranial nerve formation namespace: biological_process def: "The process that gives rise to the cranial nerves. This process pertains to the initial formation of a structure from unspecified parts. The cranial nerves are composed of twelve pairs of nerves that emanate from the nervous tissue of the hindbrain. These nerves are sensory, motor, or mixed in nature, and provide the motor and general sensory innervation of the head, neck and viscera. They mediate vision, hearing, olfaction and taste and carry the parasympathetic innervation of the autonomic ganglia that control visceral functions." [GO_REF:0000021, GOC:cls, GOC:dgh, GOC:dph, GOC:jid, ISBN:0838580343] is_a: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: results_in_formation_of UBERON:0001785 ! cranial nerve relationship: part_of GO:0021602 ! cranial nerve morphogenesis relationship: results_in_formation_of UBERON:0001785 ! cranial nerve [Term] id: GO:0021636 name: trigeminal nerve morphogenesis namespace: biological_process def: "The process in which the anatomical structure of the trigeminal nerve is generated and organized. The trigeminal nerve is composed of three large branches. They are the ophthalmic (V1, sensory), maxillary (V2, sensory) and mandibular (V3, motor and sensory) branches. The sensory ophthalmic branch travels through the superior orbital fissure and passes through the orbit to reach the skin of the forehead and top of the head. The maxillary nerve contains sensory branches that reach the pterygopalatine fossa via the inferior orbital fissure (face, cheek and upper teeth) and pterygopalatine canal (soft and hard palate, nasal cavity and pharynx). The motor part of the mandibular branch is distributed to the muscles of mastication, the mylohyoid muscle and the anterior belly of the digastric. The mandibular nerve also innervates the tensor veli palatini and tensor tympani muscles. The sensory part of the mandibular nerve is composed of branches that carry general sensory information from the mucous membranes of the mouth and cheek, anterior two-thirds of the tongue, lower teeth, skin of the lower jaw, side of the head and scalp and meninges of the anterior and middle cranial fossae." [GO_REF:0000021, GOC:cls, GOC:dgh, GOC:dph, GOC:jid, ISBN:0838580343] synonym: "CN V morphogenesis" RELATED [] is_a: GO:0021602 ! cranial nerve morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0001645 ! trigeminal nerve relationship: part_of GO:0021559 ! trigeminal nerve development relationship: results_in_morphogenesis_of UBERON:0001645 ! trigeminal nerve [Term] id: GO:0021638 name: trigeminal nerve formation namespace: biological_process def: "The process that gives rise to the trigeminal nerve. This process pertains to the initial formation of a structure from unspecified parts. The trigeminal nerve is composed of three large branches. They are the ophthalmic (V1, sensory), maxillary (V2, sensory) and mandibular (V3, motor and sensory) branches. The sensory ophthalmic branch travels through the superior orbital fissure and passes through the orbit to reach the skin of the forehead and top of the head. The maxillary nerve contains sensory branches that reach the pterygopalatine fossa via the inferior orbital fissure (face, cheek and upper teeth) and pterygopalatine canal (soft and hard palate, nasal cavity and pharynx). The motor part of the mandibular branch is distributed to the muscles of mastication, the mylohyoid muscle and the anterior belly of the digastric. The mandibular nerve also innervates the tensor veli palatini and tensor tympani muscles. The sensory part of the mandibular nerve is composed of branches that carry general sensory information from the mucous membranes of the mouth and cheek, anterior two-thirds of the tongue, lower teeth, skin of the lower jaw, side of the head and scalp and meninges of the anterior and middle cranial fossae." [GO_REF:0000021, GOC:cls, GOC:dgh, GOC:dph, GOC:jid, ISBN:0838580343] synonym: "CN V biosynthesis" RELATED [] synonym: "CN V formation" RELATED [] is_a: GO:0021603 ! cranial nerve formation intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: results_in_formation_of UBERON:0001645 ! trigeminal nerve relationship: part_of GO:0021636 ! trigeminal nerve morphogenesis relationship: results_in_formation_of UBERON:0001645 ! trigeminal nerve [Term] id: GO:0021654 name: rhombomere boundary formation namespace: biological_process def: "The process that gives rise to a rhombomere boundary. This process pertains to the initial formation of a boundary delimiting a rhombomere. Rhombomeres are transverse segments of the developing rhombencephalon that are lineage restricted, express different genes from one another, and adopt different developmental fates. Rhombomeres are numbered in anterior to posterior order." [GO_REF:0000021, GOC:cls, GOC:dgh, GOC:dph, GOC:jid] is_a: GO:0048859 ! formation of anatomical boundary intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: results_in_formation_of UBERON:0018239 ! rhombomere boundary relationship: part_of GO:0021594 ! rhombomere formation relationship: results_in_formation_of UBERON:0018239 ! rhombomere boundary [Term] id: GO:0021675 name: nerve development namespace: biological_process def: "The process whose specific outcome is the progression of a nerve over time, from its formation to the mature structure." [GO_REF:0000021, GOC:cls, GOC:dgh, GOC:dph, GOC:jid] is_a: GO:0048856 ! anatomical structure development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0001021 ! nerve relationship: part_of GO:0007399 ! nervous system development relationship: results_in_development_of UBERON:0001021 ! nerve [Term] id: GO:0021703 name: locus ceruleus development namespace: biological_process def: "The process whose specific outcome is the progression of the locus ceruleus over time, from its formation to the mature structure. The locus ceruleus is a dense cluster of neurons within the dorsorostral pons. This nucleus is the major location of neurons that release norepinephrine throughout the brain, and is responsible for physiological responses to stress and panic." [GO_REF:0000021, GOC:cls, GOC:dgh, GOC:dph, GOC:jid, ISBN:0838580343] synonym: "locus caeruleus development" EXACT [] synonym: "locus coeruleus development" EXACT [] is_a: GO:0048857 ! neural nucleus development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0002148 ! locus ceruleus relationship: part_of GO:0021548 ! pons development relationship: results_in_development_of UBERON:0002148 ! locus ceruleus [Term] id: GO:0021704 name: locus ceruleus morphogenesis namespace: biological_process def: "The process in which the anatomical structure of the locus ceruleus is generated and organized. In mice, the locus ceruleus is a dense cluster of neurons within the dorsorostral pons. This nucleus is the major location of neurons that release norepinephrine throughout the brain, and is responsible for physiological responses to stress and panic." [GO_REF:0000021, GOC:cls, GOC:dgh, GOC:dph, GOC:jid, ISBN:0838580343] is_a: GO:0009653 ! anatomical structure morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0002148 ! locus ceruleus relationship: part_of GO:0021583 ! pons morphogenesis relationship: part_of GO:0021703 ! locus ceruleus development relationship: results_in_morphogenesis_of UBERON:0002148 ! locus ceruleus [Term] id: GO:0021705 name: locus ceruleus formation namespace: biological_process def: "The process that gives rise to the locus ceruleus. This process pertains to the initial formation of a structure from unspecified parts. In mice, the locus ceruleus is a dense cluster of neurons within the dorsorostral pons. This nucleus is the major location of neurons that release norepinephrine throughout the brain, and is responsible for physiological responses to stress and panic." [GO_REF:0000021, GOC:cls, GOC:dgh, GOC:dph, GOC:jid, ISBN:0838580343] is_a: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: results_in_formation_of UBERON:0002148 ! locus ceruleus relationship: part_of GO:0021584 ! pons formation relationship: part_of GO:0021704 ! locus ceruleus morphogenesis relationship: results_in_formation_of UBERON:0002148 ! locus ceruleus [Term] id: GO:0021718 name: superior olivary nucleus development namespace: biological_process def: "The process whose specific outcome is the progression of the superior olivary nucleus over time, from its formation to the mature structure. In mice, the superior olivary nucleus is a small cylindrical mass on the dorsal surface of the lateral part of the trapezoid body of the pons, and it is situated immediately above the inferior olivary nucleus. It receives projections from the cochlear nucleus and thus is involved in the perception of sound." [GO_REF:0000021, GOC:cls, GOC:dgh, GOC:dph, GOC:jid, ISBN:0838580343] synonym: "superior olive development" RELATED [] is_a: GO:0048857 ! neural nucleus development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0007247 ! nucleus of superior olivary complex relationship: part_of GO:0021548 ! pons development relationship: results_in_development_of UBERON:0007247 ! nucleus of superior olivary complex [Term] id: GO:0021719 name: superior olivary nucleus morphogenesis namespace: biological_process def: "The process in which the anatomical structure of the superior olivary nucleus is generated and organized. In mice, the superior olivary nucleus is a small cylindrical mass on the dorsal surface of the lateral part of the trapezoid body of the pons, and it is situated immediately above the inferior olivary nucleus. It receives projections from the cochlear nucleus and thus is involved in the perception of sound." [GO_REF:0000021, GOC:cls, GOC:dgh, GOC:dph, GOC:jid, ISBN:0838580343] synonym: "superior olive morphogenesis" RELATED [] is_a: GO:0009653 ! anatomical structure morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0007247 ! nucleus of superior olivary complex relationship: part_of GO:0021583 ! pons morphogenesis relationship: part_of GO:0021718 ! superior olivary nucleus development relationship: results_in_morphogenesis_of UBERON:0007247 ! nucleus of superior olivary complex [Term] id: GO:0021720 name: superior olivary nucleus formation namespace: biological_process def: "The process that gives rise to the superior olivary nucleus. This process pertains to the initial formation of a structure from unspecified parts. In mice, the superior olivary nucleus is a small cylindrical mass on the dorsal surface of the lateral part of the trapezoid body of the pons, and it is situated immediately above the inferior olivary nucleus. It receives projections from the cochlear nucleus and thus is involved in the perception of sound." [GO_REF:0000021, GOC:cls, GOC:dgh, GOC:dph, GOC:jid, ISBN:0838580343] is_a: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: results_in_formation_of UBERON:0007247 ! nucleus of superior olivary complex relationship: part_of GO:0021584 ! pons formation relationship: part_of GO:0021719 ! superior olivary nucleus morphogenesis relationship: results_in_formation_of UBERON:0007247 ! nucleus of superior olivary complex [Term] id: GO:0021751 name: salivary nucleus development namespace: biological_process def: "The process whose specific outcome is the progression of a salivary nucleus over time, from its formation to the mature structure." [GO_REF:0000021, GOC:cls, GOC:curators, GOC:dgh, GOC:dph, GOC:jid] is_a: GO:0048857 ! neural nucleus development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0004133 ! salivatory nucleus relationship: part_of GO:0021548 ! pons development relationship: results_in_development_of UBERON:0004133 ! salivatory nucleus [Term] id: GO:0021753 name: superior salivary nucleus development namespace: biological_process def: "The process whose specific outcome is the progression of the superior salivary nucleus over time, from its formation to the mature structure." [GO_REF:0000021, GOC:cls, GOC:curators, GOC:dgh, GOC:dph, GOC:jid] is_a: GO:0021751 ! salivary nucleus development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0002149 ! superior salivatory nucleus relationship: results_in_development_of UBERON:0002149 ! superior salivatory nucleus [Term] id: GO:0021782 name: glial cell development namespace: biological_process def: "The process aimed at the progression of a glial cell over time, from initial commitment of the cell to a specific fate, to the fully functional differentiated cell." [GO_REF:0000021, GOC:cls, GOC:dgh, GOC:dph, GOC:jid] is_a: GO:0048468 ! cell development intersection_of: GO:0032502 ! developmental process intersection_of: results_in_development_of CL:0000125 ! glial cell relationship: part_of GO:0010001 ! glial cell differentiation relationship: results_in_development_of CL:0000125 ! glial cell [Term] id: GO:0021903 name: rostrocaudal neural tube patterning namespace: biological_process def: "The process in which the neural tube is divided into specific regions along the rostrocaudal axis." [GO_REF:0000021, GOC:cls, GOC:dgh, GOC:dph, GOC:jid, PMID:11262869] synonym: "anterior-posterior neural tube patterning" RELATED [GOC:dph] is_a: GO:0009952 ! anterior/posterior pattern specification relationship: part_of GO:0021532 ! neural tube patterning [Term] id: GO:0021906 name: hindbrain-spinal cord boundary formation namespace: biological_process def: "The process whose specific outcome is the formation of the hindbrain-spinal cord boundary." [GO_REF:0000021, GOC:cls, GOC:dgh, GOC:dph, GOC:jid, PMID:11262869] is_a: GO:0048859 ! formation of anatomical boundary intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: results_in_formation_of UBERON:0005076 ! hindbrain-spinal cord boundary relationship: part_of GO:0021903 ! rostrocaudal neural tube patterning relationship: results_in_formation_of UBERON:0005076 ! hindbrain-spinal cord boundary [Term] id: GO:0021915 name: neural tube development namespace: biological_process def: "The process whose specific outcome is the progression of the neural tube over time, from its formation to the mature structure. The mature structure of the neural tube exists when the tube has been segmented into the forebrain, midbrain, hindbrain and spinal cord regions. In addition neural crest has budded away from the epithelium." [GO_REF:0000021, GOC:cls, GOC:dgh, GOC:dph, GOC:jid] is_a: GO:0035295 ! tube development is_a: GO:0060429 ! epithelium development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0001049 ! neural tube relationship: part_of GO:0007399 ! nervous system development relationship: part_of GO:0043009 ! chordate embryonic development relationship: results_in_development_of UBERON:0001049 ! neural tube [Term] id: GO:0021953 name: central nervous system neuron differentiation namespace: biological_process def: "The process in which a relatively unspecialized cell acquires specialized features of a neuron whose cell body resides in the central nervous system." [GO_REF:0000021, GOC:cls, GOC:dgh, GOC:dph, GOC:jid] is_a: GO:0030182 ! neuron differentiation intersection_of: GO:0030154 ! cell differentiation intersection_of: results_in_acquisition_of_features_of CL:2000029 ! central nervous system neuron relationship: part_of GO:0007417 ! central nervous system development relationship: results_in_acquisition_of_features_of CL:2000029 ! central nervous system neuron [Term] id: GO:0021954 name: central nervous system neuron development namespace: biological_process def: "The process whose specific outcome is the progression of a neuron whose cell body is located in the central nervous system, from initial commitment of the cell to a neuronal fate, to the fully functional differentiated neuron." [GO_REF:0000021, GOC:cls, GOC:dgh, GOC:dph, GOC:jid] is_a: GO:0048666 ! neuron development intersection_of: GO:0048468 ! cell development intersection_of: results_in_development_of CL:2000029 ! central nervous system neuron relationship: part_of GO:0021953 ! central nervous system neuron differentiation relationship: results_in_development_of CL:2000029 ! central nervous system neuron [Term] id: GO:0021990 name: neural plate formation namespace: biological_process def: "The formation of the flat, thickened layer of ectodermal cells known as the neural plate. The underlying dorsal mesoderm signals the ectodermal cells above it to elongate into columnar neural plate cells. The neural plate subsequently develops into the neural tube, which gives rise to the central nervous system." [GO_REF:0000021, GOC:cls, GOC:dgh, GOC:dph, GOC:jid, ISBN:0878932437, ISBN:0878932585, PMID:15806586] is_a: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: results_in_formation_of UBERON:0003075 ! neural plate relationship: part_of GO:0001839 ! neural plate morphogenesis relationship: results_in_formation_of UBERON:0003075 ! neural plate [Term] id: GO:0021999 name: neural plate anterior/posterior regionalization namespace: biological_process def: "The process that regulates the coordinated growth and differentiation that establishes the non-random anterior-posterior spatial arrangement of the neural plate." [GO_REF:0000021, GOC:cls, GOC:dgh, GOC:dph, GOC:jid] synonym: "neural plate anterior/posterior pattern formation" RELATED [GOC:dph] is_a: GO:0009952 ! anterior/posterior pattern specification is_a: GO:0060897 ! neural plate regionalization [Term] id: GO:0022008 name: neurogenesis namespace: biological_process def: "Generation of cells within the nervous system." [GO_REF:0000021, GOC:cls, GOC:curators, GOC:dgh, GOC:dph, GOC:jid] synonym: "nervous system cell generation" EXACT systematic_synonym [] synonym: "neural cell differentiation" RELATED [GOC:BHF, GOC:dph] xref: Wikipedia:Neurogenesis is_a: GO:0030154 ! cell differentiation relationship: part_of GO:0007399 ! nervous system development [Term] id: GO:0022009 name: central nervous system vasculogenesis namespace: biological_process def: "The differentiation of endothelial cells from progenitor cells during blood vessel development, and the de novo formation of blood vessels and tubes in the central nervous system. The capillary endothelial cells in the brain are specialized to form the blood-brain barrier." [GO_REF:0000021, GOC:cls, GOC:dgh, GOC:dph, GOC:jid] is_a: GO:0001570 ! vasculogenesis intersection_of: GO:0001570 ! vasculogenesis intersection_of: results_in_maturation_of UBERON:0001017 ! central nervous system relationship: results_in_maturation_of UBERON:0001017 ! central nervous system property_value: IAO:0000233 https://github.com/geneontology/go-ontology/issues/21480 xsd:anyURI [Term] id: GO:0022035 name: rhombomere cell migration namespace: biological_process def: "The movement of a cell within a rhombomere. This process is known to occur as an early step in the generation of anatomical structure from a rhombomere." [GO_REF:0000021, GOC:cls, GOC:dgh, GOC:dph, GOC:jid, PMID:15629700] is_a: GO:0021535 ! cell migration in hindbrain intersection_of: GO:0016477 ! cell migration intersection_of: results_in_transport_to_from_or_in UBERON:0001892 ! rhombomere relationship: part_of GO:0021546 ! rhombomere development relationship: results_in_transport_to_from_or_in UBERON:0001892 ! rhombomere [Term] id: GO:0022037 name: metencephalon development namespace: biological_process def: "The process whose specific outcome is the progression of the metencephalon over time, from its formation to the mature structure." [GO_REF:0000021, GOC:cls, GOC:curators, GOC:dgh, GOC:dph, GOC:jid] is_a: GO:0048856 ! anatomical structure development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0001895 ! metencephalon relationship: part_of GO:0030902 ! hindbrain development relationship: results_in_development_of UBERON:0001895 ! metencephalon [Term] id: GO:0022402 name: cell cycle process namespace: biological_process def: "The cellular process that ensures successive accurate and complete genome replication and chromosome segregation." [GOC:isa_complete, GOC:mtg_cell_cycle] subset: gocheck_do_not_annotate is_a: GO:0009987 ! cellular process intersection_of: GO:0009987 ! cellular process intersection_of: part_of GO:0007049 ! cell cycle relationship: part_of GO:0007049 ! cell cycle [Term] id: GO:0022406 name: membrane docking namespace: biological_process def: "The initial attachment of a membrane or protein to a target membrane. Docking requires only that the proteins come close enough to interact and adhere." [GOC:isa_complete, PMID:27875684] subset: goslim_pir is_a: GO:0009987 ! cellular process [Term] id: GO:0022411 name: cellular component disassembly namespace: biological_process alt_id: GO:0071845 def: "A cellular process that results in the breakdown of a cellular component." [GOC:isa_complete] subset: goslim_pir synonym: "cell structure disassembly" EXACT [] synonym: "cellular component disassembly at cellular level" EXACT [] is_a: GO:0016043 ! cellular component organization intersection_of: GO:0009987 ! cellular process intersection_of: results_in_disassembly_of GO:0005575 ! cellular_component disjoint_from: GO:0022607 ! cellular component assembly relationship: results_in_disassembly_of GO:0005575 ! cellular_component [Term] id: GO:0022412 name: cellular process involved in reproduction in multicellular organism namespace: biological_process def: "A process, occurring at the cellular level, that is involved in the reproductive function of a multicellular organism." [GOC:isa_complete] synonym: "reproductive cellular process in multicellular organism" EXACT [] is_a: GO:0009987 ! cellular process is_a: GO:0022414 ! reproductive process intersection_of: GO:0009987 ! cellular process intersection_of: part_of GO:0032504 ! multicellular organism reproduction relationship: part_of GO:0032504 ! multicellular organism reproduction [Term] id: GO:0022414 name: reproductive process namespace: biological_process alt_id: GO:0044702 def: "A biological process that directly contributes to the process of producing new individuals by one or two organisms. The new individuals inherit some proportion of their genetic material from the parent or parents." [GOC:dph, GOC:isa_complete] subset: goslim_generic synonym: "single organism reproductive process" RELATED [] is_a: GO:0008150 ! biological_process intersection_of: GO:0008150 ! biological_process intersection_of: part_of GO:0000003 ! reproduction relationship: part_of GO:0000003 ! reproduction created_by: jl creation_date: 2012-09-19T15:56:06Z [Term] id: GO:0022600 name: digestive system process namespace: biological_process def: "A physical, chemical, or biochemical process carried out by living organisms to break down ingested nutrients into components that may be easily absorbed and directed into metabolism." [GOC:isa_complete, GOC:jid, GOC:mtg_cardio] subset: goslim_generic is_a: GO:0003008 ! system process intersection_of: GO:0003008 ! system process intersection_of: part_of GO:0007586 ! digestion relationship: part_of GO:0007586 ! digestion [Term] id: GO:0022603 name: regulation of anatomical structure morphogenesis namespace: biological_process def: "Any process that modulates the frequency, rate or extent of anatomical structure morphogenesis." [GOC:mah] synonym: "regulation of morphogenesis" EXACT [] is_a: GO:0050793 ! regulation of developmental process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0009653 ! anatomical structure morphogenesis relationship: regulates GO:0009653 ! anatomical structure morphogenesis [Term] id: GO:0022604 name: regulation of cell morphogenesis namespace: biological_process def: "Any process that modulates the frequency, rate or extent of cell morphogenesis. Cell morphogenesis is the developmental process in which the shape of a cell is generated and organized." [GOC:isa_complete] synonym: "negative regulation of cell shape and cell size" RELATED [GOC:dph, GOC:tb] synonym: "positive regulation of cell shape and cell size" RELATED [GOC:dph, GOC:tb] synonym: "regulation of cell shape and cell size" RELATED [GOC:dph, GOC:tb] is_a: GO:0022603 ! regulation of anatomical structure morphogenesis intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0000902 ! cell morphogenesis relationship: regulates GO:0000902 ! cell morphogenesis [Term] id: GO:0022607 name: cellular component assembly namespace: biological_process alt_id: GO:0071844 def: "The aggregation, arrangement and bonding together of a cellular component." [GOC:isa_complete] subset: goslim_chembl subset: goslim_pir synonym: "cell structure assembly" EXACT [] synonym: "cellular component assembly at cellular level" EXACT [] is_a: GO:0016043 ! cellular component organization intersection_of: GO:0009987 ! cellular process intersection_of: results_in_assembly_of GO:0005575 ! cellular_component relationship: part_of GO:0044085 ! cellular component biogenesis relationship: results_in_assembly_of GO:0005575 ! cellular_component [Term] id: GO:0022612 name: gland morphogenesis namespace: biological_process def: "The process in which the anatomical structures of a gland are generated and organized." [GOC:isa_complete] is_a: GO:0009887 ! animal organ morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0002530 ! gland relationship: part_of GO:0048732 ! gland development relationship: results_in_morphogenesis_of UBERON:0002530 ! gland [Term] id: GO:0022613 name: ribonucleoprotein complex biogenesis namespace: biological_process def: "A cellular process that results in the biosynthesis of constituent macromolecules, assembly, and arrangement of constituent parts of a complex containing RNA and proteins. Includes the biosynthesis of the constituent RNA and protein molecules, and those macromolecular modifications that are involved in synthesis or assembly of the ribonucleoprotein complex." [GOC:isa_complete, GOC:mah] synonym: "ribonucleoprotein complex biogenesis and assembly" EXACT [GOC:mah] synonym: "RNA-protein complex biogenesis" EXACT [GOC:mah] is_a: GO:0044085 ! cellular component biogenesis [Term] id: GO:0022617 name: extracellular matrix disassembly namespace: biological_process def: "A process that results in the breakdown of the extracellular matrix." [GOC:jid] is_a: GO:0022411 ! cellular component disassembly is_a: GO:0030198 ! extracellular matrix organization intersection_of: GO:0022411 ! cellular component disassembly intersection_of: results_in_disassembly_of GO:0031012 ! extracellular matrix relationship: results_in_disassembly_of GO:0031012 ! extracellular matrix [Term] id: GO:0022618 name: ribonucleoprotein complex assembly namespace: biological_process def: "The aggregation, arrangement and bonding together of proteins and RNA molecules to form a ribonucleoprotein complex." [GOC:jl] subset: goslim_chembl synonym: "protein-RNA complex assembly" EXACT [] synonym: "RNA-protein complex assembly" EXACT [] synonym: "RNP complex assembly" EXACT [] is_a: GO:0065003 ! protein-containing complex assembly is_a: GO:0071826 ! ribonucleoprotein complex subunit organization intersection_of: GO:0022607 ! cellular component assembly intersection_of: results_in_assembly_of GO:1990904 ! ribonucleoprotein complex relationship: part_of GO:0022613 ! ribonucleoprotein complex biogenesis relationship: results_in_assembly_of GO:1990904 ! ribonucleoprotein complex [Term] id: GO:0023019 name: signal transduction involved in regulation of gene expression namespace: biological_process def: "Any process that modulates the frequency, rate or extent of gene expression as a consequence of a process in which a signal is released and/or conveyed from one location to another." [GOC:mtg_signal] synonym: "regulation of gene expression as a consequence of signal transmission" RELATED [GOC:bf] is_a: GO:0007165 ! signal transduction intersection_of: GO:0007165 ! signal transduction intersection_of: part_of GO:0010468 ! regulation of gene expression relationship: part_of GO:0010468 ! regulation of gene expression creation_date: 2010-02-16T09:30:50Z [Term] id: GO:0023051 name: regulation of signaling namespace: biological_process def: "Any process that modulates the frequency, rate or extent of a signaling process." [GOC:mtg_signal] synonym: "regulation of signaling process" RELATED [GOC:bf] synonym: "regulation of signalling process" RELATED [GOC:mah] is_a: GO:0050789 ! regulation of biological process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0023052 ! signaling relationship: regulates GO:0023052 ! signaling creation_date: 2010-02-16T09:30:50Z [Term] id: GO:0023052 name: signaling namespace: biological_process alt_id: GO:0023046 alt_id: GO:0044700 def: "The entirety of a process in which information is transmitted within a biological system. This process begins with an active signal and ends when a cellular response has been triggered." [GOC:mtg_signal, GOC:mtg_signaling_feb11, GOC:signaling] comment: Note that a signal is any variable property or parameter that serves to convey information, and may be a physical entity such as a gene product or small molecule, a photon, or a change in state such as movement or voltage change. subset: goslim_agr subset: goslim_flybase_ribbon subset: goslim_generic subset: goslim_mouse subset: goslim_pombe subset: goslim_yeast synonym: "biological signaling" EXACT [] synonym: "signaling process" EXACT [] synonym: "signalling" EXACT [] synonym: "signalling process" RELATED [GOC:mah] synonym: "single organism signaling" RELATED [] is_a: GO:0008150 ! biological_process created_by: jl creation_date: 2010-02-16T09:30:50Z [Term] id: GO:0023056 name: positive regulation of signaling namespace: biological_process def: "Any process that activates, maintains or increases the frequency, rate or extent of a signaling process." [GOC:mtg_signal] synonym: "positive regulation of signaling process" RELATED [GOC:bf] synonym: "positive regulation of signalling process" EXACT [GOC:mah] is_a: GO:0023051 ! regulation of signaling is_a: GO:0048518 ! positive regulation of biological process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0023052 ! signaling relationship: positively_regulates GO:0023052 ! signaling creation_date: 2010-02-16T09:30:50Z [Term] id: GO:0023057 name: negative regulation of signaling namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of a signaling process." [GOC:mtg_signal] synonym: "negative regulation of signaling process" RELATED [GOC:bf] synonym: "negative regulation of signalling process" RELATED [GOC:mah] is_a: GO:0023051 ! regulation of signaling is_a: GO:0048519 ! negative regulation of biological process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0023052 ! signaling relationship: negatively_regulates GO:0023052 ! signaling creation_date: 2010-02-16T09:30:50Z [Term] id: GO:0023061 name: signal release namespace: biological_process def: "The process in which a signal is secreted or discharged into the extracellular medium from a cellular source." [GOC:mtg_signal] synonym: "signal secretion" EXACT [GOC:bf] is_a: GO:0032940 ! secretion by cell intersection_of: GO:0032940 ! secretion by cell intersection_of: part_of GO:0007267 ! cell-cell signaling relationship: part_of GO:0007267 ! cell-cell signaling creation_date: 2010-02-16T09:30:50Z [Term] id: GO:0030016 name: myofibril namespace: cellular_component def: "The contractile element of skeletal and cardiac muscle; a long, highly organized bundle of actin, myosin, and other proteins that contracts by a sliding filament mechanism." [ISBN:0815316194] xref: Wikipedia:Myofibril is_a: GO:0043292 ! contractile fiber intersection_of: GO:0043292 ! contractile fiber intersection_of: part_of CL:0000737 ! striated muscle cell relationship: part_of CL:0000737 ! striated muscle cell [Term] id: GO:0030017 name: sarcomere namespace: cellular_component def: "The repeating unit of a myofibril in a muscle cell, composed of an array of overlapping thick and thin filaments between two adjacent Z discs." [ISBN:0815316194] xref: Wikipedia:Sarcomere is_a: CARO:0000000 ! anatomical entity is_a: GO:0110165 ! cellular anatomical entity relationship: part_of GO:0030016 ! myofibril [Term] id: GO:0030029 name: actin filament-based process namespace: biological_process def: "Any cellular process that depends upon or alters the actin cytoskeleton, that part of the cytoskeleton comprising actin filaments and their associated proteins." [GOC:mah] synonym: "microfilament-based process" RELATED [] is_a: GO:0009987 ! cellular process [Term] id: GO:0030030 name: cell projection organization namespace: biological_process def: "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of a prolongation or process extending from a cell, e.g. a flagellum or axon." [GOC:jl, GOC:mah, http://www.cogsci.princeton.edu/~wn/] synonym: "cell projection organisation" EXACT [] synonym: "cell projection organization and biogenesis" RELATED [GOC:mah] synonym: "cell surface structure organization and biogenesis" RELATED [GOC:mah] is_a: GO:0016043 ! cellular component organization intersection_of: GO:0016043 ! cellular component organization intersection_of: results_in_organization_of GO:0042995 ! cell projection relationship: results_in_organization_of GO:0042995 ! cell projection [Term] id: GO:0030031 name: cell projection assembly namespace: biological_process def: "Formation of a prolongation or process extending from a cell, e.g. a flagellum or axon." [GOC:jl, GOC:mah, http://www.cogsci.princeton.edu/~wn/] synonym: "cell projection biogenesis" RELATED [GOC:mah] synonym: "formation of a cell surface projection" EXACT [] is_a: GO:0022607 ! cellular component assembly is_a: GO:0030030 ! cell projection organization intersection_of: GO:0022607 ! cellular component assembly intersection_of: results_in_assembly_of GO:0042995 ! cell projection relationship: results_in_assembly_of GO:0042995 ! cell projection [Term] id: GO:0030036 name: actin cytoskeleton organization namespace: biological_process def: "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of cytoskeletal structures comprising actin filaments and their associated proteins." [GOC:dph, GOC:jl, GOC:mah] subset: goslim_pombe synonym: "actin cytoskeleton organisation" EXACT [] synonym: "actin cytoskeleton organization and biogenesis" RELATED [GOC:mah] synonym: "actin modulating activity" RELATED [] is_a: GO:0007010 ! cytoskeleton organization is_a: GO:0030029 ! actin filament-based process intersection_of: GO:0016043 ! cellular component organization intersection_of: results_in_organization_of GO:0015629 ! actin cytoskeleton relationship: results_in_organization_of GO:0015629 ! actin cytoskeleton [Term] id: GO:0030054 name: cell junction namespace: cellular_component def: "A cellular component that forms a specialized region of connection between two or more cells, or between a cell and the extracellular matrix, or between two membrane-bound components of a cell, such as flagella." [GOC:aruk, GOC:bc, GOC:mah, http://www.vivo.colostate.edu/hbooks/cmb/cells/pmemb/junctions_a.html, ISBN:0198506732, PMID:26820516, PMID:28096264] subset: goslim_agr subset: goslim_drosophila subset: goslim_flybase_ribbon xref: Wikipedia:Cell_junction is_a: GO:0110165 ! cellular anatomical entity property_value: RO:0002161 NCBITaxon:4751 [Term] id: GO:0030072 name: peptide hormone secretion namespace: biological_process def: "The regulated release of a peptide hormone from a cell." [GOC:mah] is_a: GO:0002790 ! peptide secretion is_a: GO:0046879 ! hormone secretion intersection_of: GO:0046903 ! secretion intersection_of: transports_or_maintains_localization_of CHEBI:25905 ! peptide hormone relationship: transports_or_maintains_localization_of CHEBI:25905 ! peptide hormone [Term] id: GO:0030097 name: hemopoiesis namespace: biological_process def: "The process whose specific outcome is the progression of the myeloid and lymphoid derived organ/tissue systems of the blood and other parts of the body over time, from formation to the mature structure. The site of hemopoiesis is variable during development, but occurs primarily in bone marrow or kidney in many adult vertebrates." [GOC:dgh, ISBN:0198506732] synonym: "blood cell biosynthesis" EXACT [] synonym: "blood cell formation" EXACT [] synonym: "haemopoiesis" EXACT [] synonym: "hematopoiesis" EXACT [] xref: Wikipedia:Haematopoiesis is_a: GO:0048534 ! hematopoietic or lymphoid organ development [Term] id: GO:0030099 name: myeloid cell differentiation namespace: biological_process def: "The process in which a relatively unspecialized myeloid precursor cell acquires the specialized features of any cell of the myeloid leukocyte, megakaryocyte, thrombocyte, or erythrocyte lineages." [GOC:add, ISBN:0781735149] is_a: GO:0030154 ! cell differentiation intersection_of: GO:0030154 ! cell differentiation intersection_of: results_in_acquisition_of_features_of CL:0000763 ! myeloid cell relationship: part_of GO:0030097 ! hemopoiesis relationship: results_in_acquisition_of_features_of CL:0000763 ! myeloid cell [Term] id: GO:0030133 name: transport vesicle namespace: cellular_component def: "Any of the vesicles of the constitutive secretory pathway, which carry cargo from the endoplasmic reticulum to the Golgi, between Golgi cisternae, from the Golgi to the ER (retrograde transport) or to destinations within or outside the cell." [GOC:mah, PMID:22160157] comment: Note that the term 'secretory vesicle' is sometimes used in this sense, but can also mean 'secretory granule ; GO:0030141'. synonym: "constitutive secretory pathway transport vesicle" EXACT [] synonym: "Golgi to vacuole transport vesicle" NARROW [] synonym: "Golgi-vacuole transport vesicle" NARROW [] synonym: "secretory vesicle" RELATED [] xref: NIF_Subcellular:sao885490876 is_a: GO:0031410 ! cytoplasmic vesicle relationship: part_of GO:0012505 ! endomembrane system [Term] id: GO:0030154 name: cell differentiation namespace: biological_process def: "The process in which relatively unspecialized cells, e.g. embryonic or regenerative cells, acquire specialized structural and/or functional features that characterize the cells, tissues, or organs of the mature organism or some other relatively stable phase of the organism's life history. Differentiation includes the processes involved in commitment of a cell to a specific fate and its subsequent development to the mature state." [ISBN:0198506732] subset: goslim_agr subset: goslim_chembl subset: goslim_drosophila subset: goslim_generic subset: goslim_mouse subset: goslim_plant xref: Wikipedia:Cellular_differentiation is_a: GO:0048869 ! cellular developmental process intersection_of: GO:0048869 ! cellular developmental process intersection_of: results_in_acquisition_of_features_of CL:0000000 ! cell relationship: results_in_acquisition_of_features_of CL:0000000 ! cell [Term] id: GO:0030182 name: neuron differentiation namespace: biological_process def: "The process in which a relatively unspecialized cell acquires specialized features of a neuron." [GOC:mah] is_a: GO:0030154 ! cell differentiation intersection_of: GO:0030154 ! cell differentiation intersection_of: results_in_acquisition_of_features_of CL:0000540 ! neuron relationship: part_of GO:0048699 ! generation of neurons relationship: results_in_acquisition_of_features_of CL:0000540 ! neuron [Term] id: GO:0030198 name: extracellular matrix organization namespace: biological_process def: "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of an extracellular matrix." [GOC:mah] subset: goslim_chembl subset: goslim_drosophila subset: goslim_generic synonym: "extracellular matrix organisation" EXACT [] synonym: "extracellular matrix organization and biogenesis" RELATED [GOC:mah] is_a: GO:0043062 ! extracellular structure organization is_a: GO:0045229 ! external encapsulating structure organization intersection_of: GO:0016043 ! cellular component organization intersection_of: results_in_organization_of GO:0031012 ! extracellular matrix relationship: results_in_organization_of GO:0031012 ! extracellular matrix [Term] id: GO:0030199 name: collagen fibril organization namespace: biological_process def: "Any process that determines the size and arrangement of collagen fibrils within an extracellular matrix." [GOC:mah, ISBN:0815316194] synonym: "collagen fibril organisation" EXACT [] synonym: "fibrillar collagen organization" EXACT [GOC:mah] is_a: GO:0030198 ! extracellular matrix organization is_a: GO:0097435 ! supramolecular fiber organization intersection_of: GO:0016043 ! cellular component organization intersection_of: results_in_organization_of GO:0098643 ! banded collagen fibril relationship: results_in_organization_of GO:0098643 ! banded collagen fibril property_value: RO:0002161 NCBITaxon:4751 [Term] id: GO:0030203 name: glycosaminoglycan metabolic process namespace: biological_process def: "The chemical reactions and pathways involving glycosaminoglycans, any of a group of polysaccharides that contain amino sugars." [ISBN:0192800981] synonym: "glycosaminoglycan metabolism" EXACT [] is_a: GO:0006022 ! aminoglycan metabolic process intersection_of: GO:0008152 ! metabolic process intersection_of: has_primary_input_or_output CHEBI:18085 ! glycosaminoglycan relationship: has_primary_input_or_output CHEBI:18085 ! glycosaminoglycan [Term] id: GO:0030212 name: hyaluronan metabolic process namespace: biological_process def: "The chemical reactions and pathways involving hyaluronan, the naturally occurring anionic form of hyaluronic acid, any member of a group of glycosaminoglycans, the repeat units of which consist of beta-1,4 linked D-glucuronyl-beta-(1,3)-N-acetyl-D-glucosamine." [GOC:mah, ISBN:0198506732] synonym: "hyaluronan metabolism" EXACT [] is_a: GO:1903510 ! mucopolysaccharide metabolic process intersection_of: GO:0008152 ! metabolic process intersection_of: has_primary_input_or_output CHEBI:16336 ! hyaluronic acid relationship: has_primary_input_or_output CHEBI:16336 ! hyaluronic acid [Term] id: GO:0030213 name: hyaluronan biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of hyaluronan, the naturally occurring anionic form of hyaluronic acid, any member of a group of glycosaminoglycans, the repeat units of which consist of beta-1,4 linked D-glucuronyl-beta-(1,3)-N-acetyl-D-glucosamine." [GOC:mah, ISBN:0198506732] synonym: "hyaluronan anabolism" EXACT [] synonym: "hyaluronan biosynthesis" EXACT [] synonym: "hyaluronan formation" EXACT [] synonym: "hyaluronan synthesis" EXACT [] is_a: GO:0006024 ! glycosaminoglycan biosynthetic process is_a: GO:0030212 ! hyaluronan metabolic process intersection_of: GO:0009058 ! biosynthetic process intersection_of: has_primary_output CHEBI:16336 ! hyaluronic acid relationship: has_primary_output CHEBI:16336 ! hyaluronic acid [Term] id: GO:0030218 name: erythrocyte differentiation namespace: biological_process def: "The process in which a myeloid precursor cell acquires specializes features of an erythrocyte." [GOC:mah] synonym: "erythrocyte cell differentiation" EXACT [] synonym: "erythropoiesis" EXACT [GOC:add, GOC:dph] synonym: "RBC differentiation" EXACT [CL:0000232] synonym: "red blood cell differentiation" EXACT [CL:0000232] xref: Wikipedia:Erythropoiesis is_a: GO:0030099 ! myeloid cell differentiation intersection_of: GO:0030154 ! cell differentiation intersection_of: results_in_acquisition_of_features_of CL:0000232 ! erythrocyte relationship: part_of GO:0034101 ! erythrocyte homeostasis relationship: results_in_acquisition_of_features_of CL:0000232 ! erythrocyte [Term] id: GO:0030219 name: megakaryocyte differentiation namespace: biological_process def: "The process in which a myeloid precursor cell acquires specializes features of a megakaryocyte." [GOC:mah] synonym: "megakaryocyte cell differentiation" EXACT [] is_a: GO:0030099 ! myeloid cell differentiation intersection_of: GO:0030154 ! cell differentiation intersection_of: results_in_acquisition_of_features_of CL:0000556 ! megakaryocyte relationship: results_in_acquisition_of_features_of CL:0000556 ! megakaryocyte [Term] id: GO:0030239 name: myofibril assembly namespace: biological_process def: "Formation of myofibrils, the repeating units of striated muscle." [GOC:mah] is_a: GO:0010927 ! cellular component assembly involved in morphogenesis is_a: GO:0031032 ! actomyosin structure organization is_a: GO:0097435 ! supramolecular fiber organization is_a: GO:0140694 ! non-membrane-bounded organelle assembly intersection_of: GO:0022607 ! cellular component assembly intersection_of: results_in_assembly_of GO:0030016 ! myofibril relationship: part_of GO:0055002 ! striated muscle cell development relationship: results_in_assembly_of GO:0030016 ! myofibril [Term] id: GO:0030246 name: carbohydrate binding namespace: molecular_function alt_id: GO:0005529 def: "Binding to a carbohydrate, which includes monosaccharides, oligosaccharides and polysaccharides as well as substances derived from monosaccharides by reduction of the carbonyl group (alditols), by oxidation of one or more hydroxy groups to afford the corresponding aldehydes, ketones, or carboxylic acids, or by replacement of one or more hydroxy group(s) by a hydrogen atom. Cyclitols are generally not regarded as carbohydrates." [GOC:mah] subset: goslim_agr subset: goslim_chembl subset: goslim_drosophila subset: goslim_flybase_ribbon subset: goslim_metagenomics subset: goslim_pir subset: goslim_plant synonym: "selectin" RELATED [] synonym: "sugar binding" EXACT [] is_a: GO:0005488 ! binding intersection_of: GO:0005488 ! binding intersection_of: has_input CHEBI:16646 ! carbohydrate relationship: has_input CHEBI:16646 ! carbohydrate [Term] id: GO:0030247 name: polysaccharide binding namespace: molecular_function alt_id: GO:0002506 def: "Binding to a polysaccharide, a polymer of many (typically more than 10) monosaccharide residues linked glycosidically." [GOC:mah] synonym: "polysaccharide assembly with MHC class II protein complex" NARROW [] is_a: GO:0030246 ! carbohydrate binding intersection_of: GO:0005488 ! binding intersection_of: has_input CHEBI:18154 ! polysaccharide relationship: has_input CHEBI:18154 ! polysaccharide [Term] id: GO:0030261 name: chromosome condensation namespace: biological_process alt_id: GO:0000068 def: "The progressive compaction of dispersed interphase chromatin into threadlike chromosomes prior to mitotic or meiotic nuclear division, or during apoptosis, in eukaryotic cells." [GOC:mah, ISBN:0815316194] synonym: "DNA condensation" BROAD [Wikipedia:DNA_condensation] synonym: "eukaryotic chromosome condensation" EXACT [GOC:bf] synonym: "nuclear chromosome condensation" EXACT [GOC:bf] is_a: GO:0006323 ! DNA packaging [Term] id: GO:0030262 name: apoptotic nuclear changes namespace: biological_process def: "Alterations undergone by nuclei at the molecular and morphological level as part of the execution phase of apoptosis." [GOC:mah, GOC:mtg_apoptosis] synonym: "apoptotic nuclear change" NARROW [] is_a: GO:0006921 ! cellular component disassembly involved in execution phase of apoptosis [Term] id: GO:0030263 name: apoptotic chromosome condensation namespace: biological_process def: "The compaction of chromatin during apoptosis." [GOC:mah] synonym: "pyknosis" EXACT [] xref: Wikipedia:Pyknosis is_a: GO:0030261 ! chromosome condensation relationship: part_of GO:0030262 ! apoptotic nuclear changes [Term] id: GO:0030264 name: nuclear fragmentation involved in apoptotic nuclear change namespace: biological_process def: "The breakdown of the nucleus into small membrane-bounded compartments, or blebs, each of which contain compacted DNA." [GOC:dph, GOC:mah, GOC:mtg_apoptosis, GOC:tb, ISBN:0721639976] synonym: "apoptotic nuclear fragmentation" EXACT [] synonym: "nuclear fragmentation during apoptosis" RELATED [GOC:dph, GOC:tb] synonym: "nucleus fragmentation" EXACT [] is_a: GO:0071763 ! nuclear membrane organization intersection_of: GO:0071763 ! nuclear membrane organization intersection_of: part_of GO:0030262 ! apoptotic nuclear changes relationship: part_of GO:0030262 ! apoptotic nuclear changes [Term] id: GO:0030278 name: regulation of ossification namespace: biological_process def: "Any process that modulates the frequency, rate or extent of ossification, the formation of bone or of a bony substance or the conversion of fibrous tissue or of cartilage into bone or a bony substance." [GOC:go_curators] synonym: "regulation of bone biosynthesis" EXACT [] synonym: "regulation of bone formation" EXACT [] is_a: GO:0051239 ! regulation of multicellular organismal process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0001503 ! ossification relationship: regulates GO:0001503 ! ossification [Term] id: GO:0030279 name: negative regulation of ossification namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of ossification, the formation of bone or of a bony substance or the conversion of fibrous tissue or of cartilage into bone or a bony substance." [GOC:go_curators] synonym: "down regulation of ossification" EXACT [] synonym: "down-regulation of ossification" EXACT [] synonym: "downregulation of ossification" EXACT [] synonym: "inhibition of ossification" NARROW [] synonym: "negative regulation of bone biosynthesis" EXACT [] synonym: "negative regulation of bone formation" EXACT [] is_a: GO:0030278 ! regulation of ossification is_a: GO:0051241 ! negative regulation of multicellular organismal process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0001503 ! ossification relationship: negatively_regulates GO:0001503 ! ossification [Term] id: GO:0030307 name: positive regulation of cell growth namespace: biological_process def: "Any process that activates or increases the frequency, rate, extent or direction of cell growth." [GOC:go_curators] synonym: "activation of cell growth" NARROW [] synonym: "stimulation of cell growth" NARROW [] synonym: "up regulation of cell growth" EXACT [] synonym: "up-regulation of cell growth" EXACT [] synonym: "upregulation of cell growth" EXACT [] is_a: GO:0001558 ! regulation of cell growth is_a: GO:0045927 ! positive regulation of growth is_a: GO:0048522 ! positive regulation of cellular process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0016049 ! cell growth relationship: positively_regulates GO:0016049 ! cell growth [Term] id: GO:0030308 name: negative regulation of cell growth namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, extent or direction of cell growth." [GOC:go_curators] synonym: "down regulation of cell growth" EXACT [] synonym: "down-regulation of cell growth" EXACT [] synonym: "downregulation of cell growth" EXACT [] synonym: "inhibition of cell growth" NARROW [] is_a: GO:0001558 ! regulation of cell growth is_a: GO:0045926 ! negative regulation of growth is_a: GO:0048523 ! negative regulation of cellular process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0016049 ! cell growth relationship: negatively_regulates GO:0016049 ! cell growth [Term] id: GO:0030312 name: external encapsulating structure namespace: cellular_component def: "A structure that lies outside the plasma membrane and surrounds the entire cell or cells. This does not include the periplasmic space." [GOC:go_curators] comment: The outer membrane (of gram negative bacteria) or cell wall (of yeast or Gram positive bacteria) are defined as parts of this structure, see 'external encapsulating structure part'. subset: goslim_chembl subset: goslim_drosophila subset: goslim_generic subset: goslim_pir subset: goslim_plant is_a: GO:0110165 ! cellular anatomical entity relationship: part_of CL:0000000 ! cell relationship: part_of GO:0071944 ! cell periphery [Term] id: GO:0030323 name: respiratory tube development namespace: biological_process def: "The process whose specific outcome is the progression of the respiratory tube over time, from its formation to the mature structure. The respiratory tube is assumed to mean any tube in the respiratory tract." [GOC:jid] is_a: GO:0035295 ! tube development is_a: GO:0048513 ! animal organ development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0000117 ! respiratory tube relationship: results_in_development_of UBERON:0000117 ! respiratory tube [Term] id: GO:0030324 name: lung development namespace: biological_process def: "The process whose specific outcome is the progression of the lung over time, from its formation to the mature structure. In all air-breathing vertebrates the lungs are developed from the ventral wall of the oesophagus as a pouch which divides into two sacs. In amphibians and many reptiles the lungs retain very nearly this primitive sac-like character, but in the higher forms the connection with the esophagus becomes elongated into the windpipe and the inner walls of the sacs become more and more divided, until, in the mammals, the air spaces become minutely divided into tubes ending in small air cells, in the walls of which the blood circulates in a fine network of capillaries. In mammals the lungs are more or less divided into lobes, and each lung occupies a separate cavity in the thorax." [GOC:jid, UBERON:0002048] is_a: GO:0048513 ! animal organ development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0002048 ! lung relationship: part_of GO:0030323 ! respiratory tube development relationship: part_of GO:0060541 ! respiratory system development relationship: results_in_development_of UBERON:0002048 ! lung [Term] id: GO:0030334 name: regulation of cell migration namespace: biological_process def: "Any process that modulates the frequency, rate or extent of cell migration." [GOC:go_curators] is_a: GO:2000145 ! regulation of cell motility intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0016477 ! cell migration relationship: regulates GO:0016477 ! cell migration [Term] id: GO:0030335 name: positive regulation of cell migration namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of cell migration." [GOC:go_curators] synonym: "activation of cell migration" NARROW [] synonym: "stimulation of cell migration" NARROW [] synonym: "up regulation of cell migration" EXACT [] synonym: "up-regulation of cell migration" EXACT [] synonym: "upregulation of cell migration" EXACT [] is_a: GO:0030334 ! regulation of cell migration is_a: GO:2000147 ! positive regulation of cell motility intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0016477 ! cell migration relationship: positively_regulates GO:0016477 ! cell migration [Term] id: GO:0030336 name: negative regulation of cell migration namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of cell migration." [GOC:go_curators] synonym: "down regulation of cell migration" EXACT [] synonym: "down-regulation of cell migration" EXACT [] synonym: "downregulation of cell migration" EXACT [] synonym: "inhibition of cell migration" NARROW [] is_a: GO:0030334 ! regulation of cell migration is_a: GO:2000146 ! negative regulation of cell motility intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0016477 ! cell migration relationship: negatively_regulates GO:0016477 ! cell migration [Term] id: GO:0030397 name: membrane disassembly namespace: biological_process def: "The controlled breakdown of any cell membrane in the context of a normal process such as autophagy." [GOC:mah] synonym: "membrane breakdown" EXACT [] synonym: "membrane catabolism" EXACT [] synonym: "membrane degradation" EXACT [] is_a: GO:0022411 ! cellular component disassembly is_a: GO:0061024 ! membrane organization intersection_of: GO:0022411 ! cellular component disassembly intersection_of: results_in_disassembly_of GO:0016020 ! membrane relationship: results_in_disassembly_of GO:0016020 ! membrane [Term] id: GO:0030473 name: nuclear migration along microtubule namespace: biological_process alt_id: GO:0000065 def: "The directed movement of the nucleus along microtubules within the cell, mediated by motor proteins." [GOC:mah, GOC:sgd_curators] synonym: "microtubule cytoskeleton-dependent nuclear positioning" EXACT [] synonym: "microtubule cytoskeleton-dependent nucleus positioning" EXACT [] synonym: "microtubule-dependent nuclear positioning" EXACT [] synonym: "microtubule-dependent nucleus positioning" EXACT [] synonym: "microtubule-mediated nuclear migration" EXACT [] synonym: "nuclear migration, microtubule-mediated" EXACT [] synonym: "nuclear movement, microtubule-mediated" BROAD [] synonym: "nucleus migration" BROAD [] synonym: "transport of nucleus by microtubules" EXACT [] synonym: "transport of nucleus, microtubule-mediated" EXACT [] is_a: GO:0007097 ! nuclear migration is_a: GO:0072384 ! organelle transport along microtubule intersection_of: GO:0007097 ! nuclear migration intersection_of: results_in_transport_along GO:0015630 ! microtubule cytoskeleton relationship: results_in_transport_along GO:0015630 ! microtubule cytoskeleton [Term] id: GO:0030485 name: smooth muscle contractile fiber namespace: cellular_component def: "The contractile fiber of smooth muscle cells." [GOC:mah] is_a: GO:0043292 ! contractile fiber intersection_of: GO:0043292 ! contractile fiber intersection_of: part_of CL:0000192 ! smooth muscle cell relationship: part_of CL:0000192 ! smooth muscle cell [Term] id: GO:0030658 name: transport vesicle membrane namespace: cellular_component def: "The lipid bilayer surrounding a transport vesicle." [GOC:mah] synonym: "constitutive secretory pathway transport vesicle membrane" EXACT [] synonym: "secretory vesicle membrane" BROAD [] is_a: GO:0030659 ! cytoplasmic vesicle membrane is_a: GO:0098588 ! bounding membrane of organelle intersection_of: GO:0016020 ! membrane intersection_of: bounding_layer_of GO:0030133 ! transport vesicle relationship: bounding_layer_of GO:0030133 ! transport vesicle relationship: part_of GO:0030133 ! transport vesicle [Term] id: GO:0030659 name: cytoplasmic vesicle membrane namespace: cellular_component def: "The lipid bilayer surrounding a cytoplasmic vesicle." [GOC:mah] is_a: GO:0012506 ! vesicle membrane intersection_of: GO:0016020 ! membrane intersection_of: part_of GO:0031410 ! cytoplasmic vesicle relationship: part_of GO:0031410 ! cytoplasmic vesicle [Term] id: GO:0030660 name: Golgi-associated vesicle membrane namespace: cellular_component def: "The lipid bilayer surrounding a vesicle associated with the Golgi apparatus." [GOC:mah] synonym: "Golgi vesicle membrane" RELATED [] is_a: GO:0030659 ! cytoplasmic vesicle membrane is_a: GO:0098588 ! bounding membrane of organelle intersection_of: GO:0016020 ! membrane intersection_of: bounding_layer_of GO:0005798 ! Golgi-associated vesicle relationship: bounding_layer_of GO:0005798 ! Golgi-associated vesicle relationship: part_of GO:0005798 ! Golgi-associated vesicle [Term] id: GO:0030705 name: cytoskeleton-dependent intracellular transport namespace: biological_process def: "The directed movement of substances along cytoskeletal fibers such as microfilaments or microtubules within a cell." [GOC:mah] subset: goslim_chembl subset: goslim_drosophila is_a: GO:0046907 ! intracellular transport intersection_of: GO:0046907 ! intracellular transport intersection_of: results_in_transport_along GO:0099513 ! polymeric cytoskeletal fiber relationship: results_in_transport_along GO:0099513 ! polymeric cytoskeletal fiber [Term] id: GO:0030855 name: epithelial cell differentiation namespace: biological_process def: "The process in which a relatively unspecialized cell acquires specialized features of an epithelial cell, any of the cells making up an epithelium." [GOC:ecd, PMID:11839751] is_a: GO:0030154 ! cell differentiation intersection_of: GO:0030154 ! cell differentiation intersection_of: results_in_acquisition_of_features_of CL:0000066 ! epithelial cell relationship: part_of GO:0060429 ! epithelium development relationship: results_in_acquisition_of_features_of CL:0000066 ! epithelial cell [Term] id: GO:0030856 name: regulation of epithelial cell differentiation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of epithelial cell differentiation." [GOC:mah] is_a: GO:0045595 ! regulation of cell differentiation is_a: GO:2000026 ! regulation of multicellular organismal development intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0030855 ! epithelial cell differentiation relationship: regulates GO:0030855 ! epithelial cell differentiation [Term] id: GO:0030857 name: negative regulation of epithelial cell differentiation namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of epithelial cell differentiation." [GOC:mah] synonym: "down regulation of epithelial cell differentiation" EXACT [] synonym: "down-regulation of epithelial cell differentiation" EXACT [] synonym: "downregulation of epithelial cell differentiation" EXACT [] synonym: "inhibition of epithelial cell differentiation" NARROW [] is_a: GO:0030856 ! regulation of epithelial cell differentiation is_a: GO:0045596 ! negative regulation of cell differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0030855 ! epithelial cell differentiation relationship: negatively_regulates GO:0030855 ! epithelial cell differentiation [Term] id: GO:0030858 name: positive regulation of epithelial cell differentiation namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of epithelial cell differentiation." [GOC:mah] synonym: "activation of epithelial cell differentiation" NARROW [] synonym: "stimulation of epithelial cell differentiation" NARROW [] synonym: "up regulation of epithelial cell differentiation" EXACT [] synonym: "up-regulation of epithelial cell differentiation" EXACT [] synonym: "upregulation of epithelial cell differentiation" EXACT [] is_a: GO:0030856 ! regulation of epithelial cell differentiation is_a: GO:0045597 ! positive regulation of cell differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0030855 ! epithelial cell differentiation relationship: positively_regulates GO:0030855 ! epithelial cell differentiation [Term] id: GO:0030901 name: midbrain development namespace: biological_process def: "The process whose specific outcome is the progression of the midbrain over time, from its formation to the mature structure. The midbrain is the middle division of the three primary divisions of the developing chordate brain or the corresponding part of the adult brain (in vertebrates, includes a ventral part containing the cerebral peduncles and a dorsal tectum containing the corpora quadrigemina and that surrounds the aqueduct of Sylvius connecting the third and fourth ventricles)." [http://www2.merriam-webster.com/cgi-bin/mwmednlm?book=Medical&va=midbrain] synonym: "mesencephalon development" EXACT [] is_a: GO:0048856 ! anatomical structure development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0001891 ! midbrain relationship: part_of GO:0007420 ! brain development relationship: results_in_development_of UBERON:0001891 ! midbrain [Term] id: GO:0030902 name: hindbrain development namespace: biological_process def: "The process whose specific outcome is the progression of the hindbrain over time, from its formation to the mature structure. The hindbrain is the posterior of the three primary divisions of the developing chordate brain, or the corresponding part of the adult brain (in vertebrates, includes the cerebellum, pons, and medulla oblongata and controls the autonomic functions and equilibrium)." [http://www2.merriam-webster.com/cgi-bin/mwmednlm?book=Medical&va=hindbrain] synonym: "rhombencephalon development" EXACT [] is_a: GO:0048856 ! anatomical structure development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0002028 ! hindbrain relationship: part_of GO:0007420 ! brain development relationship: results_in_development_of UBERON:0002028 ! hindbrain [Term] id: GO:0030903 name: notochord development namespace: biological_process def: "The process whose specific outcome is the progression of the notochord over time, from its formation to the mature structure. The notochord is a mesoderm-derived structure located ventral of the developing nerve cord. In vertebrates, the notochord serves as a core around which other mesodermal cells form the vertebrae. In the most primitive chordates, which lack vertebrae, the notochord persists as a substitute for a vertebral column." [GOC:dgh] is_a: GO:0048568 ! embryonic organ development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0002328 ! notochord relationship: results_in_development_of UBERON:0002328 ! notochord [Term] id: GO:0030917 name: midbrain-hindbrain boundary development namespace: biological_process def: "The process whose specific outcome is the progression of the midbrain-hindbrain boundary over time, from its formation to the mature structure. The midbrain-hindbrain domain of the embryonic brain is comprised of the mesencephalic vesicle and the first rhombencephalic vesicle at early somitogenesis stages." [GOC:dgh] synonym: "isthmic organizer development" EXACT [] synonym: "isthmomesencephalic boundary development" EXACT [] synonym: "isthmus development" EXACT [] synonym: "MHB development" EXACT [] synonym: "midbrain-hindbrain orgainizer development" EXACT [] is_a: GO:0048856 ! anatomical structure development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0003052 ! midbrain-hindbrain boundary relationship: part_of GO:0007420 ! brain development relationship: part_of GO:0021903 ! rostrocaudal neural tube patterning relationship: results_in_development_of UBERON:0003052 ! midbrain-hindbrain boundary [Term] id: GO:0030990 name: intraciliary transport particle namespace: cellular_component def: "A nonmembrane-bound oligomeric protein complex that participates in bidirectional transport of molecules (cargo) along axonemal microtubules." [GOC:cilia, GOC:kmv, PMID:14570576, PMID:22118932, PMID:23945166] comment: Note that we deem cilia and microtubule-based flagella to be equivalent. subset: goslim_pir synonym: "IFT complex" RELATED [] synonym: "intraflagellar transport complex" EXACT [] synonym: "intraflagellar transport particle" EXACT [] is_a: GO:0032991 ! protein-containing complex relationship: capable_of_part_of GO:0035735 ! intraciliary transport involved in cilium assembly [Term] id: GO:0031012 name: extracellular matrix namespace: cellular_component alt_id: GO:0005578 def: "A structure lying external to one or more cells, which provides structural support, biochemical or biomechanical cues for cells or tissues." [GOC:BHF, GOC:mah, GOC:rph, NIF_Subcellular:nlx_subcell_20090513, PMID:21123617, PMID:28089324] subset: goslim_chembl subset: goslim_drosophila subset: goslim_generic subset: goslim_pir synonym: "matrisome" NARROW [] synonym: "proteinaceous extracellular matrix" EXACT [] xref: NIF_Subcellular:nlx_subcell_20090513 xref: Wikipedia:Extracellular_matrix is_a: GO:0030312 ! external encapsulating structure disjoint_from: GO:0032991 ! protein-containing complex disjoint_from: GO:0043226 ! organelle [Term] id: GO:0031032 name: actomyosin structure organization namespace: biological_process def: "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of cytoskeletal structures containing both actin and myosin or paramyosin. The myosin may be organized into filaments." [GOC:dph, GOC:jl, GOC:mah] comment: Note that this term is a child of 'actin cytoskeleton organization and biogenesis ; GO:0030036' because the actin cytoskeleton is defined as actin filaments and associated proteins. synonym: "actomyosin organization" EXACT [] synonym: "actomyosin structure organisation" EXACT [] synonym: "actomyosin structure organization and biogenesis" RELATED [GOC:mah] is_a: GO:0030036 ! actin cytoskeleton organization intersection_of: GO:0016043 ! cellular component organization intersection_of: results_in_organization_of GO:0042641 ! actomyosin relationship: results_in_organization_of GO:0042641 ! actomyosin [Term] id: GO:0031076 name: embryonic camera-type eye development namespace: biological_process def: "The process occurring during the embryonic phase whose specific outcome is the progression of the eye over time, from its formation to the mature structure." [GOC:mah, GOC:mtg_sensu] synonym: "embryonic eye development" EXACT [] is_a: GO:0043010 ! camera-type eye development is_a: GO:0048568 ! embryonic organ development [Term] id: GO:0031090 name: organelle membrane namespace: cellular_component def: "A membrane that is one of the two lipid bilayers of an organelle envelope or the outermost membrane of single membrane bound organelle." [GOC:dos, GOC:mah] synonym: "intracellular membrane" RELATED [NIF_Subcellular:sao830981606] xref: NIF_Subcellular:sao830981606 is_a: GO:0016020 ! membrane intersection_of: GO:0016020 ! membrane intersection_of: part_of GO:0043227 ! membrane-bounded organelle relationship: part_of GO:0043227 ! membrane-bounded organelle [Term] id: GO:0031109 name: microtubule polymerization or depolymerization namespace: biological_process def: "Assembly or disassembly of microtubules by the addition or removal of tubulin heterodimers from a microtubule." [GOC:mah] is_a: GO:0000226 ! microtubule cytoskeleton organization [Term] id: GO:0031110 name: regulation of microtubule polymerization or depolymerization namespace: biological_process def: "Any process that modulates the frequency, rate or extent of microtubule polymerization or depolymerization by the addition or removal of tubulin heterodimers from a microtubule." [GOC:mah] is_a: GO:0070507 ! regulation of microtubule cytoskeleton organization intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0031109 ! microtubule polymerization or depolymerization relationship: regulates GO:0031109 ! microtubule polymerization or depolymerization [Term] id: GO:0031111 name: negative regulation of microtubule polymerization or depolymerization namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of microtubule polymerization or depolymerization." [GOC:mah] synonym: "down regulation of microtubule polymerization or depolymerization" EXACT [] synonym: "down-regulation of microtubule polymerization or depolymerization" EXACT [] synonym: "downregulation of microtubule polymerization or depolymerization" EXACT [] synonym: "inhibition of microtubule polymerization or depolymerization" NARROW [] is_a: GO:0031110 ! regulation of microtubule polymerization or depolymerization is_a: GO:0051494 ! negative regulation of cytoskeleton organization intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0031109 ! microtubule polymerization or depolymerization relationship: negatively_regulates GO:0031109 ! microtubule polymerization or depolymerization [Term] id: GO:0031112 name: positive regulation of microtubule polymerization or depolymerization namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of microtubule polymerization or depolymerization." [GOC:mah] synonym: "activation of microtubule polymerization or depolymerization" NARROW [] synonym: "stimulation of microtubule polymerization or depolymerization" NARROW [] synonym: "up regulation of microtubule polymerization or depolymerization" EXACT [] synonym: "up-regulation of microtubule polymerization or depolymerization" EXACT [] synonym: "upregulation of microtubule polymerization or depolymerization" EXACT [] is_a: GO:0031110 ! regulation of microtubule polymerization or depolymerization is_a: GO:0051495 ! positive regulation of cytoskeleton organization intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0031109 ! microtubule polymerization or depolymerization relationship: positively_regulates GO:0031109 ! microtubule polymerization or depolymerization [Term] id: GO:0031113 name: regulation of microtubule polymerization namespace: biological_process def: "Any process that modulates the frequency, rate or extent of microtubule polymerization." [GOC:mah] is_a: GO:0031110 ! regulation of microtubule polymerization or depolymerization is_a: GO:0032271 ! regulation of protein polymerization is_a: GO:1902903 ! regulation of supramolecular fiber organization intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0046785 ! microtubule polymerization relationship: regulates GO:0046785 ! microtubule polymerization [Term] id: GO:0031114 name: regulation of microtubule depolymerization namespace: biological_process def: "Any process that modulates the frequency, rate or extent of microtubule depolymerization." [GOC:mah] synonym: "regulation of microtubule disassembly" EXACT [] is_a: GO:0031110 ! regulation of microtubule polymerization or depolymerization is_a: GO:1901879 ! regulation of protein depolymerization is_a: GO:1902903 ! regulation of supramolecular fiber organization intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0007019 ! microtubule depolymerization relationship: regulates GO:0007019 ! microtubule depolymerization [Term] id: GO:0031115 name: negative regulation of microtubule polymerization namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of microtubule polymerization." [GOC:mah] synonym: "down regulation of microtubule polymerization" EXACT [] synonym: "down-regulation of microtubule polymerization" EXACT [] synonym: "downregulation of microtubule polymerization" EXACT [] synonym: "inhibition of microtubule polymerization" NARROW [] is_a: GO:0031111 ! negative regulation of microtubule polymerization or depolymerization is_a: GO:0031113 ! regulation of microtubule polymerization is_a: GO:0032272 ! negative regulation of protein polymerization is_a: GO:1902904 ! negative regulation of supramolecular fiber organization intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0046785 ! microtubule polymerization relationship: negatively_regulates GO:0046785 ! microtubule polymerization [Term] id: GO:0031116 name: positive regulation of microtubule polymerization namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of microtubule polymerization." [GOC:mah] synonym: "activation of microtubule polymerization" NARROW [] synonym: "stimulation of microtubule polymerization" NARROW [] synonym: "up regulation of microtubule polymerization" EXACT [] synonym: "up-regulation of microtubule polymerization" EXACT [] synonym: "upregulation of microtubule polymerization" EXACT [] is_a: GO:0031112 ! positive regulation of microtubule polymerization or depolymerization is_a: GO:0031113 ! regulation of microtubule polymerization is_a: GO:0032273 ! positive regulation of protein polymerization is_a: GO:1902905 ! positive regulation of supramolecular fiber organization intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0046785 ! microtubule polymerization relationship: positively_regulates GO:0046785 ! microtubule polymerization [Term] id: GO:0031117 name: positive regulation of microtubule depolymerization namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of microtubule depolymerization." [GOC:mah] synonym: "activation of microtubule depolymerization" NARROW [] synonym: "microtubule destabilization" EXACT [] synonym: "positive regulation of microtubule catastrophe" NARROW [GOC:dph, GOC:tb] synonym: "positive regulation of microtubule disassembly" EXACT [] synonym: "stimulation of microtubule depolymerization" NARROW [] synonym: "up regulation of microtubule depolymerization" EXACT [] synonym: "up-regulation of microtubule depolymerization" EXACT [] synonym: "upregulation of microtubule depolymerization" EXACT [] is_a: GO:0031112 ! positive regulation of microtubule polymerization or depolymerization is_a: GO:0031114 ! regulation of microtubule depolymerization is_a: GO:1901881 ! positive regulation of protein depolymerization is_a: GO:1902905 ! positive regulation of supramolecular fiber organization intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0007019 ! microtubule depolymerization relationship: positively_regulates GO:0007019 ! microtubule depolymerization [Term] id: GO:0031122 name: cytoplasmic microtubule organization namespace: biological_process def: "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of structures formed of microtubules and associated proteins in the cytoplasm of a cell." [GOC:mah] synonym: "cytoplasmic microtubule organisation" EXACT [] synonym: "cytoplasmic microtubule organization and biogenesis" RELATED [GOC:mah] is_a: GO:0000226 ! microtubule cytoskeleton organization is_a: GO:0097435 ! supramolecular fiber organization intersection_of: GO:0016043 ! cellular component organization intersection_of: results_in_organization_of GO:0005881 ! cytoplasmic microtubule relationship: results_in_organization_of GO:0005881 ! cytoplasmic microtubule [Term] id: GO:0031175 name: neuron projection development namespace: biological_process def: "The process whose specific outcome is the progression of a neuron projection over time, from its formation to the mature structure. A neuron projection is any process extending from a neural cell, such as axons or dendrites (collectively called neurites)." [GOC:mah] synonym: "neurite biosynthesis" NARROW [] synonym: "neurite development" NARROW [GOC:dph] synonym: "neurite formation" NARROW [] synonym: "neurite growth" NARROW [] synonym: "neurite outgrowth" NARROW [] is_a: GO:0120036 ! plasma membrane bounded cell projection organization intersection_of: GO:0120036 ! plasma membrane bounded cell projection organization intersection_of: part_of GO:0048666 ! neuron development relationship: part_of GO:0048666 ! neuron development [Term] id: GO:0031252 name: cell leading edge namespace: cellular_component def: "The area of a motile cell closest to the direction of movement." [GOC:pg] subset: goslim_pir synonym: "front of cell" EXACT [] synonym: "leading edge of cell" EXACT [] is_a: GO:0110165 ! cellular anatomical entity relationship: part_of CL:0000000 ! cell [Term] id: GO:0031253 name: cell projection membrane namespace: cellular_component def: "The portion of the plasma membrane surrounding a plasma membrane bounded cell surface projection." [GOC:krc, GOC:mah] synonym: "membrane extension" RELATED [] synonym: "membrane projection" RELATED [] is_a: GO:0098590 ! plasma membrane region intersection_of: GO:0016020 ! membrane intersection_of: bounding_layer_of GO:0120025 ! plasma membrane bounded cell projection relationship: bounding_layer_of GO:0120025 ! plasma membrane bounded cell projection relationship: part_of GO:0120025 ! plasma membrane bounded cell projection [Term] id: GO:0031256 name: leading edge membrane namespace: cellular_component def: "The portion of the plasma membrane surrounding the leading edge of a motile cell." [GOC:mah] is_a: GO:0110165 ! cellular anatomical entity relationship: part_of GO:0005886 ! plasma membrane relationship: part_of GO:0031252 ! cell leading edge [Term] id: GO:0031323 name: regulation of cellular metabolic process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways by which individual cells transform chemical substances." [GOC:mah] subset: gocheck_do_not_annotate synonym: "regulation of cellular metabolism" EXACT [] is_a: GO:0019222 ! regulation of metabolic process is_a: GO:0050794 ! regulation of cellular process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0044237 ! cellular metabolic process relationship: regulates GO:0044237 ! cellular metabolic process [Term] id: GO:0031324 name: negative regulation of cellular metabolic process namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of the chemical reactions and pathways by which individual cells transform chemical substances." [GOC:mah] subset: gocheck_do_not_annotate synonym: "down regulation of cellular metabolic process" EXACT [] synonym: "down-regulation of cellular metabolic process" EXACT [] synonym: "downregulation of cellular metabolic process" EXACT [] synonym: "inhibition of cellular metabolic process" NARROW [] synonym: "negative regulation of cellular metabolism" EXACT [] is_a: GO:0009892 ! negative regulation of metabolic process is_a: GO:0031323 ! regulation of cellular metabolic process is_a: GO:0048523 ! negative regulation of cellular process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0044237 ! cellular metabolic process relationship: negatively_regulates GO:0044237 ! cellular metabolic process [Term] id: GO:0031325 name: positive regulation of cellular metabolic process namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways by which individual cells transform chemical substances." [GOC:mah] subset: gocheck_do_not_annotate synonym: "activation of cellular metabolic process" NARROW [] synonym: "positive regulation of cellular metabolism" EXACT [] synonym: "stimulation of cellular metabolic process" NARROW [] synonym: "up regulation of cellular metabolic process" EXACT [] synonym: "up-regulation of cellular metabolic process" EXACT [] synonym: "upregulation of cellular metabolic process" EXACT [] is_a: GO:0009893 ! positive regulation of metabolic process is_a: GO:0031323 ! regulation of cellular metabolic process is_a: GO:0048522 ! positive regulation of cellular process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0044237 ! cellular metabolic process relationship: positively_regulates GO:0044237 ! cellular metabolic process [Term] id: GO:0031326 name: regulation of cellular biosynthetic process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of substances, carried out by individual cells." [GOC:mah] synonym: "regulation of cellular anabolism" EXACT [] synonym: "regulation of cellular biosynthesis" EXACT [] synonym: "regulation of cellular formation" EXACT [] synonym: "regulation of cellular synthesis" EXACT [] is_a: GO:0009889 ! regulation of biosynthetic process is_a: GO:0031323 ! regulation of cellular metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0044249 ! cellular biosynthetic process relationship: regulates GO:0044249 ! cellular biosynthetic process [Term] id: GO:0031327 name: negative regulation of cellular biosynthetic process namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of substances, carried out by individual cells." [GOC:mah] synonym: "down regulation of cellular biosynthetic process" EXACT [] synonym: "down-regulation of cellular biosynthetic process" EXACT [] synonym: "downregulation of cellular biosynthetic process" EXACT [] synonym: "inhibition of cellular biosynthetic process" NARROW [] synonym: "negative regulation of cellular anabolism" EXACT [] synonym: "negative regulation of cellular biosynthesis" EXACT [] synonym: "negative regulation of cellular formation" EXACT [] synonym: "negative regulation of cellular synthesis" EXACT [] is_a: GO:0009890 ! negative regulation of biosynthetic process is_a: GO:0031324 ! negative regulation of cellular metabolic process is_a: GO:0031326 ! regulation of cellular biosynthetic process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0044249 ! cellular biosynthetic process relationship: negatively_regulates GO:0044249 ! cellular biosynthetic process [Term] id: GO:0031328 name: positive regulation of cellular biosynthetic process namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of substances, carried out by individual cells." [GOC:mah] synonym: "activation of cellular biosynthetic process" NARROW [] synonym: "positive regulation of cellular anabolism" EXACT [] synonym: "positive regulation of cellular biosynthesis" EXACT [] synonym: "positive regulation of cellular formation" EXACT [] synonym: "positive regulation of cellular synthesis" EXACT [] synonym: "stimulation of cellular biosynthetic process" NARROW [] synonym: "up regulation of cellular biosynthetic process" EXACT [] synonym: "up-regulation of cellular biosynthetic process" EXACT [] synonym: "upregulation of cellular biosynthetic process" EXACT [] is_a: GO:0009891 ! positive regulation of biosynthetic process is_a: GO:0031325 ! positive regulation of cellular metabolic process is_a: GO:0031326 ! regulation of cellular biosynthetic process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0044249 ! cellular biosynthetic process relationship: positively_regulates GO:0044249 ! cellular biosynthetic process [Term] id: GO:0031333 name: negative regulation of protein-containing complex assembly namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of protein complex assembly." [GOC:mah] synonym: "down regulation of protein complex assembly" EXACT [] synonym: "down-regulation of protein complex assembly" EXACT [] synonym: "downregulation of protein complex assembly" EXACT [] synonym: "inhibition of protein complex assembly" NARROW [] synonym: "negative regulation of protein complex assembly" RELATED [] is_a: GO:0043254 ! regulation of protein-containing complex assembly is_a: GO:0051129 ! negative regulation of cellular component organization intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0065003 ! protein-containing complex assembly relationship: negatively_regulates GO:0065003 ! protein-containing complex assembly [Term] id: GO:0031334 name: positive regulation of protein-containing complex assembly namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of protein complex assembly." [GOC:mah] synonym: "activation of protein complex assembly" NARROW [] synonym: "positive regulation of protein complex assembly" RELATED [] synonym: "stimulation of protein complex assembly" NARROW [] synonym: "up regulation of protein complex assembly" EXACT [] synonym: "up-regulation of protein complex assembly" EXACT [] synonym: "upregulation of protein complex assembly" EXACT [] is_a: GO:0043254 ! regulation of protein-containing complex assembly is_a: GO:0044089 ! positive regulation of cellular component biogenesis is_a: GO:0051130 ! positive regulation of cellular component organization intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0065003 ! protein-containing complex assembly relationship: positively_regulates GO:0065003 ! protein-containing complex assembly [Term] id: GO:0031338 name: regulation of vesicle fusion namespace: biological_process def: "Any process that modulates the frequency, rate or extent of vesicle fusion." [GOC:mah] is_a: GO:0033043 ! regulation of organelle organization is_a: GO:0060627 ! regulation of vesicle-mediated transport intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0006906 ! vesicle fusion relationship: regulates GO:0006906 ! vesicle fusion [Term] id: GO:0031339 name: negative regulation of vesicle fusion namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of vesicle fusion." [GOC:mah] synonym: "down regulation of vesicle fusion" EXACT [] synonym: "down-regulation of vesicle fusion" EXACT [] synonym: "downregulation of vesicle fusion" EXACT [] synonym: "inhibition of vesicle fusion" NARROW [] is_a: GO:0010639 ! negative regulation of organelle organization is_a: GO:0031338 ! regulation of vesicle fusion is_a: GO:0051051 ! negative regulation of transport intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0006906 ! vesicle fusion relationship: negatively_regulates GO:0006906 ! vesicle fusion [Term] id: GO:0031340 name: positive regulation of vesicle fusion namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of vesicle fusion." [GOC:mah] synonym: "activation of vesicle fusion" NARROW [] synonym: "stimulation of vesicle fusion" NARROW [] synonym: "up regulation of vesicle fusion" EXACT [] synonym: "up-regulation of vesicle fusion" EXACT [] synonym: "upregulation of vesicle fusion" EXACT [] is_a: GO:0010638 ! positive regulation of organelle organization is_a: GO:0031338 ! regulation of vesicle fusion is_a: GO:0051050 ! positive regulation of transport intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0006906 ! vesicle fusion relationship: positively_regulates GO:0006906 ! vesicle fusion [Term] id: GO:0031344 name: regulation of cell projection organization namespace: biological_process def: "Any process that modulates the frequency, rate or extent of a process involved in the formation, arrangement of constituent parts, or disassembly of cell projections." [GOC:mah] synonym: "regulation of cell projection organisation" EXACT [] synonym: "regulation of cell projection organization and biogenesis" RELATED [GOC:mah] is_a: GO:0051128 ! regulation of cellular component organization intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0030030 ! cell projection organization relationship: regulates GO:0030030 ! cell projection organization [Term] id: GO:0031345 name: negative regulation of cell projection organization namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of a process involved in the formation, arrangement of constituent parts, or disassembly of cell projections." [GOC:mah] synonym: "down regulation of cell projection organization" EXACT [GOC:mah] synonym: "down-regulation of cell projection organization" EXACT [] synonym: "downregulation of cell projection organization" EXACT [] synonym: "inhibition of cell projection organization" NARROW [] synonym: "negative regulation of cell projection organisation" EXACT [] synonym: "negative regulation of cell projection organization and biogenesis" RELATED [GOC:mah] is_a: GO:0031344 ! regulation of cell projection organization is_a: GO:0051129 ! negative regulation of cellular component organization intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0030030 ! cell projection organization relationship: negatively_regulates GO:0030030 ! cell projection organization [Term] id: GO:0031346 name: positive regulation of cell projection organization namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of the process involved in the formation, arrangement of constituent parts, or disassembly of cell projections." [GOC:mah] synonym: "activation of cell projection organization" NARROW [] synonym: "positive regulation of cell projection organisation" EXACT [] synonym: "positive regulation of cell projection organization and biogenesis" RELATED [GOC:mah] synonym: "stimulation of cell projection organization" NARROW [] synonym: "up regulation of cell projection organization" EXACT [] synonym: "up-regulation of cell projection organization" EXACT [] synonym: "upregulation of cell projection organization" EXACT [] is_a: GO:0031344 ! regulation of cell projection organization is_a: GO:0051130 ! positive regulation of cellular component organization intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0030030 ! cell projection organization relationship: positively_regulates GO:0030030 ! cell projection organization [Term] id: GO:0031406 name: carboxylic acid binding namespace: molecular_function def: "Binding to a carboxylic acid, an organic acid containing one or more carboxyl (COOH) groups or anions (COO-)." [GOC:mah, ISBN:0198506732] subset: goslim_pir is_a: GO:0043168 ! anion binding intersection_of: GO:0005488 ! binding intersection_of: has_input CHEBI:29067 ! carboxylic acid anion relationship: has_input CHEBI:29067 ! carboxylic acid anion [Term] id: GO:0031410 name: cytoplasmic vesicle namespace: cellular_component alt_id: GO:0016023 def: "A vesicle found in the cytoplasm of a cell." [GOC:ai, GOC:mah, GOC:vesicles] subset: goslim_agr subset: goslim_aspergillus subset: goslim_candida subset: goslim_chembl subset: goslim_generic subset: goslim_mouse subset: goslim_yeast synonym: "cytoplasmic membrane bounded vesicle" RELATED [] synonym: "cytoplasmic membrane-enclosed vesicle" RELATED [] synonym: "cytoplasmic, membrane-bounded vesicle" RELATED [] xref: NIF_Subcellular:sao180601769 is_a: GO:0097708 ! intracellular vesicle intersection_of: GO:0031982 ! vesicle intersection_of: part_of GO:0005737 ! cytoplasm relationship: part_of GO:0005737 ! cytoplasm [Term] id: GO:0031445 name: regulation of heterochromatin assembly namespace: biological_process def: "Any process that modulates the frequency, rate, extent or location of heterochromatin formation." [GOC:mah] synonym: "regulation of heterochromatin formation" EXACT [] is_a: GO:0010468 ! regulation of gene expression is_a: GO:0010847 ! regulation of chromatin assembly is_a: GO:0120261 ! regulation of heterochromatin organization intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0031507 ! heterochromatin assembly relationship: regulates GO:0031507 ! heterochromatin assembly [Term] id: GO:0031452 name: negative regulation of heterochromatin assembly namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of heterochromatin formation." [GOC:mah] synonym: "down regulation of heterochromatin formation" EXACT [] synonym: "down-regulation of heterochromatin formation" EXACT [] synonym: "downregulation of heterochromatin formation" EXACT [] synonym: "inhibition of heterochromatin formation" NARROW [] synonym: "negative regulation of heterochromatin formation" EXACT [] is_a: GO:0010628 ! positive regulation of gene expression is_a: GO:0031445 ! regulation of heterochromatin assembly is_a: GO:0045798 ! negative regulation of chromatin assembly or disassembly is_a: GO:0120262 ! negative regulation of heterochromatin organization intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0031507 ! heterochromatin assembly relationship: negatively_regulates GO:0031507 ! heterochromatin assembly [Term] id: GO:0031453 name: positive regulation of heterochromatin assembly namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of heterochromatin formation." [GOC:mah] synonym: "activation of heterochromatin formation" NARROW [] synonym: "positive regulation of heterochromatin formation" EXACT [] synonym: "stimulation of heterochromatin formation" NARROW [] synonym: "up regulation of heterochromatin formation" EXACT [] synonym: "up-regulation of heterochromatin formation" EXACT [] synonym: "upregulation of heterochromatin formation" EXACT [] is_a: GO:0031445 ! regulation of heterochromatin assembly is_a: GO:0044089 ! positive regulation of cellular component biogenesis is_a: GO:0045799 ! positive regulation of chromatin assembly or disassembly is_a: GO:0120263 ! positive regulation of heterochromatin organization intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0031507 ! heterochromatin assembly relationship: positively_regulates GO:0031507 ! heterochromatin assembly [Term] id: GO:0031497 name: chromatin assembly namespace: biological_process def: "The assembly of DNA, histone proteins, other associated proteins, and sometimes RNA, into chromatin structure, beginning with the formation of the basic unit, the nucleosome, followed by organization of the nucleosomes into higher order structures, ultimately giving rise to a complex organization of specific domains within the nucleus." [http://www.infobiogen.fr/services/chromcancer/IntroItems/ChromatinEducEng.html, PMID:20404130] synonym: "chromatin maintenance" BROAD [] synonym: "establishment of chromatin architecture" EXACT [GOC:mah] is_a: GO:0006333 ! chromatin assembly or disassembly is_a: GO:0022607 ! cellular component assembly intersection_of: GO:0022607 ! cellular component assembly intersection_of: results_in_assembly_of GO:0000785 ! chromatin relationship: part_of GO:0006323 ! DNA packaging relationship: results_in_assembly_of GO:0000785 ! chromatin [Term] id: GO:0031498 name: chromatin disassembly namespace: biological_process def: "The controlled breakdown of chromatin from a higher order structure into its simpler subcomponents, DNA, histones, other proteins, and sometimes RNA." [http://www.infobiogen.fr/services/chromcancer/IntroItems/ChromatinEducEng.html, PMID:20404130] synonym: "chromatin maintenance" BROAD [] is_a: GO:0006333 ! chromatin assembly or disassembly is_a: GO:0022411 ! cellular component disassembly intersection_of: GO:0022411 ! cellular component disassembly intersection_of: results_in_disassembly_of GO:0000785 ! chromatin relationship: results_in_disassembly_of GO:0000785 ! chromatin [Term] id: GO:0031503 name: protein-containing complex localization namespace: biological_process alt_id: GO:0034629 def: "A localization process that acts on a protein complex; the complex is transported to, or maintained in, a specific location." [GOC:mah] synonym: "cellular protein complex localisation" RELATED [GOC:mah] synonym: "cellular protein complex localization" RELATED [] synonym: "cellular protein-containing complex localization" RELATED [] synonym: "establishment and maintenance of cellular protein complex localization" RELATED [] synonym: "establishment and maintenance of protein complex localization" EXACT [] synonym: "protein complex localisation" EXACT [GOC:mah] synonym: "protein complex localization" RELATED [] is_a: GO:0051179 ! localization intersection_of: GO:0051179 ! localization intersection_of: transports_or_maintains_localization_of GO:0032991 ! protein-containing complex relationship: transports_or_maintains_localization_of GO:0032991 ! protein-containing complex property_value: IAO:0000233 https://github.com/geneontology/go-ontology/issues/22021 xsd:anyURI [Term] id: GO:0031507 name: heterochromatin assembly namespace: biological_process alt_id: GO:0006342 alt_id: GO:0006343 alt_id: GO:0016440 alt_id: GO:0070869 alt_id: GO:1904497 def: "An epigenetic gene silencing mechanism that involves the assembly of chromatin into heterochromatin, resulting in a chromatin conformation refractory to transcription. This process starts with heterochromatin nucleation, its spreading, and ends with heterochromatin boundary formation." [GOC:mah, PMID:25192661, PMID:33827924] synonym: "chromatin silencing" EXACT [] synonym: "chromatin-mediated silencing" EXACT [] synonym: "establishment of chromatin silencing" RELATED [] synonym: "establishment of heterochromatic silencing" RELATED [] synonym: "establishment of heterochromatin architecture" EXACT [GOC:mah] synonym: "establishment of heterochromatin architecture involved in chromatin silencing at centromere outer repeat region" NARROW [GOC:TermGenie] synonym: "establishment of heterochromatin architecture involved in chromatin silencing at pericentric region" NARROW [GOC:TermGenie] synonym: "heterochromatic silencing" RELATED [] synonym: "heterochromatin assembly involved in chromatin silencing" RELATED [] synonym: "heterochromatin assembly involved in chromatin silencing at centromere outer repeat region" NARROW [] synonym: "heterochromatin assembly involved in chromatin silencing at pericentric region" NARROW [GOC:TermGenie] synonym: "heterochromatin formation" EXACT [] synonym: "heterochromatin formation involved in chromatin silencing" RELATED [] synonym: "heterochromatin formation involved in chromatin silencing at centromere outer repeat region" NARROW [GOC:TermGenie] synonym: "heterochromatin formation involved in chromatin silencing at pericentric region" NARROW [GOC:TermGenie] synonym: "heterochromatin maintenance" BROAD [] synonym: "TGS" BROAD [] synonym: "transcriptional gene silencing" EXACT [] is_a: GO:0031497 ! chromatin assembly is_a: GO:0045814 ! negative regulation of gene expression, epigenetic is_a: GO:0070828 ! heterochromatin organization intersection_of: GO:0022607 ! cellular component assembly intersection_of: results_in_assembly_of GO:0000792 ! heterochromatin relationship: ends_with GO:0033696 ! heterochromatin boundary formation relationship: results_in_assembly_of GO:0000792 ! heterochromatin property_value: IAO:0000233 https://github.com/geneontology/go-ontology/issues/18954 xsd:anyURI property_value: IAO:0000233 https://github.com/geneontology/go-ontology/issues/19112 xsd:anyURI property_value: IAO:0000233 https://github.com/geneontology/go-ontology/issues/22030 xsd:anyURI [Term] id: GO:0031594 name: neuromuscular junction namespace: cellular_component def: "The junction between the axon of a motor neuron and a muscle fiber. In response to the arrival of action potentials, the presynaptic button releases molecules of neurotransmitters into the synaptic cleft. These diffuse across the cleft and transmit the signal to the postsynaptic membrane of the muscle fiber, leading to a change in post-synaptic potential." [GOC:nln] comment: In vertebrates, the term 'neuromuscular junction' is limited to synapses targeting skeletal muscle fibers - all of which are cholinergic and excitatory. Both inhibitory and excitatory neuromuscular junctions exist in invertebrates, utilizing a range of neurotransmitters including glutamate, GABA and 5-HT. synonym: "motor endplate" RELATED [NIF_Subcellular:nlx_subcell_20090512] synonym: "NMJ" RELATED [GOC:ha] xref: NIF_Subcellular:sao1124888485 xref: Wikipedia:Neuromuscular_junction is_a: GO:0045202 ! synapse intersection_of: GO:0045202 ! synapse intersection_of: overlaps CL:0000100 ! motor neuron intersection_of: overlaps CL:0000187 ! muscle cell relationship: overlaps CL:0000100 ! motor neuron relationship: overlaps CL:0000187 ! muscle cell [Term] id: GO:0031644 name: regulation of nervous system process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of a neurophysiological process, an organ system process carried out by any of the organs or tissues of the nervous system." [GOC:dph, GOC:mah, GOC:tb] synonym: "regulation of neurological process" EXACT [GOC:dph, GOC:tb] synonym: "regulation of neurological system process" EXACT [] synonym: "regulation of neurophysiological process" EXACT [] is_a: GO:0044057 ! regulation of system process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0050877 ! nervous system process relationship: regulates GO:0050877 ! nervous system process [Term] id: GO:0031645 name: negative regulation of nervous system process namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of a neurophysiological process." [GOC:dph, GOC:mah, GOC:tb] synonym: "down regulation of neurological process" EXACT [] synonym: "down-regulation of neurological process" EXACT [] synonym: "downregulation of neurological process" EXACT [] synonym: "inhibition of neurological process" NARROW [] synonym: "negative regulation of neurological process" EXACT [GOC:dph, GOC:tb] synonym: "negative regulation of neurological system process" EXACT [] synonym: "negative regulation of neurophysiological process" EXACT [] is_a: GO:0031644 ! regulation of nervous system process is_a: GO:0051241 ! negative regulation of multicellular organismal process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0050877 ! nervous system process relationship: negatively_regulates GO:0050877 ! nervous system process [Term] id: GO:0031646 name: positive regulation of nervous system process namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of a neurophysiological process." [GOC:dph, GOC:mah, GOC:tb] synonym: "activation of neurological process" NARROW [] synonym: "positive regulation of neurological process" EXACT [GOC:dph, GOC:tb] synonym: "positive regulation of neurological system process" EXACT [] synonym: "positive regulation of neurophysiological process" EXACT [] synonym: "stimulation of neurological process" NARROW [] synonym: "up regulation of neurological process" EXACT [] synonym: "up-regulation of neurological process" EXACT [] synonym: "upregulation of neurological process" EXACT [] is_a: GO:0031644 ! regulation of nervous system process is_a: GO:0051240 ! positive regulation of multicellular organismal process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0050877 ! nervous system process relationship: positively_regulates GO:0050877 ! nervous system process [Term] id: GO:0031965 name: nuclear membrane namespace: cellular_component def: "Either of the lipid bilayers that surround the nucleus and form the nuclear envelope; excludes the intermembrane space." [GOC:mah, GOC:pz] xref: NIF_Subcellular:sao1687101204 is_a: GO:0031090 ! organelle membrane intersection_of: GO:0016020 ! membrane intersection_of: part_of GO:0005634 ! nucleus relationship: part_of GO:0005635 ! nuclear envelope [Term] id: GO:0031967 name: organelle envelope namespace: cellular_component def: "A double membrane structure enclosing an organelle, including two lipid bilayers and the region between them. In some cases, an organelle envelope may have more than two membranes." [GOC:mah, GOC:pz] subset: goslim_mouse is_a: GO:0031975 ! envelope relationship: part_of GO:0043227 ! membrane-bounded organelle relationship: part_of GO:0043229 ! intracellular organelle [Term] id: GO:0031968 name: organelle outer membrane namespace: cellular_component def: "The outer, i.e. cytoplasm-facing in a cellular organelle, lipid bilayer of an organelle envelope." [GOC:mah] is_a: GO:0019867 ! outer membrane is_a: GO:0098588 ! bounding membrane of organelle intersection_of: GO:0016020 ! membrane intersection_of: bounding_layer_of GO:0043226 ! organelle intersection_of: part_of GO:0031967 ! organelle envelope relationship: part_of GO:0031967 ! organelle envelope [Term] id: GO:0031974 name: membrane-enclosed lumen namespace: cellular_component def: "The enclosed volume within a sealed membrane or between two sealed membranes. Encompasses the volume enclosed by the membranes of a particular organelle, e.g. endoplasmic reticulum lumen, or the space between the two lipid bilayers of a double membrane surrounding an organelle, e.g. nuclear envelope lumen." [GOC:add, GOC:mah] is_a: GO:0110165 ! cellular anatomical entity disjoint_from: GO:0045202 ! synapse [Term] id: GO:0031975 name: envelope namespace: cellular_component def: "A multilayered structure surrounding all or part of a cell; encompasses one or more lipid bilayers, and may include a cell wall layer; also includes the space between layers." [GOC:mah, GOC:pz] is_a: GO:0110165 ! cellular anatomical entity relationship: part_of CL:0000000 ! cell [Term] id: GO:0031981 name: nuclear lumen namespace: cellular_component def: "The volume enclosed by the nuclear inner membrane." [GOC:mah, GOC:pz] is_a: GO:0070013 ! intracellular organelle lumen relationship: part_of GO:0005634 ! nucleus [Term] id: GO:0031982 name: vesicle namespace: cellular_component alt_id: GO:0031988 def: "Any small, fluid-filled, spherical organelle enclosed by membrane." [GOC:mah, GOC:pz, GOC:vesicles] subset: goslim_pir synonym: "membrane-bounded vesicle" RELATED [] synonym: "membrane-enclosed vesicle" RELATED [] xref: NIF_Subcellular:sao221389602 xref: Wikipedia:Vesicle_(biology) is_a: GO:0043227 ! membrane-bounded organelle [Term] id: GO:0032059 name: bleb namespace: cellular_component def: "A cell extension caused by localized decoupling of the cytoskeleton from the plasma membrane and characterized by rapid formation, rounded shape, and scarcity of organelles within the protrusion. Blebs are formed during apoptosis and other cellular processes, including cell locomotion, cell division, and as a result of physical or chemical stresses." [GOC:mtg_apoptosis, PMID:12083798, PMID:16624291, Wikipedia:Bleb_(cell_biology)] subset: goslim_pir synonym: "plasma membrane bleb" EXACT [GOC:pr] xref: Wikipedia:Bleb_(cell_biology) is_a: GO:0120025 ! plasma membrane bounded cell projection [Term] id: GO:0032060 name: bleb assembly namespace: biological_process def: "The assembly of a bleb, a cell extension caused by localized decoupling of the cytoskeleton from the plasma membrane and characterized by rapid formation, rounded shape, and scarcity of organelles within the protrusion. Plasma membrane blebbing occurs during apoptosis and other cellular processes, including cell locomotion, cell division, and as a result of physical or chemical stresses." [GOC:mah, GOC:mtg_apoptosis, PMID:12083798, PMID:16624291, Wikipedia:Bleb_(cell_biology)] synonym: "blebbing" BROAD [GOC:pr] synonym: "cell blebbing" EXACT [] synonym: "membrane blebbing" BROAD [GOC:pr] synonym: "plasma membrane bleb assembly" EXACT [GOC:pr] synonym: "plasma membrane blebbing" EXACT [GOC:pr] is_a: GO:0120031 ! plasma membrane bounded cell projection assembly intersection_of: GO:0022607 ! cellular component assembly intersection_of: results_in_assembly_of GO:0032059 ! bleb relationship: results_in_assembly_of GO:0032059 ! bleb [Term] id: GO:0032091 name: negative regulation of protein binding namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of protein binding." [GOC:mah] synonym: "down regulation of protein binding" EXACT [] synonym: "down-regulation of protein binding" EXACT [] synonym: "downregulation of protein binding" EXACT [] synonym: "inhibition of protein binding" NARROW [] is_a: GO:0043393 ! regulation of protein binding is_a: GO:0051100 ! negative regulation of binding intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0005515 ! protein binding relationship: negatively_regulates GO:0005515 ! protein binding [Term] id: GO:0032092 name: positive regulation of protein binding namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of protein binding." [GOC:mah] synonym: "activation of protein binding" NARROW [] synonym: "stimulation of protein binding" NARROW [] synonym: "up regulation of protein binding" EXACT [] synonym: "up-regulation of protein binding" EXACT [] synonym: "upregulation of protein binding" EXACT [] is_a: GO:0043393 ! regulation of protein binding is_a: GO:0051099 ! positive regulation of binding intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0005515 ! protein binding relationship: positively_regulates GO:0005515 ! protein binding [Term] id: GO:0032101 name: regulation of response to external stimulus namespace: biological_process def: "Any process that modulates the frequency, rate or extent of a response to an external stimulus." [GOC:mah] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. subset: gocheck_do_not_manually_annotate is_a: GO:0048583 ! regulation of response to stimulus intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0009605 ! response to external stimulus relationship: regulates GO:0009605 ! response to external stimulus [Term] id: GO:0032102 name: negative regulation of response to external stimulus namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of a response to an external stimulus." [GOC:mah] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. subset: gocheck_do_not_manually_annotate synonym: "down regulation of response to external stimulus" EXACT [] synonym: "down-regulation of response to external stimulus" EXACT [] synonym: "downregulation of response to external stimulus" EXACT [] synonym: "inhibition of response to external stimulus" NARROW [] is_a: GO:0032101 ! regulation of response to external stimulus is_a: GO:0048585 ! negative regulation of response to stimulus intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0009605 ! response to external stimulus relationship: negatively_regulates GO:0009605 ! response to external stimulus [Term] id: GO:0032103 name: positive regulation of response to external stimulus namespace: biological_process def: "Any process that activates, maintains or increases the rate of a response to an external stimulus." [GOC:mah] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. subset: gocheck_do_not_manually_annotate synonym: "activation of response to external stimulus" NARROW [] synonym: "stimulation of response to external stimulus" NARROW [] synonym: "up regulation of response to external stimulus" EXACT [] synonym: "up-regulation of response to external stimulus" EXACT [] synonym: "upregulation of response to external stimulus" EXACT [] is_a: GO:0032101 ! regulation of response to external stimulus is_a: GO:0048584 ! positive regulation of response to stimulus intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0009605 ! response to external stimulus relationship: positively_regulates GO:0009605 ! response to external stimulus [Term] id: GO:0032239 name: regulation of nucleobase-containing compound transport namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the directed movement of nucleobases, nucleosides, nucleotides and nucleic acids, into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." [GOC:mah] synonym: "regulation of nucleobase, nucleoside, nucleotide and nucleic acid transport" RELATED [GOC:dph, GOC:tb] is_a: GO:0051049 ! regulation of transport intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0015931 ! nucleobase-containing compound transport relationship: regulates GO:0015931 ! nucleobase-containing compound transport [Term] id: GO:0032240 name: negative regulation of nucleobase-containing compound transport namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of the directed movement of nucleobases, nucleosides, nucleotides and nucleic acids, into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." [GOC:mah] synonym: "down regulation of nucleobase, nucleoside, nucleotide and nucleic acid transport" EXACT [] synonym: "down-regulation of nucleobase, nucleoside, nucleotide and nucleic acid transport" EXACT [] synonym: "downregulation of nucleobase, nucleoside, nucleotide and nucleic acid transport" EXACT [] synonym: "inhibition of nucleobase, nucleoside, nucleotide and nucleic acid transport" NARROW [] synonym: "negative regulation of nucleobase, nucleoside, nucleotide and nucleic acid transport" RELATED [GOC:dph, GOC:tb] is_a: GO:0032239 ! regulation of nucleobase-containing compound transport is_a: GO:0051051 ! negative regulation of transport intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0015931 ! nucleobase-containing compound transport relationship: negatively_regulates GO:0015931 ! nucleobase-containing compound transport [Term] id: GO:0032241 name: positive regulation of nucleobase-containing compound transport namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of the directed movement of nucleobases, nucleosides, nucleotides and nucleic acids, into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." [GOC:mah] synonym: "activation of nucleobase, nucleoside, nucleotide and nucleic acid transport" NARROW [] synonym: "positive regulation of nucleobase, nucleoside, nucleotide and nucleic acid transport" RELATED [GOC:dph, GOC:tb] synonym: "stimulation of nucleobase, nucleoside, nucleotide and nucleic acid transport" NARROW [] synonym: "up regulation of nucleobase, nucleoside, nucleotide and nucleic acid transport" EXACT [] synonym: "up-regulation of nucleobase, nucleoside, nucleotide and nucleic acid transport" EXACT [] synonym: "upregulation of nucleobase, nucleoside, nucleotide and nucleic acid transport" EXACT [] is_a: GO:0032239 ! regulation of nucleobase-containing compound transport is_a: GO:0051050 ! positive regulation of transport intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0015931 ! nucleobase-containing compound transport relationship: positively_regulates GO:0015931 ! nucleobase-containing compound transport [Term] id: GO:0032268 name: regulation of cellular protein metabolic process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways involving a protein, occurring at the level of an individual cell." [GOC:mah] synonym: "regulation of cellular protein metabolism" EXACT [] is_a: GO:0031323 ! regulation of cellular metabolic process is_a: GO:0051246 ! regulation of protein metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0044267 ! cellular protein metabolic process relationship: regulates GO:0044267 ! cellular protein metabolic process [Term] id: GO:0032269 name: negative regulation of cellular protein metabolic process namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of the chemical reactions and pathways involving a protein, occurring at the level of an individual cell." [GOC:mah] synonym: "down regulation of cellular protein metabolic process" EXACT [] synonym: "down-regulation of cellular protein metabolic process" EXACT [] synonym: "downregulation of cellular protein metabolic process" EXACT [] synonym: "inhibition of cellular protein metabolic process" NARROW [] synonym: "negative regulation of cellular protein metabolism" EXACT [] is_a: GO:0031324 ! negative regulation of cellular metabolic process is_a: GO:0032268 ! regulation of cellular protein metabolic process is_a: GO:0051248 ! negative regulation of protein metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0044267 ! cellular protein metabolic process relationship: negatively_regulates GO:0044267 ! cellular protein metabolic process [Term] id: GO:0032270 name: positive regulation of cellular protein metabolic process namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways involving a protein, occurring at the level of an individual cell." [GOC:mah] synonym: "activation of cellular protein metabolic process" NARROW [] synonym: "positive regulation of cellular protein metabolism" EXACT [] synonym: "stimulation of cellular protein metabolic process" NARROW [] synonym: "up regulation of cellular protein metabolic process" EXACT [] synonym: "up-regulation of cellular protein metabolic process" EXACT [] synonym: "upregulation of cellular protein metabolic process" EXACT [] is_a: GO:0031325 ! positive regulation of cellular metabolic process is_a: GO:0032268 ! regulation of cellular protein metabolic process is_a: GO:0051247 ! positive regulation of protein metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0044267 ! cellular protein metabolic process relationship: positively_regulates GO:0044267 ! cellular protein metabolic process [Term] id: GO:0032271 name: regulation of protein polymerization namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the process of creating protein polymers." [GOC:mah] synonym: "regulation of protein polymerisation" EXACT [] is_a: GO:0043254 ! regulation of protein-containing complex assembly intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0051258 ! protein polymerization relationship: regulates GO:0051258 ! protein polymerization [Term] id: GO:0032272 name: negative regulation of protein polymerization namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of the process of creating protein polymers." [GOC:mah] synonym: "down regulation of protein polymerization" EXACT [] synonym: "down-regulation of protein polymerization" EXACT [] synonym: "downregulation of protein polymerization" EXACT [] synonym: "inhibition of protein polymerization" NARROW [] is_a: GO:0031333 ! negative regulation of protein-containing complex assembly is_a: GO:0032271 ! regulation of protein polymerization intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0051258 ! protein polymerization relationship: negatively_regulates GO:0051258 ! protein polymerization [Term] id: GO:0032273 name: positive regulation of protein polymerization namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of the process of creating protein polymers." [GOC:mah] synonym: "activation of protein polymerization" NARROW [] synonym: "stimulation of protein polymerization" NARROW [] synonym: "up regulation of protein polymerization" EXACT [] synonym: "up-regulation of protein polymerization" EXACT [] synonym: "upregulation of protein polymerization" EXACT [] is_a: GO:0031334 ! positive regulation of protein-containing complex assembly is_a: GO:0032271 ! regulation of protein polymerization intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0051258 ! protein polymerization relationship: positively_regulates GO:0051258 ! protein polymerization [Term] id: GO:0032330 name: regulation of chondrocyte differentiation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of chondrocyte differentiation." [GOC:mah] is_a: GO:0045595 ! regulation of cell differentiation is_a: GO:0061035 ! regulation of cartilage development intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0002062 ! chondrocyte differentiation relationship: regulates GO:0002062 ! chondrocyte differentiation [Term] id: GO:0032331 name: negative regulation of chondrocyte differentiation namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of chondrocyte differentiation." [GOC:mah] synonym: "down regulation of chondrocyte differentiation" EXACT [] synonym: "down-regulation of chondrocyte differentiation" EXACT [] synonym: "downregulation of chondrocyte differentiation" EXACT [] synonym: "inhibition of chondrocyte differentiation" NARROW [] is_a: GO:0032330 ! regulation of chondrocyte differentiation is_a: GO:0045596 ! negative regulation of cell differentiation is_a: GO:0061037 ! negative regulation of cartilage development intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0002062 ! chondrocyte differentiation relationship: negatively_regulates GO:0002062 ! chondrocyte differentiation [Term] id: GO:0032332 name: positive regulation of chondrocyte differentiation namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of chondrocyte differentiation." [GOC:mah] synonym: "activation of chondrocyte differentiation" NARROW [] synonym: "stimulation of chondrocyte differentiation" NARROW [] synonym: "up regulation of chondrocyte differentiation" EXACT [] synonym: "up-regulation of chondrocyte differentiation" EXACT [] synonym: "upregulation of chondrocyte differentiation" EXACT [] is_a: GO:0032330 ! regulation of chondrocyte differentiation is_a: GO:0045597 ! positive regulation of cell differentiation is_a: GO:0061036 ! positive regulation of cartilage development intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0002062 ! chondrocyte differentiation relationship: positively_regulates GO:0002062 ! chondrocyte differentiation [Term] id: GO:0032365 name: intracellular lipid transport namespace: biological_process def: "The directed movement of lipids within cells." [GOC:mah] is_a: GO:0006869 ! lipid transport is_a: GO:0046907 ! intracellular transport intersection_of: GO:0006810 ! transport intersection_of: occurs_in GO:0005622 ! intracellular anatomical structure intersection_of: transports_or_maintains_localization_of CHEBI:18059 ! lipid [Term] id: GO:0032368 name: regulation of lipid transport namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the directed movement of lipids into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." [GOC:mah] is_a: GO:0051049 ! regulation of transport is_a: GO:1905952 ! regulation of lipid localization intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0006869 ! lipid transport relationship: regulates GO:0006869 ! lipid transport [Term] id: GO:0032369 name: negative regulation of lipid transport namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of the directed movement of lipids into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." [GOC:mah] synonym: "down regulation of lipid transport" EXACT [] synonym: "down-regulation of lipid transport" EXACT [] synonym: "downregulation of lipid transport" EXACT [] synonym: "inhibition of lipid transport" NARROW [] is_a: GO:0032368 ! regulation of lipid transport is_a: GO:0051051 ! negative regulation of transport is_a: GO:1905953 ! negative regulation of lipid localization intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0006869 ! lipid transport relationship: negatively_regulates GO:0006869 ! lipid transport [Term] id: GO:0032370 name: positive regulation of lipid transport namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of the directed movement of lipids into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." [GOC:mah] synonym: "activation of lipid transport" NARROW [] synonym: "stimulation of lipid transport" NARROW [] synonym: "up regulation of lipid transport" EXACT [] synonym: "up-regulation of lipid transport" EXACT [] synonym: "upregulation of lipid transport" EXACT [] is_a: GO:0032368 ! regulation of lipid transport is_a: GO:0051050 ! positive regulation of transport is_a: GO:1905954 ! positive regulation of lipid localization intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0006869 ! lipid transport relationship: positively_regulates GO:0006869 ! lipid transport [Term] id: GO:0032377 name: regulation of intracellular lipid transport namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the directed movement of lipids within cells." [GOC:mah] is_a: GO:0032368 ! regulation of lipid transport is_a: GO:0032386 ! regulation of intracellular transport intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0032365 ! intracellular lipid transport relationship: regulates GO:0032365 ! intracellular lipid transport [Term] id: GO:0032378 name: negative regulation of intracellular lipid transport namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of the directed movement of lipids within cells." [GOC:mah] synonym: "down regulation of intracellular lipid transport" EXACT [] synonym: "down-regulation of intracellular lipid transport" EXACT [] synonym: "downregulation of intracellular lipid transport" EXACT [] synonym: "inhibition of intracellular lipid transport" NARROW [] is_a: GO:0032369 ! negative regulation of lipid transport is_a: GO:0032377 ! regulation of intracellular lipid transport is_a: GO:0032387 ! negative regulation of intracellular transport intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0032365 ! intracellular lipid transport relationship: negatively_regulates GO:0032365 ! intracellular lipid transport [Term] id: GO:0032379 name: positive regulation of intracellular lipid transport namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of the directed movement of lipids within cells." [GOC:mah] synonym: "activation of intracellular lipid transport" NARROW [] synonym: "stimulation of intracellular lipid transport" NARROW [] synonym: "up regulation of intracellular lipid transport" EXACT [] synonym: "up-regulation of intracellular lipid transport" EXACT [] synonym: "upregulation of intracellular lipid transport" EXACT [] is_a: GO:0032370 ! positive regulation of lipid transport is_a: GO:0032377 ! regulation of intracellular lipid transport is_a: GO:0032388 ! positive regulation of intracellular transport intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0032365 ! intracellular lipid transport relationship: positively_regulates GO:0032365 ! intracellular lipid transport [Term] id: GO:0032386 name: regulation of intracellular transport namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the directed movement of substances within cells." [GOC:mah] is_a: GO:0051049 ! regulation of transport is_a: GO:0060341 ! regulation of cellular localization intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0046907 ! intracellular transport relationship: regulates GO:0046907 ! intracellular transport [Term] id: GO:0032387 name: negative regulation of intracellular transport namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of the directed movement of substances within cells." [GOC:mah] synonym: "down regulation of intracellular transport" EXACT [] synonym: "down-regulation of intracellular transport" EXACT [] synonym: "downregulation of intracellular transport" EXACT [] synonym: "inhibition of intracellular transport" NARROW [] is_a: GO:0032386 ! regulation of intracellular transport is_a: GO:0048523 ! negative regulation of cellular process is_a: GO:0051051 ! negative regulation of transport intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0046907 ! intracellular transport relationship: negatively_regulates GO:0046907 ! intracellular transport [Term] id: GO:0032388 name: positive regulation of intracellular transport namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of the directed movement of substances within cells." [GOC:mah] synonym: "activation of intracellular transport" NARROW [] synonym: "stimulation of intracellular transport" NARROW [] synonym: "up regulation of intracellular transport" EXACT [] synonym: "up-regulation of intracellular transport" EXACT [] synonym: "upregulation of intracellular transport" EXACT [] is_a: GO:0032386 ! regulation of intracellular transport is_a: GO:0048522 ! positive regulation of cellular process is_a: GO:0051050 ! positive regulation of transport intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0046907 ! intracellular transport relationship: positively_regulates GO:0046907 ! intracellular transport [Term] id: GO:0032501 name: multicellular organismal process namespace: biological_process alt_id: GO:0044707 alt_id: GO:0050874 def: "Any biological process, occurring at the level of a multicellular organism, pertinent to its function." [GOC:curators, GOC:dph, GOC:isa_complete, GOC:tb] subset: gocheck_do_not_annotate subset: goslim_pir synonym: "organismal physiological process" EXACT [] synonym: "single-multicellular organism process" RELATED [] is_a: GO:0008150 ! biological_process property_value: RO:0002161 NCBITaxon:2 property_value: RO:0002161 NCBITaxon:2157 property_value: RO:0002161 NCBITaxon:4896 property_value: RO:0002161 NCBITaxon:4932 created_by: jl creation_date: 2012-09-19T16:07:47Z [Term] id: GO:0032502 name: developmental process namespace: biological_process alt_id: GO:0044767 def: "A biological process whose specific outcome is the progression of an integrated living unit: an anatomical structure (which may be a subcellular structure, cell, tissue, or organ), or organism over time from an initial condition to a later condition." [GOC:isa_complete] subset: goslim_agr subset: goslim_aspergillus subset: goslim_flybase_ribbon subset: goslim_pir synonym: "development" NARROW [] synonym: "single-organism developmental process" RELATED [] is_a: GO:0008150 ! biological_process created_by: jl creation_date: 2012-12-19T12:21:31Z [Term] id: GO:0032504 name: multicellular organism reproduction namespace: biological_process def: "The biological process in which new individuals are produced by one or two multicellular organisms. The new individuals inherit some proportion of their genetic material from the parent or parents." [GOC:isa_complete, GOC:jid] subset: goslim_drosophila is_a: GO:0000003 ! reproduction is_a: GO:0032501 ! multicellular organismal process [Term] id: GO:0032589 name: neuron projection membrane namespace: cellular_component def: "The portion of the plasma membrane surrounding a neuron projection." [GOC:mah] is_a: CARO:0000000 ! anatomical entity is_a: GO:0031253 ! cell projection membrane is_a: GO:0031256 ! leading edge membrane intersection_of: GO:0016020 ! membrane intersection_of: bounding_layer_of GO:0043005 ! neuron projection relationship: bounding_layer_of GO:0043005 ! neuron projection relationship: part_of GO:0043005 ! neuron projection [Term] id: GO:0032594 name: protein transport within lipid bilayer namespace: biological_process def: "The directed movement of a protein from one location to another within a lipid bilayer." [GOC:mah] synonym: "protein translocation within membrane" EXACT [] synonym: "receptor translocation within membrane" NARROW [] synonym: "receptor transport within lipid bilayer" NARROW [] is_a: GO:0006886 ! intracellular protein transport is_a: GO:0061024 ! membrane organization intersection_of: GO:0015031 ! protein transport intersection_of: occurs_in GO:0016020 ! membrane relationship: occurs_in GO:0016020 ! membrane [Term] id: GO:0032774 name: RNA biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of RNA, ribonucleic acid, one of the two main type of nucleic acid, consisting of a long, unbranched macromolecule formed from ribonucleotides joined in 3',5'-phosphodiester linkage. Includes polymerization of ribonucleotide monomers. Refers not only to transcription but also to e.g. viral RNA replication." [GOC:mah, GOC:txnOH] comment: Note that, in some cases, viral RNA replication and viral transcription from RNA actually refer to the same process, but may be called differently depending on the focus of a specific research study. synonym: "RNA anabolism" EXACT [] synonym: "RNA biosynthesis" EXACT [] synonym: "RNA formation" EXACT [] synonym: "RNA synthesis" EXACT [] is_a: GO:0009059 ! macromolecule biosynthetic process is_a: GO:0016070 ! RNA metabolic process is_a: GO:0034654 ! nucleobase-containing compound biosynthetic process intersection_of: GO:0009058 ! biosynthetic process intersection_of: has_primary_output CHEBI:33697 ! ribonucleic acid relationship: has_primary_output CHEBI:33697 ! ribonucleic acid [Term] id: GO:0032790 name: ribosome disassembly namespace: biological_process def: "The disaggregation of a ribosome into its constituent components; includes the dissociation of ribosomal subunits." [GOC:mah, GOC:vk] synonym: "ribosome dissociation factor" RELATED [] synonym: "ribosome recycling" NARROW [GOC:db, PMID:9463391] is_a: GO:1903008 ! organelle disassembly intersection_of: GO:0022411 ! cellular component disassembly intersection_of: results_in_disassembly_of GO:0005840 ! ribosome relationship: results_in_disassembly_of GO:0005840 ! ribosome [Term] id: GO:0032838 name: plasma membrane bounded cell projection cytoplasm namespace: cellular_component def: "All of the contents of a plasma membrane bounded cell projection, excluding the plasma membrane surrounding the projection." [GOC:krc, GOC:mah] is_a: GO:0099568 ! cytoplasmic region intersection_of: GO:0005737 ! cytoplasm intersection_of: part_of GO:0120025 ! plasma membrane bounded cell projection relationship: part_of GO:0120025 ! plasma membrane bounded cell projection [Term] id: GO:0032871 name: regulation of karyogamy namespace: biological_process def: "Any process that modulates the frequency, rate or extent of karyogamy, the creation of a single nucleus from multiple nuclei as a result of membrane fusion." [GOC:mah] is_a: GO:1903353 ! regulation of nucleus organization intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0000741 ! karyogamy relationship: regulates GO:0000741 ! karyogamy [Term] id: GO:0032879 name: regulation of localization namespace: biological_process def: "Any process that modulates the frequency, rate or extent of any process in which a cell, a substance, or a cellular entity is transported to, or maintained in, a specific location." [GOC:mah] synonym: "regulation of localisation" EXACT [GOC:mah] is_a: GO:0050789 ! regulation of biological process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0051179 ! localization relationship: regulates GO:0051179 ! localization [Term] id: GO:0032880 name: regulation of protein localization namespace: biological_process alt_id: GO:1903827 def: "Any process that modulates the frequency, rate or extent of any process in which a protein is transported to, or maintained in, a specific location." [GOC:dph, GOC:mah, GOC:tb] subset: goslim_chembl synonym: "regulation of cellular protein localisation" EXACT [GOC:TermGenie] synonym: "regulation of cellular protein localization" EXACT [] synonym: "regulation of protein localisation" EXACT [GOC:mah] is_a: GO:0032879 ! regulation of localization intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0008104 ! protein localization relationship: regulates GO:0008104 ! protein localization property_value: IAO:0000233 https://github.com/geneontology/go-ontology/issues/22021 xsd:anyURI created_by: jl creation_date: 2015-01-20T14:32:14Z [Term] id: GO:0032881 name: regulation of polysaccharide metabolic process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways involving polysaccharides." [GOC:mah] is_a: GO:0006109 ! regulation of carbohydrate metabolic process is_a: GO:0060255 ! regulation of macromolecule metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0005976 ! polysaccharide metabolic process relationship: regulates GO:0005976 ! polysaccharide metabolic process [Term] id: GO:0032885 name: regulation of polysaccharide biosynthetic process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of polysaccharides." [GOC:mah] is_a: GO:0010556 ! regulation of macromolecule biosynthetic process is_a: GO:0032881 ! regulation of polysaccharide metabolic process is_a: GO:0043255 ! regulation of carbohydrate biosynthetic process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0000271 ! polysaccharide biosynthetic process relationship: regulates GO:0000271 ! polysaccharide biosynthetic process [Term] id: GO:0032886 name: regulation of microtubule-based process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of any cellular process that depends upon or alters the microtubule cytoskeleton." [GOC:mah] is_a: GO:0050794 ! regulation of cellular process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0007017 ! microtubule-based process relationship: regulates GO:0007017 ! microtubule-based process [Term] id: GO:0032890 name: regulation of organic acid transport namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the directed movement of organic acids into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." [GOC:mah] is_a: GO:0051049 ! regulation of transport intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0015849 ! organic acid transport relationship: regulates GO:0015849 ! organic acid transport [Term] id: GO:0032891 name: negative regulation of organic acid transport namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of the directed movement of organic acids into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." [GOC:mah] synonym: "down regulation of organic acid transport" EXACT [] synonym: "down-regulation of organic acid transport" EXACT [] synonym: "downregulation of organic acid transport" EXACT [] synonym: "inhibition of organic acid transport" NARROW [] is_a: GO:0032890 ! regulation of organic acid transport is_a: GO:0051051 ! negative regulation of transport intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0015849 ! organic acid transport relationship: negatively_regulates GO:0015849 ! organic acid transport [Term] id: GO:0032892 name: positive regulation of organic acid transport namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of the directed movement of organic acids into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." [GOC:mah] synonym: "activation of organic acid transport" NARROW [] synonym: "stimulation of organic acid transport" NARROW [] synonym: "up regulation of organic acid transport" EXACT [] synonym: "up-regulation of organic acid transport" EXACT [] synonym: "upregulation of organic acid transport" EXACT [] is_a: GO:0032890 ! regulation of organic acid transport is_a: GO:0051050 ! positive regulation of transport intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0015849 ! organic acid transport relationship: positively_regulates GO:0015849 ! organic acid transport [Term] id: GO:0032940 name: secretion by cell namespace: biological_process def: "The controlled release of a substance by a cell." [GOC:mah] synonym: "cellular secretion" EXACT [] xref: Wikipedia:Secretion is_a: GO:0046903 ! secretion is_a: GO:0140352 ! export from cell [Term] id: GO:0032943 name: mononuclear cell proliferation namespace: biological_process def: "The expansion of a mononuclear cell population by cell division. A mononuclear cell is a leukocyte with a single non-segmented nucleus in the mature form." [GOC:add] synonym: "PBMC proliferation" NARROW [] synonym: "peripheral blood mononuclear cell proliferation" NARROW [] is_a: GO:0070661 ! leukocyte proliferation intersection_of: GO:0008283 ! cell population proliferation intersection_of: acts_on_population_of CL:0000842 ! mononuclear cell relationship: acts_on_population_of CL:0000842 ! mononuclear cell [Term] id: GO:0032944 name: regulation of mononuclear cell proliferation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of mononuclear cell proliferation." [GOC:add] synonym: "regulation of PBMC proliferation" NARROW [] synonym: "regulation of peripheral blood mononuclear cell proliferation" NARROW [] is_a: GO:0070663 ! regulation of leukocyte proliferation intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0032943 ! mononuclear cell proliferation relationship: regulates GO:0032943 ! mononuclear cell proliferation [Term] id: GO:0032945 name: negative regulation of mononuclear cell proliferation namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of mononuclear cell proliferation." [GOC:add] synonym: "negative regulation of PBMC proliferation" NARROW [] synonym: "negative regulation of peripheral blood mononuclear cell proliferation" NARROW [] is_a: GO:0032944 ! regulation of mononuclear cell proliferation is_a: GO:0070664 ! negative regulation of leukocyte proliferation intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0032943 ! mononuclear cell proliferation relationship: negatively_regulates GO:0032943 ! mononuclear cell proliferation [Term] id: GO:0032946 name: positive regulation of mononuclear cell proliferation namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of mononuclear cell proliferation." [GOC:add] synonym: "activation of mononuclear cell proliferation" NARROW [] synonym: "positive regulation of PBMC proliferation" NARROW [] synonym: "positive regulation of peripheral blood mononuclear cell proliferation" NARROW [] synonym: "stimulation of mononuclear cell proliferation" NARROW [] synonym: "up regulation of mononuclear cell proliferation" EXACT [] synonym: "up-regulation of mononuclear cell proliferation" EXACT [] synonym: "upregulation of mononuclear cell proliferation" EXACT [] is_a: GO:0032944 ! regulation of mononuclear cell proliferation is_a: GO:0070665 ! positive regulation of leukocyte proliferation intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0032943 ! mononuclear cell proliferation relationship: positively_regulates GO:0032943 ! mononuclear cell proliferation [Term] id: GO:0032956 name: regulation of actin cytoskeleton organization namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the formation, arrangement of constituent parts, or disassembly of cytoskeletal structures comprising actin filaments and their associated proteins." [GOC:mah] synonym: "regulation of actin cytoskeleton organisation" EXACT [GOC:mah] synonym: "regulation of actin cytoskeleton organization and biogenesis" RELATED [GOC:mah] is_a: GO:0032970 ! regulation of actin filament-based process is_a: GO:0051493 ! regulation of cytoskeleton organization intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0030036 ! actin cytoskeleton organization relationship: regulates GO:0030036 ! actin cytoskeleton organization [Term] id: GO:0032963 name: collagen metabolic process namespace: biological_process def: "The chemical reactions and pathways involving collagen, any of a group of fibrous proteins of very high tensile strength that form the main component of connective tissue in animals. Collagen is highly enriched in glycine (some regions are 33% glycine) and proline, occurring predominantly as 3-hydroxyproline (about 20%)." [GOC:mah, ISBN:0198506732] synonym: "collagen metabolism" EXACT [] is_a: GO:0008152 ! metabolic process intersection_of: GO:0008152 ! metabolic process intersection_of: has_primary_input_or_output GO:0005581 ! collagen trimer relationship: has_primary_input_or_output GO:0005581 ! collagen trimer [Term] id: GO:0032964 name: collagen biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of collagen, any of a group of fibrous proteins of very high tensile strength that form the main component of connective tissue in animals. Collagen is highly enriched in glycine (some regions are 33% glycine) and proline, occurring predominantly as 3-hydroxyproline (about 20%)." [GOC:mah, ISBN:0198506732] synonym: "collagen anabolism" EXACT [] synonym: "collagen biosynthesis" EXACT [] synonym: "collagen formation" EXACT [] synonym: "collagen synthesis" EXACT [] is_a: GO:0009058 ! biosynthetic process is_a: GO:0032963 ! collagen metabolic process intersection_of: GO:0009058 ! biosynthetic process intersection_of: has_primary_output GO:0005581 ! collagen trimer relationship: has_primary_output GO:0005581 ! collagen trimer [Term] id: GO:0032965 name: regulation of collagen biosynthetic process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of collagen, any of a group of fibrous proteins of very high tensile strength that form the main component of connective tissue in animals." [GOC:mah] synonym: "regulation of collagen anabolism" EXACT [] synonym: "regulation of collagen biosynthesis" EXACT [] synonym: "regulation of collagen formation" EXACT [] synonym: "regulation of collagen synthesis" EXACT [] is_a: GO:0009889 ! regulation of biosynthetic process is_a: GO:0010712 ! regulation of collagen metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0032964 ! collagen biosynthetic process relationship: regulates GO:0032964 ! collagen biosynthetic process [Term] id: GO:0032966 name: negative regulation of collagen biosynthetic process namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of collagen, any of a group of fibrous proteins of very high tensile strength that form the main component of connective tissue in animals." [GOC:mah] synonym: "negative regulation of collagen anabolism" EXACT [] synonym: "negative regulation of collagen biosynthesis" EXACT [] synonym: "negative regulation of collagen formation" EXACT [] synonym: "negative regulation of collagen synthesis" EXACT [] is_a: GO:0009890 ! negative regulation of biosynthetic process is_a: GO:0010713 ! negative regulation of collagen metabolic process is_a: GO:0032965 ! regulation of collagen biosynthetic process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0032964 ! collagen biosynthetic process relationship: negatively_regulates GO:0032964 ! collagen biosynthetic process [Term] id: GO:0032967 name: positive regulation of collagen biosynthetic process namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of collagen, any of a group of fibrous proteins of very high tensile strength that form the main component of connective tissue in animals." [GOC:mah] synonym: "positive regulation of collagen anabolism" EXACT [] synonym: "positive regulation of collagen biosynthesis" EXACT [] synonym: "positive regulation of collagen formation" EXACT [] synonym: "positive regulation of collagen synthesis" EXACT [] is_a: GO:0009891 ! positive regulation of biosynthetic process is_a: GO:0010714 ! positive regulation of collagen metabolic process is_a: GO:0032965 ! regulation of collagen biosynthetic process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0032964 ! collagen biosynthetic process relationship: positively_regulates GO:0032964 ! collagen biosynthetic process [Term] id: GO:0032970 name: regulation of actin filament-based process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of any cellular process that depends upon or alters the actin cytoskeleton." [GOC:mah] is_a: GO:0050794 ! regulation of cellular process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0030029 ! actin filament-based process relationship: regulates GO:0030029 ! actin filament-based process [Term] id: GO:0032984 name: protein-containing complex disassembly namespace: biological_process alt_id: GO:0034623 alt_id: GO:0043241 alt_id: GO:0043624 def: "The disaggregation of a protein-containing macromolecular complex into its constituent components." [GOC:mah] synonym: "cellular macromolecule complex disassembly" RELATED [] synonym: "cellular protein complex disassembly" RELATED [] synonym: "macromolecule complex disassembly" RELATED [] synonym: "protein complex disassembly" EXACT [] is_a: GO:0022411 ! cellular component disassembly is_a: GO:0043933 ! protein-containing complex organization intersection_of: GO:0022411 ! cellular component disassembly intersection_of: results_in_disassembly_of GO:0032991 ! protein-containing complex relationship: results_in_disassembly_of GO:0032991 ! protein-containing complex property_value: IAO:0000233 https://github.com/geneontology/go-ontology/issues/22580 xsd:anyURI [Term] id: GO:0032988 name: ribonucleoprotein complex disassembly namespace: biological_process def: "The disaggregation of a protein-RNA complex into its constituent components." [GOC:mah] synonym: "protein-RNA complex disassembly" EXACT [] synonym: "RNA-protein complex disassembly" EXACT [] synonym: "RNP complex disassembly" EXACT [] is_a: GO:0032984 ! protein-containing complex disassembly is_a: GO:0071826 ! ribonucleoprotein complex subunit organization intersection_of: GO:0022411 ! cellular component disassembly intersection_of: results_in_disassembly_of GO:1990904 ! ribonucleoprotein complex relationship: results_in_disassembly_of GO:1990904 ! ribonucleoprotein complex [Term] id: GO:0032989 name: cellular component morphogenesis namespace: biological_process def: "The process in which cellular structures, including whole cells or cell parts, are generated and organized." [GOC:dph, GOC:mah, GOC:tb] subset: goslim_pir synonym: "cellular structure morphogenesis" EXACT [GOC:dph, GOC:tb] is_a: GO:0009653 ! anatomical structure morphogenesis is_a: GO:0016043 ! cellular component organization is_a: GO:0048869 ! cellular developmental process intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of GO:0005575 ! cellular_component relationship: results_in_morphogenesis_of GO:0005575 ! cellular_component [Term] id: GO:0032990 name: cell part morphogenesis namespace: biological_process def: "The process in which the anatomical structures of a cell part are generated and organized." [GOC:mah] is_a: GO:0032989 ! cellular component morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of GO:0110165 ! cellular anatomical entity relationship: results_in_morphogenesis_of GO:0110165 ! cellular anatomical entity [Term] id: GO:0032991 name: protein-containing complex namespace: cellular_component alt_id: GO:0043234 def: "A stable assembly of two or more macromolecules, i.e. proteins, nucleic acids, carbohydrates or lipids, in which at least one component is a protein and the constituent parts function together." [GOC:dos, GOC:mah] comment: A protein complex in this context is meant as a stable set of interacting proteins which can be co-purified by an acceptable method, and where the complex has been shown to exist as an isolated, functional unit in vivo. Acceptable experimental methods include stringent protein purification followed by detection of protein interaction. The following methods should be considered non-acceptable: simple immunoprecipitation, pull-down experiments from cell extracts without further purification, colocalization and 2-hybrid screening. Interactions that should not be captured as protein complexes include: 1) enzyme/substrate, receptor/ligand or any similar transient interactions, unless these are a critical part of the complex assembly or are required e.g. for the receptor to be functional; 2) proteins associated in a pull-down/co-immunoprecipitation assay with no functional link or any evidence that this is a defined biological entity rather than a loose-affinity complex; 3) any complex where the only evidence is based on genetic interaction data; 4) partial complexes, where some subunits (e.g. transmembrane ones) cannot be expressed as recombinant proteins and are excluded from experiments (in this case, independent evidence is necessary to find out the composition of the full complex, if known). Interactions that may be captured as protein complexes include: 1) enzyme/substrate or receptor/ligand if the complex can only assemble and become functional in the presence of both classes of subunits; 2) complexes where one of the members has not been shown to be physically linked to the other(s), but is a homologue of, and has the same functionality as, a protein that has been experimentally demonstrated to form a complex with the other member(s); 3) complexes whose existence is accepted based on localization and pharmacological studies, but for which experimental evidence is not yet available for the complex as a whole. subset: goslim_agr subset: goslim_chembl subset: goslim_flybase_ribbon subset: goslim_generic subset: goslim_pir synonym: "macromolecular complex" EXACT [] synonym: "macromolecule complex" EXACT [] synonym: "protein complex" NARROW [] synonym: "protein containing complex" EXACT [] synonym: "protein-protein complex" NARROW [] is_a: GO:0005575 ! cellular_component disjoint_from: GO:0110165 ! cellular anatomical entity relationship: has_part PR:000000001 ! protein [Term] id: GO:0033002 name: muscle cell proliferation namespace: biological_process def: "The expansion of a muscle cell population by cell division." [CL:0000187, GOC:mah] synonym: "myocyte proliferation" EXACT [] is_a: GO:0008283 ! cell population proliferation intersection_of: GO:0008283 ! cell population proliferation intersection_of: acts_on_population_of CL:0000187 ! muscle cell relationship: acts_on_population_of CL:0000187 ! muscle cell [Term] id: GO:0033028 name: myeloid cell apoptotic process namespace: biological_process def: "Any apoptotic process in a myeloid cell, a cell of the monocyte, granulocyte, mast cell, megakaryocyte, or erythroid lineage." [CL:0000763, GOC:add, GOC:mtg_apoptosis, PMID:11292031, PMID:15330259, PMID:17133093] synonym: "apoptosis of myeloid cells" EXACT [] synonym: "myeloid cell apoptosis" NARROW [] is_a: GO:0006915 ! apoptotic process intersection_of: GO:0006915 ! apoptotic process intersection_of: occurs_in CL:0000763 ! myeloid cell relationship: occurs_in CL:0000763 ! myeloid cell [Term] id: GO:0033032 name: regulation of myeloid cell apoptotic process namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of myeloid cell apoptotic process." [GOC:add, GOC:mtg_apoptosis] synonym: "regulation of myeloid cell apoptosis" NARROW [] is_a: GO:0042981 ! regulation of apoptotic process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0033028 ! myeloid cell apoptotic process relationship: regulates GO:0033028 ! myeloid cell apoptotic process [Term] id: GO:0033033 name: negative regulation of myeloid cell apoptotic process namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of a myeloid cell apoptotic process." [GOC:add, GOC:mtg_apoptosis] synonym: "down regulation of myeloid cell apoptosis" EXACT [] synonym: "down-regulation of myeloid cell apoptosis" EXACT [] synonym: "downregulation of myeloid cell apoptosis" EXACT [] synonym: "inhibition of myeloid cell apoptosis" NARROW [] synonym: "negative regulation of myeloid cell apoptosis" NARROW [] is_a: GO:0033032 ! regulation of myeloid cell apoptotic process is_a: GO:0043066 ! negative regulation of apoptotic process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0033028 ! myeloid cell apoptotic process relationship: negatively_regulates GO:0033028 ! myeloid cell apoptotic process [Term] id: GO:0033034 name: positive regulation of myeloid cell apoptotic process namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of myeloid cell apoptotic process." [GOC:add, GOC:mtg_apoptosis] synonym: "activation of myeloid cell apoptosis" NARROW [] synonym: "positive regulation of myeloid cell apoptosis" NARROW [] synonym: "stimulation of myeloid cell apoptosis" NARROW [] synonym: "up regulation of myeloid cell apoptosis" EXACT [] synonym: "up-regulation of myeloid cell apoptosis" EXACT [] synonym: "upregulation of myeloid cell apoptosis" EXACT [] is_a: GO:0033032 ! regulation of myeloid cell apoptotic process is_a: GO:0043065 ! positive regulation of apoptotic process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0033028 ! myeloid cell apoptotic process relationship: positively_regulates GO:0033028 ! myeloid cell apoptotic process [Term] id: GO:0033036 name: macromolecule localization namespace: biological_process def: "Any process in which a macromolecule is transported to, or maintained in, a specific location." [GOC:mah] subset: goslim_flybase_ribbon synonym: "macromolecule localisation" EXACT [GOC:mah] is_a: GO:0051179 ! localization [Term] id: GO:0033037 name: polysaccharide localization namespace: biological_process def: "Any process in which a polysaccharide is transported to, or maintained in, a specific location." [GOC:mah] synonym: "polysaccharide localisation" EXACT [GOC:mah] is_a: GO:0033036 ! macromolecule localization intersection_of: GO:0033036 ! macromolecule localization intersection_of: transports_or_maintains_localization_of CHEBI:18154 ! polysaccharide relationship: transports_or_maintains_localization_of CHEBI:18154 ! polysaccharide [Term] id: GO:0033043 name: regulation of organelle organization namespace: biological_process def: "Any process that modulates the frequency, rate or extent of a process involved in the formation, arrangement of constituent parts, or disassembly of an organelle." [GOC:mah] subset: goslim_yeast synonym: "regulation of organelle organisation" EXACT [GOC:mah] synonym: "regulation of organelle organization and biogenesis" RELATED [GOC:mah] is_a: GO:0051128 ! regulation of cellular component organization intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0006996 ! organelle organization relationship: regulates GO:0006996 ! organelle organization [Term] id: GO:0033044 name: regulation of chromosome organization namespace: biological_process def: "Any process that modulates the frequency, rate or extent of a process involved in the formation, arrangement of constituent parts, or disassembly of a chromosome." [GOC:mah] synonym: "regulation of chromosome organisation" EXACT [GOC:mah] synonym: "regulation of chromosome organization and biogenesis" RELATED [GOC:mah] is_a: GO:0033043 ! regulation of organelle organization intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0051276 ! chromosome organization relationship: regulates GO:0051276 ! chromosome organization [Term] id: GO:0033045 name: regulation of sister chromatid segregation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of sister chromatid segregation." [GOC:mah] is_a: GO:0010564 ! regulation of cell cycle process is_a: GO:0033044 ! regulation of chromosome organization is_a: GO:0051983 ! regulation of chromosome segregation intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0000819 ! sister chromatid segregation relationship: regulates GO:0000819 ! sister chromatid segregation [Term] id: GO:0033046 name: negative regulation of sister chromatid segregation namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of sister chromatid segregation." [GOC:mah] is_a: GO:0010948 ! negative regulation of cell cycle process is_a: GO:0033045 ! regulation of sister chromatid segregation is_a: GO:0051985 ! negative regulation of chromosome segregation is_a: GO:2001251 ! negative regulation of chromosome organization intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0000819 ! sister chromatid segregation relationship: negatively_regulates GO:0000819 ! sister chromatid segregation [Term] id: GO:0033047 name: regulation of mitotic sister chromatid segregation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of sister chromatid segregation during mitosis." [GOC:mah] is_a: GO:0033045 ! regulation of sister chromatid segregation intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0000070 ! mitotic sister chromatid segregation relationship: regulates GO:0000070 ! mitotic sister chromatid segregation [Term] id: GO:0033048 name: negative regulation of mitotic sister chromatid segregation namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of sister chromatid segregation during mitosis." [GOC:mah] is_a: GO:0033046 ! negative regulation of sister chromatid segregation is_a: GO:0033047 ! regulation of mitotic sister chromatid segregation intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0000070 ! mitotic sister chromatid segregation relationship: negatively_regulates GO:0000070 ! mitotic sister chromatid segregation [Term] id: GO:0033059 name: cellular pigmentation namespace: biological_process def: "The deposition or aggregation of coloring matter in a cell." [GOC:mtg_MIT_16mar07] is_a: GO:0009987 ! cellular process is_a: GO:0043473 ! pigmentation [Term] id: GO:0033157 name: regulation of intracellular protein transport namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the directed movement of proteins within cells." [GOC:mah] is_a: GO:0032386 ! regulation of intracellular transport is_a: GO:0051223 ! regulation of protein transport intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0006886 ! intracellular protein transport relationship: regulates GO:0006886 ! intracellular protein transport relationship: regulates GO:0034613 {http://purl.obolibrary.org/obo/IAO_0000233="https://github.com/geneontology/go-ontology/issues/13926"} ! cellular protein localization [Term] id: GO:0033218 name: amide binding namespace: molecular_function def: "Binding to an amide, any derivative of an oxoacid in which an acidic hydroxy group has been replaced by an amino or substituted amino group." [GOC:mah] subset: goslim_pir is_a: GO:0005488 ! binding intersection_of: GO:0005488 ! binding intersection_of: has_input CHEBI:32988 ! amide relationship: has_input CHEBI:32988 ! amide [Term] id: GO:0033238 name: regulation of cellular amine metabolic process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways by which individual cells transform amines." [GOC:mah] synonym: "regulation of amine metabolism" EXACT [] is_a: GO:0031323 ! regulation of cellular metabolic process is_a: GO:0051171 ! regulation of nitrogen compound metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0044106 ! cellular amine metabolic process relationship: regulates GO:0044106 ! cellular amine metabolic process [Term] id: GO:0033239 name: negative regulation of cellular amine metabolic process namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of the chemical reactions and pathways involving amines." [GOC:mah] synonym: "negative regulation of amine metabolism" EXACT [] is_a: GO:0031324 ! negative regulation of cellular metabolic process is_a: GO:0033238 ! regulation of cellular amine metabolic process is_a: GO:0051172 ! negative regulation of nitrogen compound metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0044106 ! cellular amine metabolic process relationship: negatively_regulates GO:0044106 ! cellular amine metabolic process [Term] id: GO:0033240 name: positive regulation of cellular amine metabolic process namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways involving amines." [GOC:mah] synonym: "positive regulation of amine metabolism" EXACT [] is_a: GO:0031325 ! positive regulation of cellular metabolic process is_a: GO:0033238 ! regulation of cellular amine metabolic process is_a: GO:0051173 ! positive regulation of nitrogen compound metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0044106 ! cellular amine metabolic process relationship: positively_regulates GO:0044106 ! cellular amine metabolic process [Term] id: GO:0033278 name: cell proliferation in midbrain namespace: biological_process def: "The multiplication or reproduction of cells, resulting in the expansion of a cell population in the midbrain." [GO_REF:0000021, GOC:dgf] synonym: "cell proliferation in mesencephalon" EXACT [] synonym: "mesencepahalic cell proliferation" RELATED [] is_a: GO:0061351 ! neural precursor cell proliferation intersection_of: GO:0008283 ! cell population proliferation intersection_of: occurs_in UBERON:0001891 ! midbrain relationship: occurs_in UBERON:0001891 ! midbrain relationship: part_of GO:0030901 ! midbrain development [Term] id: GO:0033341 name: regulation of collagen binding namespace: biological_process def: "Any process that modulates the frequency, rate or extent of collagen binding." [GOC:mah] is_a: GO:0051098 ! regulation of binding intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0005518 ! collagen binding relationship: regulates GO:0005518 ! collagen binding [Term] id: GO:0033342 name: negative regulation of collagen binding namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of collagen binding." [GOC:mah] synonym: "down regulation of collagen binding" EXACT [] synonym: "down-regulation of collagen binding" EXACT [] synonym: "downregulation of collagen binding" EXACT [] synonym: "inhibition of collagen binding" NARROW [] is_a: GO:0033341 ! regulation of collagen binding is_a: GO:0051100 ! negative regulation of binding intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0005518 ! collagen binding relationship: negatively_regulates GO:0005518 ! collagen binding [Term] id: GO:0033343 name: positive regulation of collagen binding namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of collagen binding." [GOC:mah] synonym: "activation of collagen binding" NARROW [] synonym: "stimulation of collagen binding" NARROW [] synonym: "up regulation of collagen binding" EXACT [] synonym: "up-regulation of collagen binding" EXACT [] synonym: "upregulation of collagen binding" EXACT [] is_a: GO:0033341 ! regulation of collagen binding is_a: GO:0051099 ! positive regulation of binding intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0005518 ! collagen binding relationship: positively_regulates GO:0005518 ! collagen binding [Term] id: GO:0033365 name: protein localization to organelle namespace: biological_process def: "A process in which a protein is transported to, or maintained in, a location within an organelle." [GOC:mah] synonym: "protein localisation to organelle" EXACT [GOC:mah] synonym: "protein localization in organelle" EXACT [GOC:mah] is_a: GO:0034613 ! cellular protein localization intersection_of: GO:0008104 ! protein localization intersection_of: has_target_end_location GO:0043226 ! organelle relationship: has_target_end_location GO:0043226 ! organelle [Term] id: GO:0033604 name: negative regulation of catecholamine secretion namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of the regulated release of a catecholamine." [GOC:mah] synonym: "down regulation of catecholamine secretion" EXACT [] synonym: "down-regulation of catecholamine secretion" EXACT [] synonym: "downregulation of catecholamine secretion" EXACT [] synonym: "inhibition of catecholamine secretion" NARROW [] is_a: GO:0050433 ! regulation of catecholamine secretion is_a: GO:0051953 ! negative regulation of amine transport is_a: GO:1903531 ! negative regulation of secretion by cell intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0050432 ! catecholamine secretion relationship: negatively_regulates GO:0050432 ! catecholamine secretion [Term] id: GO:0033605 name: positive regulation of catecholamine secretion namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of the regulated release of a catecholamine." [GOC:mah] synonym: "activation of catecholamine secretion" NARROW [] synonym: "stimulation of catecholamine secretion" NARROW [] synonym: "up regulation of catecholamine secretion" EXACT [] synonym: "up-regulation of catecholamine secretion" EXACT [] synonym: "upregulation of catecholamine secretion" EXACT [] is_a: GO:0050433 ! regulation of catecholamine secretion is_a: GO:0051954 ! positive regulation of amine transport is_a: GO:1903532 ! positive regulation of secretion by cell intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0050432 ! catecholamine secretion relationship: positively_regulates GO:0050432 ! catecholamine secretion [Term] id: GO:0033673 name: negative regulation of kinase activity namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of kinase activity, the catalysis of the transfer of a phosphate group, usually from ATP, to a substrate molecule." [GOC:mah] synonym: "down regulation of kinase activity" EXACT [] synonym: "down-regulation of kinase activity" EXACT [] synonym: "downregulation of kinase activity" EXACT [] synonym: "inhibition of kinase activity" NARROW [] synonym: "kinase inhibitor" NARROW [] is_a: GO:0042326 ! negative regulation of phosphorylation is_a: GO:0043549 ! regulation of kinase activity is_a: GO:0051348 ! negative regulation of transferase activity intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0016301 ! kinase activity relationship: negatively_regulates GO:0016301 ! kinase activity [Term] id: GO:0033674 name: positive regulation of kinase activity namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of kinase activity, the catalysis of the transfer of a phosphate group, usually from ATP, to a substrate molecule." [GOC:mah] synonym: "kinase activator" NARROW [] synonym: "stimulation of kinase activity" NARROW [] synonym: "up regulation of kinase activity" EXACT [] synonym: "up-regulation of kinase activity" EXACT [] synonym: "upregulation of kinase activity" EXACT [] is_a: GO:0042327 ! positive regulation of phosphorylation is_a: GO:0043549 ! regulation of kinase activity is_a: GO:0051347 ! positive regulation of transferase activity intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0016301 ! kinase activity relationship: positively_regulates GO:0016301 ! kinase activity [Term] id: GO:0033692 name: cellular polysaccharide biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of polysaccharides, polymers of many (typically more than 10) monosaccharide residues linked glycosidically, occurring at the level of an individual cell." [GOC:go_curators] synonym: "cellular glycan biosynthesis" EXACT [] synonym: "cellular glycan biosynthetic process" EXACT [] synonym: "cellular polysaccharide anabolism" EXACT [] synonym: "cellular polysaccharide biosynthesis" EXACT [] synonym: "cellular polysaccharide formation" EXACT [] synonym: "cellular polysaccharide synthesis" EXACT [] is_a: GO:0000271 ! polysaccharide biosynthetic process is_a: GO:0034637 ! cellular carbohydrate biosynthetic process is_a: GO:0034645 ! cellular macromolecule biosynthetic process is_a: GO:0044264 ! cellular polysaccharide metabolic process [Term] id: GO:0033696 name: heterochromatin boundary formation namespace: biological_process alt_id: GO:0031454 def: "A process that forms a boundary that limits the spreading of heterochromatin along a chromosome." [GOC:mah] synonym: "maintenance of heterochromatin boundaries" RELATED [] synonym: "negative regulation of extent of heterochromatin assembly" RELATED [] synonym: "negative regulation of extent of heterochromatin formation" RELATED [] synonym: "negative regulation of heterochromatin spreading" RELATED [] synonym: "regulation of extent of heterochromatin assembly" RELATED [] synonym: "regulation of extent of heterochromatin formation" EXACT [] synonym: "regulation of heterochromatin spreading" RELATED [] is_a: GO:0070828 ! heterochromatin organization relationship: part_of GO:0031507 ! heterochromatin assembly property_value: IAO:0000233 https://github.com/geneontology/go-ontology/issues/22028 xsd:anyURI [Term] id: GO:0033750 name: ribosome localization namespace: biological_process alt_id: GO:0033753 def: "A process in which a ribosome is transported to, and/or maintained in, a specific location." [GOC:mah] synonym: "establishment of ribosome localisation" RELATED [] synonym: "establishment of ribosome localization" RELATED [] synonym: "ribosome localisation" RELATED [] is_a: GO:0051640 ! organelle localization intersection_of: GO:0051179 ! localization intersection_of: transports_or_maintains_localization_of GO:0005840 ! ribosome relationship: transports_or_maintains_localization_of GO:0005840 ! ribosome [Term] id: GO:0033762 name: response to glucagon namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a glucagon stimulus." [GOC:sl] synonym: "response to glucagon stimulus" EXACT [GOC:dos] is_a: GO:0043434 ! response to peptide hormone intersection_of: GO:0050896 ! response to stimulus intersection_of: has_input CHEBI:5391 ! glucagon relationship: has_input CHEBI:5391 ! glucagon [Term] id: GO:0033993 name: response to lipid namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a lipid stimulus." [GOC:sl] is_a: GO:0010033 ! response to organic substance intersection_of: GO:0050896 ! response to stimulus intersection_of: has_input CHEBI:18059 ! lipid relationship: has_input CHEBI:18059 ! lipid [Term] id: GO:0034067 name: protein localization to Golgi apparatus namespace: biological_process alt_id: GO:0000042 alt_id: GO:0072600 def: "A process in which a protein is transported to, or maintained in, a location within the Golgi apparatus." [GOC:mah] synonym: "establishment of protein localisation to Golgi" NARROW [GOC:mah] synonym: "establishment of protein localization in Golgi" NARROW [] synonym: "establishment of protein localization to Golgi" NARROW [] synonym: "establishment of protein localization to Golgi apparatus" NARROW [GOC:mah] synonym: "protein localisation in Golgi apparatus" EXACT [GOC:mah] synonym: "protein localization in Golgi apparatus" EXACT [] synonym: "protein targeting to Golgi" RELATED [] synonym: "protein-Golgi targeting" RELATED [] is_a: GO:0033365 ! protein localization to organelle intersection_of: GO:0008104 ! protein localization intersection_of: has_target_end_location GO:0005794 ! Golgi apparatus relationship: has_target_end_location GO:0005794 ! Golgi apparatus created_by: mah creation_date: 2011-02-14T02:26:36Z [Term] id: GO:0034101 name: erythrocyte homeostasis namespace: biological_process def: "Any process of regulating the production and elimination of erythrocytes within an organism." [GOC:add, PMID:10694114, PMID:14754397] synonym: "RBC homeostasis" EXACT [CL:0000232] synonym: "red blood cell homeostasis" EXACT [CL:0000232] is_a: GO:0002262 ! myeloid cell homeostasis intersection_of: GO:0048872 ! homeostasis of number of cells intersection_of: acts_on_population_of CL:0000232 ! erythrocyte relationship: acts_on_population_of CL:0000232 ! erythrocyte [Term] id: GO:0034242 name: negative regulation of syncytium formation by plasma membrane fusion namespace: biological_process def: "Any process that decreases the frequency, rate or extent of the formation of a syncytium, a mass of cytoplasm containing several nuclei enclosed within a single plasma membrane, by the fusion of the plasma membranes of two or more individual cells." [GOC:mah] is_a: GO:0051093 ! negative regulation of developmental process is_a: GO:0051129 ! negative regulation of cellular component organization is_a: GO:0060142 ! regulation of syncytium formation by plasma membrane fusion intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0000768 ! syncytium formation by plasma membrane fusion relationship: negatively_regulates GO:0000768 ! syncytium formation by plasma membrane fusion [Term] id: GO:0034248 name: regulation of cellular amide metabolic process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways involving amides." [GOC:mah] synonym: "regulation of amide metabolism" EXACT [] is_a: GO:0031323 ! regulation of cellular metabolic process is_a: GO:0051171 ! regulation of nitrogen compound metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0043603 ! cellular amide metabolic process relationship: regulates GO:0043603 ! cellular amide metabolic process [Term] id: GO:0034249 name: negative regulation of cellular amide metabolic process namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of the chemical reactions and pathways involving amides." [GOC:mah] synonym: "negative regulation of amide metabolism" EXACT [] is_a: GO:0031324 ! negative regulation of cellular metabolic process is_a: GO:0034248 ! regulation of cellular amide metabolic process is_a: GO:0051172 ! negative regulation of nitrogen compound metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0043603 ! cellular amide metabolic process relationship: negatively_regulates GO:0043603 ! cellular amide metabolic process [Term] id: GO:0034250 name: positive regulation of cellular amide metabolic process namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways involving amides." [GOC:mah] synonym: "positive regulation of amide metabolism" EXACT [] is_a: GO:0031325 ! positive regulation of cellular metabolic process is_a: GO:0034248 ! regulation of cellular amide metabolic process is_a: GO:0051173 ! positive regulation of nitrogen compound metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0043603 ! cellular amide metabolic process relationship: positively_regulates GO:0043603 ! cellular amide metabolic process [Term] id: GO:0034329 name: cell junction assembly namespace: biological_process def: "A cellular process that results in the aggregation, arrangement and bonding together of a set of components to form a cell junction." [GOC:mah] is_a: GO:0022607 ! cellular component assembly is_a: GO:0034330 ! cell junction organization intersection_of: GO:0022607 ! cellular component assembly intersection_of: results_in_assembly_of GO:0030054 ! cell junction relationship: results_in_assembly_of GO:0030054 ! cell junction [Term] id: GO:0034330 name: cell junction organization namespace: biological_process def: "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of a cell junction. A cell junction is a specialized region of connection between two cells or between a cell and the extracellular matrix." [GOC:dph, GOC:jl, GOC:mah] subset: goslim_chembl subset: goslim_generic synonym: "cell junction assembly and maintenance" EXACT [] synonym: "cell junction biogenesis" RELATED [] synonym: "cell junction organisation" EXACT [GOC:mah] is_a: GO:0016043 ! cellular component organization intersection_of: GO:0016043 ! cellular component organization intersection_of: results_in_organization_of GO:0030054 ! cell junction relationship: results_in_organization_of GO:0030054 ! cell junction [Term] id: GO:0034349 name: glial cell apoptotic process namespace: biological_process def: "Any apoptotic process in a glial cell, a non-neuronal cell of the nervous system." [CL:0000125, GOC:mtg_apoptosis, GOC:sart] synonym: "apoptosis of glia" EXACT [] synonym: "apoptosis of glial cells" EXACT [] synonym: "glia apoptosis" EXACT [] synonym: "glia programmed cell death by apoptosis" EXACT [] synonym: "glial cell apoptosis" NARROW [] synonym: "glial cell programmed cell death by apoptosis" EXACT [] synonym: "programmed cell death of glia by apoptosis" EXACT [] synonym: "programmed cell death of glial cells by apoptosis" EXACT [] synonym: "programmed cell death, glia" EXACT [] synonym: "programmed cell death, glial cells" EXACT [] is_a: GO:0006915 ! apoptotic process intersection_of: GO:0006915 ! apoptotic process intersection_of: occurs_in CL:0000125 ! glial cell relationship: occurs_in CL:0000125 ! glial cell [Term] id: GO:0034350 name: regulation of glial cell apoptotic process namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of glial cell apoptotic process." [GOC:mah, GOC:mtg_apoptosis] synonym: "regulation of glial cell apoptosis" RELATED [] is_a: GO:0042981 ! regulation of apoptotic process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0034349 ! glial cell apoptotic process relationship: regulates GO:0034349 ! glial cell apoptotic process [Term] id: GO:0034351 name: negative regulation of glial cell apoptotic process namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of glial cell apoptotic process." [GOC:mah, GOC:mtg_apoptosis] synonym: "down regulation of glial cell apoptosis" EXACT [] synonym: "down-regulation of glial cell apoptosis" EXACT [] synonym: "downregulation of glial cell apoptosis" EXACT [] synonym: "inhibition of glial cell apoptosis" NARROW [] synonym: "negative regulation of glial cell apoptosis" NARROW [] is_a: GO:0034350 ! regulation of glial cell apoptotic process is_a: GO:0043066 ! negative regulation of apoptotic process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0034349 ! glial cell apoptotic process relationship: negatively_regulates GO:0034349 ! glial cell apoptotic process [Term] id: GO:0034352 name: positive regulation of glial cell apoptotic process namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of glial cell apoptotic process." [GOC:mah, GOC:mtg_apoptosis] synonym: "activation of glial cell apoptosis" NARROW [] synonym: "positive regulation of glial cell apoptosis" NARROW [] synonym: "stimulation of glial cell apoptosis" NARROW [] synonym: "up regulation of glial cell apoptosis" EXACT [] synonym: "up-regulation of glial cell apoptosis" EXACT [] synonym: "upregulation of glial cell apoptosis" EXACT [] is_a: GO:0034350 ! regulation of glial cell apoptotic process is_a: GO:0043065 ! positive regulation of apoptotic process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0034349 ! glial cell apoptotic process relationship: positively_regulates GO:0034349 ! glial cell apoptotic process [Term] id: GO:0034390 name: smooth muscle cell apoptotic process namespace: biological_process def: "Any apoptotic process in a smooth muscle cell. Smooth muscle consists of non-striated, elongated, spindle-shaped cell found lining the digestive tract, uterus, and blood vessels." [CL:0000192, GOC:BHF, GOC:mah, GOC:mtg_apoptosis, GOC:rl] synonym: "apoptosis of smooth muscle cells" EXACT [] synonym: "programmed cell death of smooth muscle cells by apoptosis" EXACT [] synonym: "programmed cell death, smooth muscle cells" EXACT [] synonym: "SMC apoptosis" EXACT [] synonym: "smooth muscle cell apoptosis" NARROW [] synonym: "smooth muscle cell programmed cell death by apoptosis" EXACT [] is_a: GO:0010657 ! muscle cell apoptotic process intersection_of: GO:0006915 ! apoptotic process intersection_of: occurs_in CL:0000192 ! smooth muscle cell relationship: occurs_in CL:0000192 ! smooth muscle cell [Term] id: GO:0034391 name: regulation of smooth muscle cell apoptotic process namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of smooth muscle cell apoptotic process." [GOC:BHF, GOC:mtg_apoptosis, GOC:rl] synonym: "regulation of SMC apoptosis" EXACT [] synonym: "regulation of smooth muscle cell apoptosis" NARROW [] is_a: GO:0010660 ! regulation of muscle cell apoptotic process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0034390 ! smooth muscle cell apoptotic process relationship: regulates GO:0034390 ! smooth muscle cell apoptotic process [Term] id: GO:0034392 name: negative regulation of smooth muscle cell apoptotic process namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate, or extent of smooth muscle cell apoptotic process." [GOC:BHF, GOC:mtg_apoptosis, GOC:rl] synonym: "down regulation of smooth muscle cell apoptosis" EXACT [] synonym: "down-regulation of smooth muscle cell apoptosis" EXACT [] synonym: "downregulation of smooth muscle cell apoptosis" EXACT [] synonym: "inhibition of smooth muscle cell apoptosis" NARROW [] synonym: "negative regulation of SMC apoptosis" EXACT [] synonym: "negative regulation of smooth muscle cell apoptosis" NARROW [] is_a: GO:0010656 ! negative regulation of muscle cell apoptotic process is_a: GO:0034391 ! regulation of smooth muscle cell apoptotic process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0034390 ! smooth muscle cell apoptotic process relationship: negatively_regulates GO:0034390 ! smooth muscle cell apoptotic process [Term] id: GO:0034393 name: positive regulation of smooth muscle cell apoptotic process namespace: biological_process def: "Any process that activates or increases the frequency, rate, or extent of smooth muscle cell apoptotic process." [GOC:BHF, GOC:mtg_apoptosis, GOC:rl] synonym: "activation of smooth muscle cell apoptosis" NARROW [] synonym: "positive regulation of SMC apoptosis" EXACT [] synonym: "positive regulation of smooth muscle cell apoptosis" NARROW [] synonym: "stimulation of smooth muscle cell apoptosis" NARROW [] synonym: "up regulation of smooth muscle cell apoptosis" EXACT [] synonym: "up-regulation of smooth muscle cell apoptosis" EXACT [] synonym: "upregulation of smooth muscle cell apoptosis" EXACT [] is_a: GO:0010661 ! positive regulation of muscle cell apoptotic process is_a: GO:0034391 ! regulation of smooth muscle cell apoptotic process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0034390 ! smooth muscle cell apoptotic process relationship: positively_regulates GO:0034390 ! smooth muscle cell apoptotic process [Term] id: GO:0034436 name: glycoprotein transport namespace: biological_process def: "The directed movement of a glycoprotein, a protein that contains covalently bound glycose (i.e. monosaccharide) residues, into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." [GOC:BHF, GOC:mah, GOC:rl] is_a: GO:0015031 ! protein transport is_a: GO:1901264 ! carbohydrate derivative transport intersection_of: GO:0006810 ! transport intersection_of: transports_or_maintains_localization_of CHEBI:17089 ! glycoprotein relationship: transports_or_maintains_localization_of CHEBI:17089 ! glycoprotein [Term] id: GO:0034502 name: protein localization to chromosome namespace: biological_process def: "Any process in which a protein is transported to, or maintained at, a specific location on a chromosome." [GOC:mah] synonym: "condensin localization to chromosome" NARROW [] synonym: "protein localisation to chromosome" EXACT [GOC:mah] is_a: GO:0033365 ! protein localization to organelle intersection_of: GO:0008104 ! protein localization intersection_of: has_target_end_location GO:0005694 ! chromosome relationship: has_target_end_location GO:0005694 ! chromosome [Term] id: GO:0034504 name: protein localization to nucleus namespace: biological_process alt_id: GO:0044744 def: "A process in which a protein transports or maintains the localization of another protein to the nucleus." [GOC:ecd] synonym: "protein localisation to nucleus" EXACT [GOC:mah] synonym: "protein localization in cell nucleus" EXACT [] synonym: "protein localization in nucleus" EXACT [GOC:mah] synonym: "protein targeting to nucleus" RELATED [] is_a: GO:0033365 ! protein localization to organelle intersection_of: GO:0008104 ! protein localization intersection_of: has_target_end_location GO:0005634 ! nucleus relationship: has_target_end_location GO:0005634 ! nucleus creation_date: 2012-11-07T15:45:54Z [Term] id: GO:0034613 name: cellular protein localization namespace: biological_process alt_id: GO:0016249 def: "Any process in which a protein is transported to, and/or maintained in, a specific location at the level of a cell. Localization at the cellular level encompasses movement within the cell, from within the cell to the cell surface, or from one location to another at the surface of a cell." [GOC:mah] synonym: "cellular protein localisation" EXACT [GOC:mah] synonym: "channel localizer activity" NARROW [GOC:mah] is_a: GO:0008104 ! protein localization is_a: GO:0070727 ! cellular macromolecule localization [Term] id: GO:0034637 name: cellular carbohydrate biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of carbohydrates, any of a group of organic compounds based of the general formula Cx(H2O)y, carried out by individual cells." [GOC:mah] is_a: GO:0016051 ! carbohydrate biosynthetic process is_a: GO:0044249 ! cellular biosynthetic process is_a: GO:0044262 ! cellular carbohydrate metabolic process [Term] id: GO:0034641 name: cellular nitrogen compound metabolic process namespace: biological_process def: "The chemical reactions and pathways involving various organic and inorganic nitrogenous compounds, as carried out by individual cells." [GOC:mah] subset: goslim_chembl synonym: "cellular nitrogen compound metabolism" EXACT [] is_a: GO:0006807 ! nitrogen compound metabolic process is_a: GO:0044237 ! cellular metabolic process [Term] id: GO:0034645 name: cellular macromolecule biosynthetic process namespace: biological_process alt_id: GO:0034961 def: "The chemical reactions and pathways resulting in the formation of a macromolecule, any molecule of high relative molecular mass, the structure of which essentially comprises the multiple repetition of units derived, actually or conceptually, from molecules of low relative molecular mass, carried out by individual cells." [GOC:mah] synonym: "cellular biopolymer biosynthetic process" EXACT [GOC:mtg_chebi_dec09] synonym: "cellular macromolecule anabolism" EXACT [GOC:mah] synonym: "cellular macromolecule biosynthesis" EXACT [GOC:mah] synonym: "cellular macromolecule formation" EXACT [GOC:mah] synonym: "cellular macromolecule synthesis" EXACT [GOC:mah] is_a: GO:0009059 ! macromolecule biosynthetic process is_a: GO:0044249 ! cellular biosynthetic process is_a: GO:0044260 ! cellular macromolecule metabolic process [Term] id: GO:0034654 name: nucleobase-containing compound biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of nucleobases, nucleosides, nucleotides and nucleic acids." [GOC:mah] synonym: "nucleobase, nucleoside, nucleotide and nucleic acid anabolism" EXACT [] synonym: "nucleobase, nucleoside, nucleotide and nucleic acid biosynthesis" EXACT [] synonym: "nucleobase, nucleoside, nucleotide and nucleic acid formation" EXACT [] synonym: "nucleobase, nucleoside, nucleotide and nucleic acid synthesis" NARROW [] is_a: GO:0006139 ! nucleobase-containing compound metabolic process is_a: GO:0018130 ! heterocycle biosynthetic process is_a: GO:0019438 ! aromatic compound biosynthetic process is_a: GO:0044271 ! cellular nitrogen compound biosynthetic process is_a: GO:1901362 ! organic cyclic compound biosynthetic process intersection_of: GO:0009058 ! biosynthetic process intersection_of: has_primary_output CHEBI:61120 ! nucleobase-containing molecular entity relationship: has_primary_output CHEBI:61120 ! nucleobase-containing molecular entity [Term] id: GO:0034769 name: basement membrane disassembly namespace: biological_process alt_id: GO:0060881 def: "The controlled breakdown of the basement membrane in the context of a normal process such as imaginal disc eversion." [GOC:sart, PMID:17301221] comment: Note that this term has no relationship to 'membrane disassembly ; GO:0030397' because the basement membrane is not a lipid bilayer. synonym: "basal lamina disassembly" RELATED [] is_a: GO:0022617 ! extracellular matrix disassembly is_a: GO:0071711 ! basement membrane organization intersection_of: GO:0022411 ! cellular component disassembly intersection_of: results_in_disassembly_of GO:0005604 ! basement membrane relationship: results_in_disassembly_of GO:0005604 ! basement membrane created_by: dph creation_date: 2009-08-13T11:27:24Z [Term] id: GO:0035050 name: embryonic heart tube development namespace: biological_process def: "The process whose specific outcome is the progression of the embryonic heart tube over time, from its formation to the mature structure. The heart tube forms as the heart rudiment from the heart field." [GOC:go_curators] is_a: GO:0035295 ! tube development is_a: GO:0060429 ! epithelium development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0004141 ! heart tube relationship: part_of GO:0007507 ! heart development relationship: part_of GO:0048568 ! embryonic organ development relationship: results_in_development_of UBERON:0004141 ! heart tube [Term] id: GO:0035051 name: cardiocyte differentiation namespace: biological_process def: "The process in which a relatively unspecialized cell acquires the specialized structural and/or functional features of a cell that will form part of the cardiac organ of an individual." [GOC:bf] synonym: "cardiac cell differentiation" EXACT [] synonym: "heart cell differentiation" EXACT [] is_a: GO:0030154 ! cell differentiation intersection_of: GO:0030154 ! cell differentiation intersection_of: results_in_acquisition_of_features_of CL:0002494 ! cardiocyte relationship: part_of GO:0007507 ! heart development relationship: results_in_acquisition_of_features_of CL:0002494 ! cardiocyte [Term] id: GO:0035082 name: axoneme assembly namespace: biological_process alt_id: GO:0035083 alt_id: GO:0035084 def: "The assembly and organization of an axoneme, the bundle of microtubules and associated proteins that forms the core of cilia (also called flagella) in eukaryotic cells and is responsible for their movements." [GOC:bf, GOC:cilia, GOC:jl, ISBN:0815316194] comment: Note that cilia and eukaryotic flagella are deemed to be equivalent. synonym: "axoneme biogenesis" RELATED [GOC:mah] synonym: "ciliary axoneme assembly" EXACT [] synonym: "cilium axoneme assembly" EXACT [] synonym: "cilium axoneme biogenesis" RELATED [GOC:mah] synonym: "flagellar axoneme assembly" EXACT [] synonym: "flagellum axoneme assembly" EXACT [] is_a: GO:0001578 ! microtubule bundle formation is_a: GO:0022607 ! cellular component assembly intersection_of: GO:0022607 ! cellular component assembly intersection_of: results_in_assembly_of GO:0005930 ! axoneme relationship: part_of GO:0060271 ! cilium assembly relationship: results_in_assembly_of GO:0005930 ! axoneme [Term] id: GO:0035107 name: appendage morphogenesis namespace: biological_process def: "The process in which the anatomical structures of appendages are generated and organized. An appendage is an organ or part that is attached to the trunk of an organism, such as a limb or a branch." [ISBN:0582227089] is_a: GO:0009653 ! anatomical structure morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0000026 ! appendage relationship: part_of GO:0048736 ! appendage development relationship: results_in_morphogenesis_of UBERON:0000026 ! appendage [Term] id: GO:0035112 name: genitalia morphogenesis namespace: biological_process def: "The process in which the anatomical structures of genitalia are generated and organized. The genitalia are the organs of reproduction or generation, external and internal." [GOC:bf] synonym: "genital morphogenesis" RELATED [] is_a: GO:0003006 ! developmental process involved in reproduction is_a: GO:0009887 ! animal organ morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0000990 ! reproductive system relationship: part_of GO:0048806 ! genitalia development relationship: results_in_morphogenesis_of UBERON:0000990 ! reproductive system [Term] id: GO:0035148 name: tube formation namespace: biological_process def: "Creation of the central hole of a tube in an anatomical structure through which gases and/or liquids flow." [GOC:bf] synonym: "lumen formation in an anatomical structure" RELATED [GOC:dph, GOC:mah] synonym: "tube lumen formation" EXACT [GOC:dph, GOC:mah] is_a: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: results_in_formation_of UBERON:0000025 ! tube relationship: part_of GO:0035239 ! tube morphogenesis relationship: results_in_formation_of UBERON:0000025 ! tube [Term] id: GO:0035190 name: syncytial nuclear migration namespace: biological_process def: "The directed movement of nuclei within the syncytial embryo of insects. These precise temporal and spatial patterns of nuclear movement are coordinated with mitotic divisons and are required during blastoderm formation to reposition dividing nuclei from the interior of the syncytial embryo to the cortex." [GOC:bf, ISBN:0879694238, PMID:8314839] is_a: GO:0007097 ! nuclear migration intersection_of: GO:0007097 ! nuclear migration intersection_of: occurs_in CL:0000228 ! multinucleate cell relationship: occurs_in CL:0000228 ! multinucleate cell relationship: part_of GO:0001700 ! embryonic development via the syncytial blastoderm [Term] id: GO:0035234 name: ectopic germ cell programmed cell death namespace: biological_process def: "Programmed cell death of an errant germ line cell that is outside the normal migratory path or ectopic to the gonad. This is an important mechanism of regulating germ cell survival within the embryo." [PMID:12814944] synonym: "programmed cell death of ectopic germ cells" EXACT [] synonym: "programmed cell death, ectopic germ cells" EXACT [] is_a: GO:0003006 ! developmental process involved in reproduction is_a: GO:0010623 ! programmed cell death involved in cell development intersection_of: GO:0012501 ! programmed cell death intersection_of: occurs_in CL:0000586 ! germ cell relationship: occurs_in CL:0000586 ! germ cell [Term] id: GO:0035239 name: tube morphogenesis namespace: biological_process def: "The process in which the anatomical structures of a tube are generated and organized. Epithelial and endothelial tubes transport gases, liquids and cells from one site to another and form the basic structure of many organs and tissues, with tube shape and organization varying from the single-celled excretory organ in Caenorhabditis elegans to the branching trees of the mammalian kidney and insect tracheal system." [GOC:bf, PMID:14624839] is_a: GO:0009653 ! anatomical structure morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0000025 ! tube relationship: part_of GO:0035295 ! tube development relationship: results_in_morphogenesis_of UBERON:0000025 ! tube [Term] id: GO:0035260 name: internal genitalia morphogenesis namespace: biological_process def: "The process in which the anatomical structures of the internal genitalia are generated and organized. The internal genitalia are the internal sex organs such as the uterine tube, the uterus and the vagina in female mammals, and the testis, seminal vesicle, ejaculatory duct and prostate in male mammals." [http://www.ndif.org/Terms/genitalia.html] is_a: GO:0035112 ! genitalia morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0004175 ! internal genitalia relationship: results_in_morphogenesis_of UBERON:0004175 ! internal genitalia [Term] id: GO:0035261 name: external genitalia morphogenesis namespace: biological_process def: "The process in which the anatomical structures of the external genitalia are generated and organized. The external genitalia are the outer sex organs, such as the penis or vulva in mammals." [http://www.ndif.org/Terms/genitalia.html] is_a: GO:0035112 ! genitalia morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0004176 ! external genitalia relationship: results_in_morphogenesis_of UBERON:0004176 ! external genitalia [Term] id: GO:0035262 name: gonad morphogenesis namespace: biological_process def: "The process in which the anatomical structures of the gonads are generated and organized. A gonad is an animal organ producing gametes, e.g. the testes or the ovary in mammals." [ISBN:0198612001] is_a: GO:0003006 ! developmental process involved in reproduction is_a: GO:0009887 ! animal organ morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0000991 ! gonad relationship: part_of GO:0008406 ! gonad development relationship: results_in_morphogenesis_of UBERON:0000991 ! gonad [Term] id: GO:0035264 name: multicellular organism growth namespace: biological_process def: "The increase in size or mass of an entire multicellular organism, as opposed to cell growth." [GOC:bf, GOC:curators, GOC:dph, GOC:tb] synonym: "body growth" RELATED [] is_a: GO:0032501 ! multicellular organismal process is_a: GO:0048589 ! developmental growth intersection_of: GO:0048589 ! developmental growth intersection_of: results_in_growth_of UBERON:0000468 ! multicellular organism relationship: results_in_growth_of UBERON:0000468 ! multicellular organism [Term] id: GO:0035265 name: organ growth namespace: biological_process def: "The increase in size or mass of an organ. Organs are commonly observed as visibly distinct structures, but may also exist as loosely associated clusters of cells that function together as to perform a specific function." [GOC:bf, ISBN:0471245208, ISBN:0721662544] is_a: GO:0032501 ! multicellular organismal process is_a: GO:0048589 ! developmental growth intersection_of: GO:0048589 ! developmental growth intersection_of: results_in_growth_of UBERON:0000062 ! organ relationship: results_in_growth_of UBERON:0000062 ! organ [Term] id: GO:0035270 name: endocrine system development namespace: biological_process def: "Progression of the endocrine system over time, from its formation to a mature structure. The endocrine system is a system of hormones and ductless glands, where the glands release hormones directly into the blood, lymph or other intercellular fluid, and the hormones circulate within the body to affect distant organs. The major glands that make up the human endocrine system are the hypothalamus, pituitary, thyroid, parathryoids, adrenals, pineal body, and the reproductive glands which include the ovaries and testes." [GOC:bf, Wikipedia:Development_of_the_endocrine_system] is_a: GO:0048731 ! system development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0000949 ! endocrine system relationship: results_in_development_of UBERON:0000949 ! endocrine system [Term] id: GO:0035272 name: exocrine system development namespace: biological_process def: "Progression of the exocrine system over time, from its formation to a mature structure. The exocrine system is a system of hormones and glands, where the glands secrete straight to a target site via ducts or tubes. The human exocrine system includes the salivary glands, sweat glands and many glands of the digestive system." [GOC:bf, Wikipedia:Exocrine_gland] is_a: GO:0048731 ! system development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0002330 ! exocrine system relationship: results_in_development_of UBERON:0002330 ! exocrine system [Term] id: GO:0035282 name: segmentation namespace: biological_process def: "The regionalization process that divides an organism or part of an organism into a series of semi-repetitive parts, or segments, often arranged along a longitudinal axis." [PMID:10611687, PMID:9706689] xref: Wikipedia:Segmentation_(biology) is_a: GO:0003002 ! regionalization [Term] id: GO:0035295 name: tube development namespace: biological_process def: "The process whose specific outcome is the progression of a tube over time, from its initial formation to a mature structure. Epithelial and endothelial tubes transport gases, liquids and cells from one site to another and form the basic structure of many organs and tissues including lung and trachea, kidney, the mammary gland, the vascular system and the gastrointestinal and urinary-genital tracts." [PMID:12526790] is_a: GO:0048856 ! anatomical structure development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0000025 ! tube relationship: part_of GO:0007275 ! multicellular organism development relationship: results_in_development_of UBERON:0000025 ! tube [Term] id: GO:0035372 name: protein localization to microtubule namespace: biological_process def: "A process in which a protein is transported to, or maintained at, a microtubule." [GOC:bf, GOC:lb] synonym: "protein localisation to microtubule" EXACT [GOC:mah] is_a: GO:0072698 ! protein localization to microtubule cytoskeleton intersection_of: GO:0008104 ! protein localization intersection_of: has_target_end_location GO:0005874 ! microtubule relationship: has_target_end_location GO:0005874 ! microtubule created_by: bf creation_date: 2010-03-11T11:00:56Z [Term] id: GO:0035418 name: protein localization to synapse namespace: biological_process def: "Any process in which a protein is transported to, and/or maintained at the synapse, the junction between a nerve fiber of one neuron and another neuron or muscle fiber or glial cell." [GOC:bf] synonym: "protein localisation to synapse" EXACT [GOC:mah] is_a: GO:1902414 ! protein localization to cell junction intersection_of: GO:0008104 ! protein localization intersection_of: has_target_end_location GO:0045202 ! synapse relationship: has_target_end_location GO:0045202 ! synapse created_by: bf creation_date: 2010-03-29T10:58:53Z [Term] id: GO:0035441 name: cell migration involved in vasculogenesis namespace: biological_process def: "The orderly movement of a cell from one site to another that will contribute to the differentiation of an endothelial cell that will form de novo blood vessels and tubes." [GOC:dgh] is_a: GO:0016477 ! cell migration intersection_of: GO:0016477 ! cell migration intersection_of: part_of GO:0001570 ! vasculogenesis relationship: part_of GO:0001570 ! vasculogenesis created_by: bf creation_date: 2010-04-09T03:53:01Z [Term] id: GO:0035556 name: intracellular signal transduction namespace: biological_process alt_id: GO:0007242 alt_id: GO:0007243 alt_id: GO:0023013 alt_id: GO:0023034 def: "The process in which a signal is passed on to downstream components within the cell, which become activated themselves to further propagate the signal and finally trigger a change in the function or state of the cell." [GOC:bf, GOC:jl, GOC:signaling, ISBN:3527303782] subset: goslim_drosophila synonym: "intracellular protein kinase cascade" NARROW [GOC:signaling] synonym: "intracellular signal transduction pathway" NARROW [] synonym: "intracellular signaling cascade" RELATED [GOC:signaling] synonym: "intracellular signaling chain" EXACT [ISBN:3527303782] synonym: "intracellular signaling pathway" RELATED [] synonym: "protein kinase cascade" NARROW [GOC:signaling] synonym: "signal transduction via intracellular signaling cascade" RELATED [] synonym: "signal transmission via intracellular cascade" NARROW [] is_a: GO:0007165 ! signal transduction intersection_of: GO:0007165 ! signal transduction intersection_of: occurs_in GO:0005622 ! intracellular anatomical structure relationship: occurs_in GO:0005622 ! intracellular anatomical structure created_by: bf creation_date: 2010-05-14T01:14:37Z [Term] id: GO:0035561 name: regulation of chromatin binding namespace: biological_process def: "Any process that modulates the frequency, rate or extent of chromatin binding. Chromatin binding is the selective interaction with chromatin, the network of fibers of DNA, protein, and sometimes RNA, that make up the chromosomes of the eukaryotic nucleus during interphase." [GOC:bf, PMID:20404130] is_a: GO:0051098 ! regulation of binding intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0003682 ! chromatin binding relationship: regulates GO:0003682 ! chromatin binding created_by: bf creation_date: 2010-05-19T10:28:36Z [Term] id: GO:0035562 name: negative regulation of chromatin binding namespace: biological_process def: "Any process that stops or reduces the frequency, rate or extent of chromatin binding. Chromatin binding is the selective interaction with chromatin, the network of fibers of DNA, protein, and sometimes RNA, that make up the chromosomes of the eukaryotic nucleus during interphase." [GOC:bf, PMID:20404130] is_a: GO:0035561 ! regulation of chromatin binding is_a: GO:0051100 ! negative regulation of binding intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0003682 ! chromatin binding relationship: negatively_regulates GO:0003682 ! chromatin binding created_by: bf creation_date: 2010-05-19T10:29:06Z [Term] id: GO:0035563 name: positive regulation of chromatin binding namespace: biological_process def: "Any process that increases the frequency, rate or extent of chromatin binding. Chromatin binding is the selective interaction with chromatin, the network of fibers of DNA, protein, and sometimes RNA, that make up the chromosomes of the eukaryotic nucleus during interphase." [GOC:bf, PMID:20404130] is_a: GO:0035561 ! regulation of chromatin binding is_a: GO:0051099 ! positive regulation of binding intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0003682 ! chromatin binding relationship: positively_regulates GO:0003682 ! chromatin binding created_by: bf creation_date: 2010-05-19T10:29:41Z [Term] id: GO:0035592 name: establishment of protein localization to extracellular region namespace: biological_process def: "The directed movement of a protein to a specific location within the extracellular region." [GOC:bf, GOC:BHF] synonym: "establishment of protein localisation in extracellular region" EXACT [GOC:mah] synonym: "establishment of protein localization in extracellular region" EXACT [] is_a: GO:0045184 ! establishment of protein localization is_a: GO:0071692 ! protein localization to extracellular region intersection_of: GO:0045184 ! establishment of protein localization intersection_of: has_target_end_location GO:0005576 ! extracellular region created_by: bf creation_date: 2010-11-09T10:25:08Z [Term] id: GO:0035636 name: obsolete multi-organism signaling namespace: biological_process def: "OBSOLETE. The transfer of information between living organisms." [GOC:go_curators] comment: This term was obsoleted because it was a grouping term but had no subclasses. synonym: "multi-organism signalling" EXACT [GOC:bf] synonym: "pheromone signaling" NARROW [GOC:bf] synonym: "signaling between organisms" EXACT [GOC:bf] synonym: "signaling with other organism" EXACT [GOC:bf] is_obsolete: true created_by: bf creation_date: 2011-01-14T10:11:25Z [Term] id: GO:0035637 name: multicellular organismal signaling namespace: biological_process def: "The transfer of information occurring at the level of a multicellular organism." [GOC:go_curators] synonym: "multicellular organismal signalling" EXACT [GOC:bf] is_a: GO:0023052 ! signaling is_a: GO:0032501 ! multicellular organismal process created_by: bf creation_date: 2011-01-14T10:13:50Z [Term] id: GO:0035735 name: intraciliary transport involved in cilium assembly namespace: biological_process def: "The bidirectional movement of large protein complexes along microtubules within a cilium that contributes to cilium assembly." [GOC:bf, GOC:cilia, Reactome:R-HSA-5620924.2] synonym: "intraciliary transport involved in cilium morphogenesis" RELATED [] synonym: "intraflagellar transport" BROAD [] synonym: "intraflagellar transport involved in cilium morphogenesis" RELATED [] xref: Reactome:R-HSA-5620924.2 is_a: GO:0042073 ! intraciliary transport intersection_of: GO:0042073 ! intraciliary transport intersection_of: part_of GO:0060271 ! cilium assembly relationship: part_of GO:0060271 ! cilium assembly created_by: bf creation_date: 2011-03-17T10:55:42Z [Term] id: GO:0035736 name: cell proliferation involved in compound eye morphogenesis namespace: biological_process def: "The multiplication or reproduction of cells, resulting in the expansion of a cell population that contributes to compound eye morphogenesis." [GOC:bf, GOC:sart] is_a: GO:0008283 ! cell population proliferation intersection_of: GO:0008283 ! cell population proliferation intersection_of: part_of GO:0001745 ! compound eye morphogenesis relationship: part_of GO:0001745 ! compound eye morphogenesis created_by: bf creation_date: 2011-03-17T10:57:03Z [Term] id: GO:0035779 name: angioblast cell differentiation namespace: biological_process def: "The process in which a relatively unspecialized cell acquires the specialized structural and/or functional features of an angioblast cell. Angioblasts are one of the two products formed from hemangioblast cells (the other being pluripotent hemopoietic stem cells)." [CL:0000566, GOC:yaf] synonym: "angioblastic mesenchymal cell differentiation" EXACT [CL:0000566] is_a: GO:0048863 ! stem cell differentiation intersection_of: GO:0030154 ! cell differentiation intersection_of: results_in_acquisition_of_features_of CL:0000566 ! angioblastic mesenchymal cell relationship: part_of GO:0001568 ! blood vessel development relationship: results_in_acquisition_of_features_of CL:0000566 ! angioblastic mesenchymal cell created_by: bf creation_date: 2011-04-04T11:10:38Z [Term] id: GO:0035821 name: modulation of process of another organism namespace: biological_process def: "The process in which an organism effects a change in the structure or processes of another organism." [GOC:bf] synonym: "modification of morphology or physiology of other organism" EXACT [] synonym: "modulation of process of other organism" EXACT [] synonym: "regulation of morphology of other organism" NARROW [GOC:bf] synonym: "regulation of morphology or physiology of other organism" RELATED [GOC:bf] synonym: "regulation of physiological process of other organism" NARROW [GOC:bf] synonym: "regulation of physiology of other organism" NARROW [GOC:bf] is_a: GO:0044419 ! biological process involved in interspecies interaction between organisms property_value: IAO:0000233 https://github.com/geneontology/go-ontology/issues/18605 xsd:anyURI created_by: bf creation_date: 2011-04-21T01:31:51Z [Term] id: GO:0035834 name: indole alkaloid metabolic process namespace: biological_process def: "The chemical reactions and pathways involving an indole alkaloid, an alkaloid containing an indole skeleton." [GOC:yaf] synonym: "indole alkaloid metabolism" EXACT [GOC:bf] is_a: GO:0009820 ! alkaloid metabolic process intersection_of: GO:0008152 ! metabolic process intersection_of: has_primary_input_or_output CHEBI:38958 ! indole alkaloid relationship: has_primary_input_or_output CHEBI:38958 ! indole alkaloid created_by: bf creation_date: 2011-05-04T03:17:44Z [Term] id: GO:0035835 name: indole alkaloid biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of an indole alkaloid, an alkaloid containing an indole skeleton." [GOC:yaf] synonym: "indole alkaloid anabolism" EXACT [GOC:bf] synonym: "indole alkaloid biosynthesis" EXACT [GOC:bf] synonym: "indole alkaloid formation" EXACT [GOC:bf] synonym: "indole alkaloid synthesis" EXACT [GOC:bf] is_a: GO:0009821 ! alkaloid biosynthetic process is_a: GO:0035834 ! indole alkaloid metabolic process intersection_of: GO:0009058 ! biosynthetic process intersection_of: has_primary_output CHEBI:38958 ! indole alkaloid relationship: has_primary_output CHEBI:38958 ! indole alkaloid created_by: bf creation_date: 2011-05-04T03:18:31Z [Term] id: GO:0035855 name: megakaryocyte development namespace: biological_process def: "The process whose specific outcome is the progression of a megakaryocyte cell over time, from its formation to the mature structure. Megakaryocyte development does not include the steps involved in committing a cell to a megakaryocyte fate. A megakaryocyte is a giant cell 50 to 100 micron in diameter, with a greatly lobulated nucleus, found in the bone marrow." [CL:0000556, GOC:BHF, GOC:vk] synonym: "megakaryocyte cell development" EXACT [GOC:bf] is_a: GO:0061515 ! myeloid cell development is_a: GO:0098751 ! bone cell development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of CL:0000556 ! megakaryocyte relationship: part_of GO:0030219 ! megakaryocyte differentiation relationship: results_in_development_of CL:0000556 ! megakaryocyte created_by: bf creation_date: 2011-05-13T01:28:06Z [Term] id: GO:0035869 name: ciliary transition zone namespace: cellular_component def: "A region of the cilium between the basal body and proximal segment that is characterized by Y-shaped assemblages that connect axonemal microtubules to the ciliary membrane. The ciliary transition zone appears to function as a gate that controls ciliary membrane composition and separates the cytosol from the ciliary plasm." [GOC:cilia, GOC:kmv, PMID:21422230] comment: Depending on the species, this region may have a distinct geometrically shaped electron-dense structure within the axonemal lumen visible in electron microscopy images; most animals don't display this inner structure. The axoneme extends through the ciliary transition zone, but only consists of the outer doublets. The central pair, axonemal spokes, and dynein complexes are not found in this part of the ciliary shaft. Note that the connecting cilium of the photoreceptor cells is thought to be equivalent to the transition zone. synonym: "cilial transition zone" EXACT [] synonym: "cilium transition zone" EXACT [] synonym: "connecting cilium" RELATED [] is_a: GO:0110165 ! cellular anatomical entity relationship: part_of GO:0005929 ! cilium created_by: bf creation_date: 2011-05-25T03:09:58Z [Term] id: GO:0035883 name: enteroendocrine cell differentiation namespace: biological_process def: "The process in which a relatively unspecialized cell acquires specialized structural and/or functional features of an enteroendocrine cell. Enteroendocrine cells are hormonally active epithelial cells in the gut that constitute the diffuse neuroendocrine system." [CL:0000164, GOC:bf] is_a: GO:0002067 ! glandular epithelial cell differentiation intersection_of: GO:0030154 ! cell differentiation intersection_of: results_in_acquisition_of_features_of CL:0000164 ! enteroendocrine cell relationship: results_in_acquisition_of_features_of CL:0000164 ! enteroendocrine cell created_by: bf creation_date: 2011-06-06T11:48:51Z [Term] id: GO:0035886 name: vascular associated smooth muscle cell differentiation namespace: biological_process def: "The process in which a relatively unspecialized cell acquires specialized features of a vascular smooth muscle cell." [GOC:sl, PMID:16151017, PMID:18267954] synonym: "vascular smooth muscle cell differentiation" EXACT [] synonym: "VSMC differentiation" EXACT [PMID:16151017] is_a: GO:0051145 ! smooth muscle cell differentiation intersection_of: GO:0030154 ! cell differentiation intersection_of: results_in_acquisition_of_features_of CL:0000359 ! vascular associated smooth muscle cell relationship: part_of GO:0001944 ! vasculature development relationship: results_in_acquisition_of_features_of CL:0000359 ! vascular associated smooth muscle cell created_by: bf creation_date: 2011-06-08T11:23:52Z [Term] id: GO:0035887 name: aortic smooth muscle cell differentiation namespace: biological_process def: "The process in which a relatively unspecialized cell acquires specialized features of a smooth muscle cell surrounding the aorta." [GOC:sl] is_a: GO:0035886 ! vascular associated smooth muscle cell differentiation intersection_of: GO:0030154 ! cell differentiation intersection_of: results_in_acquisition_of_features_of CL:0002539 ! aortic smooth muscle cell relationship: results_in_acquisition_of_features_of CL:0002539 ! aortic smooth muscle cell created_by: bf creation_date: 2011-06-08T11:34:26Z [Term] id: GO:0035904 name: aorta development namespace: biological_process def: "The progression of the aorta over time, from its initial formation to the mature structure. An aorta is an artery that carries blood from the heart to other parts of the body." [GOC:bf, GOC:dgh, MA:0000062, UBERON:0000947, Wikipedia:Aorta] is_a: GO:0060840 ! artery development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0000947 ! aorta relationship: results_in_development_of UBERON:0000947 ! aorta created_by: bf creation_date: 2011-06-24T11:00:07Z [Term] id: GO:0035906 name: descending aorta development namespace: biological_process def: "The progression of the descending aorta over time, from its initial formation to the mature structure. The descending aorta is the portion of the aorta in a two-pass circulatory system from the arch of aorta to the point where it divides into the common iliac arteries. In a two-pass circulatory system blood passes twice through the heart to supply the body once." [GOC:bf, GOC:dgh, MA:0002571, UBERON:0001514, Wikipedia:Descending_aorta] is_a: GO:0048856 ! anatomical structure development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0001514 ! descending aorta relationship: part_of GO:0035904 ! aorta development relationship: results_in_development_of UBERON:0001514 ! descending aorta created_by: bf creation_date: 2011-06-24T11:05:22Z [Term] id: GO:0035907 name: dorsal aorta development namespace: biological_process def: "The progression of the dorsal aorta over time, from its initial formation to the mature structure. The dorsal aorta is a blood vessel in a single-pass circulatory system that carries oxygenated blood from the gills to the rest of the body. In a single-pass circulatory system blood passes once through the heart to supply the body once." [GOC:bf, GOC:dgh, UBERON:0005805, Wikipedia:Aorta, ZFA:0000014] is_a: GO:0035904 ! aorta development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0005805 ! dorsal aorta relationship: results_in_development_of UBERON:0005805 ! dorsal aorta created_by: bf creation_date: 2011-06-24T11:07:01Z [Term] id: GO:0035909 name: aorta morphogenesis namespace: biological_process def: "The process in which the anatomical structures of an aorta are generated and organized. An aorta is an artery that carries blood from the heart to other parts of the body." [GOC:bf, GOC:dgh, MA:0000062, UBERON:0000947, Wikipedia:Aorta] is_a: GO:0048844 ! artery morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0000947 ! aorta relationship: part_of GO:0035904 ! aorta development relationship: results_in_morphogenesis_of UBERON:0000947 ! aorta created_by: bf creation_date: 2011-06-24T11:11:11Z [Term] id: GO:0035911 name: descending aorta morphogenesis namespace: biological_process def: "The process in which the anatomical structures of the descending aorta are generated and organized. The descending aorta is the portion of the aorta in a two-pass circulatory system from the arch of aorta to the point where it divides into the common iliac arteries. In a two-pass circulatory system blood passes twice through the heart to supply the body once." [GOC:bf, GOC:dgh, MA:0002571, UBERON:0001514, Wikipedia:Descending_aorta] is_a: GO:0009653 ! anatomical structure morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0001514 ! descending aorta relationship: part_of GO:0035906 ! descending aorta development relationship: part_of GO:0035909 ! aorta morphogenesis relationship: results_in_morphogenesis_of UBERON:0001514 ! descending aorta created_by: bf creation_date: 2011-06-24T11:19:24Z [Term] id: GO:0035912 name: dorsal aorta morphogenesis namespace: biological_process def: "The process in which the anatomical structures of the dorsal aorta are generated and organized. The dorsal aorta is a blood vessel in a single-pass circulatory system that carries oxygenated blood from the gills to the rest of the body. In a single-pass circulatory system blood passes once through the heart to supply the body once." [GOC:bf, GOC:dgh, UBERON:0005805, Wikipedia:Aorta, ZFA:0000014] is_a: GO:0035909 ! aorta morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0005805 ! dorsal aorta relationship: part_of GO:0035907 ! dorsal aorta development relationship: results_in_morphogenesis_of UBERON:0005805 ! dorsal aorta created_by: bf creation_date: 2011-06-24T11:22:14Z [Term] id: GO:0035914 name: skeletal muscle cell differentiation namespace: biological_process def: "The process in which a relatively unspecialized cell acquires specialized features of a skeletal muscle cell, a somatic cell located in skeletal muscle." [CL:0000188, GOC:BHF, GOC:vk] is_a: GO:0030154 ! cell differentiation intersection_of: GO:0030154 ! cell differentiation intersection_of: results_in_acquisition_of_features_of CL:0000188 ! cell of skeletal muscle relationship: part_of GO:0007519 ! skeletal muscle tissue development relationship: results_in_acquisition_of_features_of CL:0000188 ! cell of skeletal muscle created_by: bf creation_date: 2011-06-24T02:36:19Z [Term] id: GO:0035929 name: steroid hormone secretion namespace: biological_process def: "The regulated release of any steroid that acts as a hormone into the circulatory system." [GOC:sl] is_a: GO:0060986 ! endocrine hormone secretion is_a: GO:0140353 ! lipid export from cell intersection_of: GO:0046903 ! secretion intersection_of: transports_or_maintains_localization_of CHEBI:26764 ! steroid hormone relationship: transports_or_maintains_localization_of CHEBI:26764 ! steroid hormone created_by: bf creation_date: 2011-07-20T01:01:00Z [Term] id: GO:0035935 name: androgen secretion namespace: biological_process def: "The regulated release of an androgen into the circulatory system. Androgens are steroid hormones that stimulate or control the development and maintenance of masculine characteristics in vertebrates." [GOC:sl] is_a: GO:0035929 ! steroid hormone secretion created_by: bf creation_date: 2011-07-20T01:11:31Z [Term] id: GO:0035987 name: endodermal cell differentiation namespace: biological_process def: "The process in which a relatively unspecialized cell acquires the specialized features of an endoderm cell, a cell of the inner of the three germ layers of the embryo." [CL:0000223, GOC:yaf, PMID:17624332] synonym: "endoderm cell differentiation" EXACT [CL:0000223] is_a: GO:0030154 ! cell differentiation intersection_of: GO:0030154 ! cell differentiation intersection_of: results_in_acquisition_of_features_of CL:0000223 ! endodermal cell relationship: part_of GO:0001706 ! endoderm formation relationship: results_in_acquisition_of_features_of CL:0000223 ! endodermal cell created_by: bf creation_date: 2011-08-25T04:50:36Z [Term] id: GO:0035989 name: tendon development namespace: biological_process def: "The process whose specific outcome is the progression of a tendon over time, from its formation to the mature structure. A tendon is a fibrous, strong, connective tissue that connects muscle to bone or integument and is capable of withstanding tension. Tendons and muscles work together to exert a pulling force." [GOC:yaf, PMID:21412429, UBERON:0000043] synonym: "sinew development" RELATED [UBERON:0000043] is_a: GO:0061448 ! connective tissue development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0000043 ! tendon relationship: results_in_development_of UBERON:0000043 ! tendon created_by: bf creation_date: 2011-08-26T04:14:30Z [Term] id: GO:0035992 name: tendon formation namespace: biological_process def: "The process that gives rise to a tendon. This process pertains to the initial formation of a tendon from unspecified parts." [GOC:yaf, PMID:17567668, UBERON:0000043] is_a: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: results_in_formation_of UBERON:0000043 ! tendon relationship: part_of GO:0035989 ! tendon development relationship: results_in_formation_of UBERON:0000043 ! tendon created_by: bf creation_date: 2011-08-30T01:35:10Z [Term] id: GO:0036072 name: direct ossification namespace: biological_process def: "The formation of bone or of a bony substance, or the conversion of fibrous tissue or of cartilage into bone or a bony substance, that does not require the replacement of preexisting tissues." [GO_REF:0000034] is_a: GO:0001503 ! ossification created_by: bf creation_date: 2011-12-19T01:47:22Z [Term] id: GO:0036093 name: germ cell proliferation namespace: biological_process def: "The multiplication or reproduction of germ cells, reproductive cells in multicellular organisms, resulting in the expansion of a cell population." [CL:0000586, GOC:kmv] is_a: GO:0008283 ! cell population proliferation is_a: GO:0022412 ! cellular process involved in reproduction in multicellular organism intersection_of: GO:0008283 ! cell population proliferation intersection_of: acts_on_population_of CL:0000586 ! germ cell relationship: acts_on_population_of CL:0000586 ! germ cell relationship: part_of GO:0007276 ! gamete generation created_by: bf creation_date: 2012-01-17T04:06:27Z [Term] id: GO:0036094 name: small molecule binding namespace: molecular_function def: "Binding to a small molecule, any low molecular weight, monomeric, non-encoded molecule." [GOC:curators, GOC:pde, GOC:pm] comment: Small molecules in GO include monosaccharides but exclude disaccharides and polysaccharides. subset: goslim_agr subset: goslim_flybase_ribbon is_a: GO:0005488 ! binding created_by: bf creation_date: 2012-01-17T04:20:34Z [Term] id: GO:0036194 name: muscle cell projection namespace: cellular_component def: "A prolongation or process extending from a muscle cell. A muscle cell is a mature contractile cell, commonly known as a myocyte. This cell has as part of its cytoplasm myofibrils organized in various patterns." [CL:0000187, GOC:kmv, PMID:15930100, PMID:22464329] synonym: "muscle arm" NARROW [GOC:kmv] synonym: "myocyte projection" EXACT [CL:0000187] synonym: "myopodia" NARROW [GOC:kmv] is_a: CARO:0000000 ! anatomical entity is_a: GO:0120025 ! plasma membrane bounded cell projection intersection_of: GO:0120025 ! plasma membrane bounded cell projection intersection_of: part_of CL:0000187 ! muscle cell relationship: part_of CL:0000187 ! muscle cell created_by: bf creation_date: 2012-04-20T10:20:47Z [Term] id: GO:0036195 name: muscle cell projection membrane namespace: cellular_component def: "The portion of the plasma membrane surrounding a muscle cell projection." [CL:0000187, GOC:kmv, PMID:15930100, PMID:22464329] is_a: CARO:0000000 ! anatomical entity is_a: GO:0031253 ! cell projection membrane intersection_of: GO:0031253 ! cell projection membrane intersection_of: part_of GO:0036194 ! muscle cell projection relationship: part_of GO:0036194 ! muscle cell projection created_by: bf creation_date: 2012-04-20T10:21:51Z [Term] id: GO:0036334 name: epidermal stem cell homeostasis namespace: biological_process def: "Any biological process involved in the maintenance of the steady-state number of epidermal stem cells within a population of cells." [CL:1000428, GOC:nhn, PMID:17666529] is_a: GO:0048872 ! homeostasis of number of cells intersection_of: GO:0048872 ! homeostasis of number of cells intersection_of: acts_on_population_of CL:1000428 ! stem cell of epidermis relationship: acts_on_population_of CL:1000428 ! stem cell of epidermis created_by: bf creation_date: 2012-09-05T10:21:23Z [Term] id: GO:0036377 name: arbuscular mycorrhizal association namespace: biological_process def: "A form of mutualism between a fungus and the roots of a vascular plant, where hyphae of the fungus penetrate the plant cell wall and invaginate its cell membrane. Once inside, the fungus forms highly branched structures for nutrient exchange with the plant called arbuscules. Aids in the acquisition by the plant of nutrients such as phosphorus from the soil." [GOC:sk, Wikipedia:Arbuscular_mycorrhiza] synonym: "arbuscular mycorrhizae formation" EXACT [Wikipedia:Arbuscular_mycorrhiza] synonym: "arbuscular mycorrhizal symbiosis" RELATED [Wikipedia:Arbuscular_mycorrhiza] synonym: "arbuscular mycorrhizas formation" EXACT [Wikipedia:Arbuscular_mycorrhiza] is_a: GO:0044403 ! biological process involved in symbiotic interaction created_by: bf creation_date: 2013-05-07T15:07:32Z [Term] id: GO:0036477 name: somatodendritic compartment namespace: cellular_component def: "The region of a neuron that includes the cell body (cell soma) and dendrite(s), but excludes the axon." [GOC:pad, GOC:PARL] is_a: CARO:0000000 ! anatomical entity is_a: GO:0110165 ! cellular anatomical entity relationship: part_of CL:0000540 ! neuron created_by: bf creation_date: 2014-07-24T10:06:19Z [Term] id: GO:0036504 name: Golgi membrane fusion namespace: biological_process def: "The joining of two lipid bilayers that surround the Golgi apparatus to form a single Golgi membrane." [GOC:bf, GOC:PARL, PMID:12473691] synonym: "membrane fusion involved in Golgi reassembly" EXACT [GOC:bf] synonym: "post-mitotic fusion of Golgi membranes" EXACT [PMID:10811609] is_a: GO:0090174 ! organelle membrane fusion intersection_of: GO:0061025 ! membrane fusion intersection_of: results_in_fusion_of GO:0000139 ! Golgi membrane relationship: part_of GO:0090168 ! Golgi reassembly relationship: results_in_fusion_of GO:0000139 ! Golgi membrane created_by: bf creation_date: 2015-05-21T10:05:06Z [Term] id: GO:0040007 name: growth namespace: biological_process alt_id: GO:0048590 def: "The increase in size or mass of an entire organism, a part of an organism or a cell." [GOC:bf, GOC:ma] comment: See also the biological process term 'cell growth ; GO:0016049'. subset: gocheck_do_not_annotate subset: goslim_chembl subset: goslim_pir subset: goslim_plant synonym: "growth pattern" RELATED [] synonym: "non-developmental growth" RELATED [GOC:mah] is_a: GO:0008150 ! biological_process relationship: in_taxon NCBITaxon:131567 ! cellular organisms relationship: only_in_taxon NCBITaxon:131567 ! cellular organisms [Term] id: GO:0040008 name: regulation of growth namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the growth of all or part of an organism so that it occurs at its proper speed, either globally or in a specific part of the organism's development." [GOC:ems, GOC:mah] is_a: GO:0050789 ! regulation of biological process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0040007 ! growth relationship: regulates GO:0040007 ! growth [Term] id: GO:0040011 name: locomotion namespace: biological_process def: "Self-propelled movement of a cell or organism from one location to another." [GOC:dgh] subset: goslim_chembl subset: goslim_pir is_a: GO:0008150 ! biological_process property_value: RO:0002161 NCBITaxon:451864 [Term] id: GO:0040012 name: regulation of locomotion namespace: biological_process def: "Any process that modulates the frequency, rate or extent of locomotion of a cell or organism." [GOC:ems] is_a: GO:0050789 ! regulation of biological process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0040011 ! locomotion relationship: regulates GO:0040011 ! locomotion [Term] id: GO:0040013 name: negative regulation of locomotion namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of locomotion of a cell or organism." [GOC:go_curators] synonym: "down regulation of locomotion" EXACT [] synonym: "down-regulation of locomotion" EXACT [] synonym: "downregulation of locomotion" EXACT [] synonym: "inhibition of locomotion" NARROW [] is_a: GO:0040012 ! regulation of locomotion is_a: GO:0048519 ! negative regulation of biological process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0040011 ! locomotion relationship: negatively_regulates GO:0040011 ! locomotion [Term] id: GO:0040014 name: regulation of multicellular organism growth namespace: biological_process def: "Any process that modulates the frequency, rate or extent of growth of the body of an organism so that it reaches its usual body size." [GOC:dph, GOC:ems, GOC:tb] synonym: "regulation of body growth" EXACT [GOC:dph, GOC:tb] synonym: "regulation of body size" EXACT [GOC:dph, GOC:tb] is_a: GO:0048638 ! regulation of developmental growth is_a: GO:0051239 ! regulation of multicellular organismal process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0035264 ! multicellular organism growth relationship: regulates GO:0035264 ! multicellular organism growth [Term] id: GO:0040015 name: negative regulation of multicellular organism growth namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of growth of an organism to reach its usual body size." [GOC:dph, GOC:ems, GOC:tb] synonym: "negative regulation of body growth" EXACT [GOC:dph, GOC:tb] synonym: "negative regulation of body size" EXACT [GOC:dph, GOC:tb] is_a: GO:0040014 ! regulation of multicellular organism growth is_a: GO:0048640 ! negative regulation of developmental growth is_a: GO:0051241 ! negative regulation of multicellular organismal process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0035264 ! multicellular organism growth relationship: negatively_regulates GO:0035264 ! multicellular organism growth [Term] id: GO:0040016 name: embryonic cleavage namespace: biological_process def: "The first few specialized divisions of an activated animal egg." [GOC:clt, ISBN:0070524300] is_a: GO:0051301 ! cell division relationship: part_of GO:0009790 ! embryo development [Term] id: GO:0040017 name: positive regulation of locomotion namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of locomotion of a cell or organism." [GOC:go_curators] synonym: "activation of locomotion" NARROW [] synonym: "stimulation of locomotion" NARROW [] synonym: "up regulation of locomotion" EXACT [] synonym: "up-regulation of locomotion" EXACT [] synonym: "upregulation of locomotion" EXACT [] is_a: GO:0040012 ! regulation of locomotion is_a: GO:0048518 ! positive regulation of biological process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0040011 ! locomotion relationship: positively_regulates GO:0040011 ! locomotion [Term] id: GO:0040018 name: positive regulation of multicellular organism growth namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of growth of an organism to reach its usual body size." [GOC:dph, GOC:go_curators, GOC:tb] synonym: "positive regulation of body growth" EXACT [GOC:dph, GOC:tb] synonym: "positive regulation of body size" EXACT [GOC:dph, GOC:tb] is_a: GO:0040014 ! regulation of multicellular organism growth is_a: GO:0048639 ! positive regulation of developmental growth is_a: GO:0051240 ! positive regulation of multicellular organismal process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0035264 ! multicellular organism growth relationship: positively_regulates GO:0035264 ! multicellular organism growth [Term] id: GO:0040019 name: positive regulation of embryonic development namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of embryonic development." [GOC:go_curators] synonym: "activation of embryonic development" NARROW [] synonym: "stimulation of embryonic development" NARROW [] synonym: "up regulation of embryonic development" EXACT [] synonym: "up-regulation of embryonic development" EXACT [] synonym: "upregulation of embryonic development" EXACT [] is_a: GO:0045995 ! regulation of embryonic development is_a: GO:0051094 ! positive regulation of developmental process is_a: GO:0051240 ! positive regulation of multicellular organismal process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0009790 ! embryo development relationship: positively_regulates GO:0009790 ! embryo development [Term] id: GO:0040029 name: regulation of gene expression, epigenetic namespace: biological_process def: "A process that modulates the frequency, rate or extent of gene expression by remodelling of chromatin by either modifying the chromatin fiber, the nucleosomal histones, or the DNA. Once established, this regulation may be maintained over many cell divisions. It can also be heritable in the absence of the instigating signal." [PMID:10521337, PMID:11498582, PMID:22243696, PMID:34414474] subset: goslim_plant is_a: GO:0010468 ! regulation of gene expression relationship: part_of GO:0006325 ! chromatin organization property_value: IAO:0000233 https://github.com/geneontology/go-ontology/issues/22201 xsd:anyURI [Term] id: GO:0040034 name: regulation of development, heterochronic namespace: biological_process def: "Any process that modulates the consistent predetermined time point at which an integrated living unit or organism progresses from an initial condition to a later condition and the rate at which this time point is reached." [PMID:9442909] synonym: "developmental timing" RELATED [] synonym: "heterochronic regulation of development" EXACT [] synonym: "temporal regulation of development" EXACT [] is_a: GO:0050793 ! regulation of developmental process [Term] id: GO:0042063 name: gliogenesis namespace: biological_process def: "The process that results in the generation of glial cells. This includes the production of glial progenitors and their differentiation into mature glia." [GOC:dgh, GOC:jid] synonym: "glial cell generation" EXACT systematic_synonym [] is_a: GO:0022008 ! neurogenesis intersection_of: GO:0008150 ! biological_process intersection_of: results_in_formation_of CL:0000125 ! glial cell relationship: results_in_formation_of CL:0000125 ! glial cell [Term] id: GO:0042065 name: glial cell growth namespace: biological_process def: "Growth of glial cells, non-neuronal cells that provide support and nutrition, maintain homeostasis, form myelin, and participate in signal transmission in the nervous system." [GOC:dph, GOC:isa_complete, GOC:jid] is_a: GO:0048588 ! developmental cell growth intersection_of: GO:0040007 ! growth intersection_of: results_in_growth_of CL:0000125 ! glial cell relationship: part_of GO:0042063 ! gliogenesis relationship: results_in_growth_of CL:0000125 ! glial cell [Term] id: GO:0042069 name: regulation of catecholamine metabolic process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways involving catecholamines." [GOC:go_curators] synonym: "regulation of catecholamine metabolism" EXACT [] is_a: GO:0033238 ! regulation of cellular amine metabolic process is_a: GO:0080090 ! regulation of primary metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0006584 ! catecholamine metabolic process relationship: regulates GO:0006584 ! catecholamine metabolic process [Term] id: GO:0042073 name: intraciliary transport namespace: biological_process alt_id: GO:0035734 def: "The bidirectional movement of large protein complexes along microtubules within a cilium, mediated by motor proteins." [GOC:cilia, GOC:kmv, PMID:17981739, PMID:18180368, PMID:22869374, Reactome:R-HSA-5620924.2] comment: Note that we deem cilium and microtubule-based flagellum to be equivalent. synonym: "IFT" RELATED [] synonym: "intraflagellar transport" EXACT [] synonym: "intraflagellar transport involved in cilium organization" EXACT [] synonym: "intraflagellar transport involved in microtubule-based flagellum organisation" EXACT [] xref: Wikipedia:Intraflagellar_transport is_a: GO:0010970 ! transport along microtubule is_a: GO:0031503 ! protein-containing complex localization intersection_of: GO:0006810 ! transport intersection_of: occurs_in GO:0005929 ! cilium intersection_of: results_in_transport_along GO:0005874 ! microtubule intersection_of: transports_or_maintains_localization_of GO:0032991 ! protein-containing complex relationship: in_taxon NCBITaxon:2759 ! Eukaryota relationship: occurs_in GO:0005929 ! cilium relationship: only_in_taxon NCBITaxon:2759 ! Eukaryota relationship: part_of GO:0044782 ! cilium organization property_value: RO:0002161 NCBITaxon:3176 property_value: RO:0002161 NCBITaxon:3312 property_value: RO:0002161 NCBITaxon:3378 property_value: RO:0002161 NCBITaxon:3398 property_value: RO:0002161 NCBITaxon:4890 property_value: RO:0002161 NCBITaxon:5782 [Term] id: GO:0042074 name: cell migration involved in gastrulation namespace: biological_process def: "The migration of individual cells within the blastocyst to help establish the multi-layered body plan of the organism (gastrulation). For example, the migration of cells from the surface to the interior of the embryo (ingression)." [GOC:jl, http://www.cellmigration.org/, ISBN:0878932437] is_a: GO:0001667 ! ameboidal-type cell migration intersection_of: GO:0016477 ! cell migration intersection_of: part_of GO:0007369 ! gastrulation relationship: part_of GO:0007369 ! gastrulation [Term] id: GO:0042078 name: germ-line stem cell division namespace: biological_process alt_id: GO:0048131 def: "The self-renewing division of a germline stem cell to produce a daughter stem cell and a daughter germ cell, which will divide to form the gametes." [GOC:jid, PMID:2279698] synonym: "germ-line stem cell renewal" EXACT [] is_a: GO:0017145 ! stem cell division is_a: GO:0022412 ! cellular process involved in reproduction in multicellular organism intersection_of: GO:0051301 ! cell division intersection_of: has_input CL:0000014 ! germ line stem cell relationship: has_input CL:0000014 ! germ line stem cell relationship: part_of GO:0007281 ! germ cell development [Term] id: GO:0042127 name: regulation of cell population proliferation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of cell proliferation." [GOC:jl] synonym: "regulation of cell proliferation" RELATED [] is_a: GO:0050794 ! regulation of cellular process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0008283 ! cell population proliferation relationship: regulates GO:0008283 ! cell population proliferation property_value: RO:0002161 NCBITaxon:4751 [Term] id: GO:0042175 name: nuclear outer membrane-endoplasmic reticulum membrane network namespace: cellular_component def: "The continuous network of membranes encompassing the nuclear outer membrane and the endoplasmic reticulum membrane." [GOC:bf, GOC:jl, GOC:mah, GOC:mcc, GOC:pr, GOC:vw] synonym: "NE-ER continuum" RELATED [] synonym: "NE-ER network" RELATED [] synonym: "nuclear envelope-endoplasmic reticulum continuum" RELATED [] synonym: "nuclear envelope-endoplasmic reticulum network" RELATED [GOC:mah] synonym: "nuclear envelope-ER network" RELATED [] synonym: "nuclear membrane-endoplasmic reticulum continuum" EXACT [GOC:mah] synonym: "nuclear membrane-ER network" EXACT [GOC:mah] is_a: GO:0016020 ! membrane relationship: part_of GO:0012505 ! endomembrane system [Term] id: GO:0042180 name: cellular ketone metabolic process namespace: biological_process def: "The chemical reactions and pathways involving any of a class of organic compounds that contain the carbonyl group, CO, and in which the carbonyl group is bonded only to carbon atoms, as carried out by individual cells. The general formula for a ketone is RCOR, where R and R are alkyl or aryl groups." [GOC:jl, ISBN:0787650153] subset: goslim_pir synonym: "ketone metabolism" EXACT [] is_a: GO:0044237 ! cellular metabolic process is_a: GO:0044281 ! small molecule metabolic process is_a: GO:0071704 ! organic substance metabolic process intersection_of: GO:0008152 ! metabolic process intersection_of: has_primary_input_or_output CHEBI:17087 ! ketone relationship: has_primary_input_or_output CHEBI:17087 ! ketone [Term] id: GO:0042181 name: ketone biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of ketones, a class of organic compounds that contain the carbonyl group, CO, and in which the carbonyl group is bonded only to carbon atoms. The general formula for a ketone is RCOR, where R and R are alkyl or aryl groups." [GOC:go_curators] synonym: "ketone anabolism" EXACT [] synonym: "ketone biosynthesis" EXACT [] synonym: "ketone formation" EXACT [] synonym: "ketone synthesis" EXACT [] is_a: GO:0042180 ! cellular ketone metabolic process is_a: GO:0044249 ! cellular biosynthetic process is_a: GO:0044283 ! small molecule biosynthetic process is_a: GO:1901576 ! organic substance biosynthetic process intersection_of: GO:0009058 ! biosynthetic process intersection_of: has_primary_output CHEBI:17087 ! ketone relationship: has_primary_output CHEBI:17087 ! ketone [Term] id: GO:0042221 name: response to chemical namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a chemical stimulus." [GOC:jl] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. subset: gocheck_do_not_manually_annotate subset: goslim_aspergillus subset: goslim_candida subset: goslim_drosophila subset: goslim_metagenomics subset: goslim_plant subset: goslim_yeast synonym: "response to chemical stimulus" EXACT [GOC:dos] synonym: "response to chemical substance" EXACT [] is_a: GO:0050896 ! response to stimulus intersection_of: GO:0050896 ! response to stimulus intersection_of: has_input CHEBI:24431 ! chemical entity relationship: has_input CHEBI:24431 ! chemical entity [Term] id: GO:0042254 name: ribosome biogenesis namespace: biological_process alt_id: GO:0007046 def: "A cellular process that results in the biosynthesis of constituent macromolecules, assembly, and arrangement of constituent parts of ribosome subunits; includes transport to the sites of protein synthesis." [GOC:ma, PMID:26404467, Wikipedia:Ribosome_biogenesis] subset: goslim_aspergillus subset: goslim_candida subset: goslim_chembl subset: goslim_drosophila subset: goslim_generic subset: goslim_pir subset: goslim_pombe synonym: "ribosome biogenesis and assembly" EXACT [] is_a: GO:0022613 ! ribonucleoprotein complex biogenesis [Term] id: GO:0042255 name: ribosome assembly namespace: biological_process alt_id: GO:0042257 def: "The aggregation, arrangement and bonding together of the mature ribosome and of its subunits." [GOC:ma] subset: goslim_yeast synonym: "ribosomal subunit assembly" NARROW [GOC:mah, GOC:vw] is_a: GO:0140694 ! non-membrane-bounded organelle assembly intersection_of: GO:0022607 ! cellular component assembly intersection_of: results_in_assembly_of GO:0005840 ! ribosome relationship: part_of GO:0042254 ! ribosome biogenesis relationship: results_in_assembly_of GO:0005840 ! ribosome [Term] id: GO:0042277 name: peptide binding namespace: molecular_function def: "Binding to a peptide, an organic compound comprising two or more amino acids linked by peptide bonds." [GOC:jl] subset: goslim_chembl subset: goslim_pir is_a: GO:0033218 ! amide binding intersection_of: GO:0005488 ! binding intersection_of: has_input CHEBI:16670 ! peptide relationship: has_input CHEBI:16670 ! peptide [Term] id: GO:0042301 name: phosphate ion binding namespace: molecular_function def: "Binding to a phosphate ion." [GOC:jl] is_a: GO:0043168 ! anion binding intersection_of: GO:0005488 ! binding intersection_of: has_input CHEBI:35780 ! phosphate ion relationship: has_input CHEBI:35780 ! phosphate ion [Term] id: GO:0042325 name: regulation of phosphorylation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of addition of phosphate groups into a molecule." [GOC:jl] is_a: GO:0019220 ! regulation of phosphate metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0016310 ! phosphorylation relationship: regulates GO:0016310 ! phosphorylation [Term] id: GO:0042326 name: negative regulation of phosphorylation namespace: biological_process def: "Any process that stops, prevents or decreases the rate of addition of phosphate groups to a molecule." [GOC:jl] synonym: "down regulation of phosphorylation" EXACT [] synonym: "down-regulation of phosphorylation" EXACT [] synonym: "downregulation of phosphorylation" EXACT [] synonym: "inhibition of phosphorylation" NARROW [] is_a: GO:0042325 ! regulation of phosphorylation is_a: GO:0045936 ! negative regulation of phosphate metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0016310 ! phosphorylation relationship: negatively_regulates GO:0016310 ! phosphorylation [Term] id: GO:0042327 name: positive regulation of phosphorylation namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of addition of phosphate groups to a molecule." [GOC:jl] synonym: "activation of phosphorylation" NARROW [] synonym: "stimulation of phosphorylation" NARROW [] synonym: "up regulation of phosphorylation" EXACT [] synonym: "up-regulation of phosphorylation" EXACT [] synonym: "upregulation of phosphorylation" EXACT [] is_a: GO:0042325 ! regulation of phosphorylation is_a: GO:0045937 ! positive regulation of phosphate metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0016310 ! phosphorylation relationship: positively_regulates GO:0016310 ! phosphorylation [Term] id: GO:0042330 name: taxis namespace: biological_process def: "The directed movement of a motile cell or organism in response to an external stimulus." [GOC:jl, ISBN:0192801023] synonym: "directed movement in response to stimulus" EXACT [] xref: Wikipedia:Taxis is_a: GO:0040011 ! locomotion relationship: part_of GO:0009605 ! response to external stimulus [Term] id: GO:0042391 name: regulation of membrane potential namespace: biological_process def: "Any process that modulates the establishment or extent of a membrane potential, the electric potential existing across any membrane arising from charges in the membrane itself and from the charges present in the media on either side of the membrane." [GOC:jl, GOC:mtg_cardio, GOC:tb, ISBN:0198506732] is_a: GO:0065008 ! regulation of biological quality [Term] id: GO:0042401 name: cellular biogenic amine biosynthetic process namespace: biological_process def: "The chemical reactions and pathways occurring at the level of individual cells resulting in the formation of any of a group of naturally occurring, biologically active amines, such as norepinephrine, histamine, and serotonin, many of which act as neurotransmitters." [GOC:jl, ISBN:0395825172] synonym: "biogenic amine anabolism" EXACT [] synonym: "biogenic amine biosynthesis" EXACT [] synonym: "biogenic amine formation" EXACT [] synonym: "biogenic amine synthesis" EXACT [] is_a: GO:0006576 ! cellular biogenic amine metabolic process is_a: GO:0009309 ! amine biosynthetic process [Term] id: GO:0042415 name: norepinephrine metabolic process namespace: biological_process def: "The chemical reactions and pathways involving norepinephrine, a hormone secreted by the adrenal medulla, and a neurotransmitter in the sympathetic peripheral nervous system and in some tracts in the central nervous system. It is also the demethylated biosynthetic precursor of epinephrine." [GOC:jl, ISBN:0198506732] synonym: "levarterenol metabolic process" EXACT [] synonym: "levarterenol metabolism" EXACT [] synonym: "noradrenaline metabolic process" EXACT [] synonym: "noradrenaline metabolism" EXACT [] synonym: "norepinephrine metabolism" EXACT [] is_a: GO:0006584 ! catecholamine metabolic process intersection_of: GO:0008152 ! metabolic process intersection_of: has_primary_input_or_output CHEBI:33569 ! noradrenaline relationship: has_primary_input_or_output CHEBI:33569 ! noradrenaline [Term] id: GO:0042421 name: norepinephrine biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of norepinephrine, a hormone secreted by the adrenal medulla, and a neurotransmitter in the sympathetic peripheral nervous system and in some tracts in the central nervous system. It is also the demethylated biosynthetic precursor of epinephrine." [GOC:jl, ISBN:0198506732] synonym: "levarterenol biosynthesis" EXACT [] synonym: "levarterenol biosynthetic process" EXACT [] synonym: "noradrenaline biosynthesis" EXACT [] synonym: "noradrenaline biosynthetic process" EXACT [] synonym: "norepinephrine anabolism" EXACT [] synonym: "norepinephrine biosynthesis" EXACT [] synonym: "norepinephrine formation" EXACT [] synonym: "norepinephrine synthesis" EXACT [] is_a: GO:0042415 ! norepinephrine metabolic process is_a: GO:0042423 ! catecholamine biosynthetic process intersection_of: GO:0009058 ! biosynthetic process intersection_of: has_primary_output CHEBI:33569 ! noradrenaline relationship: has_primary_output CHEBI:33569 ! noradrenaline [Term] id: GO:0042423 name: catecholamine biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of any of a group of physiologically important biogenic amines that possess a catechol (3,4-dihydroxyphenyl) nucleus and are derivatives of 3,4-dihydroxyphenylethylamine." [GOC:jl, ISBN:0198506732] synonym: "catecholamine anabolism" EXACT [] synonym: "catecholamine biosynthesis" EXACT [] synonym: "catecholamine formation" EXACT [] synonym: "catecholamine synthesis" EXACT [] xref: Wikipedia:Catecholamines is_a: GO:0006584 ! catecholamine metabolic process is_a: GO:0009713 ! catechol-containing compound biosynthetic process is_a: GO:0042401 ! cellular biogenic amine biosynthetic process intersection_of: GO:0009058 ! biosynthetic process intersection_of: has_primary_output CHEBI:33567 ! catecholamine relationship: has_primary_output CHEBI:33567 ! catecholamine [Term] id: GO:0042427 name: serotonin biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of serotonin (5-hydroxytryptamine), a monoamine neurotransmitter occurring in the peripheral and central nervous systems, also having hormonal properties." [GOC:jl, ISBN:0198506732] synonym: "serotonin anabolism" EXACT [] synonym: "serotonin biosynthesis" EXACT [] synonym: "serotonin formation" EXACT [] synonym: "serotonin synthesis" EXACT [] xref: Wikipedia:Serotonin is_a: GO:0009058 ! biosynthetic process is_a: GO:0042428 ! serotonin metabolic process intersection_of: GO:0009058 ! biosynthetic process intersection_of: has_primary_output CHEBI:350546 ! serotonin(1+) relationship: has_primary_output CHEBI:350546 ! serotonin(1+) [Term] id: GO:0042428 name: serotonin metabolic process namespace: biological_process def: "The chemical reactions and pathways involving serotonin (5-hydroxytryptamine), a monoamine neurotransmitter occurring in the peripheral and central nervous systems, also having hormonal properties." [GOC:jl, ISBN:0198506732] synonym: "serotonin metabolism" EXACT [] is_a: GO:0018958 ! phenol-containing compound metabolic process is_a: GO:0042430 ! indole-containing compound metabolic process is_a: GO:0097164 ! ammonium ion metabolic process is_a: GO:1901160 ! primary amino compound metabolic process intersection_of: GO:0008152 ! metabolic process intersection_of: has_primary_input_or_output CHEBI:350546 ! serotonin(1+) relationship: has_primary_input_or_output CHEBI:350546 ! serotonin(1+) [Term] id: GO:0042430 name: indole-containing compound metabolic process namespace: biological_process alt_id: GO:0042434 def: "The chemical reactions and pathways involving compounds that contain an indole (2,3-benzopyrrole) skeleton." [GOC:jl, GOC:mah] synonym: "indole and derivative metabolic process" EXACT [] synonym: "indole and derivative metabolism" EXACT [] synonym: "indole derivative metabolic process" NARROW [] synonym: "indole derivative metabolism" NARROW [] synonym: "indole-containing compound metabolism" EXACT [] synonym: "ketole metabolic process" EXACT [] synonym: "ketole metabolism" EXACT [] is_a: GO:0006725 ! cellular aromatic compound metabolic process is_a: GO:0034641 ! cellular nitrogen compound metabolic process is_a: GO:0046483 ! heterocycle metabolic process is_a: GO:1901360 ! organic cyclic compound metabolic process is_a: GO:1901564 ! organonitrogen compound metabolic process intersection_of: GO:0008152 ! metabolic process intersection_of: has_primary_input_or_output CHEBI:24828 ! indoles relationship: has_primary_input_or_output CHEBI:24828 ! indoles [Term] id: GO:0042435 name: indole-containing compound biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of compounds that contain an indole (2,3-benzopyrrole) skeleton." [GOC:jl] synonym: "indole derivative biosynthesis" EXACT [] synonym: "indole derivative biosynthetic process" EXACT [] synonym: "indole-containing compound anabolism" EXACT [] synonym: "indole-containing compound biosynthesis" EXACT [] synonym: "indole-containing compound formation" EXACT [] synonym: "indole-containing compound synthesis" EXACT [] is_a: GO:0018130 ! heterocycle biosynthetic process is_a: GO:0019438 ! aromatic compound biosynthetic process is_a: GO:0042430 ! indole-containing compound metabolic process is_a: GO:0044271 ! cellular nitrogen compound biosynthetic process is_a: GO:1901362 ! organic cyclic compound biosynthetic process is_a: GO:1901566 ! organonitrogen compound biosynthetic process intersection_of: GO:0009058 ! biosynthetic process intersection_of: has_primary_output CHEBI:24828 ! indoles relationship: has_primary_output CHEBI:24828 ! indoles [Term] id: GO:0042461 name: photoreceptor cell development namespace: biological_process alt_id: GO:0046531 def: "Development of a photoreceptor, a cell that responds to incident electromagnetic radiation, particularly visible light." [GOC:go_curators] synonym: "photoreceptor morphogenesis" EXACT [] is_a: GO:0048666 ! neuron development intersection_of: GO:0032502 ! developmental process intersection_of: results_in_development_of CL:0000210 ! photoreceptor cell relationship: part_of GO:0046530 ! photoreceptor cell differentiation relationship: results_in_development_of CL:0000210 ! photoreceptor cell [Term] id: GO:0042462 name: eye photoreceptor cell development namespace: biological_process def: "Development of a photoreceptor, a sensory cell in the eye that reacts to the presence of light. They usually contain a pigment that undergoes a chemical change when light is absorbed, thus stimulating a nerve." [GOC:jl, ISBN:0192800981] is_a: GO:0042461 ! photoreceptor cell development intersection_of: GO:0032502 ! developmental process intersection_of: results_in_development_of CL:0000287 ! eye photoreceptor cell relationship: part_of GO:0001754 ! eye photoreceptor cell differentiation relationship: results_in_development_of CL:0000287 ! eye photoreceptor cell [Term] id: GO:0042478 name: regulation of eye photoreceptor cell development namespace: biological_process def: "Any process that modulates the frequency, rate or extent of eye photoreceptor development." [GOC:jl] synonym: "regulation of eye photoreceptor development" EXACT [] is_a: GO:0046532 ! regulation of photoreceptor cell differentiation is_a: GO:0060284 ! regulation of cell development intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0042462 ! eye photoreceptor cell development relationship: regulates GO:0042462 ! eye photoreceptor cell development [Term] id: GO:0042479 name: positive regulation of eye photoreceptor cell development namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of eye photoreceptor development." [GOC:jl] synonym: "activation of eye photoreceptor cell development" NARROW [] synonym: "positive regulation of eye photoreceptor development" EXACT [] synonym: "stimulation of eye photoreceptor cell development" NARROW [] synonym: "up regulation of eye photoreceptor cell development" EXACT [] synonym: "up-regulation of eye photoreceptor cell development" EXACT [] synonym: "upregulation of eye photoreceptor cell development" EXACT [] is_a: GO:0010720 ! positive regulation of cell development is_a: GO:0042478 ! regulation of eye photoreceptor cell development is_a: GO:0046534 ! positive regulation of photoreceptor cell differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0042462 ! eye photoreceptor cell development relationship: positively_regulates GO:0042462 ! eye photoreceptor cell development [Term] id: GO:0042480 name: negative regulation of eye photoreceptor cell development namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of eye photoreceptor development." [GOC:jl] synonym: "down regulation of eye photoreceptor cell development" EXACT [] synonym: "down-regulation of eye photoreceptor cell development" EXACT [] synonym: "downregulation of eye photoreceptor cell development" EXACT [] synonym: "inhibition of eye photoreceptor cell development" NARROW [] synonym: "negative regulation of eye photoreceptor development" EXACT [] is_a: GO:0010721 ! negative regulation of cell development is_a: GO:0042478 ! regulation of eye photoreceptor cell development intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0042462 ! eye photoreceptor cell development relationship: negatively_regulates GO:0042462 ! eye photoreceptor cell development [Term] id: GO:0042562 name: hormone binding namespace: molecular_function def: "Binding to an hormone, a naturally occurring substance secreted by specialized cells that affect the metabolism or behavior of cells possessing functional receptors for the hormone. Hormones may be produced by the same, or different, cell as express the receptor." [GOC:jl] subset: goslim_chembl subset: goslim_pir is_a: GO:0005488 ! binding [Term] id: GO:0042592 name: homeostatic process namespace: biological_process alt_id: GO:0032844 alt_id: GO:0032845 alt_id: GO:0032846 def: "Any biological process involved in the maintenance of an internal steady state." [GOC:jl, ISBN:0395825172] subset: goslim_agr subset: goslim_chembl subset: goslim_mouse synonym: "activation of homeostatic process" NARROW [] synonym: "homeostasis" EXACT [] synonym: "inhibition of homeostatic process" NARROW [] synonym: "negative regulation of homeostatic process" RELATED [] synonym: "positive regulation of homeostatic process" RELATED [] synonym: "regulation of homeostatic process" RELATED [] is_a: GO:0065008 ! regulation of biological quality [Term] id: GO:0042641 name: actomyosin namespace: cellular_component def: "Any complex of actin, myosin, and accessory proteins." [GOC:go_curators] synonym: "actomyosin complex" EXACT [] synonym: "actomyosin structure" EXACT [] is_a: GO:0110165 ! cellular anatomical entity relationship: part_of GO:0015629 ! actin cytoskeleton [Term] id: GO:0042670 name: retinal cone cell differentiation namespace: biological_process def: "The process in which a relatively unspecialized cell acquires the specialized features of a retinal cone cell." [GOC:go_curators] is_a: GO:0060219 ! camera-type eye photoreceptor cell differentiation intersection_of: GO:0030154 ! cell differentiation intersection_of: results_in_acquisition_of_features_of CL:0000573 ! retinal cone cell relationship: results_in_acquisition_of_features_of CL:0000573 ! retinal cone cell [Term] id: GO:0042692 name: muscle cell differentiation namespace: biological_process def: "The process in which a relatively unspecialized cell acquires specialized features of a muscle cell." [CL:0000187, GOC:go_curators] synonym: "myogenesis" RELATED [] is_a: GO:0030154 ! cell differentiation intersection_of: GO:0030154 ! cell differentiation intersection_of: results_in_acquisition_of_features_of CL:0000187 ! muscle cell relationship: part_of GO:0061061 ! muscle structure development relationship: results_in_acquisition_of_features_of CL:0000187 ! muscle cell [Term] id: GO:0042762 name: regulation of sulfur metabolic process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways involving sulfur, the nonmetallic element sulfur or compounds that contain sulfur." [GOC:go_curators] synonym: "regulation of sulfur metabolism" EXACT [] synonym: "regulation of sulphur metabolic process" EXACT [] synonym: "regulation of sulphur metabolism" EXACT [] is_a: GO:0031323 ! regulation of cellular metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0006790 ! sulfur compound metabolic process relationship: regulates GO:0006790 ! sulfur compound metabolic process [Term] id: GO:0042886 name: amide transport namespace: biological_process def: "The directed movement of an amide, any compound containing one, two, or three acyl groups attached to a nitrogen atom, into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." [GOC:jl, ISBN:0198506732] subset: goslim_pir is_a: GO:0071705 ! nitrogen compound transport intersection_of: GO:0006810 ! transport intersection_of: transports_or_maintains_localization_of CHEBI:32988 ! amide relationship: transports_or_maintains_localization_of CHEBI:32988 ! amide [Term] id: GO:0042981 name: regulation of apoptotic process namespace: biological_process def: "Any process that modulates the occurrence or rate of cell death by apoptotic process." [GOC:jl, GOC:mtg_apoptosis] comment: This term should only be used when it is not possible to determine which phase or subtype of the apoptotic process is regulated by a gene product. Whenever detailed information is available, the more granular children terms should be used. synonym: "apoptosis regulator activity" RELATED [] synonym: "regulation of apoptosis" NARROW [] is_a: GO:0043067 ! regulation of programmed cell death intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0006915 ! apoptotic process relationship: regulates GO:0006915 ! apoptotic process [Term] id: GO:0042995 name: cell projection namespace: cellular_component def: "A prolongation or process extending from a cell, e.g. a flagellum or axon." [GOC:jl, http://www.cogsci.princeton.edu/~wn/] subset: goslim_agr subset: goslim_flybase_ribbon subset: goslim_mouse subset: goslim_pir synonym: "cell process" BROAD [] synonym: "cellular process" BROAD [] synonym: "cellular projection" EXACT [] is_a: GO:0110165 ! cellular anatomical entity relationship: part_of CL:0000000 ! cell [Term] id: GO:0042996 name: regulation of Golgi to plasma membrane protein transport namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the transport of proteins from the Golgi to the plasma membrane." [GOC:jl] is_a: GO:0051223 ! regulation of protein transport is_a: GO:0060627 ! regulation of vesicle-mediated transport is_a: GO:1903076 ! regulation of protein localization to plasma membrane intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0043001 ! Golgi to plasma membrane protein transport relationship: regulates GO:0043001 ! Golgi to plasma membrane protein transport [Term] id: GO:0042997 name: negative regulation of Golgi to plasma membrane protein transport namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of the transport of proteins from the Golgi to the plasma membrane." [GOC:jl] synonym: "down regulation of Golgi to plasma membrane protein transport" EXACT [] synonym: "down-regulation of Golgi to plasma membrane protein transport" EXACT [] synonym: "downregulation of Golgi to plasma membrane protein transport" EXACT [] synonym: "inhibition of Golgi to plasma membrane protein transport" NARROW [] is_a: GO:0042996 ! regulation of Golgi to plasma membrane protein transport is_a: GO:0051224 ! negative regulation of protein transport is_a: GO:1903077 ! negative regulation of protein localization to plasma membrane intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0043001 ! Golgi to plasma membrane protein transport relationship: negatively_regulates GO:0043001 ! Golgi to plasma membrane protein transport [Term] id: GO:0042998 name: positive regulation of Golgi to plasma membrane protein transport namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of the transport of proteins from the Golgi to the plasma membrane." [GOC:jl] synonym: "activation of Golgi to plasma membrane protein transport" NARROW [] synonym: "stimulation of Golgi to plasma membrane protein transport" NARROW [] synonym: "up regulation of Golgi to plasma membrane protein transport" EXACT [] synonym: "up-regulation of Golgi to plasma membrane protein transport" EXACT [] synonym: "upregulation of Golgi to plasma membrane protein transport" EXACT [] is_a: GO:0042996 ! regulation of Golgi to plasma membrane protein transport is_a: GO:0051222 ! positive regulation of protein transport is_a: GO:1903078 ! positive regulation of protein localization to plasma membrane intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0043001 ! Golgi to plasma membrane protein transport relationship: positively_regulates GO:0043001 ! Golgi to plasma membrane protein transport [Term] id: GO:0043001 name: Golgi to plasma membrane protein transport namespace: biological_process def: "The directed movement of proteins from the Golgi to the plasma membrane in transport vesicles that move from the trans-Golgi network to the plasma membrane." [ISBN:0716731363] is_a: GO:0006893 ! Golgi to plasma membrane transport is_a: GO:0015031 ! protein transport is_a: GO:0061951 ! establishment of protein localization to plasma membrane intersection_of: GO:0015031 ! protein transport intersection_of: has_target_end_location GO:0005886 ! plasma membrane intersection_of: has_target_start_location GO:0005794 ! Golgi apparatus intersection_of: process_has_causal_agent GO:0031982 ! vesicle [Term] id: GO:0043005 name: neuron projection namespace: cellular_component def: "A prolongation or process extending from a nerve cell, e.g. an axon or dendrite." [GOC:jl, http://www.cogsci.princeton.edu/~wn/] subset: goslim_pir synonym: "nerve fiber" RELATED [GOC:dph] synonym: "neurite" NARROW [] synonym: "neuron process" EXACT [] synonym: "neuron protrusion" EXACT [NIF_Subcellular:sao250931889] synonym: "neuronal cell projection" EXACT [] xref: NIF_Subcellular:sao867568886 is_a: CARO:0000000 ! anatomical entity is_a: GO:0120025 ! plasma membrane bounded cell projection intersection_of: GO:0120025 ! plasma membrane bounded cell projection intersection_of: part_of CL:0000540 ! neuron relationship: part_of CL:0000540 ! neuron [Term] id: GO:0043009 name: chordate embryonic development namespace: biological_process def: "The process whose specific outcome is the progression of the embryo over time, from zygote formation through a stage including a notochord and neural tube until birth or egg hatching." [GOC:mtg_sensu] is_a: GO:0009792 ! embryo development ending in birth or egg hatching relationship: in_taxon NCBITaxon:7711 ! Chordata relationship: only_in_taxon NCBITaxon:7711 ! Chordata [Term] id: GO:0043010 name: camera-type eye development namespace: biological_process alt_id: GO:0001747 alt_id: GO:0031075 def: "The process whose specific outcome is the progression of the camera-type eye over time, from its formation to the mature structure. The camera-type eye is an organ of sight that receives light through an aperture and focuses it through a lens, projecting it on a photoreceptor field." [GOC:go_curators, GOC:mtg_sensu] is_a: GO:0001654 ! eye development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0000019 ! camera-type eye relationship: results_in_development_of UBERON:0000019 ! camera-type eye property_value: RO:0002161 NCBITaxon:6656 [Term] id: GO:0043021 name: ribonucleoprotein complex binding namespace: molecular_function def: "Binding to a complex of RNA and protein." [GOC:bf, GOC:go_curators, GOC:vk] subset: goslim_pir synonym: "protein-RNA complex binding" EXACT [GOC:bf, GOC:vk] synonym: "ribonucleoprotein binding" EXACT [GOC:bf, GOC:vk] synonym: "RNP binding" EXACT [] is_a: GO:0044877 ! protein-containing complex binding intersection_of: GO:0005488 ! binding intersection_of: has_input GO:1990904 ! ribonucleoprotein complex relationship: has_input GO:1990904 ! ribonucleoprotein complex [Term] id: GO:0043022 name: ribosome binding namespace: molecular_function alt_id: GO:0030376 def: "Binding to a ribosome." [GOC:go_curators] synonym: "ribosome receptor activity" NARROW [] is_a: GO:0043021 ! ribonucleoprotein complex binding intersection_of: GO:0005488 ! binding intersection_of: has_input GO:0005840 ! ribosome relationship: has_input GO:0005840 ! ribosome [Term] id: GO:0043025 name: neuronal cell body namespace: cellular_component def: "The portion of a neuron that includes the nucleus, but excludes cell projections such as axons and dendrites." [GOC:go_curators] comment: Note that 'cell body' and 'cell soma' are not used in the literature for cells that lack projections, nor for some cells (e.g. yeast with mating projections) that do have projections. subset: goslim_pir synonym: "neuron cell body" EXACT [] synonym: "neuronal cell soma" EXACT [] xref: NIF_Subcellular:sao1044911821 xref: Wikipedia:Soma_(biology) is_a: CARO:0000000 ! anatomical entity is_a: GO:0044297 ! cell body intersection_of: GO:0044297 ! cell body intersection_of: part_of CL:0000540 ! neuron relationship: part_of GO:0036477 ! somatodendritic compartment [Term] id: GO:0043043 name: peptide biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of peptides, compounds of 2 or more (but usually less than 100) amino acids where the alpha carboxyl group of one is bound to the alpha amino group of another. This may include the translation of a precursor protein and its subsequent processing into a functional peptide." [GOC:dph, GOC:jl] synonym: "peptide anabolism" EXACT [] synonym: "peptide biosynthesis" EXACT [] synonym: "peptide formation" EXACT [] synonym: "peptide synthesis" EXACT [] is_a: GO:0006518 ! peptide metabolic process is_a: GO:0043604 ! amide biosynthetic process is_a: GO:1901566 ! organonitrogen compound biosynthetic process intersection_of: GO:0009058 ! biosynthetic process intersection_of: has_primary_output CHEBI:16670 ! peptide relationship: has_primary_output CHEBI:16670 ! peptide [Term] id: GO:0043062 name: extracellular structure organization namespace: biological_process def: "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of structures in the space external to the outermost structure of a cell. For cells without external protective or external encapsulating structures this refers to space outside of the plasma membrane, and also covers the host cell environment outside an intracellular parasite." [GOC:ai, GOC:dph, GOC:jl, GOC:mah] subset: goslim_pir synonym: "extracellular structure organisation" EXACT [] synonym: "extracellular structure organization and biogenesis" EXACT [GOC:dph, GOC:jl, GOC:mah] is_a: GO:0016043 ! cellular component organization intersection_of: GO:0016043 ! cellular component organization intersection_of: results_in_organization_of GO:0005576 ! extracellular region relationship: results_in_organization_of GO:0005576 ! extracellular region [Term] id: GO:0043065 name: positive regulation of apoptotic process namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of cell death by apoptotic process." [GOC:jl, GOC:mtg_apoptosis] comment: This term should only be used when it is not possible to determine which phase or subtype of the apoptotic process is positively regulated by a gene product. Whenever detailed information is available, the more granular children terms should be used. subset: goslim_chembl synonym: "activation of apoptosis" NARROW [] synonym: "positive regulation of apoptosis" NARROW [] synonym: "pro-apoptosis" RELATED [] synonym: "stimulation of apoptosis" NARROW [] synonym: "up regulation of apoptosis" EXACT [] synonym: "up-regulation of apoptosis" EXACT [] synonym: "upregulation of apoptosis" EXACT [] is_a: GO:0042981 ! regulation of apoptotic process is_a: GO:0043068 ! positive regulation of programmed cell death intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0006915 ! apoptotic process relationship: positively_regulates GO:0006915 ! apoptotic process [Term] id: GO:0043066 name: negative regulation of apoptotic process namespace: biological_process alt_id: GO:0006916 def: "Any process that stops, prevents, or reduces the frequency, rate or extent of cell death by apoptotic process." [GOC:jl, GOC:mtg_apoptosis] comment: This term should only be used when it is not possible to determine which phase or subtype of the apoptotic process is negatively regulated by a gene product. Whenever detailed information is available, the more granular children terms should be used. synonym: "anti-apoptosis" EXACT [] synonym: "apoptosis inhibitor activity" RELATED [] synonym: "down regulation of apoptosis" EXACT [] synonym: "down-regulation of apoptosis" EXACT [] synonym: "downregulation of apoptosis" EXACT [] synonym: "inhibition of apoptosis" NARROW [] synonym: "negative regulation of apoptosis" NARROW [] synonym: "pro-survival" RELATED [] is_a: GO:0042981 ! regulation of apoptotic process is_a: GO:0043069 ! negative regulation of programmed cell death intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0006915 ! apoptotic process relationship: negatively_regulates GO:0006915 ! apoptotic process [Term] id: GO:0043067 name: regulation of programmed cell death namespace: biological_process alt_id: GO:0043070 def: "Any process that modulates the frequency, rate or extent of programmed cell death, cell death resulting from activation of endogenous cellular processes." [GOC:jl] synonym: "regulation of non-apoptotic programmed cell death" NARROW [] is_a: GO:0010941 ! regulation of cell death intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0012501 ! programmed cell death relationship: regulates GO:0012501 ! programmed cell death [Term] id: GO:0043068 name: positive regulation of programmed cell death namespace: biological_process alt_id: GO:0043071 def: "Any process that activates or increases the frequency, rate or extent of programmed cell death, cell death resulting from activation of endogenous cellular processes." [GOC:jl] synonym: "activation of programmed cell death" NARROW [] synonym: "positive regulation of non-apoptotic programmed cell death" NARROW [] synonym: "stimulation of programmed cell death" NARROW [] synonym: "up regulation of programmed cell death" EXACT [] synonym: "up-regulation of programmed cell death" EXACT [] synonym: "upregulation of programmed cell death" EXACT [] is_a: GO:0010942 ! positive regulation of cell death is_a: GO:0043067 ! regulation of programmed cell death intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0012501 ! programmed cell death relationship: positively_regulates GO:0012501 ! programmed cell death [Term] id: GO:0043069 name: negative regulation of programmed cell death namespace: biological_process alt_id: GO:0043072 def: "Any process that stops, prevents, or reduces the frequency, rate or extent of programmed cell death, cell death resulting from activation of endogenous cellular processes." [GOC:jl] synonym: "down regulation of programmed cell death" EXACT [] synonym: "down-regulation of programmed cell death" EXACT [] synonym: "downregulation of programmed cell death" EXACT [] synonym: "inhibition of programmed cell death" NARROW [] synonym: "negative regulation of non-apoptotic programmed cell death" NARROW [] is_a: GO:0043067 ! regulation of programmed cell death is_a: GO:0060548 ! negative regulation of cell death intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0012501 ! programmed cell death relationship: negatively_regulates GO:0012501 ! programmed cell death [Term] id: GO:0043073 name: germ cell nucleus namespace: cellular_component def: "The nucleus of a germ cell, a reproductive cell in multicellular organisms." [CL:0000586, GOC:go_curators] synonym: "germ-cell nucleus" EXACT [] is_a: GO:0005634 ! nucleus intersection_of: GO:0005634 ! nucleus intersection_of: part_of CL:0000586 ! germ cell relationship: part_of CL:0000586 ! germ cell [Term] id: GO:0043085 name: positive regulation of catalytic activity namespace: biological_process alt_id: GO:0048554 def: "Any process that activates or increases the activity of an enzyme." [GOC:ebc, GOC:jl, GOC:tb, GOC:vw] subset: goslim_chembl synonym: "activation of enzyme activity" NARROW [] synonym: "activation of metalloenzyme activity" NARROW [] synonym: "positive regulation of enzyme activity" EXACT [GOC:tb] synonym: "positive regulation of metalloenzyme activity" NARROW [] synonym: "stimulation of enzyme activity" NARROW [] synonym: "stimulation of metalloenzyme activity" NARROW [] synonym: "up regulation of enzyme activity" EXACT [] synonym: "up regulation of metalloenzyme activity" NARROW [] synonym: "up-regulation of enzyme activity" EXACT [] synonym: "up-regulation of metalloenzyme activity" NARROW [] synonym: "upregulation of enzyme activity" EXACT [] synonym: "upregulation of metalloenzyme activity" NARROW [] is_a: GO:0044093 ! positive regulation of molecular function is_a: GO:0050790 ! regulation of catalytic activity intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0003824 ! catalytic activity relationship: positively_regulates GO:0003824 ! catalytic activity [Term] id: GO:0043086 name: negative regulation of catalytic activity namespace: biological_process alt_id: GO:0048553 def: "Any process that stops or reduces the activity of an enzyme." [GOC:ebc, GOC:jl, GOC:tb, GOC:vw] synonym: "down regulation of enzyme activity" EXACT [] synonym: "down regulation of metalloenzyme activity" NARROW [] synonym: "down-regulation of enzyme activity" EXACT [] synonym: "down-regulation of metalloenzyme activity" EXACT [] synonym: "downregulation of enzyme activity" EXACT [] synonym: "downregulation of metalloenzyme activity" NARROW [] synonym: "inhibition of enzyme activity" NARROW [] synonym: "inhibition of metalloenzyme activity" NARROW [] synonym: "negative regulation of enzyme activity" EXACT [GOC:tb] synonym: "negative regulation of metalloenzyme activity" NARROW [] is_a: GO:0044092 ! negative regulation of molecular function is_a: GO:0050790 ! regulation of catalytic activity intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0003824 ! catalytic activity relationship: negatively_regulates GO:0003824 ! catalytic activity [Term] id: GO:0043143 name: regulation of translation by machinery localization namespace: biological_process def: "Any process in which proteins and protein complexes involved in translation are transported to, or maintained in, a specific location." [GOC:jl] synonym: "establishment and maintenance of translational machinery localization" EXACT [] synonym: "establishment and maintenance of translational protein localization" EXACT [] synonym: "regulation of translation by machinery localisation" EXACT [GOC:mah] synonym: "translational machinery localization" EXACT [GOC:dph, GOC:tb] synonym: "translational protein localization" EXACT [] is_a: GO:0006417 ! regulation of translation is_a: GO:0034613 ! cellular protein localization intersection_of: GO:0008104 ! protein localization intersection_of: part_of GO:0006412 ! translation relationship: part_of GO:0006412 ! translation [Term] id: GO:0043167 name: ion binding namespace: molecular_function def: "Binding to an ion, a charged atoms or groups of atoms." [GOC:jl] subset: goslim_chembl subset: goslim_metagenomics subset: goslim_pir subset: goslim_yeast synonym: "atom binding" RELATED [] is_a: GO:0005488 ! binding intersection_of: GO:0005488 ! binding intersection_of: has_input CHEBI:24870 ! ion relationship: has_input CHEBI:24870 ! ion [Term] id: GO:0043168 name: anion binding namespace: molecular_function def: "Binding to an anion, a charged atom or group of atoms with a net negative charge." [GOC:jl] is_a: GO:0043167 ! ion binding intersection_of: GO:0005488 ! binding intersection_of: has_input CHEBI:22563 ! anion relationship: has_input CHEBI:22563 ! anion [Term] id: GO:0043169 name: cation binding namespace: molecular_function def: "Binding to a cation, a charged atom or group of atoms with a net positive charge." [GOC:jl] is_a: GO:0043167 ! ion binding intersection_of: GO:0005488 ! binding intersection_of: has_input CHEBI:36916 ! cation relationship: has_input CHEBI:36916 ! cation [Term] id: GO:0043170 name: macromolecule metabolic process namespace: biological_process alt_id: GO:0043283 alt_id: GO:0044259 def: "The chemical reactions and pathways involving macromolecules, any molecule of high relative molecular mass, the structure of which essentially comprises the multiple repetition of units derived, actually or conceptually, from molecules of low relative molecular mass." [GOC:mah] subset: goslim_pir synonym: "biopolymer metabolic process" EXACT [GOC:mtg_chebi_dec09] synonym: "macromolecule metabolism" EXACT [] synonym: "multicellular organismal macromolecule metabolic process" NARROW [] synonym: "organismal macromolecule metabolism" EXACT [] is_a: GO:0071704 ! organic substance metabolic process intersection_of: GO:0008152 ! metabolic process intersection_of: has_primary_input_or_output CHEBI:33694 ! biomacromolecule relationship: has_primary_input_or_output CHEBI:33694 ! biomacromolecule [Term] id: GO:0043176 name: amine binding namespace: molecular_function def: "Binding to an amine, a weakly basic organic compound that contains an amino or a substituted amino group." [GOC:jl] subset: goslim_pir is_a: GO:0005488 ! binding intersection_of: GO:0005488 ! binding intersection_of: has_input CHEBI:32952 ! amine relationship: has_input CHEBI:32952 ! amine [Term] id: GO:0043177 name: organic acid binding namespace: molecular_function def: "Binding to an organic acid, any acidic compound containing carbon in covalent linkage." [GOC:jl, ISBN:0198506732] is_a: GO:0036094 ! small molecule binding intersection_of: GO:0005488 ! binding intersection_of: has_input CHEBI:64709 ! organic acid relationship: has_input CHEBI:64709 ! organic acid [Term] id: GO:0043184 name: vascular endothelial growth factor receptor 2 binding namespace: molecular_function def: "Binding to a vascular endothelial growth factor receptor 2." [GOC:st] synonym: "Flk-1 binding" EXACT [] synonym: "KDR binding" BROAD [] synonym: "kinase domain region binding" EXACT [] synonym: "VEGF receptor 2 binding" EXACT [] synonym: "VEGFR 2 binding" EXACT [] is_a: GO:0005172 ! vascular endothelial growth factor receptor binding intersection_of: GO:0005488 ! binding intersection_of: has_input PR:000002112 ! vascular endothelial growth factor receptor 2 relationship: has_input PR:000002112 ! vascular endothelial growth factor receptor 2 [Term] id: GO:0043199 name: sulfate binding namespace: molecular_function def: "Binding to sulfate, SO4(2-), a negatively charged small molecule." [GOC:mlg] is_a: GO:0043168 ! anion binding is_a: GO:1901681 ! sulfur compound binding intersection_of: GO:0005488 ! binding intersection_of: has_input CHEBI:16189 ! sulfate relationship: has_input CHEBI:16189 ! sulfate [Term] id: GO:0043200 name: response to amino acid namespace: biological_process alt_id: GO:0010237 def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an amino acid stimulus. An amino acid is a carboxylic acids containing one or more amino groups." [GOC:ef, GOC:mlg] synonym: "response to amino acid stimulus" EXACT [GOC:dos] is_a: GO:0001101 ! response to acid chemical is_a: GO:0010243 ! response to organonitrogen compound is_a: GO:1901700 ! response to oxygen-containing compound intersection_of: GO:0050896 ! response to stimulus intersection_of: has_input CHEBI:33709 ! amino acid relationship: has_input CHEBI:33709 ! amino acid [Term] id: GO:0043207 name: response to external biotic stimulus namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an external biotic stimulus, an external stimulus caused by, or produced by living things." [GOC:go_curators] is_a: GO:0009605 ! response to external stimulus is_a: GO:0009607 ! response to biotic stimulus [Term] id: GO:0043226 name: organelle namespace: cellular_component def: "Organized structure of distinctive morphology and function. Includes the nucleus, mitochondria, plastids, vacuoles, vesicles, ribosomes and the cytoskeleton, and prokaryotic structures such as anammoxosomes and pirellulosomes. Excludes the plasma membrane." [GOC:go_curators] subset: goslim_chembl subset: goslim_generic subset: goslim_pir xref: NIF_Subcellular:sao1539965131 xref: Wikipedia:Organelle is_a: GO:0110165 ! cellular anatomical entity [Term] id: GO:0043227 name: membrane-bounded organelle namespace: cellular_component def: "Organized structure of distinctive morphology and function, bounded by a single or double lipid bilayer membrane. Includes the nucleus, mitochondria, plastids, vacuoles, and vesicles. Excludes the plasma membrane." [GOC:go_curators] synonym: "membrane-enclosed organelle" EXACT [] xref: NIF_Subcellular:sao414196390 is_a: GO:0043226 ! organelle intersection_of: GO:0043226 ! organelle intersection_of: has_part GO:0016020 ! membrane disjoint_from: GO:0043228 ! non-membrane-bounded organelle relationship: has_part GO:0016020 ! membrane [Term] id: GO:0043228 name: non-membrane-bounded organelle namespace: cellular_component def: "Organized structure of distinctive morphology and function, not bounded by a lipid bilayer membrane. Includes ribosomes, the cytoskeleton and chromosomes." [GOC:go_curators] synonym: "biological condensate" NARROW [] synonym: "non-membrane-enclosed organelle" EXACT [] xref: NIF_Subcellular:sao1456184038 is_a: GO:0043226 ! organelle property_value: IAO:0000233 https://github.com/geneontology/go-ontology/issues/21881 xsd:anyURI [Term] id: GO:0043229 name: intracellular organelle namespace: cellular_component def: "Organized structure of distinctive morphology and function, occurring within the cell. Includes the nucleus, mitochondria, plastids, vacuoles, vesicles, ribosomes and the cytoskeleton. Excludes the plasma membrane." [GOC:go_curators] subset: goslim_pir is_a: GO:0043226 ! organelle intersection_of: GO:0043226 ! organelle intersection_of: part_of GO:0005622 ! intracellular anatomical structure disjoint_from: GO:0043230 ! extracellular organelle relationship: part_of GO:0005622 ! intracellular anatomical structure [Term] id: GO:0043230 name: extracellular organelle namespace: cellular_component def: "Organized structure of distinctive morphology and function, occurring outside the cell. Includes, for example, extracellular membrane vesicles (EMVs) and the cellulosomes of anaerobic bacteria and fungi." [GOC:jl, PMID:9914479] subset: goslim_pir is_a: GO:0043226 ! organelle intersection_of: GO:0043226 ! organelle intersection_of: part_of GO:0005576 ! extracellular region relationship: part_of GO:0005576 ! extracellular region [Term] id: GO:0043231 name: intracellular membrane-bounded organelle namespace: cellular_component def: "Organized structure of distinctive morphology and function, bounded by a single or double lipid bilayer membrane and occurring within the cell. Includes the nucleus, mitochondria, plastids, vacuoles, and vesicles. Excludes the plasma membrane." [GOC:go_curators] subset: goslim_pir synonym: "intracellular membrane-enclosed organelle" EXACT [] is_a: GO:0043227 ! membrane-bounded organelle is_a: GO:0043229 ! intracellular organelle intersection_of: GO:0043227 ! membrane-bounded organelle intersection_of: part_of GO:0005622 ! intracellular anatomical structure [Term] id: GO:0043232 name: intracellular non-membrane-bounded organelle namespace: cellular_component def: "Organized structure of distinctive morphology and function, not bounded by a lipid bilayer membrane and occurring within the cell. Includes ribosomes, the cytoskeleton and chromosomes." [GOC:go_curators] subset: goslim_mouse subset: goslim_pir synonym: "intracellular non-membrane-enclosed organelle" EXACT [] is_a: GO:0043228 ! non-membrane-bounded organelle is_a: GO:0043229 ! intracellular organelle intersection_of: GO:0043228 ! non-membrane-bounded organelle intersection_of: part_of GO:0005622 ! intracellular anatomical structure [Term] id: GO:0043233 name: organelle lumen namespace: cellular_component def: "The internal volume enclosed by the membranes of a particular organelle; includes the volume enclosed by a single organelle membrane, e.g. endoplasmic reticulum lumen, or the volume enclosed by the innermost of the two lipid bilayers of an organelle envelope, e.g. nuclear lumen." [GOC:jl, GOC:mah] is_a: GO:0031974 ! membrane-enclosed lumen intersection_of: GO:0031974 ! membrane-enclosed lumen intersection_of: part_of GO:0043226 ! organelle relationship: part_of GO:0043226 ! organelle [Term] id: GO:0043242 name: negative regulation of protein-containing complex disassembly namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of protein complex disassembly, the disaggregation of a protein complex into its constituent components." [GOC:jl] synonym: "down regulation of protein complex disassembly" EXACT [] synonym: "down-regulation of protein complex disassembly" EXACT [] synonym: "downregulation of protein complex disassembly" EXACT [] synonym: "inhibition of protein complex disassembly" NARROW [] synonym: "negative regulation of protein complex disassembly" RELATED [] is_a: GO:0043244 ! regulation of protein-containing complex disassembly is_a: GO:0051129 ! negative regulation of cellular component organization intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0032984 ! protein-containing complex disassembly relationship: negatively_regulates GO:0032984 ! protein-containing complex disassembly [Term] id: GO:0043243 name: positive regulation of protein-containing complex disassembly namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of protein complex disassembly, the disaggregation of a protein complex into its constituent components." [GOC:jl] synonym: "activation of protein complex disassembly" NARROW [] synonym: "positive regulation of protein complex disassembly" RELATED [] synonym: "stimulation of protein complex disassembly" NARROW [] synonym: "up regulation of protein complex disassembly" EXACT [] synonym: "up-regulation of protein complex disassembly" EXACT [] synonym: "upregulation of protein complex disassembly" EXACT [] is_a: GO:0043244 ! regulation of protein-containing complex disassembly is_a: GO:0051130 ! positive regulation of cellular component organization intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0032984 ! protein-containing complex disassembly relationship: positively_regulates GO:0032984 ! protein-containing complex disassembly [Term] id: GO:0043244 name: regulation of protein-containing complex disassembly namespace: biological_process def: "Any process that modulates the frequency, rate or extent of protein complex disassembly, the disaggregation of a protein complex into its constituent components." [GOC:jl] synonym: "regulation of protein complex disassembly" RELATED [] is_a: GO:0051128 ! regulation of cellular component organization intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0032984 ! protein-containing complex disassembly relationship: regulates GO:0032984 ! protein-containing complex disassembly [Term] id: GO:0043254 name: regulation of protein-containing complex assembly namespace: biological_process def: "Any process that modulates the frequency, rate or extent of protein complex assembly." [GOC:jl] synonym: "regulation of protein complex assembly" RELATED [] is_a: GO:0044087 ! regulation of cellular component biogenesis is_a: GO:0051128 ! regulation of cellular component organization intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0065003 ! protein-containing complex assembly relationship: regulates GO:0065003 ! protein-containing complex assembly [Term] id: GO:0043255 name: regulation of carbohydrate biosynthetic process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of carbohydrates." [GOC:jl] synonym: "regulation of carbohydrate anabolism" EXACT [] synonym: "regulation of carbohydrate biosynthesis" EXACT [] synonym: "regulation of carbohydrate formation" EXACT [] synonym: "regulation of carbohydrate synthesis" EXACT [] is_a: GO:0006109 ! regulation of carbohydrate metabolic process is_a: GO:0009889 ! regulation of biosynthetic process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0016051 ! carbohydrate biosynthetic process relationship: regulates GO:0016051 ! carbohydrate biosynthetic process [Term] id: GO:0043264 name: extracellular non-membrane-bounded organelle namespace: cellular_component def: "Organized structure of distinctive morphology and function, not bounded by a lipid bilayer membrane and occurring outside the cell." [GOC:jl] synonym: "extracellular non-membrane-enclosed organelle" EXACT [] is_a: GO:0043228 ! non-membrane-bounded organelle is_a: GO:0043230 ! extracellular organelle intersection_of: GO:0043228 ! non-membrane-bounded organelle intersection_of: part_of GO:0005576 ! extracellular region [Term] id: GO:0043269 name: regulation of ion transport namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the directed movement of charged atoms or small charged molecules into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." [GOC:jl] is_a: GO:0051049 ! regulation of transport intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0006811 ! ion transport relationship: regulates GO:0006811 ! ion transport [Term] id: GO:0043270 name: positive regulation of ion transport namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of the directed movement of charged atoms or small charged molecules into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." [GOC:jl] synonym: "activation of ion transport" NARROW [] synonym: "stimulation of ion transport" NARROW [] synonym: "up regulation of ion transport" EXACT [] synonym: "up-regulation of ion transport" EXACT [] synonym: "upregulation of ion transport" EXACT [] is_a: GO:0043269 ! regulation of ion transport is_a: GO:0051050 ! positive regulation of transport intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0006811 ! ion transport relationship: positively_regulates GO:0006811 ! ion transport [Term] id: GO:0043271 name: negative regulation of ion transport namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of the directed movement of charged atoms or small charged molecules into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." [GOC:jl] synonym: "down regulation of ion transport" EXACT [] synonym: "down-regulation of ion transport" EXACT [] synonym: "downregulation of ion transport" EXACT [] synonym: "inhibition of ion transport" NARROW [] is_a: GO:0043269 ! regulation of ion transport is_a: GO:0051051 ! negative regulation of transport intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0006811 ! ion transport relationship: negatively_regulates GO:0006811 ! ion transport [Term] id: GO:0043279 name: response to alkaloid namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an alkaloid stimulus. Alkaloids are a large group of nitrogenous substances found in naturally in plants, many of which have extracts that are pharmacologically active." [GOC:jl] is_a: GO:0010243 ! response to organonitrogen compound intersection_of: GO:0050896 ! response to stimulus intersection_of: has_input CHEBI:22315 ! alkaloid relationship: has_input CHEBI:22315 ! alkaloid [Term] id: GO:0043292 name: contractile fiber namespace: cellular_component def: "Fibers, composed of actin, myosin, and associated proteins, found in cells of smooth or striated muscle." [GOC:go_curators, ISBN:0815316194] synonym: "contractile fibre" EXACT [] is_a: CARO:0000000 ! anatomical entity is_a: GO:0043232 ! intracellular non-membrane-bounded organelle is_a: GO:0099512 ! supramolecular fiber relationship: part_of CL:0000187 ! muscle cell relationship: part_of GO:0005737 ! cytoplasm [Term] id: GO:0043353 name: enucleate erythrocyte differentiation namespace: biological_process def: "The process in which a myeloid precursor cell acquires specialized features of an erythrocyte without a nucleus. An example of this process is found in Mus musculus." [GOC:go_curators] synonym: "enucleate RBC differentiation" EXACT [CL:0000232] synonym: "enucleate red blood cell differentiation" EXACT [CL:0000232] is_a: GO:0030218 ! erythrocyte differentiation intersection_of: GO:0030154 ! cell differentiation intersection_of: results_in_acquisition_of_features_of CL:0000595 ! enucleate erythrocyte relationship: results_in_acquisition_of_features_of CL:0000595 ! enucleate erythrocyte [Term] id: GO:0043363 name: nucleate erythrocyte differentiation namespace: biological_process def: "The process in which a myeloid precursor cell acquires specializes features of an erythrocyte with a nucleus, as found in non-mammalian vertebrates such as birds." [GOC:jl] synonym: "nucleate RBC differentiation" EXACT [CL:0000232] synonym: "nucleate red blood cell differentiation" EXACT [CL:0000232] is_a: GO:0030218 ! erythrocyte differentiation intersection_of: GO:0030154 ! cell differentiation intersection_of: results_in_acquisition_of_features_of CL:0000562 ! nucleate erythrocyte relationship: results_in_acquisition_of_features_of CL:0000562 ! nucleate erythrocyte [Term] id: GO:0043388 name: positive regulation of DNA binding namespace: biological_process def: "Any process that increases the frequency, rate or extent of DNA binding. DNA binding is any process in which a gene product interacts selectively with DNA (deoxyribonucleic acid)." [GOC:dph, GOC:jl, GOC:tb] synonym: "activation of DNA binding" NARROW [] synonym: "stimulation of DNA binding" NARROW [] synonym: "up regulation of DNA binding" EXACT [] synonym: "up-regulation of DNA binding" EXACT [] synonym: "upregulation of DNA binding" EXACT [] is_a: GO:0051099 ! positive regulation of binding is_a: GO:0051101 ! regulation of DNA binding intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0003677 ! DNA binding relationship: positively_regulates GO:0003677 ! DNA binding [Term] id: GO:0043392 name: negative regulation of DNA binding namespace: biological_process def: "Any process that stops or reduces the frequency, rate or extent of DNA binding. DNA binding is any process in which a gene product interacts selectively with DNA (deoxyribonucleic acid)." [GOC:dph, GOC:jl, GOC:tb] synonym: "down regulation of DNA binding" EXACT [] synonym: "down-regulation of DNA binding" EXACT [] synonym: "downregulation of DNA binding" EXACT [] synonym: "inhibition of DNA binding" NARROW [] is_a: GO:0051100 ! negative regulation of binding is_a: GO:0051101 ! regulation of DNA binding intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0003677 ! DNA binding relationship: negatively_regulates GO:0003677 ! DNA binding [Term] id: GO:0043393 name: regulation of protein binding namespace: biological_process def: "Any process that modulates the frequency, rate or extent of protein binding." [GOC:go_curators] is_a: GO:0051098 ! regulation of binding intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0005515 ! protein binding relationship: regulates GO:0005515 ! protein binding [Term] id: GO:0043434 name: response to peptide hormone namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a peptide hormone stimulus. A peptide hormone is any of a class of peptides that are secreted into the blood stream and have endocrine functions in living animals." [PMID:11027914, PMID:15134857, Wikipedia:Peptide_hormone] synonym: "response to peptide hormone stimulus" EXACT [GOC:dos] synonym: "response to polypeptide hormone stimulus" EXACT [] is_a: GO:0009725 ! response to hormone is_a: GO:1901652 ! response to peptide intersection_of: GO:0050896 ! response to stimulus intersection_of: has_input CHEBI:25905 ! peptide hormone relationship: has_input CHEBI:25905 ! peptide hormone [Term] id: GO:0043436 name: oxoacid metabolic process namespace: biological_process def: "The chemical reactions and pathways involving any oxoacid; an oxoacid is a compound which contains oxygen, at least one other element, and at least one hydrogen bound to oxygen, and which produces a conjugate base by loss of positive hydrogen ion(s) (hydrons)." [Wikipedia:Oxyacid] synonym: "keto acid metabolic process" EXACT [] synonym: "keto acid metabolism" EXACT [] synonym: "ketoacid metabolic process" EXACT [] synonym: "ketoacid metabolism" EXACT [] synonym: "oxo acid metabolic process" EXACT [] synonym: "oxo acid metabolism" EXACT [] synonym: "oxoacid metabolism" EXACT [] is_a: GO:0006082 ! organic acid metabolic process intersection_of: GO:0008152 ! metabolic process intersection_of: has_primary_input_or_output CHEBI:35406 ! oxoanion relationship: has_primary_input_or_output CHEBI:35406 ! oxoanion [Term] id: GO:0043473 name: pigmentation namespace: biological_process def: "The accumulation of pigment in an organism, tissue or cell, either by increased deposition or by increased number of cells." [GOC:jl] subset: goslim_chembl subset: goslim_pir is_a: GO:0008150 ! biological_process relationship: in_taxon NCBITaxon:131567 ! cellular organisms relationship: only_in_taxon NCBITaxon:131567 ! cellular organisms [Term] id: GO:0043500 name: muscle adaptation namespace: biological_process def: "A process in which muscle adapts, with consequent modifications to structural and/or functional phenotypes, in response to a stimulus. Stimuli include contractile activity, loading conditions, substrate supply, and environmental factors. These adaptive events occur in both muscle fibers and associated structures (motoneurons and capillaries), and they involve alterations in regulatory mechanisms, contractile properties and metabolic capacities." [GOC:mtg_muscle, PMID:11181628, PMID:11449884, PMID:12605307] subset: goslim_pir synonym: "muscle plasticity" RELATED [] is_a: GO:0003012 ! muscle system process is_a: GO:0050896 ! response to stimulus relationship: occurs_in UBERON:0002385 ! muscle tissue [Term] id: GO:0043501 name: skeletal muscle adaptation namespace: biological_process def: "Any process in which skeletal muscles change their phenotypic profiles in response to altered functional demands and a variety of signals." [GOC:mtg_muscle, PMID:11181628, PMID:11449884, PMID:12605307] synonym: "skeletal muscle plasticity" RELATED [] is_a: GO:0014888 ! striated muscle adaptation intersection_of: GO:0043500 ! muscle adaptation intersection_of: occurs_in UBERON:0001134 ! skeletal muscle tissue relationship: occurs_in UBERON:0001134 ! skeletal muscle tissue [Term] id: GO:0043502 name: regulation of muscle adaptation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of muscle adaptation." [GOC:go_curators, GOC:mtg_muscle] synonym: "regulation of muscle plasticity" RELATED [] is_a: GO:0048583 ! regulation of response to stimulus is_a: GO:0090257 ! regulation of muscle system process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0043500 ! muscle adaptation relationship: regulates GO:0043500 ! muscle adaptation [Term] id: GO:0043523 name: regulation of neuron apoptotic process namespace: biological_process def: "Any process that modulates the occurrence or rate of cell death by apoptotic process in neurons." [GOC:go_curators, GOC:mtg_apoptosis] synonym: "regulation of apoptosis of neuronal cells" EXACT [] synonym: "regulation of apoptosis of neurons" EXACT [] synonym: "regulation of neuron apoptosis" NARROW [] synonym: "regulation of neuron programmed cell death" EXACT [] synonym: "regulation of neuronal cell programmed cell death" EXACT [] synonym: "regulation of programmed cell death of neuronal cells" EXACT [] synonym: "regulation of programmed cell death, neurons" EXACT [] is_a: GO:0042981 ! regulation of apoptotic process is_a: GO:1901214 ! regulation of neuron death intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0051402 ! neuron apoptotic process relationship: regulates GO:0051402 ! neuron apoptotic process [Term] id: GO:0043524 name: negative regulation of neuron apoptotic process namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of cell death by apoptotic process in neurons." [GOC:go_curators, GOC:mtg_apoptosis] synonym: "down regulation of neuron apoptosis" EXACT [] synonym: "down-regulation of neuron apoptosis" EXACT [] synonym: "downregulation of neuron apoptosis" EXACT [] synonym: "inhibition of neuron apoptosis" NARROW [] synonym: "negative regulation of neuron apoptosis" NARROW [] synonym: "negative regulation of programmed cell death, neurons" EXACT [] synonym: "neuron survival" NARROW [] is_a: GO:0043066 ! negative regulation of apoptotic process is_a: GO:0043523 ! regulation of neuron apoptotic process is_a: GO:1901215 ! negative regulation of neuron death intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0051402 ! neuron apoptotic process relationship: negatively_regulates GO:0051402 ! neuron apoptotic process [Term] id: GO:0043525 name: positive regulation of neuron apoptotic process namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of cell death of neurons by apoptotic process." [GOC:go_curators, GOC:mtg_apoptosis] synonym: "activation of neuron apoptosis" NARROW [] synonym: "positive regulation of neuron apoptosis" NARROW [] synonym: "positive regulation of programmed cell death, neurons" EXACT [] synonym: "stimulation of neuron apoptosis" NARROW [] synonym: "up regulation of neuron apoptosis" EXACT [] synonym: "up-regulation of neuron apoptosis" EXACT [] synonym: "upregulation of neuron apoptosis" EXACT [] is_a: GO:0043065 ! positive regulation of apoptotic process is_a: GO:0043523 ! regulation of neuron apoptotic process is_a: GO:1901216 ! positive regulation of neuron death intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0051402 ! neuron apoptotic process relationship: positively_regulates GO:0051402 ! neuron apoptotic process [Term] id: GO:0043549 name: regulation of kinase activity namespace: biological_process def: "Any process that modulates the frequency, rate or extent of kinase activity, the catalysis of the transfer of a phosphate group, usually from ATP, to a substrate molecule." [GOC:bf] is_a: GO:0042325 ! regulation of phosphorylation is_a: GO:0051338 ! regulation of transferase activity intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0016301 ! kinase activity relationship: regulates GO:0016301 ! kinase activity [Term] id: GO:0043554 name: aerobic respiration, using arsenite as electron donor namespace: biological_process def: "The oxidation of arsenite to arsenate, using oxygen (O2) as the electron acceptor. Arsenite oxidase provides electrons to an electron carrier which transfers them to oxygen utilizing respiratory systems." [GOC:mlg] is_a: GO:0009060 ! aerobic respiration is_a: GO:0015975 ! energy derivation by oxidation of reduced inorganic compounds [Term] id: GO:0043576 name: regulation of respiratory gaseous exchange namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the process of gaseous exchange between an organism and its environment." [GOC:jl] is_a: GO:0051239 ! regulation of multicellular organismal process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0007585 ! respiratory gaseous exchange by respiratory system relationship: regulates GO:0007585 ! respiratory gaseous exchange by respiratory system [Term] id: GO:0043588 name: skin development namespace: biological_process def: "The process whose specific outcome is the progression of the skin over time, from its formation to the mature structure. The skin is the external membranous integument of an animal. In vertebrates the skin generally consists of two layers, an outer nonsensitive and nonvascular epidermis (cuticle or skarfskin) composed of cells which are constantly growing and multiplying in the deeper, and being thrown off in the superficial layers, as well as an inner vascular dermis (cutis, corium or true skin) composed mostly of connective tissue." [GOC:jl, UBERON:0002097] synonym: "animal skin development" EXACT [] is_a: GO:0048513 ! animal organ development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0002097 ! skin of body relationship: results_in_development_of UBERON:0002097 ! skin of body property_value: RO:0002161 NCBITaxon:50557 property_value: RO:0002161 NCBITaxon:6656 [Term] id: GO:0043589 name: skin morphogenesis namespace: biological_process def: "The process in which the anatomical structures of the skin are generated and organized. The skin is the external membranous integument of an animal. In vertebrates the skin generally consists of two layers, an outer nonsensitive and nonvascular epidermis (cuticle or skarfskin) composed of cells which are constantly growing and multiplying in the deeper, and being thrown off in the superficial layers, as well as an inner, sensitive and vascular dermis (cutis, corium or true skin) composed mostly of connective tissue." [GOC:jl, UBERON:0002097] is_a: GO:0009887 ! animal organ morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0002097 ! skin of body relationship: part_of GO:0043588 ! skin development relationship: results_in_morphogenesis_of UBERON:0002097 ! skin of body [Term] id: GO:0043603 name: cellular amide metabolic process namespace: biological_process def: "The chemical reactions and pathways involving an amide, any derivative of an oxoacid in which an acidic hydroxy group has been replaced by an amino or substituted amino group, as carried out by individual cells." [GOC:curators] subset: goslim_pir synonym: "amide metabolism" EXACT [] is_a: GO:0034641 ! cellular nitrogen compound metabolic process intersection_of: GO:0008152 ! metabolic process intersection_of: has_primary_input_or_output CHEBI:32988 ! amide relationship: has_primary_input_or_output CHEBI:32988 ! amide [Term] id: GO:0043604 name: amide biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of an amide, any derivative of an oxoacid in which an acidic hydroxy group has been replaced by an amino or substituted amino group." [GOC:curators] is_a: GO:0043603 ! cellular amide metabolic process is_a: GO:0044271 ! cellular nitrogen compound biosynthetic process intersection_of: GO:0009058 ! biosynthetic process intersection_of: has_primary_output CHEBI:32988 ! amide relationship: has_primary_output CHEBI:32988 ! amide [Term] id: GO:0043900 name: regulation of multi-organism process is_a: GO:0050789 ! regulation of biological process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0051704 ! obsolete multi-organism process relationship: regulates GO:0051704 ! obsolete multi-organism process [Term] id: GO:0043933 name: protein-containing complex organization namespace: biological_process alt_id: GO:0034600 alt_id: GO:0034621 alt_id: GO:0071822 def: "Any process in which macromolecules aggregate, disaggregate, or are modified, resulting in the formation, disassembly, or alteration of a protein complex." [GOC:mah] synonym: "cellular macromolecular complex organization" RELATED [] synonym: "cellular macromolecular complex subunit organisation" RELATED [] synonym: "cellular macromolecular complex subunit organization" RELATED [] synonym: "macromolecular complex organization" RELATED [] synonym: "macromolecular complex subunit organisation" RELATED [] synonym: "macromolecular complex subunit organization" RELATED [] synonym: "protein complex subunit organisation" EXACT [GOC:mah] synonym: "protein complex subunit organization" EXACT [] synonym: "protein-containing complex subunit organization" RELATED [] is_a: GO:0016043 ! cellular component organization intersection_of: GO:0016043 ! cellular component organization intersection_of: results_in_organization_of GO:0032991 ! protein-containing complex relationship: results_in_organization_of GO:0032991 ! protein-containing complex property_value: IAO:0000233 https://github.com/geneontology/go-ontology/issues/22580 xsd:anyURI created_by: mah creation_date: 2010-09-08T10:01:42Z [Term] id: GO:0044034 name: obsolete multi-organism biosynthetic process namespace: biological_process def: "OBSOLETE. A biosynthetic process - chemical reactions and pathways resulting in the formation of substances - which involves more than one organism." [GOC:jl] comment: This term was obsoleted because there is no evidence that this process exists. synonym: "multi-organism biosynthesis" EXACT [] synonym: "multi-organismal biosynthesis" EXACT [] synonym: "multi-organismal biosynthetic process" EXACT [] property_value: IAO:0000233 https://github.com/geneontology/go-ontology/issues/18787 xsd:anyURI is_obsolete: true [Term] id: GO:0044042 name: glucan metabolic process namespace: biological_process def: "The chemical reactions and pathways involving glucans, polysaccharides consisting only of glucose residues." [GOC:jl] synonym: "glucan metabolism" EXACT [] is_a: GO:0005976 ! polysaccharide metabolic process [Term] id: GO:0044057 name: regulation of system process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of a system process, a multicellular organismal process carried out by any of the organs or tissues in an organ system." [GOC:jl] is_a: GO:0051239 ! regulation of multicellular organismal process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0003008 ! system process relationship: regulates GO:0003008 ! system process [Term] id: GO:0044058 name: regulation of digestive system process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of a digestive system process, a physical, chemical, or biochemical process carried out by living organisms to break down ingested nutrients into components that may be easily absorbed and directed into metabolism." [GOC:jl] is_a: GO:0044057 ! regulation of system process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0022600 ! digestive system process relationship: regulates GO:0022600 ! digestive system process [Term] id: GO:0044060 name: regulation of endocrine process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of an endocrine process, a process involving the secretion of or response to endocrine hormones. An endocrine hormone is a hormone released into the circulatory system." [GOC:jl] synonym: "regulation of endocrine system process" EXACT [] is_a: GO:0044057 ! regulation of system process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0050886 ! endocrine process relationship: regulates GO:0050886 ! endocrine process [Term] id: GO:0044065 name: regulation of respiratory system process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of a respiratory system process, an organ system process carried out by any of the organs or tissues of the respiratory system." [GOC:jl] is_a: GO:0043576 ! regulation of respiratory gaseous exchange is_a: GO:0044057 ! regulation of system process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0003016 ! respiratory system process relationship: regulates GO:0003016 ! respiratory system process [Term] id: GO:0044070 name: regulation of anion transport namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the directed movement of anions, atoms or small molecules with a net negative charge into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." [GOC:jl] is_a: GO:0043269 ! regulation of ion transport intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0006820 ! anion transport relationship: regulates GO:0006820 ! anion transport [Term] id: GO:0044085 name: cellular component biogenesis namespace: biological_process alt_id: GO:0071843 def: "A process that results in the biosynthesis of constituent macromolecules, assembly, and arrangement of constituent parts of a cellular component. Includes biosynthesis of constituent macromolecules, and those macromolecular modifications that are involved in synthesis or assembly of the cellular component." [GOC:jl, GOC:mah] subset: goslim_pir synonym: "cellular component biogenesis at cellular level" EXACT [] is_a: GO:0071840 ! cellular component organization or biogenesis [Term] id: GO:0044087 name: regulation of cellular component biogenesis namespace: biological_process def: "Any process that modulates the frequency, rate or extent of cellular component biogenesis, a process that results in the biosynthesis of constituent macromolecules, assembly, and arrangement of constituent parts of a cellular component." [GOC:jl] is_a: GO:0050794 ! regulation of cellular process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0044085 ! cellular component biogenesis relationship: regulates GO:0044085 ! cellular component biogenesis [Term] id: GO:0044088 name: regulation of vacuole organization namespace: biological_process def: "Any process that modulates the frequency, rate or extent of a process involved in the formation, arrangement of constituent parts, or disassembly of a vacuole." [GOC:jl, GOC:mah] synonym: "regulation of vacuole biogenesis" RELATED [GOC:mah] synonym: "regulation of vacuole organisation" EXACT [GOC:mah] is_a: GO:0033043 ! regulation of organelle organization intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0007033 ! vacuole organization relationship: regulates GO:0007033 ! vacuole organization [Term] id: GO:0044089 name: positive regulation of cellular component biogenesis namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of cellular component biogenesis, a process that results in the biosynthesis of constituent macromolecules, assembly, and arrangement of constituent parts of a cellular component." [GOC:jl] is_a: GO:0044087 ! regulation of cellular component biogenesis is_a: GO:0048522 ! positive regulation of cellular process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0044085 ! cellular component biogenesis relationship: positively_regulates GO:0044085 ! cellular component biogenesis [Term] id: GO:0044090 name: positive regulation of vacuole organization namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of a process involved in the formation, arrangement of constituent parts, or disassembly of a vacuole." [GOC:jl, GOC:mah] synonym: "positive regulation of vacuole biogenesis" RELATED [GOC:mah] synonym: "positive regulation of vacuole organisation" EXACT [GOC:mah] is_a: GO:0010638 ! positive regulation of organelle organization is_a: GO:0044088 ! regulation of vacuole organization intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0007033 ! vacuole organization relationship: positively_regulates GO:0007033 ! vacuole organization [Term] id: GO:0044091 name: membrane biogenesis namespace: biological_process def: "A cellular process that results in the biosynthesis of constituent macromolecules, assembly, and arrangement of constituent parts of a membrane." [GOC:jl] is_a: GO:0044085 ! cellular component biogenesis intersection_of: GO:0044085 ! cellular component biogenesis intersection_of: has_output GO:0016020 ! membrane relationship: has_output GO:0016020 ! membrane [Term] id: GO:0044092 name: negative regulation of molecular function namespace: biological_process def: "Any process that stops or reduces the rate or extent of a molecular function, an elemental biological activity occurring at the molecular level, such as catalysis or binding." [GO:jl] is_a: GO:0065009 ! regulation of molecular function intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0003674 ! molecular_function relationship: negatively_regulates GO:0003674 ! molecular_function created_by: jl creation_date: 2009-04-21T04:07:27Z [Term] id: GO:0044093 name: positive regulation of molecular function namespace: biological_process def: "Any process that activates or increases the rate or extent of a molecular function, an elemental biological activity occurring at the molecular level, such as catalysis or binding." [GO:jl] is_a: GO:0065009 ! regulation of molecular function intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0003674 ! molecular_function relationship: positively_regulates GO:0003674 ! molecular_function created_by: jl creation_date: 2009-04-21T04:11:06Z [Term] id: GO:0044106 name: cellular amine metabolic process namespace: biological_process def: "The chemical reactions and pathways involving any organic compound that is weakly basic in character and contains an amino or a substituted amino group, as carried out by individual cells. Amines are called primary, secondary, or tertiary according to whether one, two, or three carbon atoms are attached to the nitrogen atom." [GOC:jl] is_a: GO:0009308 ! amine metabolic process is_a: GO:0034641 ! cellular nitrogen compound metabolic process created_by: jl creation_date: 2009-07-15T11:55:44Z [Term] id: GO:0044207 name: translation initiation ternary complex namespace: cellular_component def: "A ribonucleoprotein complex that contains aminoacylated initiator methionine tRNA, GTP, and initiation factor 2 (either eIF2 in eukaryotes, or IF2 in prokaryotes). In prokaryotes, fMet-tRNA (initiator) is used rather than Met-tRNA (initiator)." [GOC:jl] synonym: "Met-tRNA/eIF2.GTP ternary complex" NARROW [] synonym: "translation initiation (ternary) complex" EXACT [] is_a: GO:1990904 ! ribonucleoprotein complex relationship: part_of GO:0005737 ! cytoplasm created_by: jl creation_date: 2009-10-22T02:38:55Z [Term] id: GO:0044237 name: cellular metabolic process namespace: biological_process def: "The chemical reactions and pathways by which individual cells transform chemical substances." [GOC:go_curators] subset: gocheck_do_not_annotate synonym: "cellular metabolism" EXACT [] synonym: "intermediary metabolism" RELATED [GOC:mah] is_a: GO:0008152 ! metabolic process is_a: GO:0009987 ! cellular process [Term] id: GO:0044238 name: primary metabolic process namespace: biological_process def: "The chemical reactions and pathways involving those compounds which are formed as a part of the normal anabolic and catabolic processes. These processes take place in most, if not all, cells of the organism." [GOC:go_curators, http://www.metacyc.org] subset: goslim_pir synonym: "primary metabolism" EXACT [] is_a: GO:0008152 ! metabolic process [Term] id: GO:0044249 name: cellular biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of substances, carried out by individual cells." [GOC:jl] synonym: "cellular anabolism" EXACT [] synonym: "cellular biosynthesis" EXACT [] synonym: "cellular formation" EXACT [] synonym: "cellular synthesis" EXACT [] is_a: GO:0009058 ! biosynthetic process is_a: GO:0044237 ! cellular metabolic process [Term] id: GO:0044260 name: cellular macromolecule metabolic process namespace: biological_process alt_id: GO:0034960 def: "The chemical reactions and pathways involving macromolecules, any molecule of high relative molecular mass, the structure of which essentially comprises the multiple repetition of units derived, actually or conceptually, from molecules of low relative molecular mass, as carried out by individual cells." [GOC:mah] synonym: "cellular biopolymer metabolic process" EXACT [GOC:mtg_chebi_dec09] synonym: "cellular macromolecule metabolism" EXACT [] is_a: GO:0043170 ! macromolecule metabolic process is_a: GO:0044237 ! cellular metabolic process [Term] id: GO:0044262 name: cellular carbohydrate metabolic process namespace: biological_process alt_id: GO:0006092 def: "The chemical reactions and pathways involving carbohydrates, any of a group of organic compounds based of the general formula Cx(H2O)y, as carried out by individual cells." [GOC:jl] synonym: "cellular carbohydrate metabolism" EXACT [] synonym: "main pathways of carbohydrate metabolic process" NARROW [] synonym: "main pathways of carbohydrate metabolism" NARROW [] is_a: GO:0005975 ! carbohydrate metabolic process is_a: GO:0044237 ! cellular metabolic process [Term] id: GO:0044264 name: cellular polysaccharide metabolic process namespace: biological_process def: "The chemical reactions and pathways involving polysaccharides, polymers of more than 10 monosaccharide residues joined by glycosidic linkages, as carried out by individual cells." [GOC:jl] synonym: "cellular glycan metabolic process" EXACT [] synonym: "cellular glycan metabolism" EXACT [] synonym: "cellular polysaccharide metabolism" EXACT [] is_a: GO:0005976 ! polysaccharide metabolic process is_a: GO:0044260 ! cellular macromolecule metabolic process is_a: GO:0044262 ! cellular carbohydrate metabolic process [Term] id: GO:0044267 name: cellular protein metabolic process namespace: biological_process def: "The chemical reactions and pathways involving a specific protein, rather than of proteins in general, occurring at the level of an individual cell. Includes cellular protein modification." [GOC:jl] synonym: "cellular protein metabolism" EXACT [] is_a: GO:0019538 ! protein metabolic process is_a: GO:0044260 ! cellular macromolecule metabolic process [Term] id: GO:0044271 name: cellular nitrogen compound biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of organic and inorganic nitrogenous compounds." [GOC:jl, ISBN:0198506732] synonym: "nitrogen compound anabolism" BROAD [] synonym: "nitrogen compound biosynthesis" BROAD [] synonym: "nitrogen compound formation" BROAD [] synonym: "nitrogen compound synthesis" BROAD [] is_a: GO:0034641 ! cellular nitrogen compound metabolic process is_a: GO:0044249 ! cellular biosynthetic process [Term] id: GO:0044272 name: sulfur compound biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of compounds that contain sulfur, such as the amino acids methionine and cysteine or the tripeptide glutathione." [GOC:jl] synonym: "sulfur biosynthesis" NARROW [] synonym: "sulfur biosynthetic process" NARROW [] synonym: "sulfur compound anabolism" EXACT [] synonym: "sulfur compound biosynthesis" EXACT [] synonym: "sulfur compound formation" EXACT [] synonym: "sulfur compound synthesis" EXACT [] is_a: GO:0006790 ! sulfur compound metabolic process is_a: GO:0044249 ! cellular biosynthetic process intersection_of: GO:0009058 ! biosynthetic process intersection_of: has_primary_output CHEBI:26835 ! sulfur molecular entity relationship: has_primary_output CHEBI:26835 ! sulfur molecular entity [Term] id: GO:0044281 name: small molecule metabolic process namespace: biological_process def: "The chemical reactions and pathways involving small molecules, any low molecular weight, monomeric, non-encoded molecule." [GOC:curators, GOC:pde, GOC:vw] comment: Small molecules in GO include monosaccharides but exclude disaccharides and polysaccharides. subset: goslim_chembl subset: goslim_flybase_ribbon subset: goslim_metagenomics synonym: "small molecule metabolism" EXACT [] is_a: GO:0008152 ! metabolic process created_by: jl creation_date: 2010-01-26T12:05:20Z [Term] id: GO:0044283 name: small molecule biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of small molecules, any low molecular weight, monomeric, non-encoded molecule." [GOC:curators, GOC:pde, GOC:vw] comment: Small molecules in GO include monosaccharides but exclude disaccharides and polysaccharides. synonym: "small molecule biosynthesis" EXACT [] is_a: GO:0009058 ! biosynthetic process is_a: GO:0044281 ! small molecule metabolic process created_by: jl creation_date: 2010-01-26T12:06:49Z [Term] id: GO:0044297 name: cell body namespace: cellular_component def: "The portion of a cell bearing surface projections such as axons, dendrites, cilia, or flagella that includes the nucleus, but excludes all cell projections." [GOC:go_curators] comment: Note that 'cell body' and 'cell soma' are not used in the literature for cells that lack projections, nor for some cells (e.g. yeast with mating projections) that do have projections. synonym: "cell soma" EXACT [] xref: FBbt:00005107 xref: FMA:67301 xref: Wikipedia:Cell_body is_a: GO:0110165 ! cellular anatomical entity relationship: part_of CL:0000000 ! cell property_value: RO:0002161 NCBITaxon:4890 created_by: jl creation_date: 2010-02-05T10:37:16Z [Term] id: GO:0044346 name: fibroblast apoptotic process namespace: biological_process def: "Any apoptotic process in a fibroblast, a connective tissue cell which secretes an extracellular matrix rich in collagen and other macromolecules." [CL:0000057, GOC:jl, GOC:mtg_apoptosis, GOC:yaf] synonym: "fibroblast apoptosis" NARROW [] is_a: GO:0006915 ! apoptotic process intersection_of: GO:0006915 ! apoptotic process intersection_of: occurs_in CL:0000057 ! fibroblast relationship: occurs_in CL:0000057 ! fibroblast created_by: jl creation_date: 2010-09-23T11:33:38Z [Term] id: GO:0044380 name: protein localization to cytoskeleton namespace: biological_process def: "A process in which a protein is transported to, or maintained in, a location within the cytoskeleton." [GOC:jl] synonym: "protein localisation to cytoskeleton" EXACT [GOC:mah] is_a: GO:0033365 ! protein localization to organelle intersection_of: GO:0008104 ! protein localization intersection_of: has_target_end_location GO:0005856 ! cytoskeleton relationship: has_target_end_location GO:0005856 ! cytoskeleton created_by: jl creation_date: 2011-12-13T11:43:24Z [Term] id: GO:0044402 name: obsolete competition with other organism namespace: biological_process def: "OBSOLETE. Any process in which an organism within a multispecies community gains an advantage in growth or survival over another organism of a different species in that community." [GOC:cc] comment: This term was obsoleted because it is outside the scope of GO. synonym: "competition with another organism" EXACT [GOC:bf] synonym: "interspecies competition" BROAD [] property_value: IAO:0000233 https://github.com/geneontology/go-ontology/issues/18568 xsd:anyURI is_obsolete: true [Term] id: GO:0044403 name: biological process involved in symbiotic interaction namespace: biological_process alt_id: GO:0043298 alt_id: GO:0044404 alt_id: GO:0072519 alt_id: GO:0085031 def: "A process carried out by gene products in an organism that enable the organism to engage in a symbiotic relationship, a more or less intimate association, with another organism. The various forms of symbiosis include parasitism, in which the association is disadvantageous or destructive to one of the organisms; mutualism, in which the association is advantageous, or often necessary to one or both and not harmful to either; and commensalism, in which one member of the association benefits while the other is not affected. However, mutualism, parasitism, and commensalism are often not discrete categories of interactions and should rather be perceived as a continuum of interaction ranging from parasitism to mutualism. In fact, the direction of a symbiotic interaction can change during the lifetime of the symbionts due to developmental changes as well as changes in the biotic/abiotic environment in which the interaction occurs. Microscopic symbionts are often referred to as endosymbionts." [GOC:cc, PMID:31257129] subset: goslim_chembl synonym: "commensalism" NARROW [] synonym: "host-pathogen interaction" NARROW [] synonym: "parasitism" NARROW [] synonym: "symbiosis" RELATED [] synonym: "symbiosis, encompassing mutualism through parasitism" RELATED [] synonym: "symbiotic interaction" RELATED [] synonym: "symbiotic interaction between host and organism" RELATED [] synonym: "symbiotic interaction between organisms" RELATED [] synonym: "symbiotic interaction between species" RELATED [] synonym: "symbiotic process" RELATED [] is_a: GO:0044419 ! biological process involved in interspecies interaction between organisms property_value: IAO:0000233 https://github.com/geneontology/go-ontology/issues/14807 xsd:anyURI property_value: IAO:0000233 https://github.com/geneontology/go-ontology/issues/20191 xsd:anyURI [Term] id: GO:0044409 alt_id: GO:0044411 [Term] id: GO:0044419 name: biological process involved in interspecies interaction between organisms namespace: biological_process def: "Any process evolved to enable an interaction with an organism of a different species." [GOC:cc] subset: gocheck_do_not_annotate subset: goslim_candida subset: goslim_pir synonym: "interaction with another species" EXACT [] synonym: "interspecies interaction" EXACT [] synonym: "interspecies interaction between organisms" EXACT [] synonym: "interspecies interaction with other organisms" EXACT [] is_a: GO:0008150 ! biological_process property_value: IAO:0000233 https://github.com/geneontology/go-ontology/issues/20191 xsd:anyURI property_value: RO:0002161 NCBITaxon:4895 [Term] id: GO:0044703 name: multi-organism reproductive process namespace: biological_process def: "A biological process that directly contributes to the process of producing new individuals, involving another organism." [GOC:jl] subset: goslim_drosophila is_a: GO:0022414 ! reproductive process is_a: GO:0051704 ! obsolete multi-organism process created_by: jl creation_date: 2012-09-19T15:56:30Z [Term] id: GO:0044706 name: multi-multicellular organism process is_a: GO:0032501 ! multicellular organismal process is_a: GO:0051704 ! obsolete multi-organism process [Term] id: GO:0044764 name: multi-organism cellular process namespace: biological_process def: "Any process that is carried out at the cellular level which involves another organism of the same or different species." [GOC:jl] is_a: GO:0009987 ! cellular process created_by: jl creation_date: 2012-12-11T17:00:50Z [Term] id: GO:0044766 name: obsolete multi-organism transport namespace: biological_process def: "OBSOLETE. The directed movement of substances (such as macromolecules, small molecules, ions) into, out of or within a cell, or between cells, or within a multicellular organism by means of some agent such as a transporter or pore, involving more than one organism." [GOC:jl] comment: This term was obsoleted because there is no evidence that this process exists. property_value: IAO:0000233 https://github.com/geneontology/go-ontology/issues/21459 xsd:anyURI is_obsolete: true created_by: jl creation_date: 2012-12-13T16:25:50Z [Term] id: GO:0044782 name: cilium organization namespace: biological_process def: "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of a cilium, a specialized eukaryotic organelle that consists of a filiform extrusion of the cell surface. Each cilium is bounded by an extrusion of the cytoplasmic membrane, and contains a regular longitudinal array of microtubules, anchored basally in a centriole." [GOC:cilia, GOC:jl] comment: Note that we deem cilium and microtubule-based flagellum to be equivalent. subset: goslim_drosophila subset: goslim_generic synonym: "microtubule-based flagellum organization" EXACT [] is_a: GO:0006996 ! organelle organization is_a: GO:0120036 ! plasma membrane bounded cell projection organization intersection_of: GO:0016043 ! cellular component organization intersection_of: results_in_organization_of GO:0005929 ! cilium relationship: in_taxon NCBITaxon:2759 ! Eukaryota relationship: only_in_taxon NCBITaxon:2759 ! Eukaryota relationship: results_in_organization_of GO:0005929 ! cilium created_by: jl creation_date: 2013-03-27T15:09:58Z [Term] id: GO:0044815 name: DNA packaging complex namespace: cellular_component def: "A protein complex that plays a role in the process of DNA packaging." [GOC:jl] is_a: GO:0032991 ! protein-containing complex intersection_of: GO:0032991 ! protein-containing complex intersection_of: capable_of_part_of GO:0006323 ! DNA packaging relationship: capable_of_part_of GO:0006323 ! DNA packaging created_by: jl creation_date: 2013-09-19T11:33:45Z [Term] id: GO:0044877 name: protein-containing complex binding namespace: molecular_function alt_id: GO:0032403 def: "Binding to a macromolecular complex." [GOC:jl] subset: goslim_chembl synonym: "macromolecular complex binding" RELATED [] synonym: "protein complex binding" EXACT [] is_a: GO:0005488 ! binding intersection_of: GO:0005488 ! binding intersection_of: has_input GO:0032991 ! protein-containing complex relationship: has_input GO:0032991 ! protein-containing complex created_by: jl creation_date: 2014-12-16T11:38:58Z [Term] id: GO:0045026 name: plasma membrane fusion namespace: biological_process alt_id: GO:0006947 def: "The joining of the lipid bilayer membrane that surround a cell with that of another cell, producing a single cell." [GOC:elh, GOC:mtg_muscle] synonym: "cell fusion" BROAD [] synonym: "cell-cell fusion" BROAD [] is_a: GO:0007009 ! plasma membrane organization is_a: GO:0061025 ! membrane fusion intersection_of: GO:0009987 ! cellular process intersection_of: results_in_fusion_of GO:0005886 ! plasma membrane relationship: results_in_fusion_of GO:0005886 ! plasma membrane [Term] id: GO:0045137 name: development of primary sexual characteristics namespace: biological_process def: "The process whose specific outcome is the progression of the primary sexual characteristics over time, from their formation to the mature structures. The primary sexual characteristics are the testes in males and the ovaries in females and they develop in response to sex hormone secretion." [GOC:ai] is_a: GO:0003006 ! developmental process involved in reproduction relationship: part_of GO:0007275 ! multicellular organism development relationship: part_of GO:0007548 ! sex differentiation [Term] id: GO:0045182 name: translation regulator activity namespace: molecular_function def: "Any molecular function involved in the initiation, activation, perpetuation, repression or termination of polypeptide synthesis at the ribosome." [GOC:ai] subset: goslim_aspergillus subset: goslim_candida subset: goslim_drosophila subset: goslim_generic subset: goslim_pir subset: goslim_plant synonym: "translation factor activity" EXACT [] is_a: GO:0003674 ! molecular_function intersection_of: GO:0003674 ! molecular_function intersection_of: part_of GO:0006417 ! regulation of translation relationship: part_of GO:0006417 ! regulation of translation [Term] id: GO:0045184 name: establishment of protein localization namespace: biological_process def: "The directed movement of a protein to a specific location." [GOC:bf] synonym: "establishment of protein localisation" EXACT [GOC:mah] synonym: "protein positioning" EXACT [] synonym: "protein recruitment" EXACT [] is_a: GO:0008104 ! protein localization is_a: GO:0051234 ! establishment of localization intersection_of: GO:0051234 ! establishment of localization intersection_of: transports_or_maintains_localization_of CHEBI:36080 ! protein [Term] id: GO:0045202 name: synapse namespace: cellular_component def: "The junction between an axon of one neuron and a dendrite of another neuron, a muscle fiber or a glial cell. As the axon approaches the synapse it enlarges into a specialized structure, the presynaptic terminal bouton, which contains mitochondria and synaptic vesicles. At the tip of the terminal bouton is the presynaptic membrane; facing it, and separated from it by a minute cleft (the synaptic cleft) is a specialized area of membrane on the receiving cell, known as the postsynaptic membrane. In response to the arrival of nerve impulses, the presynaptic terminal bouton secretes molecules of neurotransmitters into the synaptic cleft. These diffuse across the cleft and transmit the signal to the postsynaptic membrane." [GOC:aruk, ISBN:0198506732, PMID:24619342, PMID:29383328, PMID:31998110] subset: goslim_agr subset: goslim_drosophila subset: goslim_flybase_ribbon subset: goslim_mouse subset: goslim_pir subset: goslim_synapse synonym: "electrotonic synapse" RELATED [NIF_Subcellular:sao1311109124] synonym: "mixed synapse" NARROW [NIF_Subcellular:sao1506103497] synonym: "synaptic junction" EXACT [] xref: NIF_Subcellular:sao914572699 xref: Wikipedia:Chemical_synapse is_a: GO:0030054 ! cell junction relationship: in_taxon NCBITaxon:33208 ! Metazoa relationship: only_in_taxon NCBITaxon:33208 ! Metazoa [Term] id: GO:0045214 name: sarcomere organization namespace: biological_process alt_id: GO:0006938 def: "The myofibril assembly process that results in the organization of muscle actomyosin into sarcomeres. The sarcomere is the repeating unit of a myofibril in a muscle cell, composed of an array of overlapping thick and thin filaments between two adjacent Z discs." [GOC:bf] synonym: "sarcomere alignment" EXACT [] synonym: "sarcomere organisation" EXACT [] is_a: GO:0031032 ! actomyosin structure organization intersection_of: GO:0016043 ! cellular component organization intersection_of: results_in_organization_of GO:0030017 ! sarcomere relationship: part_of GO:0030239 ! myofibril assembly relationship: results_in_organization_of GO:0030017 ! sarcomere [Term] id: GO:0045216 name: cell-cell junction organization namespace: biological_process def: "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of a cell-cell junction. A cell-cell junction is a specialized region of connection between two cells." [GOC:ai, GOC:dph, GOC:jl, GOC:mah] synonym: "cell-cell junction assembly and maintenance" EXACT [] synonym: "cell-cell junction biogenesis" RELATED [] synonym: "cell-cell junction organisation" EXACT [GOC:mah] synonym: "intercellular junction assembly and maintenance" EXACT [] is_a: GO:0034330 ! cell junction organization intersection_of: GO:0034330 ! cell junction organization intersection_of: results_in_organization_of GO:0005911 ! cell-cell junction relationship: results_in_organization_of GO:0005911 ! cell-cell junction [Term] id: GO:0045222 name: CD4 biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of CD4, a CD marker that occurs on T-helper cells and is involved in MHC class II restricted interactions." [GOC:go_curators, ISBN:0198506732] synonym: "CD4 anabolism" EXACT [] synonym: "CD4 biosynthesis" EXACT [] synonym: "CD4 formation" EXACT [] synonym: "CD4 synthesis" EXACT [] is_a: GO:0009101 ! glycoprotein biosynthetic process intersection_of: GO:0009058 ! biosynthetic process intersection_of: has_primary_output PR:000001004 ! CD4 molecule relationship: has_primary_output PR:000001004 ! CD4 molecule [Term] id: GO:0045223 name: regulation of CD4 production namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of CD4." [GOC:go_curators] synonym: "regulation of CD4 anabolism" EXACT [] synonym: "regulation of CD4 biosynthesis" EXACT [] synonym: "regulation of CD4 biosynthetic process" EXACT [] synonym: "regulation of CD4 formation" EXACT [] synonym: "regulation of CD4 synthesis" EXACT [] is_a: GO:0010559 ! regulation of glycoprotein biosynthetic process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0045222 ! CD4 biosynthetic process relationship: regulates GO:0045222 ! CD4 biosynthetic process [Term] id: GO:0045224 name: positive regulation of CD4 production namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of CD4." [GOC:go_curators] synonym: "activation of CD4 biosynthetic process" NARROW [] synonym: "positive regulation of CD4 anabolism" EXACT [] synonym: "positive regulation of CD4 biosynthesis" EXACT [] synonym: "positive regulation of CD4 biosynthetic process" EXACT [] synonym: "positive regulation of CD4 formation" EXACT [] synonym: "positive regulation of CD4 synthesis" EXACT [] synonym: "stimulation of CD4 biosynthetic process" NARROW [] synonym: "up regulation of CD4 biosynthetic process" EXACT [] synonym: "up-regulation of CD4 biosynthetic process" EXACT [] synonym: "upregulation of CD4 biosynthetic process" EXACT [] is_a: GO:0010560 ! positive regulation of glycoprotein biosynthetic process is_a: GO:0045223 ! regulation of CD4 production intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0045222 ! CD4 biosynthetic process relationship: positively_regulates GO:0045222 ! CD4 biosynthetic process [Term] id: GO:0045225 name: negative regulation of CD4 production namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of CD4." [GOC:go_curators] synonym: "down regulation of CD4 biosynthetic process" EXACT [] synonym: "down-regulation of CD4 biosynthetic process" EXACT [] synonym: "downregulation of CD4 biosynthetic process" EXACT [] synonym: "inhibition of CD4 biosynthetic process" NARROW [] synonym: "negative regulation of CD4 anabolism" EXACT [] synonym: "negative regulation of CD4 biosynthesis" EXACT [] synonym: "negative regulation of CD4 biosynthetic process" EXACT [] synonym: "negative regulation of CD4 formation" EXACT [] synonym: "negative regulation of CD4 synthesis" EXACT [] is_a: GO:0010561 ! negative regulation of glycoprotein biosynthetic process is_a: GO:0045223 ! regulation of CD4 production intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0045222 ! CD4 biosynthetic process relationship: negatively_regulates GO:0045222 ! CD4 biosynthetic process [Term] id: GO:0045229 name: external encapsulating structure organization namespace: biological_process def: "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of external structures that lie outside the plasma membrane and surround the entire cell." [GOC:ai, GOC:dph, GOC:jl, GOC:mah] subset: goslim_pir synonym: "external encapsulating structure organisation" EXACT [] synonym: "external encapsulating structure organization and biogenesis" EXACT [GOC:dph, GOC:jl, GOC:mah] is_a: GO:0016043 ! cellular component organization intersection_of: GO:0016043 ! cellular component organization intersection_of: results_in_organization_of GO:0030312 ! external encapsulating structure relationship: results_in_organization_of GO:0030312 ! external encapsulating structure [Term] id: GO:0045296 name: cadherin binding namespace: molecular_function def: "Binding to cadherin, a type I membrane protein involved in cell adhesion." [GOC:bf] is_a: GO:0050839 ! cell adhesion molecule binding intersection_of: GO:0005488 ! binding intersection_of: has_input PR:000001327 ! cadherin relationship: has_input PR:000001327 ! cadherin [Term] id: GO:0045333 name: cellular respiration namespace: biological_process def: "The enzymatic release of energy from inorganic and organic compounds (especially carbohydrates and fats) which either requires oxygen (aerobic respiration) or does not (anaerobic respiration)." [GOC:das, ISBN:0140513590, ISBN:0198506732] subset: goslim_aspergillus subset: goslim_candida subset: goslim_pir subset: goslim_yeast synonym: "oxidative metabolic process" EXACT [] synonym: "oxidative metabolism" EXACT [] synonym: "respiration" BROAD [] xref: Wikipedia:Cellular_respiration is_a: GO:0015980 ! energy derivation by oxidation of organic compounds [Term] id: GO:0045444 name: fat cell differentiation namespace: biological_process def: "The process in which a relatively unspecialized cell acquires specialized features of an adipocyte, an animal connective tissue cell specialized for the synthesis and storage of fat." [CL:0000136, GOC:go_curators] synonym: "adipocyte cell differentiation" EXACT [] synonym: "adipocyte differentiation" EXACT [] synonym: "adipogenesis" RELATED [] synonym: "adipose cell differentiation" EXACT [] is_a: GO:0030154 ! cell differentiation intersection_of: GO:0030154 ! cell differentiation intersection_of: results_in_acquisition_of_features_of CL:0000136 ! fat cell relationship: results_in_acquisition_of_features_of CL:0000136 ! fat cell [Term] id: GO:0045445 name: myoblast differentiation namespace: biological_process def: "The process in which a relatively unspecialized cell acquires specialized features of a myoblast. A myoblast is a mononucleate cell type that, by fusion with other myoblasts, gives rise to the myotubes that eventually develop into striated muscle fibers." [CL:0000056, GOC:go_curators, GOC:mtg_muscle] synonym: "myoblast cell differentiation" EXACT [] is_a: GO:0030154 ! cell differentiation intersection_of: GO:0030154 ! cell differentiation intersection_of: results_in_acquisition_of_features_of CL:0000056 ! myoblast relationship: part_of GO:0061061 ! muscle structure development relationship: results_in_acquisition_of_features_of CL:0000056 ! myoblast [Term] id: GO:0045446 name: endothelial cell differentiation namespace: biological_process def: "The process in which a mesodermal, bone marrow or neural crest cell acquires specialized features of an endothelial cell, a thin flattened cell. A layer of such cells lines the inside surfaces of body cavities, blood vessels, and lymph vessels, making up the endothelium." [CL:0000115, GOC:go_curators] is_a: GO:0030855 ! epithelial cell differentiation intersection_of: GO:0030154 ! cell differentiation intersection_of: results_in_acquisition_of_features_of CL:0000115 ! endothelial cell relationship: part_of GO:0003158 ! endothelium development relationship: results_in_acquisition_of_features_of CL:0000115 ! endothelial cell [Term] id: GO:0045595 name: regulation of cell differentiation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of cell differentiation, the process in which relatively unspecialized cells acquire specialized structural and functional features." [GOC:go_curators] is_a: GO:0050793 ! regulation of developmental process is_a: GO:0050794 ! regulation of cellular process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0030154 ! cell differentiation relationship: regulates GO:0030154 ! cell differentiation [Term] id: GO:0045596 name: negative regulation of cell differentiation namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of cell differentiation." [GOC:go_curators] synonym: "down regulation of cell differentiation" EXACT [] synonym: "down-regulation of cell differentiation" EXACT [] synonym: "downregulation of cell differentiation" EXACT [] synonym: "inhibition of cell differentiation" NARROW [] is_a: GO:0045595 ! regulation of cell differentiation is_a: GO:0048523 ! negative regulation of cellular process is_a: GO:0051093 ! negative regulation of developmental process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0030154 ! cell differentiation relationship: negatively_regulates GO:0030154 ! cell differentiation [Term] id: GO:0045597 name: positive regulation of cell differentiation namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of cell differentiation." [GOC:go_curators] synonym: "activation of cell differentiation" NARROW [] synonym: "stimulation of cell differentiation" NARROW [] synonym: "up regulation of cell differentiation" EXACT [] synonym: "up-regulation of cell differentiation" EXACT [] synonym: "upregulation of cell differentiation" EXACT [] is_a: GO:0045595 ! regulation of cell differentiation is_a: GO:0048522 ! positive regulation of cellular process is_a: GO:0051094 ! positive regulation of developmental process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0030154 ! cell differentiation relationship: positively_regulates GO:0030154 ! cell differentiation [Term] id: GO:0045598 name: regulation of fat cell differentiation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of adipocyte differentiation." [GOC:go_curators] synonym: "regulation of adipocyte cell differentiation" EXACT [] synonym: "regulation of adipocyte differentiation" EXACT [] is_a: GO:0045595 ! regulation of cell differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0045444 ! fat cell differentiation relationship: regulates GO:0045444 ! fat cell differentiation [Term] id: GO:0045599 name: negative regulation of fat cell differentiation namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of adipocyte differentiation." [GOC:go_curators] synonym: "down regulation of fat cell differentiation" EXACT [] synonym: "down-regulation of fat cell differentiation" EXACT [] synonym: "downregulation of fat cell differentiation" EXACT [] synonym: "inhibition of fat cell differentiation" NARROW [] synonym: "negative regulation of adipocyte cell differentiation" EXACT [] synonym: "negative regulation of adipocyte differentiation" EXACT [] is_a: GO:0045596 ! negative regulation of cell differentiation is_a: GO:0045598 ! regulation of fat cell differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0045444 ! fat cell differentiation relationship: negatively_regulates GO:0045444 ! fat cell differentiation [Term] id: GO:0045600 name: positive regulation of fat cell differentiation namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of adipocyte differentiation." [GOC:go_curators] synonym: "activation of fat cell differentiation" NARROW [] synonym: "positive regulation of adipocyte cell differentiation" EXACT [] synonym: "positive regulation of adipocyte differentiation" EXACT [] synonym: "stimulation of fat cell differentiation" NARROW [] synonym: "up regulation of fat cell differentiation" EXACT [] synonym: "up-regulation of fat cell differentiation" EXACT [] synonym: "upregulation of fat cell differentiation" EXACT [] is_a: GO:0045597 ! positive regulation of cell differentiation is_a: GO:0045598 ! regulation of fat cell differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0045444 ! fat cell differentiation relationship: positively_regulates GO:0045444 ! fat cell differentiation [Term] id: GO:0045601 name: regulation of endothelial cell differentiation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of endothelial cell differentiation." [GOC:go_curators] is_a: GO:0030856 ! regulation of epithelial cell differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0045446 ! endothelial cell differentiation relationship: regulates GO:0045446 ! endothelial cell differentiation [Term] id: GO:0045602 name: negative regulation of endothelial cell differentiation namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of endothelial cell differentiation." [GOC:go_curators] synonym: "down regulation of endothelial cell differentiation" EXACT [] synonym: "down-regulation of endothelial cell differentiation" EXACT [] synonym: "downregulation of endothelial cell differentiation" EXACT [] synonym: "inhibition of endothelial cell differentiation" NARROW [] is_a: GO:0030857 ! negative regulation of epithelial cell differentiation is_a: GO:0045601 ! regulation of endothelial cell differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0045446 ! endothelial cell differentiation relationship: negatively_regulates GO:0045446 ! endothelial cell differentiation [Term] id: GO:0045603 name: positive regulation of endothelial cell differentiation namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of endothelial cell differentiation." [GOC:go_curators] synonym: "activation of endothelial cell differentiation" NARROW [] synonym: "stimulation of endothelial cell differentiation" NARROW [] synonym: "up regulation of endothelial cell differentiation" EXACT [] synonym: "up-regulation of endothelial cell differentiation" EXACT [] synonym: "upregulation of endothelial cell differentiation" EXACT [] is_a: GO:0030858 ! positive regulation of epithelial cell differentiation is_a: GO:0045601 ! regulation of endothelial cell differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0045446 ! endothelial cell differentiation relationship: positively_regulates GO:0045446 ! endothelial cell differentiation [Term] id: GO:0045604 name: regulation of epidermal cell differentiation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of epidermal cell differentiation." [GOC:go_curators] synonym: "regulation of hypodermal cell differentiation" RELATED [GOC:kmv, GOC:rk] is_a: GO:0030856 ! regulation of epithelial cell differentiation is_a: GO:0045682 ! regulation of epidermis development intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0009913 ! epidermal cell differentiation relationship: regulates GO:0009913 ! epidermal cell differentiation [Term] id: GO:0045605 name: negative regulation of epidermal cell differentiation namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of epidermal cell differentiation." [GOC:go_curators] synonym: "down regulation of epidermal cell differentiation" EXACT [] synonym: "down-regulation of epidermal cell differentiation" EXACT [] synonym: "downregulation of epidermal cell differentiation" EXACT [] synonym: "inhibition of epidermal cell differentiation" NARROW [] synonym: "negative regulation of hypodermal cell differentiation" RELATED [GOC:kmv, GOC:rk] is_a: GO:0030857 ! negative regulation of epithelial cell differentiation is_a: GO:0045604 ! regulation of epidermal cell differentiation is_a: GO:0045683 ! negative regulation of epidermis development intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0009913 ! epidermal cell differentiation relationship: negatively_regulates GO:0009913 ! epidermal cell differentiation [Term] id: GO:0045606 name: positive regulation of epidermal cell differentiation namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of epidermal cell differentiation." [GOC:go_curators] synonym: "activation of epidermal cell differentiation" NARROW [] synonym: "positive regulation of hypodermal cell differentiation" RELATED [GOC:kmv, GOC:rk] synonym: "stimulation of epidermal cell differentiation" NARROW [] synonym: "up regulation of epidermal cell differentiation" EXACT [] synonym: "up-regulation of epidermal cell differentiation" EXACT [] synonym: "upregulation of epidermal cell differentiation" EXACT [] is_a: GO:0030858 ! positive regulation of epithelial cell differentiation is_a: GO:0045604 ! regulation of epidermal cell differentiation is_a: GO:0045684 ! positive regulation of epidermis development intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0009913 ! epidermal cell differentiation relationship: positively_regulates GO:0009913 ! epidermal cell differentiation [Term] id: GO:0045637 name: regulation of myeloid cell differentiation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of myeloid cell differentiation." [GOC:go_curators] is_a: GO:0045595 ! regulation of cell differentiation is_a: GO:1903706 ! regulation of hemopoiesis intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0030099 ! myeloid cell differentiation relationship: regulates GO:0030099 ! myeloid cell differentiation [Term] id: GO:0045638 name: negative regulation of myeloid cell differentiation namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of myeloid cell differentiation." [GOC:go_curators] synonym: "down regulation of myeloid cell differentiation" EXACT [] synonym: "down-regulation of myeloid cell differentiation" EXACT [] synonym: "downregulation of myeloid cell differentiation" EXACT [] synonym: "inhibition of myeloid cell differentiation" NARROW [] is_a: GO:0045596 ! negative regulation of cell differentiation is_a: GO:0045637 ! regulation of myeloid cell differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0030099 ! myeloid cell differentiation relationship: negatively_regulates GO:0030099 ! myeloid cell differentiation [Term] id: GO:0045639 name: positive regulation of myeloid cell differentiation namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of myeloid cell differentiation." [GOC:go_curators] synonym: "activation of myeloid cell differentiation" NARROW [] synonym: "stimulation of myeloid cell differentiation" NARROW [] synonym: "up regulation of myeloid cell differentiation" EXACT [] synonym: "up-regulation of myeloid cell differentiation" EXACT [] synonym: "upregulation of myeloid cell differentiation" EXACT [] is_a: GO:0045597 ! positive regulation of cell differentiation is_a: GO:0045637 ! regulation of myeloid cell differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0030099 ! myeloid cell differentiation relationship: positively_regulates GO:0030099 ! myeloid cell differentiation [Term] id: GO:0045646 name: regulation of erythrocyte differentiation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of erythrocyte differentiation." [GOC:go_curators] synonym: "regulation of RBC differentiation" EXACT [CL:0000232] synonym: "regulation of red blood cell differentiation" EXACT [CL:0000232] is_a: GO:0045637 ! regulation of myeloid cell differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0030218 ! erythrocyte differentiation relationship: regulates GO:0030218 ! erythrocyte differentiation [Term] id: GO:0045647 name: negative regulation of erythrocyte differentiation namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of erythrocyte differentiation." [GOC:go_curators] synonym: "down regulation of erythrocyte differentiation" EXACT [] synonym: "down-regulation of erythrocyte differentiation" EXACT [] synonym: "downregulation of erythrocyte differentiation" EXACT [] synonym: "inhibition of erythrocyte differentiation" NARROW [] synonym: "negative regulation of RBC differentiation" EXACT [CL:0000232] synonym: "negative regulation of red blood cell differentiation" EXACT [CL:0000232] is_a: GO:0045638 ! negative regulation of myeloid cell differentiation is_a: GO:0045646 ! regulation of erythrocyte differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0030218 ! erythrocyte differentiation relationship: negatively_regulates GO:0030218 ! erythrocyte differentiation [Term] id: GO:0045648 name: positive regulation of erythrocyte differentiation namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of erythrocyte differentiation." [GOC:go_curators] synonym: "activation of erythrocyte differentiation" NARROW [] synonym: "positive regulation of RBC differentiation" EXACT [CL:0000232] synonym: "positive regulation of red blood cell differentiation" EXACT [CL:0000232] synonym: "stimulation of erythrocyte differentiation" NARROW [] synonym: "up regulation of erythrocyte differentiation" EXACT [] synonym: "up-regulation of erythrocyte differentiation" EXACT [] synonym: "upregulation of erythrocyte differentiation" EXACT [] is_a: GO:0045639 ! positive regulation of myeloid cell differentiation is_a: GO:0045646 ! regulation of erythrocyte differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0030218 ! erythrocyte differentiation relationship: positively_regulates GO:0030218 ! erythrocyte differentiation [Term] id: GO:0045652 name: regulation of megakaryocyte differentiation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of megakaryocyte differentiation." [GOC:go_curators] is_a: GO:0045637 ! regulation of myeloid cell differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0030219 ! megakaryocyte differentiation relationship: regulates GO:0030219 ! megakaryocyte differentiation [Term] id: GO:0045653 name: negative regulation of megakaryocyte differentiation namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of megakaryocyte differentiation." [GOC:go_curators] synonym: "down regulation of megakaryocyte differentiation" EXACT [] synonym: "down-regulation of megakaryocyte differentiation" EXACT [] synonym: "downregulation of megakaryocyte differentiation" EXACT [] synonym: "inhibition of megakaryocyte differentiation" NARROW [] is_a: GO:0045638 ! negative regulation of myeloid cell differentiation is_a: GO:0045652 ! regulation of megakaryocyte differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0030219 ! megakaryocyte differentiation relationship: negatively_regulates GO:0030219 ! megakaryocyte differentiation [Term] id: GO:0045654 name: positive regulation of megakaryocyte differentiation namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of megakaryocyte differentiation." [GOC:go_curators] synonym: "activation of megakaryocyte differentiation" NARROW [] synonym: "stimulation of megakaryocyte differentiation" NARROW [] synonym: "up regulation of megakaryocyte differentiation" EXACT [] synonym: "up-regulation of megakaryocyte differentiation" EXACT [] synonym: "upregulation of megakaryocyte differentiation" EXACT [] is_a: GO:0045639 ! positive regulation of myeloid cell differentiation is_a: GO:0045652 ! regulation of megakaryocyte differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0030219 ! megakaryocyte differentiation relationship: positively_regulates GO:0030219 ! megakaryocyte differentiation [Term] id: GO:0045661 name: regulation of myoblast differentiation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of myoblast differentiation. A myoblast is a mononucleate cell type that, by fusion with other myoblasts, gives rise to the myotubes that eventually develop into skeletal muscle fibers." [CL:0000056, GOC:go_curators, GOC:mtg_muscle] is_a: GO:0045595 ! regulation of cell differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0045445 ! myoblast differentiation relationship: regulates GO:0045445 ! myoblast differentiation [Term] id: GO:0045662 name: negative regulation of myoblast differentiation namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of myoblast differentiation. A myoblast is a mononucleate cell type that, by fusion with other myoblasts, gives rise to the myotubes that eventually develop into skeletal muscle fibers." [CL:0000056, GOC:go_curators, GOC:mtg_muscle] synonym: "down regulation of myoblast differentiation" EXACT [] synonym: "down-regulation of myoblast differentiation" EXACT [] synonym: "downregulation of myoblast differentiation" EXACT [] synonym: "inhibition of myoblast differentiation" NARROW [] is_a: GO:0045596 ! negative regulation of cell differentiation is_a: GO:0045661 ! regulation of myoblast differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0045445 ! myoblast differentiation relationship: negatively_regulates GO:0045445 ! myoblast differentiation [Term] id: GO:0045663 name: positive regulation of myoblast differentiation namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of myoblast differentiation. A myoblast is a mononucleate cell type that, by fusion with other myoblasts, gives rise to the myotubes that eventually develop into skeletal muscle fibers." [CL:0000056, GOC:go_curators, GOC:mtg_muscle] synonym: "activation of myoblast differentiation" NARROW [] synonym: "stimulation of myoblast differentiation" NARROW [] synonym: "up regulation of myoblast differentiation" EXACT [] synonym: "up-regulation of myoblast differentiation" EXACT [] synonym: "upregulation of myoblast differentiation" EXACT [] is_a: GO:0045597 ! positive regulation of cell differentiation is_a: GO:0045661 ! regulation of myoblast differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0045445 ! myoblast differentiation relationship: positively_regulates GO:0045445 ! myoblast differentiation [Term] id: GO:0045664 name: regulation of neuron differentiation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of neuron differentiation." [GOC:go_curators] is_a: GO:0045595 ! regulation of cell differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0030182 ! neuron differentiation relationship: in_taxon NCBITaxon:33208 ! Metazoa relationship: only_in_taxon NCBITaxon:33208 ! Metazoa relationship: regulates GO:0030182 ! neuron differentiation [Term] id: GO:0045665 name: negative regulation of neuron differentiation namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of neuron differentiation." [GOC:go_curators] synonym: "down regulation of neuron differentiation" EXACT [] synonym: "down-regulation of neuron differentiation" EXACT [] synonym: "downregulation of neuron differentiation" EXACT [] synonym: "inhibition of neuron differentiation" NARROW [] is_a: GO:0045596 ! negative regulation of cell differentiation is_a: GO:0045664 ! regulation of neuron differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0030182 ! neuron differentiation relationship: negatively_regulates GO:0030182 ! neuron differentiation [Term] id: GO:0045666 name: positive regulation of neuron differentiation namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of neuron differentiation." [GOC:go_curators] synonym: "activation of neuron differentiation" NARROW [] synonym: "stimulation of neuron differentiation" NARROW [] synonym: "up regulation of neuron differentiation" EXACT [] synonym: "up-regulation of neuron differentiation" EXACT [] synonym: "upregulation of neuron differentiation" EXACT [] is_a: GO:0045597 ! positive regulation of cell differentiation is_a: GO:0045664 ! regulation of neuron differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0030182 ! neuron differentiation relationship: positively_regulates GO:0030182 ! neuron differentiation [Term] id: GO:0045682 name: regulation of epidermis development namespace: biological_process def: "Any process that modulates the frequency, rate or extent of epidermis development." [GOC:go_curators] synonym: "regulation of epidermal development" EXACT [] synonym: "regulation of hypodermis development" RELATED [GOC:kmv, GOC:rk] is_a: GO:0050793 ! regulation of developmental process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0008544 ! epidermis development relationship: regulates GO:0008544 ! epidermis development [Term] id: GO:0045683 name: negative regulation of epidermis development namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of epidermis development." [GOC:go_curators] synonym: "down regulation of epidermis development" EXACT [] synonym: "down-regulation of epidermis development" EXACT [] synonym: "downregulation of epidermis development" EXACT [] synonym: "inhibition of epidermis development" NARROW [] synonym: "negative regulation of epidermal development" EXACT [] synonym: "negative regulation of hypodermis development" RELATED [GOC:kmv, GOC:rk] is_a: GO:0045682 ! regulation of epidermis development is_a: GO:0051093 ! negative regulation of developmental process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0008544 ! epidermis development relationship: negatively_regulates GO:0008544 ! epidermis development [Term] id: GO:0045684 name: positive regulation of epidermis development namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of epidermis development." [GOC:go_curators] synonym: "activation of epidermis development" NARROW [] synonym: "positive regulation of epidermal development" EXACT [] synonym: "positive regulation of hypodermis development" RELATED [GOC:kmv, GOC:rk] synonym: "stimulation of epidermis development" NARROW [] synonym: "up regulation of epidermis development" EXACT [] synonym: "up-regulation of epidermis development" EXACT [] synonym: "upregulation of epidermis development" EXACT [] is_a: GO:0045682 ! regulation of epidermis development is_a: GO:0051094 ! positive regulation of developmental process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0008544 ! epidermis development relationship: positively_regulates GO:0008544 ! epidermis development [Term] id: GO:0045685 name: regulation of glial cell differentiation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of glia cell differentiation." [GOC:go_curators] synonym: "regulation of glia cell differentiation" EXACT [] synonym: "regulation of neuroglia differentiation" EXACT [] is_a: GO:0045595 ! regulation of cell differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0010001 ! glial cell differentiation relationship: regulates GO:0010001 ! glial cell differentiation [Term] id: GO:0045686 name: negative regulation of glial cell differentiation namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of glia cell differentiation." [GOC:go_curators] synonym: "down regulation of glial cell differentiation" EXACT [] synonym: "down-regulation of glial cell differentiation" EXACT [] synonym: "downregulation of glial cell differentiation" EXACT [] synonym: "inhibition of glial cell differentiation" NARROW [] synonym: "negative regulation of glia cell differentiation" EXACT [] synonym: "negative regulation of neuroglia differentiation" EXACT [] is_a: GO:0014014 ! negative regulation of gliogenesis is_a: GO:0045685 ! regulation of glial cell differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0010001 ! glial cell differentiation relationship: negatively_regulates GO:0010001 ! glial cell differentiation [Term] id: GO:0045687 name: positive regulation of glial cell differentiation namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of glia cell differentiation." [GOC:go_curators] synonym: "activation of glial cell differentiation" NARROW [] synonym: "positive regulation of glia cell differentiation" EXACT [] synonym: "positive regulation of neuroglia differentiation" EXACT [] synonym: "stimulation of glial cell differentiation" NARROW [] synonym: "up regulation of glial cell differentiation" EXACT [] synonym: "up-regulation of glial cell differentiation" EXACT [] synonym: "upregulation of glial cell differentiation" EXACT [] is_a: GO:0014015 ! positive regulation of gliogenesis is_a: GO:0045685 ! regulation of glial cell differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0010001 ! glial cell differentiation relationship: positively_regulates GO:0010001 ! glial cell differentiation [Term] id: GO:0045724 name: positive regulation of cilium assembly namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of the formation of a cilium." [GOC:cilia, GOC:go_curators] synonym: "activation of cilium assembly" NARROW [] synonym: "positive regulation of flagellum assembly" BROAD [] synonym: "positive regulation of flagellum biogenesis" RELATED [GOC:mah] synonym: "stimulation of cilium assembly" NARROW [] synonym: "up regulation of cilium assembly" EXACT [] synonym: "up-regulation of cilium assembly" EXACT [] synonym: "upregulation of cilium assembly" EXACT [] is_a: GO:0120034 ! positive regulation of plasma membrane bounded cell projection assembly is_a: GO:1902017 ! regulation of cilium assembly is_a: GO:1902117 ! positive regulation of organelle assembly intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0060271 ! cilium assembly relationship: positively_regulates GO:0060271 ! cilium assembly [Term] id: GO:0045727 name: positive regulation of translation namespace: biological_process alt_id: GO:0045946 def: "Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of proteins by the translation of mRNA or circRNA." [GOC:dph, GOC:go_curators, GOC:tb] synonym: "activation of protein biosynthetic process" NARROW [] synonym: "positive regulation of protein anabolism" EXACT [] synonym: "positive regulation of protein biosynthesis" EXACT [] synonym: "positive regulation of protein biosynthetic process" EXACT [GOC:tb] synonym: "positive regulation of protein formation" EXACT [] synonym: "positive regulation of protein synthesis" EXACT [] synonym: "stimulation of protein biosynthetic process" NARROW [] synonym: "up regulation of protein biosynthetic process" EXACT [] synonym: "up-regulation of protein biosynthetic process" EXACT [] synonym: "upregulation of protein biosynthetic process" EXACT [] is_a: GO:0006417 ! regulation of translation is_a: GO:0010557 ! positive regulation of macromolecule biosynthetic process is_a: GO:0010628 ! positive regulation of gene expression is_a: GO:0031328 ! positive regulation of cellular biosynthetic process is_a: GO:0032270 ! positive regulation of cellular protein metabolic process is_a: GO:0034250 ! positive regulation of cellular amide metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0006412 ! translation relationship: positively_regulates GO:0006412 ! translation [Term] id: GO:0045759 name: negative regulation of action potential namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of action potential creation, propagation or termination. This typically occurs via modulation of the activity or expression of voltage-gated ion channels." [GOC:go_curators] synonym: "down regulation of action potential" EXACT [] synonym: "down-regulation of action potential" EXACT [] synonym: "downregulation of action potential" EXACT [] synonym: "inhibition of action potential" NARROW [] is_a: GO:0048519 ! negative regulation of biological process is_a: GO:0098900 ! regulation of action potential intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0001508 ! action potential relationship: negatively_regulates GO:0001508 ! action potential [Term] id: GO:0045760 name: positive regulation of action potential namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of action potential creation, propagation or termination. This typically occurs via modulation of the activity or expression of voltage-gated ion channels." [GOC:go_curators] synonym: "activation of action potential" NARROW [] synonym: "stimulation of action potential" NARROW [] synonym: "up regulation of action potential" EXACT [] synonym: "up-regulation of action potential" EXACT [] synonym: "upregulation of action potential" EXACT [] is_a: GO:0048518 ! positive regulation of biological process is_a: GO:0098900 ! regulation of action potential intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0001508 ! action potential relationship: positively_regulates GO:0001508 ! action potential [Term] id: GO:0045763 name: negative regulation of cellular amino acid metabolic process namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of the chemical reactions and pathways involving amino acid." [GOC:go_curators] synonym: "down regulation of amino acid metabolic process" EXACT [] synonym: "down-regulation of amino acid metabolic process" EXACT [] synonym: "downregulation of amino acid metabolic process" EXACT [] synonym: "inhibition of amino acid metabolic process" NARROW [] synonym: "negative regulation of amino acid metabolism" EXACT [] is_a: GO:0006521 ! regulation of cellular amino acid metabolic process is_a: GO:0033239 ! negative regulation of cellular amine metabolic process is_a: GO:0062014 ! negative regulation of small molecule metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0006520 ! cellular amino acid metabolic process relationship: negatively_regulates GO:0006520 ! cellular amino acid metabolic process [Term] id: GO:0045764 name: positive regulation of cellular amino acid metabolic process namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways involving amino acid." [GOC:go_curators] synonym: "activation of amino acid metabolic process" NARROW [] synonym: "positive regulation of amino acid metabolism" EXACT [] synonym: "stimulation of amino acid metabolic process" NARROW [] synonym: "up regulation of amino acid metabolic process" EXACT [] synonym: "up-regulation of amino acid metabolic process" EXACT [] synonym: "upregulation of amino acid metabolic process" EXACT [] is_a: GO:0006521 ! regulation of cellular amino acid metabolic process is_a: GO:0033240 ! positive regulation of cellular amine metabolic process is_a: GO:0062013 ! positive regulation of small molecule metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0006520 ! cellular amino acid metabolic process relationship: positively_regulates GO:0006520 ! cellular amino acid metabolic process [Term] id: GO:0045765 name: regulation of angiogenesis namespace: biological_process def: "Any process that modulates the frequency, rate or extent of angiogenesis." [GOC:go_curators] is_a: GO:0022603 ! regulation of anatomical structure morphogenesis is_a: GO:1901342 ! regulation of vasculature development intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0001525 ! angiogenesis relationship: regulates GO:0001525 ! angiogenesis [Term] id: GO:0045766 name: positive regulation of angiogenesis namespace: biological_process def: "Any process that activates or increases angiogenesis." [GOC:go_curators] synonym: "activation of angiogenesis" NARROW [] synonym: "stimulation of angiogenesis" NARROW [] synonym: "up regulation of angiogenesis" EXACT [] synonym: "up-regulation of angiogenesis" EXACT [] synonym: "upregulation of angiogenesis" EXACT [] is_a: GO:0045765 ! regulation of angiogenesis is_a: GO:1904018 ! positive regulation of vasculature development intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0001525 ! angiogenesis relationship: positively_regulates GO:0001525 ! angiogenesis [Term] id: GO:0045778 name: positive regulation of ossification namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of ossification, the formation of bone or of a bony substance or the conversion of fibrous tissue or of cartilage into bone or a bony substance." [GOC:go_curators] synonym: "activation of ossification" NARROW [] synonym: "positive regulation of bone biosynthesis" EXACT [] synonym: "positive regulation of bone formation" EXACT [] synonym: "stimulation of ossification" NARROW [] synonym: "up regulation of ossification" EXACT [] synonym: "up-regulation of ossification" EXACT [] synonym: "upregulation of ossification" EXACT [] is_a: GO:0030278 ! regulation of ossification is_a: GO:0051240 ! positive regulation of multicellular organismal process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0001503 ! ossification relationship: positively_regulates GO:0001503 ! ossification [Term] id: GO:0045786 name: negative regulation of cell cycle namespace: biological_process def: "Any process that stops, prevents or reduces the rate or extent of progression through the cell cycle." [GOC:dph, GOC:go_curators, GOC:tb] synonym: "down regulation of progression through cell cycle" EXACT [] synonym: "down-regulation of progression through cell cycle" EXACT [] synonym: "downregulation of progression through cell cycle" EXACT [] synonym: "inhibition of progression through cell cycle" NARROW [] synonym: "negative regulation of cell cycle progression" EXACT [] synonym: "negative regulation of progression through cell cycle" EXACT [] is_a: GO:0048523 ! negative regulation of cellular process is_a: GO:0051726 ! regulation of cell cycle intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0007049 ! cell cycle relationship: negatively_regulates GO:0007049 ! cell cycle [Term] id: GO:0045787 name: positive regulation of cell cycle namespace: biological_process def: "Any process that activates or increases the rate or extent of progression through the cell cycle." [GOC:go_curators] synonym: "activation of progression through cell cycle" NARROW [] synonym: "positive regulation of cell cycle progression" EXACT [] synonym: "positive regulation of progression through cell cycle" EXACT [GOC:dph, GOC:tb] synonym: "stimulation of progression through cell cycle" NARROW [] synonym: "up regulation of progression through cell cycle" EXACT [] synonym: "up-regulation of progression through cell cycle" EXACT [] synonym: "upregulation of progression through cell cycle" EXACT [] is_a: GO:0048522 ! positive regulation of cellular process is_a: GO:0051726 ! regulation of cell cycle intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0007049 ! cell cycle relationship: positively_regulates GO:0007049 ! cell cycle [Term] id: GO:0045798 name: negative regulation of chromatin assembly or disassembly namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of chromatin assembly or disassembly." [GOC:go_curators] synonym: "down regulation of chromatin assembly or disassembly" EXACT [] synonym: "down-regulation of chromatin assembly or disassembly" EXACT [] synonym: "downregulation of chromatin assembly or disassembly" EXACT [] synonym: "inhibition of chromatin assembly or disassembly" NARROW [] synonym: "negative regulation of chromatin assembly/disassembly" EXACT [] is_a: GO:0001672 ! regulation of chromatin assembly or disassembly is_a: GO:1905268 ! negative regulation of chromatin organization intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0006333 ! chromatin assembly or disassembly relationship: negatively_regulates GO:0006333 ! chromatin assembly or disassembly [Term] id: GO:0045799 name: positive regulation of chromatin assembly or disassembly namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of chromatin assembly or disassembly." [GOC:go_curators] synonym: "activation of chromatin assembly or disassembly" NARROW [] synonym: "positive regulation of chromatin assembly/disassembly" EXACT [] synonym: "stimulation of chromatin assembly or disassembly" NARROW [] synonym: "up regulation of chromatin assembly or disassembly" EXACT [] synonym: "up-regulation of chromatin assembly or disassembly" EXACT [] synonym: "upregulation of chromatin assembly or disassembly" EXACT [] is_a: GO:0001672 ! regulation of chromatin assembly or disassembly is_a: GO:1905269 ! positive regulation of chromatin organization intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0006333 ! chromatin assembly or disassembly relationship: positively_regulates GO:0006333 ! chromatin assembly or disassembly [Term] id: GO:0045814 name: negative regulation of gene expression, epigenetic namespace: biological_process def: "An epigenetic process that stops, prevents or reduces the rate of gene expression by remodelling of chromatin by either modifying the chromatin fiber, the nucleosomal histones, or the DNA." [PMID:22243696] synonym: "down regulation of gene expression, epigenetic" EXACT [] synonym: "down-regulation of gene expression, epigenetic" EXACT [] synonym: "downregulation of gene expression, epigenetic" EXACT [] synonym: "gene silencing" RELATED [] synonym: "inhibition of gene expression, epigenetic" NARROW [] is_a: GO:0010629 ! negative regulation of gene expression is_a: GO:0040029 ! regulation of gene expression, epigenetic property_value: IAO:0000233 https://github.com/geneontology/go-ontology/issues/22201 xsd:anyURI [Term] id: GO:0045815 name: epigenetic maintenance of chromatin in transcription-competent conformation namespace: biological_process alt_id: GO:0048096 def: "An epigenetic process that capacitates gene expression by remodelling of chromatin by either modifying the chromatin fiber, the nucleosomal histones, or the DNA." [PMID:34414474] comment: This regulation is exemplified by members of the trithorax group, which maintain the active state of homeotic gene transcription. Do not confuse with GO:0140673 ; co-transcriptional chromatin reassembly, which describes the reforming of chromatin after RNA polymerase II passage. synonym: "activation of gene expression, epigenetic" RELATED [] synonym: "chromatin-mediated maintenance of transcription" EXACT [] synonym: "euchromatin assembly" RELATED [] synonym: "euchromatin organisation" RELATED [] synonym: "euchromatin organization" RELATED [] synonym: "long-term maintenance of gene activation" RELATED [] synonym: "maintenance of chromatin in transcription-competent conformation" EXACT [] synonym: "positive regulation of gene expression, epigenetic" EXACT [] synonym: "stimulation of gene expression, epigenetic" RELATED [] synonym: "up regulation of gene expression, epigenetic" EXACT [] synonym: "up-regulation of gene expression, epigenetic" EXACT [] synonym: "upregulation of gene expression, epigenetic" EXACT [] is_a: GO:0010628 ! positive regulation of gene expression is_a: GO:0040029 ! regulation of gene expression, epigenetic intersection_of: GO:0040029 ! regulation of gene expression, epigenetic intersection_of: positively_regulates GO:0010467 ! gene expression property_value: IAO:0000233 https://github.com/geneontology/go-ontology/issues/21730 xsd:anyURI property_value: IAO:0000233 https://github.com/geneontology/go-ontology/issues/22012 xsd:anyURI [Term] id: GO:0045822 name: negative regulation of heart contraction namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of heart contraction." [GOC:go_curators] synonym: "down regulation of heart contraction" EXACT [] synonym: "down-regulation of heart contraction" EXACT [] synonym: "downregulation of heart contraction" EXACT [] synonym: "inhibition of heart contraction" NARROW [] synonym: "negative regulation of cardiac contraction" RELATED [] is_a: GO:0008016 ! regulation of heart contraction is_a: GO:1903523 ! negative regulation of blood circulation intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0060047 ! heart contraction relationship: negatively_regulates GO:0060047 ! heart contraction [Term] id: GO:0045823 name: positive regulation of heart contraction namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of heart contraction." [GOC:go_curators] synonym: "activation of heart contraction" NARROW [] synonym: "positive regulation of cardiac contraction" EXACT [] synonym: "stimulation of heart contraction" NARROW [] synonym: "up regulation of heart contraction" EXACT [] synonym: "up-regulation of heart contraction" EXACT [] synonym: "upregulation of heart contraction" EXACT [] is_a: GO:0008016 ! regulation of heart contraction is_a: GO:1903524 ! positive regulation of blood circulation intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0060047 ! heart contraction relationship: positively_regulates GO:0060047 ! heart contraction [Term] id: GO:0045833 name: negative regulation of lipid metabolic process namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of the chemical reactions and pathways involving lipids." [GOC:go_curators] synonym: "down regulation of lipid metabolic process" EXACT [] synonym: "down-regulation of lipid metabolic process" EXACT [] synonym: "downregulation of lipid metabolic process" EXACT [] synonym: "inhibition of lipid metabolic process" NARROW [] synonym: "negative regulation of lipid metabolism" EXACT [] is_a: GO:0009892 ! negative regulation of metabolic process is_a: GO:0019216 ! regulation of lipid metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0006629 ! lipid metabolic process relationship: negatively_regulates GO:0006629 ! lipid metabolic process [Term] id: GO:0045834 name: positive regulation of lipid metabolic process namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways involving lipids." [GOC:go_curators] synonym: "activation of lipid metabolic process" NARROW [] synonym: "positive regulation of lipid metabolism" EXACT [] synonym: "stimulation of lipid metabolic process" NARROW [] synonym: "up regulation of lipid metabolic process" EXACT [] synonym: "up-regulation of lipid metabolic process" EXACT [] synonym: "upregulation of lipid metabolic process" EXACT [] is_a: GO:0009893 ! positive regulation of metabolic process is_a: GO:0019216 ! regulation of lipid metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0006629 ! lipid metabolic process relationship: positively_regulates GO:0006629 ! lipid metabolic process [Term] id: GO:0045839 name: negative regulation of mitotic nuclear division namespace: biological_process def: "Any process that stops, prevents or reduces the rate or extent of mitosis. Mitosis is the division of the eukaryotic cell nucleus to produce two daughter nuclei that, usually, contain the identical chromosome complement to their mother." [GOC:dph, GOC:go_curators, GOC:tb] synonym: "down regulation of mitosis" EXACT [] synonym: "down-regulation of mitosis" EXACT [] synonym: "downregulation of mitosis" EXACT [] synonym: "inhibition of mitosis" NARROW [] synonym: "negative regulation of mitosis" EXACT [] is_a: GO:0007088 ! regulation of mitotic nuclear division is_a: GO:0010948 ! negative regulation of cell cycle process is_a: GO:0045930 ! negative regulation of mitotic cell cycle is_a: GO:0051784 ! negative regulation of nuclear division intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0140014 ! mitotic nuclear division relationship: negatively_regulates GO:0140014 ! mitotic nuclear division [Term] id: GO:0045840 name: positive regulation of mitotic nuclear division namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of mitosis." [GOC:go_curators] synonym: "activation of mitosis" NARROW [] synonym: "mitogenic activity" NARROW [] synonym: "positive regulation of mitosis" EXACT [] synonym: "stimulation of mitosis" NARROW [] synonym: "up regulation of mitosis" EXACT [] synonym: "up-regulation of mitosis" EXACT [] synonym: "upregulation of mitosis" EXACT [] is_a: GO:0007088 ! regulation of mitotic nuclear division is_a: GO:0051785 ! positive regulation of nuclear division is_a: GO:0090068 ! positive regulation of cell cycle process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0140014 ! mitotic nuclear division relationship: positively_regulates GO:0140014 ! mitotic nuclear division [Term] id: GO:0045843 name: negative regulation of striated muscle tissue development namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of striated muscle development." [GOC:go_curators] synonym: "down regulation of striated muscle development" EXACT [] synonym: "down-regulation of striated muscle development" EXACT [] synonym: "downregulation of striated muscle development" EXACT [] synonym: "inhibition of striated muscle development" NARROW [] is_a: GO:0016202 ! regulation of striated muscle tissue development is_a: GO:0048635 ! negative regulation of muscle organ development is_a: GO:1901862 ! negative regulation of muscle tissue development intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0014706 ! striated muscle tissue development relationship: negatively_regulates GO:0014706 ! striated muscle tissue development [Term] id: GO:0045844 name: positive regulation of striated muscle tissue development namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of striated muscle development." [GOC:go_curators] synonym: "activation of striated muscle development" NARROW [] synonym: "stimulation of striated muscle development" NARROW [] synonym: "up regulation of striated muscle development" EXACT [] synonym: "up-regulation of striated muscle development" EXACT [] synonym: "upregulation of striated muscle development" EXACT [] is_a: GO:0016202 ! regulation of striated muscle tissue development is_a: GO:0048636 ! positive regulation of muscle organ development is_a: GO:1901863 ! positive regulation of muscle tissue development intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0014706 ! striated muscle tissue development relationship: positively_regulates GO:0014706 ! striated muscle tissue development [Term] id: GO:0045900 name: negative regulation of translational elongation namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of translational elongation." [GOC:go_curators] synonym: "down regulation of translational elongation" EXACT [] synonym: "down-regulation of translational elongation" EXACT [] synonym: "downregulation of translational elongation" EXACT [] synonym: "inhibition of translational elongation" NARROW [] is_a: GO:0006448 ! regulation of translational elongation is_a: GO:0017148 ! negative regulation of translation intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0006414 ! translational elongation relationship: negatively_regulates GO:0006414 ! translational elongation [Term] id: GO:0045901 name: positive regulation of translational elongation namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of translational elongation." [GOC:go_curators] synonym: "activation of translational elongation" NARROW [] synonym: "stimulation of translational elongation" NARROW [] synonym: "up regulation of translational elongation" EXACT [] synonym: "up-regulation of translational elongation" EXACT [] synonym: "upregulation of translational elongation" EXACT [] is_a: GO:0006448 ! regulation of translational elongation is_a: GO:0045727 ! positive regulation of translation intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0006414 ! translational elongation relationship: positively_regulates GO:0006414 ! translational elongation [Term] id: GO:0045904 name: negative regulation of translational termination namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of translational termination." [GOC:go_curators] synonym: "down regulation of translational termination" EXACT [] synonym: "down-regulation of translational termination" EXACT [] synonym: "downregulation of translational termination" EXACT [] synonym: "inhibition of translational termination" NARROW [] is_a: GO:0006449 ! regulation of translational termination is_a: GO:0017148 ! negative regulation of translation is_a: GO:0043242 ! negative regulation of protein-containing complex disassembly intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0006415 ! translational termination relationship: negatively_regulates GO:0006415 ! translational termination [Term] id: GO:0045905 name: positive regulation of translational termination namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of translational termination." [GOC:go_curators] synonym: "activation of translational termination" NARROW [] synonym: "stimulation of translational termination" NARROW [] synonym: "up regulation of translational termination" EXACT [] synonym: "up-regulation of translational termination" EXACT [] synonym: "upregulation of translational termination" EXACT [] is_a: GO:0006449 ! regulation of translational termination is_a: GO:0043243 ! positive regulation of protein-containing complex disassembly is_a: GO:0045727 ! positive regulation of translation intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0006415 ! translational termination relationship: positively_regulates GO:0006415 ! translational termination [Term] id: GO:0045912 name: negative regulation of carbohydrate metabolic process namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of the chemical reactions and pathways involving carbohydrate." [GOC:go_curators] synonym: "down regulation of carbohydrate metabolic process" EXACT [] synonym: "down-regulation of carbohydrate metabolic process" EXACT [] synonym: "downregulation of carbohydrate metabolic process" EXACT [] synonym: "inhibition of carbohydrate metabolic process" NARROW [] synonym: "negative regulation of carbohydrate metabolism" EXACT [] is_a: GO:0006109 ! regulation of carbohydrate metabolic process is_a: GO:0009892 ! negative regulation of metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0005975 ! carbohydrate metabolic process relationship: negatively_regulates GO:0005975 ! carbohydrate metabolic process [Term] id: GO:0045913 name: positive regulation of carbohydrate metabolic process namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways involving carbohydrate." [GOC:go_curators] synonym: "activation of carbohydrate metabolic process" NARROW [] synonym: "positive regulation of carbohydrate metabolism" EXACT [] synonym: "stimulation of carbohydrate metabolic process" NARROW [] synonym: "up regulation of carbohydrate metabolic process" EXACT [] synonym: "up-regulation of carbohydrate metabolic process" EXACT [] synonym: "upregulation of carbohydrate metabolic process" EXACT [] is_a: GO:0006109 ! regulation of carbohydrate metabolic process is_a: GO:0009893 ! positive regulation of metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0005975 ! carbohydrate metabolic process relationship: positively_regulates GO:0005975 ! carbohydrate metabolic process [Term] id: GO:0045914 name: negative regulation of catecholamine metabolic process namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of the chemical reactions and pathways involving catecholamine." [GOC:go_curators] synonym: "down regulation of catecholamine metabolic process" EXACT [] synonym: "down-regulation of catecholamine metabolic process" EXACT [] synonym: "downregulation of catecholamine metabolic process" EXACT [] synonym: "inhibition of catecholamine metabolic process" NARROW [] synonym: "negative regulation of catecholamine metabolism" EXACT [] is_a: GO:0033239 ! negative regulation of cellular amine metabolic process is_a: GO:0042069 ! regulation of catecholamine metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0006584 ! catecholamine metabolic process relationship: negatively_regulates GO:0006584 ! catecholamine metabolic process [Term] id: GO:0045915 name: positive regulation of catecholamine metabolic process namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways involving catecholamine." [GOC:go_curators] synonym: "activation of catecholamine metabolic process" NARROW [] synonym: "positive regulation of catecholamine metabolism" EXACT [] synonym: "stimulation of catecholamine metabolic process" NARROW [] synonym: "up regulation of catecholamine metabolic process" EXACT [] synonym: "up-regulation of catecholamine metabolic process" EXACT [] synonym: "upregulation of catecholamine metabolic process" EXACT [] is_a: GO:0033240 ! positive regulation of cellular amine metabolic process is_a: GO:0042069 ! regulation of catecholamine metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0006584 ! catecholamine metabolic process relationship: positively_regulates GO:0006584 ! catecholamine metabolic process [Term] id: GO:0045920 name: negative regulation of exocytosis namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of exocytosis." [GOC:go_curators] synonym: "down regulation of exocytosis" EXACT [] synonym: "down-regulation of exocytosis" EXACT [] synonym: "downregulation of exocytosis" EXACT [] synonym: "inhibition of exocytosis" NARROW [] is_a: GO:0017157 ! regulation of exocytosis is_a: GO:1903531 ! negative regulation of secretion by cell intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0006887 ! exocytosis relationship: negatively_regulates GO:0006887 ! exocytosis [Term] id: GO:0045921 name: positive regulation of exocytosis namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of exocytosis." [GOC:go_curators] synonym: "activation of exocytosis" NARROW [] synonym: "stimulation of exocytosis" NARROW [] synonym: "up regulation of exocytosis" EXACT [] synonym: "up-regulation of exocytosis" EXACT [] synonym: "upregulation of exocytosis" EXACT [] is_a: GO:0017157 ! regulation of exocytosis is_a: GO:1903532 ! positive regulation of secretion by cell intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0006887 ! exocytosis relationship: positively_regulates GO:0006887 ! exocytosis [Term] id: GO:0045926 name: negative regulation of growth namespace: biological_process def: "Any process that stops, prevents or reduces the rate or extent of growth, the increase in size or mass of all or part of an organism." [GOC:go_curators] synonym: "down regulation of growth" EXACT [] synonym: "down-regulation of growth" EXACT [] synonym: "downregulation of growth" EXACT [] synonym: "inhibition of growth" NARROW [] is_a: GO:0040008 ! regulation of growth is_a: GO:0048519 ! negative regulation of biological process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0040007 ! growth relationship: negatively_regulates GO:0040007 ! growth [Term] id: GO:0045927 name: positive regulation of growth namespace: biological_process def: "Any process that activates or increases the rate or extent of growth, the increase in size or mass of all or part of an organism." [GOC:go_curators] synonym: "activation of growth" NARROW [] synonym: "stimulation of growth" NARROW [] synonym: "up regulation of growth" EXACT [] synonym: "up-regulation of growth" EXACT [] synonym: "upregulation of growth" EXACT [] is_a: GO:0040008 ! regulation of growth is_a: GO:0048518 ! positive regulation of biological process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0040007 ! growth relationship: positively_regulates GO:0040007 ! growth [Term] id: GO:0045930 name: negative regulation of mitotic cell cycle namespace: biological_process def: "Any process that stops, prevents or reduces the rate or extent of progression through the mitotic cell cycle." [GOC:dph, GOC:go_curators, GOC:tb] synonym: "down regulation of progression through mitotic cell cycle" EXACT [] synonym: "down-regulation of progression through mitotic cell cycle" EXACT [] synonym: "downregulation of progression through mitotic cell cycle" EXACT [] synonym: "inhibition of progression through mitotic cell cycle" NARROW [] synonym: "negative regulation of mitotic cell cycle progression" EXACT [] synonym: "negative regulation of progression through mitotic cell cycle" EXACT [GOC:dph, GOC:tb] is_a: GO:0007346 ! regulation of mitotic cell cycle is_a: GO:0045786 ! negative regulation of cell cycle intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0000278 ! mitotic cell cycle relationship: negatively_regulates GO:0000278 ! mitotic cell cycle [Term] id: GO:0045931 name: positive regulation of mitotic cell cycle namespace: biological_process def: "Any process that activates or increases the rate or extent of progression through the mitotic cell cycle." [GOC:dph, GOC:go_curators, GOC:tb] synonym: "activation of progression through mitotic cell cycle" NARROW [] synonym: "positive regulation of mitotic cell cycle progression" EXACT [] synonym: "positive regulation of progression through mitotic cell cycle" EXACT [GOC:dph, GOC:tb] synonym: "stimulation of progression through mitotic cell cycle" NARROW [] synonym: "up regulation of progression through mitotic cell cycle" EXACT [] synonym: "up-regulation of progression through mitotic cell cycle" EXACT [] synonym: "upregulation of progression through mitotic cell cycle" EXACT [] is_a: GO:0007346 ! regulation of mitotic cell cycle is_a: GO:0045787 ! positive regulation of cell cycle intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0000278 ! mitotic cell cycle relationship: positively_regulates GO:0000278 ! mitotic cell cycle [Term] id: GO:0045932 name: negative regulation of muscle contraction namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of muscle contraction." [GOC:go_curators] synonym: "down regulation of muscle contraction" EXACT [] synonym: "down-regulation of muscle contraction" EXACT [] synonym: "downregulation of muscle contraction" EXACT [] synonym: "inhibition of muscle contraction" NARROW [] is_a: GO:0006937 ! regulation of muscle contraction is_a: GO:0051241 ! negative regulation of multicellular organismal process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0006936 ! muscle contraction relationship: negatively_regulates GO:0006936 ! muscle contraction [Term] id: GO:0045933 name: positive regulation of muscle contraction namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of muscle contraction." [GOC:go_curators] synonym: "activation of muscle contraction" NARROW [] synonym: "stimulation of muscle contraction" NARROW [] synonym: "up regulation of muscle contraction" EXACT [] synonym: "up-regulation of muscle contraction" EXACT [] synonym: "upregulation of muscle contraction" EXACT [] is_a: GO:0006937 ! regulation of muscle contraction is_a: GO:0051240 ! positive regulation of multicellular organismal process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0006936 ! muscle contraction relationship: positively_regulates GO:0006936 ! muscle contraction [Term] id: GO:0045934 name: negative regulation of nucleobase-containing compound metabolic process namespace: biological_process def: "Any cellular process that stops, prevents, or reduces the frequency, rate or extent of the chemical reactions and pathways involving nucleobases, nucleosides, nucleotides and nucleic acids." [GOC:go_curators] synonym: "down regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process" EXACT [] synonym: "down-regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process" EXACT [] synonym: "downregulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process" EXACT [] synonym: "inhibition of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process" NARROW [] synonym: "negative regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process" RELATED [GOC:dph, GOC:tb] synonym: "negative regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolism" EXACT [] is_a: GO:0019219 ! regulation of nucleobase-containing compound metabolic process is_a: GO:0031324 ! negative regulation of cellular metabolic process is_a: GO:0051172 ! negative regulation of nitrogen compound metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0006139 ! nucleobase-containing compound metabolic process relationship: negatively_regulates GO:0006139 ! nucleobase-containing compound metabolic process [Term] id: GO:0045935 name: positive regulation of nucleobase-containing compound metabolic process namespace: biological_process def: "Any cellular process that activates or increases the frequency, rate or extent of the chemical reactions and pathways involving nucleobases, nucleosides, nucleotides and nucleic acids." [GOC:go_curators] synonym: "activation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process" NARROW [] synonym: "positive regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process" RELATED [GOC:dph, GOC:tb] synonym: "positive regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolism" EXACT [] synonym: "stimulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process" NARROW [] synonym: "up regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process" EXACT [] synonym: "up-regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process" EXACT [] synonym: "upregulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process" EXACT [] is_a: GO:0019219 ! regulation of nucleobase-containing compound metabolic process is_a: GO:0031325 ! positive regulation of cellular metabolic process is_a: GO:0051173 ! positive regulation of nitrogen compound metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0006139 ! nucleobase-containing compound metabolic process relationship: positively_regulates GO:0006139 ! nucleobase-containing compound metabolic process [Term] id: GO:0045936 name: negative regulation of phosphate metabolic process namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of the chemical reactions and pathways involving phosphates." [GOC:go_curators] synonym: "down regulation of phosphate metabolic process" EXACT [] synonym: "down-regulation of phosphate metabolic process" EXACT [] synonym: "downregulation of phosphate metabolic process" EXACT [] synonym: "inhibition of phosphate metabolic process" NARROW [] synonym: "negative regulation of phosphate metabolism" EXACT [] is_a: GO:0010563 ! negative regulation of phosphorus metabolic process is_a: GO:0019220 ! regulation of phosphate metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0006796 ! phosphate-containing compound metabolic process relationship: negatively_regulates GO:0006796 ! phosphate-containing compound metabolic process [Term] id: GO:0045937 name: positive regulation of phosphate metabolic process namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways involving phosphates." [GOC:go_curators] synonym: "activation of phosphate metabolic process" NARROW [] synonym: "positive regulation of phosphate metabolism" EXACT [] synonym: "stimulation of phosphate metabolic process" NARROW [] synonym: "up regulation of phosphate metabolic process" EXACT [] synonym: "up-regulation of phosphate metabolic process" EXACT [] synonym: "upregulation of phosphate metabolic process" EXACT [] is_a: GO:0010562 ! positive regulation of phosphorus metabolic process is_a: GO:0019220 ! regulation of phosphate metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0006796 ! phosphate-containing compound metabolic process relationship: positively_regulates GO:0006796 ! phosphate-containing compound metabolic process [Term] id: GO:0045939 name: negative regulation of steroid metabolic process namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of the chemical reactions and pathways involving steroids." [GOC:go_curators] synonym: "down regulation of steroid metabolic process" EXACT [] synonym: "down-regulation of steroid metabolic process" EXACT [] synonym: "downregulation of steroid metabolic process" EXACT [] synonym: "inhibition of steroid metabolic process" NARROW [] synonym: "negative regulation of steroid metabolism" EXACT [] is_a: GO:0019218 ! regulation of steroid metabolic process is_a: GO:0045833 ! negative regulation of lipid metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0008202 ! steroid metabolic process relationship: negatively_regulates GO:0008202 ! steroid metabolic process [Term] id: GO:0045940 name: positive regulation of steroid metabolic process namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways involving steroids." [GOC:go_curators] synonym: "activation of steroid metabolic process" NARROW [] synonym: "positive regulation of steroid metabolism" EXACT [] synonym: "stimulation of steroid metabolic process" NARROW [] synonym: "up regulation of steroid metabolic process" EXACT [] synonym: "up-regulation of steroid metabolic process" EXACT [] synonym: "upregulation of steroid metabolic process" EXACT [] is_a: GO:0019218 ! regulation of steroid metabolic process is_a: GO:0045834 ! positive regulation of lipid metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0008202 ! steroid metabolic process relationship: positively_regulates GO:0008202 ! steroid metabolic process [Term] id: GO:0045947 name: negative regulation of translational initiation namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of translational initiation." [GOC:go_curators] synonym: "down regulation of translational initiation" EXACT [] synonym: "down-regulation of translational initiation" EXACT [] synonym: "downregulation of translational initiation" EXACT [] synonym: "inhibition of translational initiation" NARROW [] is_a: GO:0006446 ! regulation of translational initiation is_a: GO:0017148 ! negative regulation of translation intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0006413 ! translational initiation relationship: negatively_regulates GO:0006413 ! translational initiation [Term] id: GO:0045948 name: positive regulation of translational initiation namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of translational initiation." [GOC:go_curators] synonym: "activation of translational initiation" NARROW [] synonym: "stimulation of translational initiation" NARROW [] synonym: "up regulation of translational initiation" EXACT [] synonym: "up-regulation of translational initiation" EXACT [] synonym: "upregulation of translational initiation" EXACT [] is_a: GO:0006446 ! regulation of translational initiation is_a: GO:0045727 ! positive regulation of translation intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0006413 ! translational initiation relationship: positively_regulates GO:0006413 ! translational initiation [Term] id: GO:0045986 name: negative regulation of smooth muscle contraction namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of smooth muscle contraction." [GOC:go_curators] synonym: "down regulation of smooth muscle contraction" EXACT [] synonym: "down-regulation of smooth muscle contraction" EXACT [] synonym: "downregulation of smooth muscle contraction" EXACT [] synonym: "inhibition of smooth muscle contraction" NARROW [] synonym: "smooth muscle relaxation" RELATED [] is_a: GO:0006940 ! regulation of smooth muscle contraction is_a: GO:0045932 ! negative regulation of muscle contraction intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0006939 ! smooth muscle contraction relationship: negatively_regulates GO:0006939 ! smooth muscle contraction [Term] id: GO:0045987 name: positive regulation of smooth muscle contraction namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of smooth muscle contraction." [GOC:go_curators] synonym: "activation of smooth muscle contraction" NARROW [] synonym: "stimulation of smooth muscle contraction" NARROW [] synonym: "up regulation of smooth muscle contraction" EXACT [] synonym: "up-regulation of smooth muscle contraction" EXACT [] synonym: "upregulation of smooth muscle contraction" EXACT [] is_a: GO:0006940 ! regulation of smooth muscle contraction is_a: GO:0045933 ! positive regulation of muscle contraction intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0006939 ! smooth muscle contraction relationship: positively_regulates GO:0006939 ! smooth muscle contraction [Term] id: GO:0045988 name: negative regulation of striated muscle contraction namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of striated muscle contraction." [GOC:go_curators] synonym: "down regulation of striated muscle contraction" EXACT [] synonym: "down-regulation of striated muscle contraction" EXACT [] synonym: "downregulation of striated muscle contraction" EXACT [] synonym: "inhibition of striated muscle contraction" NARROW [] is_a: GO:0006942 ! regulation of striated muscle contraction is_a: GO:0045932 ! negative regulation of muscle contraction intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0006941 ! striated muscle contraction relationship: negatively_regulates GO:0006941 ! striated muscle contraction [Term] id: GO:0045989 name: positive regulation of striated muscle contraction namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of striated muscle contraction." [GOC:go_curators] synonym: "activation of striated muscle contraction" NARROW [] synonym: "stimulation of striated muscle contraction" NARROW [] synonym: "up regulation of striated muscle contraction" EXACT [] synonym: "up-regulation of striated muscle contraction" EXACT [] synonym: "upregulation of striated muscle contraction" EXACT [] is_a: GO:0006942 ! regulation of striated muscle contraction is_a: GO:0045933 ! positive regulation of muscle contraction intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0006941 ! striated muscle contraction relationship: positively_regulates GO:0006941 ! striated muscle contraction [Term] id: GO:0045992 name: negative regulation of embryonic development namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of embryonic development." [GOC:go_curators] synonym: "down regulation of embryonic development" EXACT [] synonym: "down-regulation of embryonic development" EXACT [] synonym: "downregulation of embryonic development" EXACT [] synonym: "inhibition of embryonic development" NARROW [] is_a: GO:0045995 ! regulation of embryonic development is_a: GO:0051093 ! negative regulation of developmental process is_a: GO:0051241 ! negative regulation of multicellular organismal process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0009790 ! embryo development relationship: negatively_regulates GO:0009790 ! embryo development [Term] id: GO:0045995 name: regulation of embryonic development namespace: biological_process def: "Any process that modulates the frequency, rate or extent of embryonic development." [GOC:go_curators] is_a: GO:2000026 ! regulation of multicellular organismal development intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0009790 ! embryo development relationship: regulates GO:0009790 ! embryo development [Term] id: GO:0046112 name: nucleobase biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of a nucleobase, a nitrogenous base that is a constituent of a nucleic acid." [GOC:ai] synonym: "nucleobase anabolism" EXACT [] synonym: "nucleobase biosynthesis" EXACT [] synonym: "nucleobase formation" EXACT [] synonym: "nucleobase synthesis" EXACT [] is_a: GO:0009112 ! nucleobase metabolic process is_a: GO:0018130 ! heterocycle biosynthetic process is_a: GO:1901362 ! organic cyclic compound biosynthetic process is_a: GO:1901566 ! organonitrogen compound biosynthetic process intersection_of: GO:0009058 ! biosynthetic process intersection_of: has_primary_output CHEBI:18282 ! nucleobase relationship: has_primary_output CHEBI:18282 ! nucleobase [Term] id: GO:0046189 name: phenol-containing compound biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of a phenol, any compound containing one or more hydroxyl groups directly attached to an aromatic carbon ring." [GOC:ai] synonym: "phenol-containing compound anabolism" EXACT [] synonym: "phenol-containing compound biosynthesis" EXACT [] synonym: "phenol-containing compound formation" EXACT [] synonym: "phenol-containing compound synthesis" EXACT [] is_a: GO:0018958 ! phenol-containing compound metabolic process is_a: GO:0019438 ! aromatic compound biosynthetic process is_a: GO:1901362 ! organic cyclic compound biosynthetic process is_a: GO:1901617 ! organic hydroxy compound biosynthetic process intersection_of: GO:0009058 ! biosynthetic process intersection_of: has_primary_output CHEBI:33853 ! phenols relationship: has_primary_output CHEBI:33853 ! phenols [Term] id: GO:0046219 name: indolalkylamine biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of indolalkylamines, indole or indole derivatives containing a primary, secondary, or tertiary amine group." [GOC:curators] synonym: "indolalkylamine anabolism" EXACT [] synonym: "indolalkylamine biosynthesis" EXACT [] synonym: "indolalkylamine formation" EXACT [] synonym: "indolalkylamine synthesis" EXACT [] is_a: GO:0006586 ! indolalkylamine metabolic process is_a: GO:0042401 ! cellular biogenic amine biosynthetic process is_a: GO:0042435 ! indole-containing compound biosynthetic process intersection_of: GO:0009058 ! biosynthetic process intersection_of: has_primary_output CHEBI:38631 ! aminoalkylindole relationship: has_primary_output CHEBI:38631 ! aminoalkylindole [Term] id: GO:0046394 name: carboxylic acid biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of carboxylic acids, any organic acid containing one or more carboxyl (-COOH) groups." [ISBN:0198506732] synonym: "carboxylic acid anabolism" EXACT [] synonym: "carboxylic acid biosynthesis" EXACT [] synonym: "carboxylic acid formation" EXACT [] synonym: "carboxylic acid synthesis" EXACT [] is_a: GO:0016053 ! organic acid biosynthetic process is_a: GO:0019752 ! carboxylic acid metabolic process intersection_of: GO:0009058 ! biosynthetic process intersection_of: has_primary_output CHEBI:29067 ! carboxylic acid anion relationship: has_primary_output CHEBI:29067 ! carboxylic acid anion [Term] id: GO:0046483 name: heterocycle metabolic process namespace: biological_process def: "The chemical reactions and pathways involving heterocyclic compounds, those with a cyclic molecular structure and at least two different atoms in the ring (or rings)." [ISBN:0198506732] subset: goslim_pir synonym: "heterocycle metabolism" EXACT [] is_a: GO:0044237 ! cellular metabolic process intersection_of: GO:0008152 ! metabolic process intersection_of: has_primary_input_or_output CHEBI:5686 ! heterocyclic compound relationship: has_primary_input_or_output CHEBI:5686 ! heterocyclic compound [Term] id: GO:0046530 name: photoreceptor cell differentiation namespace: biological_process alt_id: GO:0007467 def: "The specialization of organization of a photoreceptor, a cell that responds to incident electromagnetic radiation, particularly visible light. An example of this process is found in Drosophila melanogaster." [GOC:ai, ISBN:0198506732] is_a: GO:0030182 ! neuron differentiation intersection_of: GO:0030154 ! cell differentiation intersection_of: results_in_acquisition_of_features_of CL:0000210 ! photoreceptor cell relationship: results_in_acquisition_of_features_of CL:0000210 ! photoreceptor cell [Term] id: GO:0046532 name: regulation of photoreceptor cell differentiation namespace: biological_process alt_id: GO:0045673 def: "Any process that modulates the frequency, rate or extent of photoreceptor cell differentiation. An example of this process is found in Drosophila melanogaster." [GOC:go_curators] synonym: "regulation of photoreceptor differentiation" EXACT [] is_a: GO:0045664 ! regulation of neuron differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0046530 ! photoreceptor cell differentiation relationship: regulates GO:0046530 ! photoreceptor cell differentiation [Term] id: GO:0046533 name: negative regulation of photoreceptor cell differentiation namespace: biological_process alt_id: GO:0045674 def: "Any process that stops, prevents, or reduces the frequency, rate or extent of photoreceptor cell differentiation. An example of this process is found in Drosophila melanogaster." [GOC:go_curators] synonym: "down regulation of photoreceptor cell differentiation" EXACT [] synonym: "down regulation of photoreceptor differentiation" EXACT [] synonym: "down-regulation of photoreceptor cell differentiation" EXACT [] synonym: "down-regulation of photoreceptor differentiation" EXACT [] synonym: "downregulation of photoreceptor cell differentiation" EXACT [] synonym: "downregulation of photoreceptor differentiation" EXACT [] synonym: "inhibition of photoreceptor cell differentiation" NARROW [] synonym: "inhibition of photoreceptor differentiation" NARROW [] synonym: "negative regulation of photoreceptor differentiation" EXACT [] is_a: GO:0045665 ! negative regulation of neuron differentiation is_a: GO:0046532 ! regulation of photoreceptor cell differentiation is_a: GO:0051241 ! negative regulation of multicellular organismal process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0046530 ! photoreceptor cell differentiation relationship: negatively_regulates GO:0046530 ! photoreceptor cell differentiation [Term] id: GO:0046534 name: positive regulation of photoreceptor cell differentiation namespace: biological_process alt_id: GO:0045675 def: "Any process that activates or increases the frequency, rate or extent of photoreceptor cell differentiation. An example of this process is found in Drosophila melanogaster." [GOC:go_curators] synonym: "activation of photoreceptor cell differentiation" NARROW [] synonym: "activation of photoreceptor differentiation" NARROW [] synonym: "positive regulation of photoreceptor differentiation" EXACT [] synonym: "stimulation of photoreceptor cell differentiation" NARROW [] synonym: "stimulation of photoreceptor differentiation" NARROW [] synonym: "up regulation of photoreceptor cell differentiation" EXACT [] synonym: "up regulation of photoreceptor differentiation" EXACT [] synonym: "up-regulation of photoreceptor cell differentiation" EXACT [] synonym: "up-regulation of photoreceptor differentiation" EXACT [] synonym: "upregulation of photoreceptor cell differentiation" EXACT [] synonym: "upregulation of photoreceptor differentiation" EXACT [] is_a: GO:0045666 ! positive regulation of neuron differentiation is_a: GO:0046532 ! regulation of photoreceptor cell differentiation is_a: GO:0051240 ! positive regulation of multicellular organismal process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0046530 ! photoreceptor cell differentiation relationship: positively_regulates GO:0046530 ! photoreceptor cell differentiation [Term] id: GO:0046545 name: development of primary female sexual characteristics namespace: biological_process def: "The process whose specific outcome is the progression of the primary female sexual characteristics over time, from their formation to the mature structure. The primary female sexual characteristics are the ovaries, and they develop in response to sex hormone secretion." [GOC:ai] is_a: GO:0045137 ! development of primary sexual characteristics relationship: part_of GO:0046660 ! female sex differentiation [Term] id: GO:0046548 name: retinal rod cell development namespace: biological_process def: "Development of a rod cell, one of the sensory cells in the eye that reacts to the presence of light. Rod cells contain the photopigment rhodopsin or porphyropsin and are responsible for vision in dim light." [ISBN:0198506732] is_a: GO:0042462 ! eye photoreceptor cell development intersection_of: GO:0032502 ! developmental process intersection_of: results_in_development_of CL:0000604 ! retinal rod cell relationship: part_of GO:0060221 ! retinal rod cell differentiation relationship: results_in_development_of CL:0000604 ! retinal rod cell [Term] id: GO:0046549 name: retinal cone cell development namespace: biological_process def: "Development of a cone cell, one of the sensory cells in the eye that reacts to the presence of light. Cone cells contain the photopigment iodopsin or cyanopsin and are responsible for photopic (daylight) vision." [ISBN:0198506732] is_a: GO:0042462 ! eye photoreceptor cell development intersection_of: GO:0032502 ! developmental process intersection_of: results_in_development_of CL:0000573 ! retinal cone cell relationship: part_of GO:0042670 ! retinal cone cell differentiation relationship: results_in_development_of CL:0000573 ! retinal cone cell [Term] id: GO:0046620 name: regulation of organ growth namespace: biological_process def: "Any process that modulates the frequency, rate or extent of growth of an organ of an organism." [GOC:bf, GOC:tb] is_a: GO:0048638 ! regulation of developmental growth is_a: GO:0051239 ! regulation of multicellular organismal process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0035265 ! organ growth relationship: regulates GO:0035265 ! organ growth [Term] id: GO:0046621 name: negative regulation of organ growth namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of growth of an organ of an organism." [GOC:bf, GOC:tb] is_a: GO:0046620 ! regulation of organ growth is_a: GO:0048640 ! negative regulation of developmental growth is_a: GO:0051241 ! negative regulation of multicellular organismal process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0035265 ! organ growth relationship: negatively_regulates GO:0035265 ! organ growth [Term] id: GO:0046622 name: positive regulation of organ growth namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of growth of an organ of an organism." [GOC:bf, GOC:tb] is_a: GO:0046620 ! regulation of organ growth is_a: GO:0048639 ! positive regulation of developmental growth is_a: GO:0051240 ! positive regulation of multicellular organismal process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0035265 ! organ growth relationship: positively_regulates GO:0035265 ! organ growth [Term] id: GO:0046660 name: female sex differentiation namespace: biological_process def: "The establishment of the sex of a female organism by physical differentiation." [GOC:bf] is_a: GO:0007548 ! sex differentiation relationship: part_of GO:0007275 ! multicellular organism development [Term] id: GO:0046666 name: retinal cell programmed cell death namespace: biological_process def: "Programmed cell death that occurs in the developing retina." [GOC:bf] synonym: "programmed cell death, retina cells" EXACT [] synonym: "programmed cell death, retinal cells" EXACT [] synonym: "retina cell programmed cell death" EXACT [] synonym: "retina programmed cell death" EXACT [] synonym: "retinal programmed cell death" EXACT [] is_a: GO:0010623 ! programmed cell death involved in cell development relationship: part_of GO:0048592 ! eye morphogenesis [Term] id: GO:0046667 name: compound eye retinal cell programmed cell death namespace: biological_process def: "Programmed cell death that occurs in the retina to remove excess cells between ommatidia, thus resulting in a hexagonal lattice, precise with respect to cell number and position surrounding each ommatidium." [PMID:12006672] is_a: GO:0046666 ! retinal cell programmed cell death intersection_of: GO:0046666 ! retinal cell programmed cell death intersection_of: results_in_maturation_of UBERON:0000018 ! compound eye relationship: part_of GO:0001745 ! compound eye morphogenesis relationship: results_in_maturation_of UBERON:0000018 ! compound eye [Term] id: GO:0046668 name: regulation of retinal cell programmed cell death namespace: biological_process def: "Any process that modulates the frequency, rate or extent of programmed cell death that occurs in the retina." [GOC:ai, GOC:tb] synonym: "regulation of retinal programmed cell death" EXACT [GOC:tb] is_a: GO:0043067 ! regulation of programmed cell death is_a: GO:0050793 ! regulation of developmental process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0046666 ! retinal cell programmed cell death relationship: regulates GO:0046666 ! retinal cell programmed cell death [Term] id: GO:0046669 name: regulation of compound eye retinal cell programmed cell death namespace: biological_process def: "Any process that modulates the frequency, rate or extent of programmed cell death that occurs in the compound eye retina." [GOC:ai] synonym: "regulation of retinal cell programmed cell death" BROAD [] is_a: GO:0046668 ! regulation of retinal cell programmed cell death intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0046667 ! compound eye retinal cell programmed cell death relationship: regulates GO:0046667 ! compound eye retinal cell programmed cell death [Term] id: GO:0046670 name: positive regulation of retinal cell programmed cell death namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of programmed cell death that occurs in the retina." [GOC:ai, GOC:tb] synonym: "activation of retinal programmed cell death" NARROW [] synonym: "positive regulation of retinal programmed cell death" EXACT [GOC:tb] synonym: "stimulation of retinal programmed cell death" NARROW [] synonym: "up regulation of retinal programmed cell death" EXACT [] synonym: "up-regulation of retinal programmed cell death" EXACT [] synonym: "upregulation of retinal programmed cell death" EXACT [] is_a: GO:0043068 ! positive regulation of programmed cell death is_a: GO:0046668 ! regulation of retinal cell programmed cell death is_a: GO:0051094 ! positive regulation of developmental process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0046666 ! retinal cell programmed cell death relationship: positively_regulates GO:0046666 ! retinal cell programmed cell death [Term] id: GO:0046671 name: negative regulation of retinal cell programmed cell death namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of programmed cell death that occurs in the retina." [GOC:ai, GOC:tb] synonym: "down regulation of retinal programmed cell death" EXACT [] synonym: "down-regulation of retinal programmed cell death" EXACT [] synonym: "downregulation of retinal programmed cell death" EXACT [] synonym: "inhibition of retinal programmed cell death" NARROW [] synonym: "negative regulation of retinal programmed cell death" EXACT [GOC:tb] is_a: GO:0043069 ! negative regulation of programmed cell death is_a: GO:0046668 ! regulation of retinal cell programmed cell death is_a: GO:0051093 ! negative regulation of developmental process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0046666 ! retinal cell programmed cell death relationship: negatively_regulates GO:0046666 ! retinal cell programmed cell death [Term] id: GO:0046672 name: positive regulation of compound eye retinal cell programmed cell death namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of programmed cell death that occurs in the compound eye retina." [GOC:ai] synonym: "activation of retinal cell programmed cell death" BROAD [] synonym: "positive regulation of retinal cell programmed cell death" BROAD [] synonym: "stimulation of retinal cell programmed cell death" BROAD [] synonym: "up regulation of retinal cell programmed cell death" BROAD [] synonym: "up-regulation of retinal cell programmed cell death" BROAD [] synonym: "upregulation of retinal cell programmed cell death" BROAD [] is_a: GO:0046669 ! regulation of compound eye retinal cell programmed cell death is_a: GO:0046670 ! positive regulation of retinal cell programmed cell death intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0046667 ! compound eye retinal cell programmed cell death relationship: positively_regulates GO:0046667 ! compound eye retinal cell programmed cell death [Term] id: GO:0046673 name: negative regulation of compound eye retinal cell programmed cell death namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of programmed cell death that occurs in the compound eye retina." [GOC:ai] synonym: "down regulation of retinal cell programmed cell death" BROAD [] synonym: "down-regulation of retinal cell programmed cell death" BROAD [] synonym: "downregulation of retinal cell programmed cell death" BROAD [] synonym: "inhibition of retinal cell programmed cell death" BROAD [] synonym: "negative regulation of retina cell programmed cell death" BROAD [] synonym: "negative regulation of retinal cell programmed cell death" BROAD [] is_a: GO:0046669 ! regulation of compound eye retinal cell programmed cell death is_a: GO:0046671 ! negative regulation of retinal cell programmed cell death intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0046667 ! compound eye retinal cell programmed cell death relationship: negatively_regulates GO:0046667 ! compound eye retinal cell programmed cell death [Term] id: GO:0046681 name: response to carbamate namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a carbamate stimulus. Carbamates are a group of insecticides and parasiticides that act by inhibiting cholinesterase." [ISBN:0721662544] synonym: "carbamate resistance" RELATED [] synonym: "carbamate susceptibility/resistance" RELATED [] is_a: GO:0010243 ! response to organonitrogen compound is_a: GO:0017085 ! response to insecticide is_a: GO:1901700 ! response to oxygen-containing compound intersection_of: GO:0050896 ! response to stimulus intersection_of: has_input CHEBI:13941 ! carbamate relationship: has_input CHEBI:13941 ! carbamate [Term] id: GO:0046716 name: muscle cell cellular homeostasis namespace: biological_process def: "The cellular homeostatic process that preserves a muscle cell in a stable functional or structural state." [GOC:mah, PMID:3091429, PMID:7781901] synonym: "muscle fiber maintenance" NARROW [GOC:dph, GOC:tb] synonym: "muscle homeostasis" RELATED [GOC:dph] is_a: GO:0019725 ! cellular homeostasis is_a: GO:0060249 ! anatomical structure homeostasis intersection_of: GO:0019725 ! cellular homeostasis intersection_of: occurs_in CL:0000187 ! muscle cell relationship: occurs_in CL:0000187 ! muscle cell property_value: RO:0002161 NCBITaxon:4751 [Term] id: GO:0046717 name: acid secretion namespace: biological_process def: "The controlled release of acid by a cell or a tissue." [GOC:ai] is_a: GO:0046903 ! secretion [Term] id: GO:0046785 name: microtubule polymerization namespace: biological_process def: "The addition of tubulin heterodimers to one or both ends of a microtubule." [GOC:ai, GOC:go_curators] synonym: "microtubule assembly" EXACT [] synonym: "microtubule formation" RELATED [] is_a: GO:0031109 ! microtubule polymerization or depolymerization is_a: GO:0051258 ! protein polymerization is_a: GO:0097435 ! supramolecular fiber organization intersection_of: GO:0022607 ! cellular component assembly intersection_of: results_in_assembly_of GO:0005874 ! microtubule relationship: results_in_assembly_of GO:0005874 ! microtubule relationship: starts_with GO:0007020 ! microtubule nucleation [Term] id: GO:0046879 name: hormone secretion namespace: biological_process def: "The regulated release of hormones, substances with a specific regulatory effect on a particular organ or group of cells." [ISBN:0198506732] is_a: GO:0009914 ! hormone transport is_a: GO:0023061 ! signal release [Term] id: GO:0046883 name: regulation of hormone secretion namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the regulated release of a hormone from a cell." [GOC:ai] is_a: GO:0010646 ! regulation of cell communication is_a: GO:0010817 ! regulation of hormone levels is_a: GO:0023051 ! regulation of signaling is_a: GO:1903530 ! regulation of secretion by cell intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0046879 ! hormone secretion relationship: regulates GO:0046879 ! hormone secretion [Term] id: GO:0046887 name: positive regulation of hormone secretion namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of the regulated release of a hormone from a cell." [GOC:ai] synonym: "activation of hormone secretion" NARROW [] synonym: "stimulation of hormone secretion" NARROW [] synonym: "up regulation of hormone secretion" EXACT [] synonym: "up-regulation of hormone secretion" EXACT [] synonym: "upregulation of hormone secretion" EXACT [] is_a: GO:0010647 ! positive regulation of cell communication is_a: GO:0023056 ! positive regulation of signaling is_a: GO:0046883 ! regulation of hormone secretion is_a: GO:1903532 ! positive regulation of secretion by cell intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0046879 ! hormone secretion relationship: positively_regulates GO:0046879 ! hormone secretion [Term] id: GO:0046888 name: negative regulation of hormone secretion namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of the regulated release of a hormone from a cell." [GOC:ai] synonym: "down regulation of hormone secretion" EXACT [] synonym: "down-regulation of hormone secretion" EXACT [] synonym: "downregulation of hormone secretion" EXACT [] synonym: "inhibition of hormone secretion" NARROW [] is_a: GO:0010648 ! negative regulation of cell communication is_a: GO:0023057 ! negative regulation of signaling is_a: GO:0046883 ! regulation of hormone secretion is_a: GO:1903531 ! negative regulation of secretion by cell intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0046879 ! hormone secretion relationship: negatively_regulates GO:0046879 ! hormone secretion [Term] id: GO:0046889 name: positive regulation of lipid biosynthetic process namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of lipids." [GOC:ai] synonym: "activation of lipid biosynthetic process" NARROW [] synonym: "positive regulation of lipid anabolism" EXACT [] synonym: "positive regulation of lipid biosynthesis" EXACT [] synonym: "positive regulation of lipid formation" EXACT [] synonym: "positive regulation of lipid synthesis" EXACT [] synonym: "positive regulation of lipogenesis" EXACT [GOC:sl] synonym: "stimulation of lipid biosynthetic process" NARROW [] synonym: "up regulation of lipid biosynthetic process" EXACT [] synonym: "up-regulation of lipid biosynthetic process" EXACT [] synonym: "upregulation of lipid biosynthetic process" EXACT [] is_a: GO:0009891 ! positive regulation of biosynthetic process is_a: GO:0045834 ! positive regulation of lipid metabolic process is_a: GO:0046890 ! regulation of lipid biosynthetic process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0008610 ! lipid biosynthetic process relationship: positively_regulates GO:0008610 ! lipid biosynthetic process [Term] id: GO:0046890 name: regulation of lipid biosynthetic process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of lipids." [GOC:ai] synonym: "regulation of lipid anabolism" EXACT [] synonym: "regulation of lipid biosynthesis" EXACT [] synonym: "regulation of lipid formation" EXACT [] synonym: "regulation of lipid synthesis" EXACT [] synonym: "regulation of lipogenesis" EXACT [GOC:sl] is_a: GO:0009889 ! regulation of biosynthetic process is_a: GO:0019216 ! regulation of lipid metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0008610 ! lipid biosynthetic process relationship: regulates GO:0008610 ! lipid biosynthetic process [Term] id: GO:0046903 name: secretion namespace: biological_process def: "The controlled release of a substance by a cell or a tissue." [GOC:ai] subset: goslim_pir is_a: GO:0006810 ! transport [Term] id: GO:0046907 name: intracellular transport namespace: biological_process alt_id: GO:1902582 def: "The directed movement of substances within a cell." [GOC:ai] synonym: "single organism intracellular transport" RELATED [GOC:TermGenie] synonym: "single-organism intracellular transport" RELATED [] is_a: GO:0006810 ! transport is_a: GO:0051641 ! cellular localization is_a: GO:0051649 ! establishment of localization in cell intersection_of: GO:0006810 ! transport intersection_of: occurs_in GO:0005622 ! intracellular anatomical structure relationship: occurs_in GO:0005622 ! intracellular anatomical structure created_by: jl creation_date: 2013-12-18T14:04:50Z [Term] id: GO:0046942 name: carboxylic acid transport namespace: biological_process def: "The directed movement of carboxylic acids into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore. Carboxylic acids are organic acids containing one or more carboxyl (COOH) groups or anions (COO-)." [GOC:ai] is_a: GO:0015711 ! organic anion transport intersection_of: GO:0006810 ! transport intersection_of: transports_or_maintains_localization_of CHEBI:29067 ! carboxylic acid anion relationship: transports_or_maintains_localization_of CHEBI:29067 ! carboxylic acid anion [Term] id: GO:0047496 name: vesicle transport along microtubule namespace: biological_process def: "The directed movement of a vesicle along a microtubule, mediated by motor proteins. This process begins with the attachment of a vesicle to a microtubule, and ends when the vesicle reaches its final destination." [GOC:ecd, GOC:rl] synonym: "microtubule-based vesicle localization" EXACT [GOC:rl] is_a: GO:0072384 ! organelle transport along microtubule is_a: GO:0099518 ! vesicle cytoskeletal trafficking intersection_of: GO:0006810 ! transport intersection_of: results_in_transport_along GO:0005874 ! microtubule intersection_of: transports_or_maintains_localization_of GO:0031982 ! vesicle [Term] id: GO:0048048 name: embryonic eye morphogenesis namespace: biological_process def: "The process occurring in the embryo by which the anatomical structures of the post-embryonic eye are generated and organized." [GOC:jid] is_a: GO:0048562 ! embryonic organ morphogenesis is_a: GO:0048592 ! eye morphogenesis [Term] id: GO:0048066 name: developmental pigmentation namespace: biological_process def: "The developmental process that results in the deposition of coloring matter in an organism, tissue or cell." [ISBN:0582227089] synonym: "pigmentation during development" RELATED [] is_a: GO:0043473 ! pigmentation [Term] id: GO:0048070 name: regulation of developmental pigmentation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the developmental process that results in the deposition of coloring matter in an organism." [GOC:dph, GOC:jid, GOC:tb] synonym: "regulation of pigmentation during development" EXACT [GOC:dph, GOC:tb] is_a: GO:0120305 ! regulation of pigmentation intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0048066 ! developmental pigmentation relationship: regulates GO:0048066 ! developmental pigmentation [Term] id: GO:0048086 name: negative regulation of developmental pigmentation namespace: biological_process def: "Any process that decreases the frequency, rate or extent of the developmental process that results in the deposition of coloring matter in an organism." [GOC:dph, GOC:jid, GOC:tb] synonym: "down regulation of developmental pigmentation" EXACT [GOC:dph, GOC:tb] synonym: "down-regulation of developmental pigmentation" EXACT [GOC:dph, GOC:tb] synonym: "downregulation of developmental pigmentation" EXACT [GOC:dph, GOC:tb] synonym: "inhibition of pigmentation" NARROW [] is_a: GO:0048070 ! regulation of developmental pigmentation is_a: GO:0048519 ! negative regulation of biological process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0048066 ! developmental pigmentation relationship: negatively_regulates GO:0048066 ! developmental pigmentation [Term] id: GO:0048087 name: positive regulation of developmental pigmentation namespace: biological_process def: "Any process that increases the frequency, rate or extent of the developmental process that results in the deposition of coloring matter in an organism." [GOC:dph, GOC:jid, GOC:tb] synonym: "activation of developmental pigmentation" NARROW [GOC:dph, GOC:tb] synonym: "stimulation of developmental pigmentation" NARROW [GOC:dph, GOC:tb] synonym: "up regulation of developmental pigmentation" EXACT [GOC:dph] synonym: "up-regulation of developmental pigmentation" EXACT [GOC:dph, GOC:tb] synonym: "upregulation of developmental pigmentation" EXACT [GOC:dph, GOC:tb] is_a: GO:0048070 ! regulation of developmental pigmentation is_a: GO:0048518 ! positive regulation of biological process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0048066 ! developmental pigmentation relationship: positively_regulates GO:0048066 ! developmental pigmentation [Term] id: GO:0048103 name: somatic stem cell division namespace: biological_process def: "The self-renewing division of a somatic stem cell, a stem cell that can give rise to cell types of the body other than those of the germ-line." [GOC:jid, ISBN:0582227089] synonym: "somatic stem cell renewal" EXACT [] is_a: GO:0017145 ! stem cell division intersection_of: GO:0051301 ! cell division intersection_of: has_input CL:0000723 ! somatic stem cell relationship: has_input CL:0000723 ! somatic stem cell [Term] id: GO:0048144 name: fibroblast proliferation namespace: biological_process def: "The multiplication or reproduction of fibroblast cells, resulting in the expansion of the fibroblast population." [GOC:jid] is_a: GO:0008283 ! cell population proliferation intersection_of: GO:0008283 ! cell population proliferation intersection_of: acts_on_population_of CL:0000057 ! fibroblast relationship: acts_on_population_of CL:0000057 ! fibroblast [Term] id: GO:0048145 name: regulation of fibroblast proliferation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of multiplication or reproduction of fibroblast cells." [GOC:jid] is_a: GO:0042127 ! regulation of cell population proliferation intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0048144 ! fibroblast proliferation relationship: regulates GO:0048144 ! fibroblast proliferation [Term] id: GO:0048146 name: positive regulation of fibroblast proliferation namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of multiplication or reproduction of fibroblast cells." [GOC:jid] synonym: "activation of fibroblast proliferation" NARROW [] synonym: "stimulation of fibroblast proliferation" NARROW [] synonym: "up regulation of fibroblast proliferation" EXACT [] synonym: "up-regulation of fibroblast proliferation" EXACT [] synonym: "upregulation of fibroblast proliferation" EXACT [] is_a: GO:0008284 ! positive regulation of cell population proliferation is_a: GO:0048145 ! regulation of fibroblast proliferation intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0048144 ! fibroblast proliferation relationship: positively_regulates GO:0048144 ! fibroblast proliferation [Term] id: GO:0048147 name: negative regulation of fibroblast proliferation namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of multiplication or reproduction of fibroblast cells." [GOC:jid] synonym: "down regulation of fibroblast proliferation" EXACT [] synonym: "down-regulation of fibroblast proliferation" EXACT [] synonym: "downregulation of fibroblast proliferation" EXACT [] synonym: "inhibition of fibroblast proliferation" NARROW [] is_a: GO:0008285 ! negative regulation of cell population proliferation is_a: GO:0048145 ! regulation of fibroblast proliferation intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0048144 ! fibroblast proliferation relationship: negatively_regulates GO:0048144 ! fibroblast proliferation [Term] id: GO:0048193 name: Golgi vesicle transport namespace: biological_process def: "The directed movement of substances into, out of or within the Golgi apparatus, mediated by vesicles." [GOC:jid, ISBN:0716731363, PMID:10219233] subset: goslim_yeast synonym: "Golgi-derived vesicle transport" RELATED [] is_a: GO:0016192 ! vesicle-mediated transport intersection_of: GO:0006810 ! transport intersection_of: results_in_transport_to_from_or_in GO:0005798 ! Golgi-associated vesicle relationship: results_in_transport_to_from_or_in GO:0005798 ! Golgi-associated vesicle [Term] id: GO:0048199 name: vesicle targeting, to, from or within Golgi namespace: biological_process def: "The process in which vesicles are directed to specific destination membranes during transport to, from or within the Golgi apparatus; mediated by the addition of specific coat proteins, including COPI and COPII proteins and clathrin, to the membrane during vesicle formation." [GOC:jid, GOC:mah, ISBN:0716731363, PMID:10219233] synonym: "dictyosome vesicle targeting" NARROW [] synonym: "Golgi vesicle targeting" EXACT [] synonym: "vesicle targeting, to, from or within dictyosome" NARROW [] is_a: GO:0006903 ! vesicle targeting intersection_of: GO:0006903 ! vesicle targeting intersection_of: results_in_transport_to_from_or_in GO:0005794 ! Golgi apparatus intersection_of: transports_or_maintains_localization_of GO:0005798 ! Golgi-associated vesicle relationship: part_of GO:0048193 ! Golgi vesicle transport relationship: results_in_transport_to_from_or_in GO:0005794 ! Golgi apparatus relationship: transports_or_maintains_localization_of GO:0005798 ! Golgi-associated vesicle [Term] id: GO:0048209 name: regulation of vesicle targeting, to, from or within Golgi namespace: biological_process def: "Any process that modulates the frequency, rate, or destination of vesicle-mediated transport to, from or within the Golgi apparatus." [GOC:jid, GOC:mah, ISBN:0716731363, PMID:10219233] synonym: "regulation of Golgi vesicle targeting" EXACT [] is_a: GO:0060341 ! regulation of cellular localization intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0048199 ! vesicle targeting, to, from or within Golgi relationship: regulates GO:0048199 ! vesicle targeting, to, from or within Golgi [Term] id: GO:0048243 name: norepinephrine secretion namespace: biological_process def: "The regulated release of norepinephrine by a cell. Norepinephrine is a catecholamine and it acts as a hormone and as a neurotransmitter of most of the sympathetic nervous system." [GOC:ef, GOC:jid] synonym: "noradrenaline secretion" EXACT [] is_a: GO:0015874 ! norepinephrine transport is_a: GO:0023061 ! signal release is_a: GO:0050432 ! catecholamine secretion intersection_of: GO:0046903 ! secretion intersection_of: transports_or_maintains_localization_of CHEBI:33569 ! noradrenaline [Term] id: GO:0048251 name: elastic fiber assembly namespace: biological_process def: "Assembly of the extracellular matrix fibers that enables the matrix to recoil after transient stretching." [GOC:jid, PMID:10841810, PMID:12615674] synonym: "elastic fibre assembly" EXACT [] synonym: "elastin fiber assembly" EXACT [GOC:BHF] synonym: "elastin fibre assembly" EXACT [GOC:BHF] is_a: GO:0085029 ! extracellular matrix assembly is_a: GO:0097435 ! supramolecular fiber organization intersection_of: GO:0022607 ! cellular component assembly intersection_of: results_in_assembly_of GO:0071953 ! elastic fiber relationship: results_in_assembly_of GO:0071953 ! elastic fiber [Term] id: GO:0048280 name: vesicle fusion with Golgi apparatus namespace: biological_process def: "The joining of the lipid bilayer membrane around a vesicle to the lipid bilayer membrane around the Golgi." [GOC:jid] is_a: GO:0006906 ! vesicle fusion is_a: GO:0007030 ! Golgi organization intersection_of: GO:0009987 ! cellular process intersection_of: results_in_fusion_of GO:0005794 ! Golgi apparatus intersection_of: results_in_fusion_of GO:0031982 ! vesicle relationship: part_of GO:0048193 ! Golgi vesicle transport relationship: results_in_fusion_of GO:0005794 ! Golgi apparatus relationship: results_in_fusion_of GO:0031982 ! vesicle [Term] id: GO:0048284 name: organelle fusion namespace: biological_process def: "The creation of a single organelle from two or more organelles." [GOC:jid] subset: goslim_pir subset: goslim_yeast is_a: GO:0006996 ! organelle organization intersection_of: GO:0009987 ! cellular process intersection_of: results_in_fusion_of GO:0043226 ! organelle relationship: results_in_fusion_of GO:0043226 ! organelle [Term] id: GO:0048285 name: organelle fission namespace: biological_process def: "The creation of two or more organelles by division of one organelle." [GOC:jid] subset: goslim_pir subset: goslim_yeast is_a: GO:0006996 ! organelle organization intersection_of: GO:0009987 ! cellular process intersection_of: results_in_fission_of GO:0043226 ! organelle relationship: results_in_fission_of GO:0043226 ! organelle [Term] id: GO:0048288 name: nuclear membrane fusion involved in karyogamy namespace: biological_process def: "The joining of 2 or more lipid bilayer membranes that surround the nucleus during the creation of a single nucleus from multiple nuclei." [GOC:jid] synonym: "nuclear membrane fusion during karyogamy" RELATED [GOC:dph, GOC:tb] is_a: GO:0000740 ! nuclear membrane fusion intersection_of: GO:0000740 ! nuclear membrane fusion intersection_of: part_of GO:0000741 ! karyogamy relationship: part_of GO:0000741 ! karyogamy [Term] id: GO:0048308 name: organelle inheritance namespace: biological_process def: "The partitioning of organelles between daughter cells at cell division." [GOC:jid] subset: goslim_pir subset: goslim_yeast is_a: GO:0006996 ! organelle organization [Term] id: GO:0048313 name: Golgi inheritance namespace: biological_process def: "The partitioning of Golgi apparatus between daughter cells at cell division." [GOC:jid, PMID:12851069] synonym: "Golgi division" EXACT [GOC:ascb_2009, GOC:dph, GOC:tb] synonym: "Golgi partitioning" EXACT [] is_a: GO:0007030 ! Golgi organization is_a: GO:0048308 ! organelle inheritance intersection_of: GO:0048308 ! organelle inheritance intersection_of: results_in_distribution_of GO:0005794 ! Golgi apparatus relationship: results_in_distribution_of GO:0005794 ! Golgi apparatus [Term] id: GO:0048318 name: axial mesoderm development namespace: biological_process def: "The process whose specific outcome is the progression of the axial mesoderm over time, from its formation to the mature structure. The axial mesoderm includes the prechordal mesoderm and the chordamesoderm. It gives rise to the prechordal plate and to the notochord." [GOC:dgh] is_a: GO:0007498 ! mesoderm development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0003068 ! axial mesoderm relationship: results_in_development_of UBERON:0003068 ! axial mesoderm [Term] id: GO:0048319 name: axial mesoderm morphogenesis namespace: biological_process def: "The process in which the anatomical structures of the axial mesoderm are generated and organized." [GOC:go_curators] is_a: GO:0048332 ! mesoderm morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0003068 ! axial mesoderm relationship: part_of GO:0048318 ! axial mesoderm development relationship: results_in_morphogenesis_of UBERON:0003068 ! axial mesoderm [Term] id: GO:0048320 name: axial mesoderm formation namespace: biological_process def: "The process that gives rise to the axial mesoderm. This process pertains to the initial formation of the structure from unspecified parts." [GOC:dgh] is_a: GO:0001707 ! mesoderm formation intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: results_in_formation_of UBERON:0003068 ! axial mesoderm relationship: part_of GO:0048319 ! axial mesoderm morphogenesis relationship: results_in_formation_of UBERON:0003068 ! axial mesoderm [Term] id: GO:0048332 name: mesoderm morphogenesis namespace: biological_process def: "The process in which the anatomical structures of the mesoderm are generated and organized." [GOC:go_curators] is_a: GO:0048729 ! tissue morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0000926 ! mesoderm relationship: part_of GO:0007498 ! mesoderm development relationship: results_in_morphogenesis_of UBERON:0000926 ! mesoderm [Term] id: GO:0048333 name: mesodermal cell differentiation namespace: biological_process def: "The process in which a relatively unspecialized cell acquires the specialized features of a mesoderm cell." [GOC:dgh] synonym: "mesoderm cell differentiation" EXACT [] is_a: GO:0030154 ! cell differentiation intersection_of: GO:0030154 ! cell differentiation intersection_of: results_in_acquisition_of_features_of CL:0000222 ! mesodermal cell relationship: part_of GO:0001707 ! mesoderm formation relationship: results_in_acquisition_of_features_of CL:0000222 ! mesodermal cell [Term] id: GO:0048339 name: paraxial mesoderm development namespace: biological_process def: "The process whose specific outcome is the progression of the paraxial mesoderm over time, from its formation to the mature structure. The paraxial mesoderm is the mesoderm located bilaterally adjacent to the notochord and neural tube." [GOC:dgh] is_a: GO:0007498 ! mesoderm development is_a: GO:0060485 ! mesenchyme development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0003077 ! paraxial mesoderm relationship: results_in_development_of UBERON:0003077 ! paraxial mesoderm [Term] id: GO:0048340 name: paraxial mesoderm morphogenesis namespace: biological_process def: "The process in which the anatomical structures of the paraxial mesoderm are generated and organized." [GOC:go_curators] is_a: GO:0048332 ! mesoderm morphogenesis is_a: GO:0072132 ! mesenchyme morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0003077 ! paraxial mesoderm relationship: part_of GO:0048339 ! paraxial mesoderm development relationship: results_in_morphogenesis_of UBERON:0003077 ! paraxial mesoderm [Term] id: GO:0048341 name: paraxial mesoderm formation namespace: biological_process def: "The process that gives rise to the paraxial mesoderm. This process pertains to the initial formation of the structure from unspecified parts." [GOC:dgh] is_a: GO:0001707 ! mesoderm formation intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: results_in_formation_of UBERON:0003077 ! paraxial mesoderm relationship: part_of GO:0048340 ! paraxial mesoderm morphogenesis relationship: results_in_formation_of UBERON:0003077 ! paraxial mesoderm [Term] id: GO:0048368 name: lateral mesoderm development namespace: biological_process def: "The process whose specific outcome is the progression of the lateral mesoderm over time, from its formation to the mature structure." [GOC:go_curators] synonym: "lateral plate mesoderm development" EXACT [] is_a: GO:0007498 ! mesoderm development is_a: GO:0060485 ! mesenchyme development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0003081 ! lateral plate mesoderm relationship: results_in_development_of UBERON:0003081 ! lateral plate mesoderm [Term] id: GO:0048369 name: lateral mesoderm morphogenesis namespace: biological_process def: "The process in which the anatomical structures of the lateral mesoderm are generated and organized." [GOC:go_curators] synonym: "lateral plate mesoderm morphogenesis" EXACT [] is_a: GO:0048332 ! mesoderm morphogenesis is_a: GO:0072132 ! mesenchyme morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0003081 ! lateral plate mesoderm relationship: part_of GO:0048368 ! lateral mesoderm development relationship: results_in_morphogenesis_of UBERON:0003081 ! lateral plate mesoderm [Term] id: GO:0048370 name: lateral mesoderm formation namespace: biological_process def: "The process that gives rise to the lateral mesoderm. This process pertains to the initial formation of the structure from unspecified parts." [GOC:jid] synonym: "lateral plate mesoderm biosynthesis" EXACT [] synonym: "lateral plate mesoderm formation" EXACT [] is_a: GO:0001707 ! mesoderm formation intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0003081 ! lateral plate mesoderm relationship: part_of GO:0048369 ! lateral mesoderm morphogenesis relationship: results_in_morphogenesis_of UBERON:0003081 ! lateral plate mesoderm [Term] id: GO:0048389 name: intermediate mesoderm development namespace: biological_process def: "The process whose specific outcome is the progression of the intermediate mesoderm over time, from its formation to the mature structure. The intermediate mesoderm is located between the lateral mesoderm and the paraxial mesoderm. It develops into the kidney and gonads." [GOC:dgh] is_a: GO:0007498 ! mesoderm development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0003064 ! intermediate mesoderm relationship: results_in_development_of UBERON:0003064 ! intermediate mesoderm [Term] id: GO:0048390 name: intermediate mesoderm morphogenesis namespace: biological_process def: "The process in which the anatomical structures of the intermediate mesoderm are generated and organized." [GOC:go_curators] is_a: GO:0048332 ! mesoderm morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0003064 ! intermediate mesoderm relationship: part_of GO:0048389 ! intermediate mesoderm development relationship: results_in_morphogenesis_of UBERON:0003064 ! intermediate mesoderm [Term] id: GO:0048391 name: intermediate mesoderm formation namespace: biological_process def: "The process that gives rise to the intermediate mesoderm. This process pertains to the initial formation of the structure from unspecified parts." [GOC:dgh] is_a: GO:0001707 ! mesoderm formation intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: results_in_formation_of UBERON:0003064 ! intermediate mesoderm relationship: part_of GO:0048390 ! intermediate mesoderm morphogenesis relationship: results_in_formation_of UBERON:0003064 ! intermediate mesoderm [Term] id: GO:0048468 name: cell development namespace: biological_process def: "The process whose specific outcome is the progression of the cell over time, from its formation to the mature structure. Cell development does not include the steps involved in committing a cell to a specific fate." [GOC:go_curators] subset: goslim_candida synonym: "terminal differentiation" RELATED [GOC:dph, GOC:tb] is_a: GO:0048856 ! anatomical structure development is_a: GO:0048869 ! cellular developmental process intersection_of: GO:0008150 ! biological_process intersection_of: results_in_development_of CL:0000000 ! cell relationship: part_of GO:0030154 ! cell differentiation relationship: results_in_development_of CL:0000000 ! cell [Term] id: GO:0048483 name: autonomic nervous system development namespace: biological_process def: "The process whose specific outcome is the progression of the autonomic nervous system over time, from its formation to the mature structure. The autonomic nervous system is composed of neurons that are not under conscious control, and is comprised of two antagonistic components, the sympathetic and parasympathetic nervous systems. The autonomic nervous system regulates key functions including the activity of the cardiac (heart) muscle, smooth muscles (e.g. of the gut), and glands." [FMA:9905, GOC:jid, GOC:sr] is_a: GO:0048731 ! system development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0002410 ! autonomic nervous system relationship: part_of GO:0007399 ! nervous system development relationship: results_in_development_of UBERON:0002410 ! autonomic nervous system [Term] id: GO:0048485 name: sympathetic nervous system development namespace: biological_process def: "The process whose specific outcome is the progression of the sympathetic nervous system over time, from its formation to the mature structure. The sympathetic nervous system is one of the two divisions of the vertebrate autonomic nervous system (the other being the parasympathetic nervous system). The sympathetic preganglionic neurons have their cell bodies in the thoracic and lumbar regions of the spinal cord and connect to the paravertebral chain of sympathetic ganglia. Innervate heart and blood vessels, sweat glands, viscera and the adrenal medulla. Most sympathetic neurons, but not all, use noradrenaline as a post-ganglionic neurotransmitter." [FMA:9906, GOC:jid, GOC:sr] is_a: GO:0048731 ! system development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0000013 ! sympathetic nervous system relationship: part_of GO:0048483 ! autonomic nervous system development relationship: results_in_development_of UBERON:0000013 ! sympathetic nervous system [Term] id: GO:0048505 name: regulation of timing of cell differentiation namespace: biological_process def: "The process controlling the activation and/or rate at which relatively unspecialized cells acquire specialized features. Any process that modulates the rate, frequency or extent of the XXX at a consistent predetermined time point during its development." [GOC:bf, GOC:dph, GOC:jid, GOC:tb] synonym: "timing of cell differentiation" RELATED [] is_a: GO:0040034 ! regulation of development, heterochronic is_a: GO:0045595 ! regulation of cell differentiation [Term] id: GO:0048513 name: animal organ development namespace: biological_process def: "Development of a tissue or tissues that work together to perform a specific function or functions. Development pertains to the process whose specific outcome is the progression of a structure over time, from its formation to the mature structure. Organs are commonly observed as visibly distinct structures, but may also exist as loosely associated clusters of cells that work together to perform a specific function or functions." [GOC:dph, GOC:jid] synonym: "development of an organ" EXACT [] synonym: "organogenesis" EXACT [] xref: Wikipedia:Organogenesis is_a: GO:0048856 ! anatomical structure development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0000062 ! organ relationship: part_of GO:0048731 ! system development relationship: results_in_development_of UBERON:0000062 ! organ [Term] id: GO:0048514 name: blood vessel morphogenesis namespace: biological_process def: "The process in which the anatomical structures of blood vessels are generated and organized. The blood vessel is the vasculature carrying blood." [GOC:jid] is_a: GO:0035239 ! tube morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0001981 ! blood vessel relationship: part_of GO:0001568 ! blood vessel development relationship: results_in_morphogenesis_of UBERON:0001981 ! blood vessel [Term] id: GO:0048518 name: positive regulation of biological process namespace: biological_process alt_id: GO:0043119 def: "Any process that activates or increases the frequency, rate or extent of a biological process. Biological processes are regulated by many means; examples include the control of gene expression, protein modification or interaction with a protein or substrate molecule." [GOC:jid] subset: gocheck_do_not_annotate synonym: "activation of biological process" NARROW [] synonym: "positive regulation of physiological process" EXACT [] synonym: "stimulation of biological process" NARROW [] synonym: "up regulation of biological process" EXACT [] synonym: "up-regulation of biological process" EXACT [] synonym: "upregulation of biological process" EXACT [] is_a: GO:0050789 ! regulation of biological process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0008150 ! biological_process relationship: positively_regulates GO:0008150 ! biological_process [Term] id: GO:0048519 name: negative regulation of biological process namespace: biological_process alt_id: GO:0043118 def: "Any process that stops, prevents, or reduces the frequency, rate or extent of a biological process. Biological processes are regulated by many means; examples include the control of gene expression, protein modification or interaction with a protein or substrate molecule." [GOC:jid] subset: gocheck_do_not_annotate synonym: "down regulation of biological process" EXACT [] synonym: "down-regulation of biological process" EXACT [] synonym: "downregulation of biological process" EXACT [] synonym: "inhibition of biological process" NARROW [] synonym: "negative regulation of physiological process" EXACT [] is_a: GO:0050789 ! regulation of biological process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0008150 ! biological_process relationship: negatively_regulates GO:0008150 ! biological_process [Term] id: GO:0048520 name: positive regulation of behavior is_a: GO:0048584 ! positive regulation of response to stimulus is_a: GO:0050795 ! regulation of behavior intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0007610 ! behavior relationship: positively_regulates GO:0007610 ! behavior [Term] id: GO:0048521 name: negative regulation of behavior is_a: GO:0048585 ! negative regulation of response to stimulus is_a: GO:0050795 ! regulation of behavior intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0007610 ! behavior relationship: negatively_regulates GO:0007610 ! behavior [Term] id: GO:0048522 name: positive regulation of cellular process namespace: biological_process alt_id: GO:0051242 def: "Any process that activates or increases the frequency, rate or extent of a cellular process, any of those that are carried out at the cellular level, but are not necessarily restricted to a single cell. For example, cell communication occurs among more than one cell, but occurs at the cellular level." [GOC:jid] subset: gocheck_do_not_annotate synonym: "activation of cellular process" NARROW [] synonym: "positive regulation of cellular physiological process" EXACT [] synonym: "stimulation of cellular process" NARROW [] synonym: "up regulation of cellular process" EXACT [] synonym: "up-regulation of cellular process" EXACT [] synonym: "upregulation of cellular process" EXACT [] is_a: GO:0048518 ! positive regulation of biological process is_a: GO:0050794 ! regulation of cellular process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0009987 ! cellular process relationship: positively_regulates GO:0009987 ! cellular process [Term] id: GO:0048523 name: negative regulation of cellular process namespace: biological_process alt_id: GO:0051243 def: "Any process that stops, prevents, or reduces the frequency, rate or extent of a cellular process, any of those that are carried out at the cellular level, but are not necessarily restricted to a single cell. For example, cell communication occurs among more than one cell, but occurs at the cellular level." [GOC:jid] subset: gocheck_do_not_annotate synonym: "down regulation of cellular process" EXACT [] synonym: "down-regulation of cellular process" EXACT [] synonym: "downregulation of cellular process" EXACT [] synonym: "inhibition of cellular process" NARROW [] synonym: "negative regulation of cellular physiological process" EXACT [] is_a: GO:0048519 ! negative regulation of biological process is_a: GO:0050794 ! regulation of cellular process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0009987 ! cellular process relationship: negatively_regulates GO:0009987 ! cellular process [Term] id: GO:0048534 name: hematopoietic or lymphoid organ development namespace: biological_process def: "The process whose specific outcome is the progression of any organ involved in hematopoiesis (also known as hemopoiesis) or lymphoid cell activation over time, from its formation to the mature structure. Such development includes differentiation of resident cell types (stromal cells) and of migratory cell types dependent on the unique microenvironment afforded by the organ for their proper differentiation." [GOC:add, GOC:rl, ISBN:0781735149] synonym: "haematopoietic or lymphoid organ development" EXACT [] synonym: "haemopoietic or lymphoid organ development" EXACT [] synonym: "hemopoietic or lymphoid organ development" EXACT [] is_a: GO:0048513 ! animal organ development relationship: part_of GO:0002520 ! immune system development [Term] id: GO:0048539 name: bone marrow development namespace: biological_process def: "The process whose specific outcome is the progression of the bone marrow over time, from its formation to the mature structure." [GOC:add, ISBN:0781735149] is_a: GO:0009888 ! tissue development is_a: GO:0048534 ! hematopoietic or lymphoid organ development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0002371 ! bone marrow relationship: part_of GO:0060348 ! bone development relationship: results_in_development_of UBERON:0002371 ! bone marrow [Term] id: GO:0048545 name: response to steroid hormone namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a steroid hormone stimulus." [GOC:go_curators] synonym: "response to steroid hormone stimulus" EXACT [GOC:dos] is_a: GO:0009725 ! response to hormone is_a: GO:0014070 ! response to organic cyclic compound is_a: GO:0033993 ! response to lipid intersection_of: GO:0050896 ! response to stimulus intersection_of: has_input CHEBI:26764 ! steroid hormone relationship: has_input CHEBI:26764 ! steroid hormone [Term] id: GO:0048546 name: digestive tract morphogenesis namespace: biological_process alt_id: GO:0048547 def: "The process in which the anatomical structures of the digestive tract are generated and organized. The digestive tract is the anatomical structure through which food passes and is processed." [GOC:dph, GOC:go_curators, PMID:12618131] synonym: "alimentary canal morphogenesis" EXACT [] synonym: "digestive tube morphogenesis" EXACT [] synonym: "gastrointestinal tract morphogenesis" EXACT [] synonym: "gut morphogenesis" BROAD [GOC:dph] synonym: "intestinal morphogenesis" NARROW [] is_a: GO:0035239 ! tube morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0001555 ! digestive tract relationship: part_of GO:0048565 ! digestive tract development relationship: results_in_morphogenesis_of UBERON:0001555 ! digestive tract [Term] id: GO:0048562 name: embryonic organ morphogenesis namespace: biological_process def: "Morphogenesis, during the embryonic phase, of a tissue or tissues that work together to perform a specific function or functions. Morphogenesis is the process in which anatomical structures are generated and organized. Organs are commonly observed as visibly distinct structures, but may also exist as loosely associated clusters of cells that work together to perform a specific function or functions." [GOC:jid] is_a: GO:0009887 ! animal organ morphogenesis is_a: GO:0048598 ! embryonic morphogenesis relationship: part_of GO:0048568 ! embryonic organ development [Term] id: GO:0048565 name: digestive tract development namespace: biological_process def: "The process whose specific outcome is the progression of the digestive tract over time, from its formation to the mature structure. The digestive tract is the anatomical structure through which food passes and is processed." [GOC:go_curators] synonym: "gut development" BROAD [GOC:dph] synonym: "intestinal development" NARROW [] synonym: "intestine development" NARROW [] is_a: GO:0035295 ! tube development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0001555 ! digestive tract relationship: part_of GO:0055123 ! digestive system development relationship: results_in_development_of UBERON:0001555 ! digestive tract [Term] id: GO:0048568 name: embryonic organ development namespace: biological_process def: "Development, taking place during the embryonic phase, of a tissue or tissues that work together to perform a specific function or functions. Development pertains to the process whose specific outcome is the progression of a structure over time, from its formation to the mature structure. Organs are commonly observed as visibly distinct structures, but may also exist as loosely associated clusters of cells that work together to perform a specific function or functions." [GOC:jid] synonym: "embryonic organogenesis" EXACT [] is_a: GO:0048513 ! animal organ development intersection_of: GO:0048856 ! anatomical structure development intersection_of: part_of GO:0009790 ! embryo development intersection_of: results_in_development_of UBERON:0000062 ! organ relationship: part_of GO:0009790 ! embryo development [Term] id: GO:0048570 name: notochord morphogenesis namespace: biological_process def: "The process in which the anatomical structures of the notochord are generated and organized. The notochord is a mesoderm-derived structure located ventral of the developing nerve cord. In vertebrates, the notochord serves as a core around which other mesodermal cells form the vertebrae. In the most primitive chordates, which lack vertebrae, the notochord persists as a substitute for a vertebral column." [GOC:jid] is_a: GO:0048562 ! embryonic organ morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0002328 ! notochord relationship: part_of GO:0030903 ! notochord development relationship: results_in_morphogenesis_of UBERON:0002328 ! notochord [Term] id: GO:0048580 name: regulation of post-embryonic development namespace: biological_process def: "Any process that modulates the frequency, rate or extent of post-embryonic development. Post-embryonic development is defined as the process whose specific outcome is the progression of the organism over time, from the completion of embryonic development to the mature structure." [GOC:jid] is_a: GO:2000026 ! regulation of multicellular organismal development intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0009791 ! post-embryonic development relationship: regulates GO:0009791 ! post-embryonic development [Term] id: GO:0048581 name: negative regulation of post-embryonic development namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of post-embryonic development. Post-embryonic development is defined as the process whose specific outcome is the progression of the organism over time, from the completion of embryonic development to the mature structure." [GOC:jid] synonym: "down regulation of post-embryonic development" EXACT [] synonym: "down-regulation of post-embryonic development" EXACT [] synonym: "downregulation of post-embryonic development" EXACT [] synonym: "inhibition of post-embryonic development" NARROW [] is_a: GO:0048580 ! regulation of post-embryonic development is_a: GO:0051093 ! negative regulation of developmental process is_a: GO:0051241 ! negative regulation of multicellular organismal process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0009791 ! post-embryonic development relationship: negatively_regulates GO:0009791 ! post-embryonic development [Term] id: GO:0048582 name: positive regulation of post-embryonic development namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of post-embryonic development. Post-embryonic development is defined as the process whose specific outcome is the progression of the organism over time, from the completion of embryonic development to the mature structure." [GOC:jid] synonym: "activation of post-embryonic development" NARROW [] synonym: "stimulation of post-embryonic development" NARROW [] synonym: "up regulation of post-embryonic development" EXACT [] synonym: "up-regulation of post-embryonic development" EXACT [] synonym: "upregulation of post-embryonic development" EXACT [] is_a: GO:0048580 ! regulation of post-embryonic development is_a: GO:0051094 ! positive regulation of developmental process is_a: GO:0051240 ! positive regulation of multicellular organismal process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0009791 ! post-embryonic development relationship: positively_regulates GO:0009791 ! post-embryonic development [Term] id: GO:0048583 name: regulation of response to stimulus namespace: biological_process def: "Any process that modulates the frequency, rate or extent of a response to a stimulus. Response to stimulus is a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus." [GOC:jid] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. subset: gocheck_do_not_manually_annotate is_a: GO:0050789 ! regulation of biological process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0050896 ! response to stimulus relationship: regulates GO:0050896 ! response to stimulus [Term] id: GO:0048584 name: positive regulation of response to stimulus namespace: biological_process def: "Any process that activates, maintains or increases the rate of a response to a stimulus. Response to stimulus is a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus." [GOC:jid] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. subset: gocheck_do_not_manually_annotate synonym: "activation of response to stimulus" NARROW [] synonym: "stimulation of response to stimulus" NARROW [] synonym: "up regulation of response to stimulus" EXACT [] synonym: "up-regulation of response to stimulus" EXACT [] synonym: "upregulation of response to stimulus" EXACT [] is_a: GO:0048518 ! positive regulation of biological process is_a: GO:0048583 ! regulation of response to stimulus intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0050896 ! response to stimulus relationship: positively_regulates GO:0050896 ! response to stimulus [Term] id: GO:0048585 name: negative regulation of response to stimulus namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of a response to a stimulus. Response to stimulus is a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus." [GOC:jid] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. subset: gocheck_do_not_manually_annotate synonym: "down regulation of response to stimulus" EXACT [] synonym: "down-regulation of response to stimulus" EXACT [] synonym: "downregulation of response to stimulus" EXACT [] synonym: "inhibition of response to stimulus" NARROW [] is_a: GO:0048519 ! negative regulation of biological process is_a: GO:0048583 ! regulation of response to stimulus intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0050896 ! response to stimulus relationship: negatively_regulates GO:0050896 ! response to stimulus [Term] id: GO:0048588 name: developmental cell growth namespace: biological_process def: "The growth of a cell, where growth contributes to the progression of the cell over time from one condition to another." [GOC:go_curators, GOC:isa_complete] synonym: "developmental growth of a unicellular organism" EXACT [] is_a: GO:0016049 ! cell growth is_a: GO:0048589 ! developmental growth relationship: part_of GO:0048468 ! cell development [Term] id: GO:0048589 name: developmental growth namespace: biological_process def: "The increase in size or mass of an entire organism, a part of an organism or a cell, where the increase in size or mass has the specific outcome of the progression of the organism over time from one condition to another." [GOC:go_curators] is_a: GO:0032502 ! developmental process is_a: GO:0040007 ! growth [Term] id: GO:0048592 name: eye morphogenesis namespace: biological_process alt_id: GO:0048748 def: "The process in which the anatomical structures of the eye are generated and organized." [GOC:jid, GOC:mtg_sensu] is_a: GO:0090596 ! sensory organ morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0000970 ! eye relationship: part_of GO:0001654 ! eye development relationship: results_in_morphogenesis_of UBERON:0000970 ! eye [Term] id: GO:0048593 name: camera-type eye morphogenesis namespace: biological_process alt_id: GO:0048594 alt_id: GO:0048595 def: "The process in which the anatomical structures of the eye are generated and organized. The camera-type eye is an organ of sight that receives light through an aperture and focuses it through a lens, projecting it on a photoreceptor field." [GOC:jid, GOC:mtg_sensu] synonym: "camera-style eye morphogenesis" EXACT [GOC:dph] is_a: GO:0048592 ! eye morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0000019 ! camera-type eye relationship: part_of GO:0043010 ! camera-type eye development relationship: results_in_morphogenesis_of UBERON:0000019 ! camera-type eye [Term] id: GO:0048596 name: embryonic camera-type eye morphogenesis namespace: biological_process def: "The process in which the anatomical structures of the eye are generated and organized during embryonic development." [GOC:jid, GOC:mtg_sensu] synonym: "embryonic eye morphogenesis" BROAD [] is_a: GO:0048048 ! embryonic eye morphogenesis relationship: part_of GO:0031076 ! embryonic camera-type eye development relationship: part_of GO:0048593 ! camera-type eye morphogenesis [Term] id: GO:0048598 name: embryonic morphogenesis namespace: biological_process alt_id: GO:0048828 def: "The process in which anatomical structures are generated and organized during the embryonic phase. The embryonic phase begins with zygote formation. The end of the embryonic phase is organism-specific. For example, it would be at birth for mammals, larval hatching for insects and seed dormancy in plants." [GOC:jid, GOC:mtg_sensu] synonym: "embryonic anatomical structure morphogenesis" EXACT [GOC:dph, GOC:tb] is_a: GO:0009653 ! anatomical structure morphogenesis relationship: part_of GO:0009790 ! embryo development [Term] id: GO:0048608 name: reproductive structure development namespace: biological_process def: "The reproductive developmental process whose specific outcome is the progression of somatic structures that will be used in the process of creating new individuals from one or more parents, from their formation to the mature structures." [GOC:dph, GOC:isa_complete, GOC:jid] is_a: GO:0003006 ! developmental process involved in reproduction is_a: GO:0048856 ! anatomical structure development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0005156 ! reproductive structure relationship: part_of GO:0061458 ! reproductive system development relationship: results_in_development_of UBERON:0005156 ! reproductive structure [Term] id: GO:0048609 name: multicellular organismal reproductive process namespace: biological_process def: "The process, occurring above the cellular level, that is pertinent to the reproductive function of a multicellular organism. This includes the integrated processes at the level of tissues and organs." [GOC:dph, GOC:jid, GOC:tb] synonym: "organismal reproductive process" BROAD [] synonym: "reproductive process in a multicellular organism" EXACT [] is_a: GO:0022414 ! reproductive process relationship: part_of GO:0032504 ! multicellular organism reproduction [Term] id: GO:0048627 name: myoblast development namespace: biological_process def: "The process whose specific outcome is the progression of the myoblast over time, from its formation to the mature structure. A myoblast is a mononucleate cell type that, by fusion with other myoblasts, gives rise to the myotubes that eventually develop into skeletal muscle fibers." [CL:0000056, GOC:dph, GOC:mtg_muscle] is_a: GO:0048468 ! cell development intersection_of: GO:0032502 ! developmental process intersection_of: results_in_development_of CL:0000056 ! myoblast relationship: part_of GO:0045445 ! myoblast differentiation relationship: results_in_development_of CL:0000056 ! myoblast [Term] id: GO:0048630 name: skeletal muscle tissue growth namespace: biological_process def: "The increase in size or mass of a skeletal muscle. This may be due to a change in the fiber number or size." [GOC:lm, PMID:15726494, PMID:15907921] is_a: GO:0048589 ! developmental growth intersection_of: GO:0048589 ! developmental growth intersection_of: results_in_growth_of UBERON:0001134 ! skeletal muscle tissue relationship: part_of GO:0007519 ! skeletal muscle tissue development relationship: results_in_growth_of UBERON:0001134 ! skeletal muscle tissue [Term] id: GO:0048631 name: regulation of skeletal muscle tissue growth namespace: biological_process def: "Any process that modulates the frequency, rate or extent of skeletal muscle growth." [GOC:lm, PMID:15726494, PMID:15907921] is_a: GO:0048638 ! regulation of developmental growth intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0048630 ! skeletal muscle tissue growth relationship: regulates GO:0048630 ! skeletal muscle tissue growth [Term] id: GO:0048632 name: negative regulation of skeletal muscle tissue growth namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of skeletal muscle growth." [GOC:lm, PMID:15726494, PMID:15907921] synonym: "down regulation of skeletal muscle growth" EXACT [] synonym: "down-regulation of skeletal muscle growth" EXACT [] synonym: "downregulation of skeletal muscle growth" EXACT [] synonym: "inhibition of skeletal muscle growth" NARROW [] is_a: GO:0048631 ! regulation of skeletal muscle tissue growth is_a: GO:0048640 ! negative regulation of developmental growth intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0048630 ! skeletal muscle tissue growth relationship: negatively_regulates GO:0048630 ! skeletal muscle tissue growth [Term] id: GO:0048633 name: positive regulation of skeletal muscle tissue growth namespace: biological_process def: "Any process that activates, maintains or increases the rate of skeletal muscle growth." [GOC:lm, PMID:15726494, PMID:15907921] synonym: "activation of skeletal muscle growth" NARROW [] synonym: "stimulation of skeletal muscle growth" NARROW [] synonym: "up regulation of skeletal muscle growth" EXACT [] synonym: "up-regulation of skeletal muscle growth" EXACT [] synonym: "upregulation of skeletal muscle growth" EXACT [] is_a: GO:0048631 ! regulation of skeletal muscle tissue growth is_a: GO:0048639 ! positive regulation of developmental growth is_a: GO:0048643 ! positive regulation of skeletal muscle tissue development intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0048630 ! skeletal muscle tissue growth relationship: positively_regulates GO:0048630 ! skeletal muscle tissue growth [Term] id: GO:0048634 name: regulation of muscle organ development namespace: biological_process def: "Any process that modulates the frequency, rate or extent of muscle development." [GOC:go_curators] is_a: GO:0050793 ! regulation of developmental process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0007517 ! muscle organ development relationship: regulates GO:0007517 ! muscle organ development [Term] id: GO:0048635 name: negative regulation of muscle organ development namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of muscle development." [GOC:go_curators] synonym: "down regulation of muscle development" EXACT [] synonym: "down-regulation of muscle development" EXACT [] synonym: "downregulation of muscle development" EXACT [] synonym: "inhibition of muscle development" NARROW [] is_a: GO:0048634 ! regulation of muscle organ development is_a: GO:0051093 ! negative regulation of developmental process is_a: GO:0051241 ! negative regulation of multicellular organismal process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0007517 ! muscle organ development relationship: negatively_regulates GO:0007517 ! muscle organ development [Term] id: GO:0048636 name: positive regulation of muscle organ development namespace: biological_process def: "Any process that activates, maintains or increases the rate of muscle development." [GOC:go_curators] synonym: "activation of muscle development" NARROW [] synonym: "stimulation of muscle development" NARROW [] synonym: "up regulation of muscle development" EXACT [] synonym: "up-regulation of muscle development" EXACT [] synonym: "upregulation of muscle development" EXACT [] is_a: GO:0048634 ! regulation of muscle organ development is_a: GO:0051094 ! positive regulation of developmental process is_a: GO:0051240 ! positive regulation of multicellular organismal process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0007517 ! muscle organ development relationship: positively_regulates GO:0007517 ! muscle organ development [Term] id: GO:0048638 name: regulation of developmental growth namespace: biological_process def: "Any process that modulates the frequency, rate or extent of developmental growth." [GOC:go_curators] is_a: GO:0040008 ! regulation of growth is_a: GO:0050793 ! regulation of developmental process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0048589 ! developmental growth relationship: regulates GO:0048589 ! developmental growth [Term] id: GO:0048639 name: positive regulation of developmental growth namespace: biological_process def: "Any process that activates, maintains or increases the rate of developmental growth." [GOC:go_curators] synonym: "activation of developmental growth" NARROW [] synonym: "stimulation of developmental growth" NARROW [] synonym: "up regulation of developmental growth" EXACT [] synonym: "up-regulation of developmental growth" EXACT [] synonym: "upregulation of developmental growth" EXACT [] is_a: GO:0045927 ! positive regulation of growth is_a: GO:0048638 ! regulation of developmental growth is_a: GO:0051094 ! positive regulation of developmental process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0048589 ! developmental growth relationship: positively_regulates GO:0048589 ! developmental growth [Term] id: GO:0048640 name: negative regulation of developmental growth namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of developmental growth." [GOC:go_curators] synonym: "down regulation of developmental growth" EXACT [] synonym: "down-regulation of developmental growth" EXACT [] synonym: "downregulation of developmental growth" EXACT [] synonym: "inhibition of developmental growth" NARROW [] is_a: GO:0045926 ! negative regulation of growth is_a: GO:0048638 ! regulation of developmental growth is_a: GO:0051093 ! negative regulation of developmental process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0048589 ! developmental growth relationship: negatively_regulates GO:0048589 ! developmental growth [Term] id: GO:0048641 name: regulation of skeletal muscle tissue development namespace: biological_process def: "Any process that modulates the frequency, rate or extent of skeletal muscle tissue development." [GOC:go_curators] is_a: GO:0016202 ! regulation of striated muscle tissue development intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0007519 ! skeletal muscle tissue development relationship: regulates GO:0007519 ! skeletal muscle tissue development [Term] id: GO:0048642 name: negative regulation of skeletal muscle tissue development namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of skeletal muscle tissue development." [GOC:go_curators] synonym: "down regulation of skeletal muscle development" EXACT [] synonym: "down-regulation of skeletal muscle development" EXACT [] synonym: "downregulation of skeletal muscle development" EXACT [] synonym: "inhibition of skeletal muscle development" NARROW [] is_a: GO:0045843 ! negative regulation of striated muscle tissue development is_a: GO:0048641 ! regulation of skeletal muscle tissue development intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0007519 ! skeletal muscle tissue development relationship: negatively_regulates GO:0007519 ! skeletal muscle tissue development [Term] id: GO:0048643 name: positive regulation of skeletal muscle tissue development namespace: biological_process def: "Any process that activates, maintains or increases the rate of skeletal muscle tissue development." [GOC:go_curators] synonym: "activation of skeletal muscle development" NARROW [] synonym: "stimulation of skeletal muscle development" NARROW [] synonym: "up regulation of skeletal muscle development" EXACT [] synonym: "up-regulation of skeletal muscle development" EXACT [] synonym: "upregulation of skeletal muscle development" EXACT [] is_a: GO:0045844 ! positive regulation of striated muscle tissue development is_a: GO:0048641 ! regulation of skeletal muscle tissue development intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0007519 ! skeletal muscle tissue development relationship: positively_regulates GO:0007519 ! skeletal muscle tissue development [Term] id: GO:0048644 name: muscle organ morphogenesis namespace: biological_process def: "The process in which the anatomical structures of muscle are generated and organized." [GOC:jid] is_a: GO:0009887 ! animal organ morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0001630 ! muscle organ relationship: part_of GO:0007517 ! muscle organ development relationship: results_in_morphogenesis_of UBERON:0001630 ! muscle organ [Term] id: GO:0048645 name: animal organ formation namespace: biological_process def: "The process pertaining to the initial formation of an animal organ from unspecified parts. The process begins with the specific processes that contribute to the appearance of the discrete structure, such as inductive events, and ends when the structural rudiment of the organ is recognizable, such as a condensation of mesenchymal cells into the organ rudiment. Organs are a natural part or structure in an animal or a plant, capable of performing some special action (termed its function), which is essential to the life or well-being of the whole. The heart and lungs are organs of animals, and the petal and leaf are organs of plants. In animals the organs are generally made up of several tissues, one of which usually predominates, and determines the principal function of the organ." [GOC:dph, GOC:jid] synonym: "animal organ primordium initiation" NARROW [] synonym: "initiation of an animal organ primordium" NARROW [] is_a: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: results_in_formation_of UBERON:0003103 ! compound organ relationship: part_of GO:0009887 ! animal organ morphogenesis relationship: results_in_formation_of UBERON:0003103 ! compound organ [Term] id: GO:0048646 name: anatomical structure formation involved in morphogenesis namespace: biological_process def: "The developmental process pertaining to the initial formation of an anatomical structure from unspecified parts. This process begins with the specific processes that contribute to the appearance of the discrete structure and ends when the structural rudiment is recognizable. An anatomical structure is any biological entity that occupies space and is distinguished from its surroundings. Anatomical structures can be macroscopic such as a carpel, or microscopic such as an acrosome." [GOC:dph, GOC:jid, GOC:tb] comment: Note that, for example, the formation of a pseudopod in an amoeba would not be considered formation involved in morphogenesis because it would not be thought of as the formation of an anatomical structure that was part of the shaping of the amoeba during its development. The formation of an axon from a neuron would be considered the formation of an anatomical structure involved in morphogenesis because it contributes to the creation of the form of the neuron in a developmental sense. subset: goslim_chembl synonym: "formation of an anatomical structure involved in morphogenesis" EXACT [GOC:dph, GOC:tb] is_a: GO:0032502 ! developmental process relationship: part_of GO:0009653 ! anatomical structure morphogenesis [Term] id: GO:0048659 name: smooth muscle cell proliferation namespace: biological_process def: "The multiplication or reproduction of smooth muscle cells, resulting in the expansion of a cell population." [CL:0000192, GOC:ebc, PMID:1840698] synonym: "SMC proliferation" EXACT [] is_a: GO:0033002 ! muscle cell proliferation intersection_of: GO:0008283 ! cell population proliferation intersection_of: acts_on_population_of CL:0000192 ! smooth muscle cell relationship: acts_on_population_of CL:0000192 ! smooth muscle cell [Term] id: GO:0048660 name: regulation of smooth muscle cell proliferation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of smooth muscle cell proliferation." [CL:0000192, GOC:ebc] synonym: "regulation of SMC proliferation" EXACT [] is_a: GO:0042127 ! regulation of cell population proliferation intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0048659 ! smooth muscle cell proliferation relationship: regulates GO:0048659 ! smooth muscle cell proliferation [Term] id: GO:0048661 name: positive regulation of smooth muscle cell proliferation namespace: biological_process def: "Any process that activates or increases the rate or extent of smooth muscle cell proliferation." [CL:0000192, GOC:ebc] synonym: "activation of smooth muscle cell proliferation" NARROW [] synonym: "positive regulation of SMC proliferation" EXACT [] synonym: "stimulation of smooth muscle cell proliferation" NARROW [] synonym: "up regulation of smooth muscle cell proliferation" EXACT [] synonym: "up-regulation of smooth muscle cell proliferation" EXACT [] synonym: "upregulation of smooth muscle cell proliferation" EXACT [] is_a: GO:0008284 ! positive regulation of cell population proliferation is_a: GO:0048660 ! regulation of smooth muscle cell proliferation intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0048659 ! smooth muscle cell proliferation relationship: positively_regulates GO:0048659 ! smooth muscle cell proliferation [Term] id: GO:0048662 name: negative regulation of smooth muscle cell proliferation namespace: biological_process def: "Any process that stops, prevents or reduces the rate or extent of smooth muscle cell proliferation." [CL:0000192, GOC:ebc] synonym: "down regulation of smooth muscle cell proliferation" EXACT [] synonym: "down-regulation of smooth muscle cell proliferation" EXACT [] synonym: "downregulation of smooth muscle cell proliferation" EXACT [] synonym: "inhibition of smooth muscle cell proliferation" NARROW [] synonym: "negative regulation of SMC proliferation" EXACT [] is_a: GO:0008285 ! negative regulation of cell population proliferation is_a: GO:0048660 ! regulation of smooth muscle cell proliferation intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0048659 ! smooth muscle cell proliferation relationship: negatively_regulates GO:0048659 ! smooth muscle cell proliferation [Term] id: GO:0048666 name: neuron development namespace: biological_process def: "The process whose specific outcome is the progression of a neuron over time, from initial commitment of the cell to a specific fate, to the fully functional differentiated cell." [GOC:dph] is_a: GO:0048468 ! cell development intersection_of: GO:0032502 ! developmental process intersection_of: results_in_development_of CL:0000540 ! neuron relationship: part_of GO:0030182 ! neuron differentiation relationship: results_in_development_of CL:0000540 ! neuron [Term] id: GO:0048667 name: cell morphogenesis involved in neuron differentiation namespace: biological_process def: "The process in which the structures of a neuron are generated and organized. This process occurs while the initially relatively unspecialized cell is acquiring the specialized features of a neuron." [GOC:dph, GOC:tb] synonym: "neuron morphogenesis involved in differentiation" EXACT [GOC:dph, GOC:tb] is_a: GO:0000904 ! cell morphogenesis involved in differentiation intersection_of: GO:0000902 ! cell morphogenesis intersection_of: part_of GO:0030182 ! neuron differentiation relationship: part_of GO:0048666 ! neuron development [Term] id: GO:0048699 name: generation of neurons namespace: biological_process def: "The process in which nerve cells are generated. This includes the production of neuroblasts and their differentiation into neurons." [GOC:nln] synonym: "neuron generation" EXACT [] is_a: GO:0022008 ! neurogenesis [Term] id: GO:0048705 name: skeletal system morphogenesis namespace: biological_process def: "The process in which the anatomical structures of the skeleton are generated and organized." [GOC:dph, GOC:dsf, GOC:jid, GOC:tb] synonym: "skeletal morphogenesis" EXACT [GOC:dph, GOC:tb] is_a: GO:0009887 ! animal organ morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0001434 ! skeletal system relationship: part_of GO:0001501 ! skeletal system development relationship: results_in_morphogenesis_of UBERON:0001434 ! skeletal system [Term] id: GO:0048729 name: tissue morphogenesis namespace: biological_process def: "The process in which the anatomical structures of a tissue are generated and organized." [GOC:dph, GOC:jid] is_a: GO:0009653 ! anatomical structure morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0000479 ! tissue relationship: part_of GO:0009888 ! tissue development relationship: results_in_morphogenesis_of UBERON:0000479 ! tissue [Term] id: GO:0048730 name: epidermis morphogenesis namespace: biological_process def: "The process in which the anatomical structures of the epidermis are generated and organized. The epidermis is the outer epithelial layer of an animal, it may be a single layer that produces an extracellular material (e.g. the cuticle of arthropods) or a complex stratified squamous epithelium, as in the case of many vertebrate species." [GOC:jid, UBERON:0001003] synonym: "hypodermis morphogenesis" RELATED [GOC:kmv, GOC:rk] is_a: GO:0002009 ! morphogenesis of an epithelium intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0007376 ! outer epithelium relationship: part_of GO:0008544 ! epidermis development relationship: results_in_morphogenesis_of UBERON:0007376 ! outer epithelium [Term] id: GO:0048731 name: system development namespace: biological_process def: "The process whose specific outcome is the progression of an organismal system over time, from its formation to the mature structure. A system is a regularly interacting or interdependent group of organs or tissues that work together to carry out a given biological process." [GOC:dph, GOC:jid] subset: goslim_mouse is_a: GO:0048856 ! anatomical structure development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0000467 ! anatomical system relationship: part_of GO:0007275 ! multicellular organism development relationship: results_in_development_of UBERON:0000467 ! anatomical system [Term] id: GO:0048732 name: gland development namespace: biological_process def: "The process whose specific outcome is the progression of a gland over time, from its formation to the mature structure. A gland is an organ specialised for secretion." [GOC:jid] is_a: GO:0048513 ! animal organ development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0002530 ! gland relationship: results_in_development_of UBERON:0002530 ! gland [Term] id: GO:0048736 name: appendage development namespace: biological_process def: "The process whose specific outcome is the progression of an appendage over time, from its formation to the mature structure. An appendage is an organ or part that is attached to the trunk of an organism, such as a limb or a branch." [GOC:jid, GOC:rc] is_a: GO:0048856 ! anatomical structure development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0000026 ! appendage relationship: part_of GO:0007275 ! multicellular organism development relationship: results_in_development_of UBERON:0000026 ! appendage [Term] id: GO:0048738 name: cardiac muscle tissue development namespace: biological_process def: "The process whose specific outcome is the progression of cardiac muscle over time, from its formation to the mature structure." [GOC:dph, GOC:jid, GOC:lm] synonym: "heart muscle development" EXACT [] is_a: GO:0014706 ! striated muscle tissue development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0001133 ! cardiac muscle tissue relationship: part_of GO:0007507 ! heart development relationship: results_in_development_of UBERON:0001133 ! cardiac muscle tissue [Term] id: GO:0048741 name: skeletal muscle fiber development namespace: biological_process def: "The process whose specific outcome is the progression of the skeletal muscle fiber over time, from its formation to the mature structure. Muscle fibers are formed by the maturation of myotubes. They can be classed as slow, intermediate/fast or fast." [GOC:dph, GOC:ef, GOC:jid, GOC:lm, GOC:mtg_muscle] synonym: "skeletal muscle fibre development" EXACT [] synonym: "skeletal myofiber development" EXACT [] synonym: "skeletal myofibre development" EXACT [] is_a: GO:0014904 ! myotube cell development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of CL:0008002 ! skeletal muscle fiber relationship: part_of GO:0007519 ! skeletal muscle tissue development relationship: results_in_development_of CL:0008002 ! skeletal muscle fiber [Term] id: GO:0048742 name: regulation of skeletal muscle fiber development namespace: biological_process def: "Any process that modulates the frequency, rate or extent of skeletal muscle fiber development. Muscle fibers are formed by the maturation of myotubes. They can be classed as slow, intermediate/fast or fast." [GOC:dph, GOC:jid, GOC:mtg_muscle, GOC:sm] synonym: "regulation of skeletal muscle fibre development" EXACT [] synonym: "regulation of skeletal myofiber development" EXACT [] synonym: "regulation of skeletal myofibre development" EXACT [] is_a: GO:0010830 ! regulation of myotube differentiation is_a: GO:0060284 ! regulation of cell development intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0048741 ! skeletal muscle fiber development relationship: regulates GO:0048741 ! skeletal muscle fiber development [Term] id: GO:0048743 name: positive regulation of skeletal muscle fiber development namespace: biological_process def: "Any process that activates, maintains or increases the rate of skeletal muscle fiber development. Muscle fibers are formed by the maturation of myotubes. They can be classed as slow, intermediate/fast or fast." [GOC:dph, GOC:jid, GOC:lm, GOC:mtg_muscle] synonym: "activation of skeletal muscle fiber development" NARROW [] synonym: "positive regulation of skeletal muscle fibre development" EXACT [] synonym: "positive regulation of skeletal myofiber development" EXACT [] synonym: "positive regulation of skeletal myofibre development" EXACT [] synonym: "stimulation of skeletal muscle fiber development" NARROW [] synonym: "up regulation of skeletal muscle fiber development" EXACT [] synonym: "up-regulation of skeletal muscle fiber development" EXACT [] synonym: "upregulation of skeletal muscle fiber development" EXACT [] is_a: GO:0010720 ! positive regulation of cell development is_a: GO:0048643 ! positive regulation of skeletal muscle tissue development is_a: GO:0048742 ! regulation of skeletal muscle fiber development is_a: GO:0051155 ! positive regulation of striated muscle cell differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0048741 ! skeletal muscle fiber development relationship: positively_regulates GO:0048741 ! skeletal muscle fiber development [Term] id: GO:0048744 name: negative regulation of skeletal muscle fiber development namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of skeletal muscle fiber development. Muscle fibers are formed by the maturation of myotubes. They can be classed as slow, intermediate/fast or fast." [GOC:dph, GOC:jid, GOC:lm, GOC:mtg_muscle] synonym: "down regulation of skeletal muscle fiber development" EXACT [] synonym: "down-regulation of skeletal muscle fiber development" EXACT [] synonym: "downregulation of skeletal muscle fiber development" EXACT [] synonym: "inhibition of skeletal muscle fiber development" NARROW [] synonym: "negative regulation of skeletal muscle fibre development" EXACT [] synonym: "negative regulation of skeletal myofiber development" EXACT [] synonym: "negative regulation of skeletal myofibre development" EXACT [] is_a: GO:0010721 ! negative regulation of cell development is_a: GO:0048742 ! regulation of skeletal muscle fiber development is_a: GO:0051154 ! negative regulation of striated muscle cell differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0048741 ! skeletal muscle fiber development relationship: negatively_regulates GO:0048741 ! skeletal muscle fiber development [Term] id: GO:0048745 name: smooth muscle tissue development namespace: biological_process def: "The process whose specific outcome is the progression of smooth muscle over time, from its formation to the mature structure." [GOC:dph, GOC:jid, GOC:lm] is_a: GO:0060537 ! muscle tissue development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0001135 ! smooth muscle tissue relationship: results_in_development_of UBERON:0001135 ! smooth muscle tissue [Term] id: GO:0048749 name: compound eye development namespace: biological_process alt_id: GO:0007456 def: "The process whose specific outcome is the progression of the compound eye over time, from its formation to the mature structure. The compound eye is an organ of sight that contains multiple repeating units, often arranged hexagonally. Each unit has its own lens and photoreceptor cell(s) and can generate either a single pixelated image or multiple images, per eye." [GOC:jid, GOC:mtg_sensu, Wikipedia:Eye] synonym: "insect-type retina development" EXACT [PMID:11735386] is_a: GO:0001654 ! eye development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0000018 ! compound eye relationship: results_in_development_of UBERON:0000018 ! compound eye [Term] id: GO:0048753 name: pigment granule organization namespace: biological_process def: "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of a pigment granule." [GOC:rc] subset: goslim_pir synonym: "pigment granule organisation" EXACT [] synonym: "pigment granule organization and biogenesis" RELATED [GOC:mah] is_a: GO:0016050 ! vesicle organization intersection_of: GO:0016043 ! cellular component organization intersection_of: results_in_organization_of GO:0048770 ! pigment granule relationship: part_of GO:0033059 ! cellular pigmentation relationship: results_in_organization_of GO:0048770 ! pigment granule [Term] id: GO:0048754 name: branching morphogenesis of an epithelial tube namespace: biological_process def: "The process in which the anatomical structures of branches in an epithelial tube are generated and organized. A tube is a long hollow cylinder." [GOC:dgh, GOC:dph, GOC:jid] synonym: "tubulogenesis" RELATED [GOC:dph, GOC:tb] is_a: GO:0035239 ! tube morphogenesis is_a: GO:0061138 ! morphogenesis of a branching epithelium intersection_of: GO:0001763 ! morphogenesis of a branching structure intersection_of: results_in_morphogenesis_of UBERON:0000025 ! tube relationship: part_of GO:0060562 ! epithelial tube morphogenesis [Term] id: GO:0048755 name: branching morphogenesis of a nerve namespace: biological_process def: "The process in which the anatomical structures of branches in a nerve are generated and organized. This term refers to an anatomical structure (nerve) not a cell (neuron)." [GOC:dgh, GOC:dph, GOC:jid] is_a: GO:0001763 ! morphogenesis of a branching structure intersection_of: GO:0001763 ! morphogenesis of a branching structure intersection_of: results_in_morphogenesis_of UBERON:0001021 ! nerve relationship: part_of GO:0007399 ! nervous system development relationship: results_in_morphogenesis_of UBERON:0001021 ! nerve [Term] id: GO:0048762 name: mesenchymal cell differentiation namespace: biological_process def: "The process in which a relatively unspecialized cell acquires specialized features of a mesenchymal cell. A mesenchymal cell is a loosely associated cell that is part of the connective tissue in an organism. Mesenchymal cells give rise to more mature connective tissue cell types." [GOC:dph, GOC:jid] is_a: GO:0030154 ! cell differentiation intersection_of: GO:0030154 ! cell differentiation intersection_of: results_in_acquisition_of_features_of CL:0008019 ! mesenchymal cell relationship: part_of GO:0060485 ! mesenchyme development relationship: results_in_acquisition_of_features_of CL:0008019 ! mesenchymal cell [Term] id: GO:0048770 name: pigment granule namespace: cellular_component def: "A small, subcellular membrane-bounded vesicle containing pigment and/or pigment precursor molecules. Pigment granule biogenesis is poorly understood, as pigment granules are derived from multiple sources including the endoplasmic reticulum, coated vesicles, lysosomes, and endosomes." [GOC:jid, GOC:mh] is_a: GO:0031410 ! cytoplasmic vesicle [Term] id: GO:0048806 name: genitalia development namespace: biological_process def: "The process whose specific outcome is the progression of the genitalia over time, from its formation to the mature structure." [GOC:jid] synonym: "genital development" EXACT [] is_a: GO:0048513 ! animal organ development is_a: GO:0048608 ! reproductive structure development relationship: part_of GO:0007548 ! sex differentiation [Term] id: GO:0048812 name: neuron projection morphogenesis namespace: biological_process def: "The process in which the anatomical structures of a neuron projection are generated and organized. A neuron projection is any process extending from a neural cell, such as axons or dendrites." [GOC:mah] synonym: "neurite biosynthesis" NARROW [] synonym: "neurite formation" NARROW [] synonym: "neurite growth" NARROW [] synonym: "neurite morphogenesis" RELATED [GOC:dph, GOC:tb] is_a: GO:0120039 ! plasma membrane bounded cell projection morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of GO:0043005 ! neuron projection relationship: part_of GO:0031175 ! neuron projection development relationship: results_in_morphogenesis_of GO:0043005 ! neuron projection [Term] id: GO:0048821 name: erythrocyte development namespace: biological_process def: "The process whose specific outcome is the progression of an erythrocyte over time, from its formation to the mature structure." [GOC:devbiol] synonym: "RBC development" EXACT [CL:0000232] synonym: "red blood cell development" EXACT [CL:0000232] is_a: GO:0061515 ! myeloid cell development intersection_of: GO:0032502 ! developmental process intersection_of: results_in_development_of CL:0000232 ! erythrocyte relationship: part_of GO:0030218 ! erythrocyte differentiation relationship: results_in_development_of CL:0000232 ! erythrocyte [Term] id: GO:0048822 name: enucleate erythrocyte development namespace: biological_process def: "The process aimed at the progression of an enucleate erythrocyte over time, from initial commitment of the cell to a specific fate, to the fully functional differentiated cell." [GOC:devbiol] synonym: "enucleate RBC development" EXACT [CL:0000232] synonym: "enucleate red blood cell development" EXACT [CL:0000232] is_a: GO:0048821 ! erythrocyte development intersection_of: GO:0032502 ! developmental process intersection_of: results_in_development_of CL:0000595 ! enucleate erythrocyte relationship: part_of GO:0043353 ! enucleate erythrocyte differentiation relationship: results_in_development_of CL:0000595 ! enucleate erythrocyte [Term] id: GO:0048823 name: nucleate erythrocyte development namespace: biological_process def: "The process aimed at the progression of a nucleate erythrocyte over time, from initial commitment of the cell to a specific fate, to the fully functional differentiated cell." [GOC:devbiol] synonym: "nucleate RBC development" EXACT [CL:0000232] synonym: "nucleate red blood cell development" EXACT [CL:0000232] is_a: GO:0048821 ! erythrocyte development intersection_of: GO:0032502 ! developmental process intersection_of: results_in_development_of CL:0000562 ! nucleate erythrocyte relationship: part_of GO:0043363 ! nucleate erythrocyte differentiation relationship: results_in_development_of CL:0000562 ! nucleate erythrocyte [Term] id: GO:0048844 name: artery morphogenesis namespace: biological_process def: "The process in which the anatomical structures of arterial blood vessels are generated and organized. Arteries are blood vessels that transport blood from the heart to the body and its organs." [GOC:dsf, PMID:16740480] synonym: "arterial morphogenesis" EXACT [] synonym: "arteriogenesis" EXACT [GOC:mtg_heart] is_a: GO:0048514 ! blood vessel morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0001637 ! artery relationship: part_of GO:0060840 ! artery development relationship: results_in_morphogenesis_of UBERON:0001637 ! artery [Term] id: GO:0048845 name: venous blood vessel morphogenesis namespace: biological_process def: "The process in which the anatomical structures of venous blood vessels are generated and organized. Veins are blood vessels that transport blood from the body and its organs to the heart." [GOC:dsf, PMID:16740480] synonym: "vein morphogenesis" BROAD [] synonym: "venous morphogenesis" EXACT [] is_a: GO:0048514 ! blood vessel morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0001638 ! vein relationship: part_of GO:0060841 ! venous blood vessel development relationship: results_in_morphogenesis_of UBERON:0001638 ! vein [Term] id: GO:0048854 name: brain morphogenesis namespace: biological_process def: "The process in which the anatomical structures of the brain are generated and organized. The brain is one of the two components of the central nervous system and is the center of thought and emotion. It is responsible for the coordination and control of bodily activities and the interpretation of information from the senses (sight, hearing, smell, etc.)." [GOC:dgh, GOC:jid] is_a: GO:0009887 ! animal organ morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0000955 ! brain relationship: part_of GO:0007420 ! brain development relationship: results_in_morphogenesis_of UBERON:0000955 ! brain [Term] id: GO:0048856 name: anatomical structure development namespace: biological_process def: "The biological process whose specific outcome is the progression of an anatomical structure from an initial condition to its mature state. This process begins with the formation of the structure and ends with the mature structure, whatever form that may be including its natural destruction. An anatomical structure is any biological entity that occupies space and is distinguished from its surroundings. Anatomical structures can be macroscopic such as a carpel, or microscopic such as an acrosome." [GO_REF:0000021] subset: goslim_chembl subset: goslim_generic subset: goslim_plant synonym: "development of an anatomical structure" EXACT [] is_a: GO:0032502 ! developmental process [Term] id: GO:0048857 name: neural nucleus development namespace: biological_process def: "The biological process whose specific outcome is the progression of a neural nucleus from its initial condition to its mature state. A neural nucleus is an anatomical structure consisting of a discrete aggregate of neuronal soma." [GO_REF:0000021] is_a: GO:0048856 ! anatomical structure development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0000125 ! neural nucleus relationship: results_in_development_of UBERON:0000125 ! neural nucleus [Term] id: GO:0048858 name: cell projection morphogenesis namespace: biological_process def: "The process in which the anatomical structures of a cell projection are generated and organized." [GO_REF:0000021] is_a: GO:0030030 ! cell projection organization is_a: GO:0032990 ! cell part morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of GO:0042995 ! cell projection relationship: part_of GO:0000902 ! cell morphogenesis relationship: results_in_morphogenesis_of GO:0042995 ! cell projection [Term] id: GO:0048859 name: formation of anatomical boundary namespace: biological_process def: "The process in which the limits of an anatomical structure are generated. An anatomical structure is any biological entity that occupies space and is distinguished from its surroundings. Anatomical structures can be macroscopic such as a carpel, or microscopic such as an acrosome." [GO_REF:0000021] is_a: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: results_in_formation_of UBERON:0000015 ! non-material anatomical boundary relationship: results_in_formation_of UBERON:0000015 ! non-material anatomical boundary [Term] id: GO:0048860 name: glioblast division namespace: biological_process def: "The process resulting in the physical partitioning and separation of a glioblast into daughter cells." [GOC:devbiol] is_a: GO:0051301 ! cell division intersection_of: GO:0051301 ! cell division intersection_of: has_input CL:0000030 ! glioblast relationship: has_input CL:0000030 ! glioblast [Term] id: GO:0048863 name: stem cell differentiation namespace: biological_process def: "The process in which a relatively unspecialized cell acquires specialized features of a stem cell. A stem cell is a cell that retains the ability to divide and proliferate throughout life to provide progenitor cells that can differentiate into specialized cells." [CL:0000034, GOC:isa_complete] xref: Wikipedia:Stem_cell_differentiation is_a: GO:0030154 ! cell differentiation intersection_of: GO:0030154 ! cell differentiation intersection_of: results_in_acquisition_of_features_of CL:0000034 ! stem cell relationship: results_in_acquisition_of_features_of CL:0000034 ! stem cell [Term] id: GO:0048864 name: stem cell development namespace: biological_process def: "The process whose specific outcome is the progression of the stem cell over time, from its formation to the mature structure. Cell development does not include the steps involved in committing a cell to its specific fate." [CL:0000034, GOC:isa_complete] is_a: GO:0048468 ! cell development intersection_of: GO:0032502 ! developmental process intersection_of: results_in_development_of CL:0000034 ! stem cell relationship: part_of GO:0048863 ! stem cell differentiation relationship: results_in_development_of CL:0000034 ! stem cell [Term] id: GO:0048869 name: cellular developmental process namespace: biological_process def: "A biological process whose specific outcome is the progression of a cell over time from an initial condition to a later condition." [GOC:isa_complete] is_a: GO:0009987 ! cellular process is_a: GO:0032502 ! developmental process [Term] id: GO:0048870 name: cell motility namespace: biological_process def: "Any process involved in the controlled self-propelled movement of a cell that results in translocation of the cell from one place to another." [GOC:dgh, GOC:dph, GOC:isa_complete, GOC:mlg] subset: goslim_chembl subset: goslim_drosophila subset: goslim_generic synonym: "cell locomotion" EXACT [] synonym: "cell movement" RELATED [] synonym: "movement of a cell" EXACT [] is_a: GO:0006928 ! movement of cell or subcellular component is_a: GO:0040011 ! locomotion relationship: part_of GO:0051674 ! localization of cell [Term] id: GO:0048871 name: multicellular organismal homeostasis namespace: biological_process def: "Any process involved in the maintenance of an internal steady state at the level of the multicellular organism." [GOC:isa_complete] is_a: GO:0032501 ! multicellular organismal process is_a: GO:0042592 ! homeostatic process [Term] id: GO:0048872 name: homeostasis of number of cells namespace: biological_process def: "Any biological process involved in the maintenance of the steady-state number of cells within a population of cells." [GOC:isa_complete] synonym: "cell population homeostasis" EXACT [] synonym: "homeostasis of cell number" EXACT [GOC:dph] is_a: GO:0042592 ! homeostatic process [Term] id: GO:0048880 name: sensory system development namespace: biological_process def: "The process whose specific outcome is the progression of a sensory system over time from its formation to the mature structure." [GOC:dgh] is_a: GO:0048731 ! system development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0001032 ! sensory system relationship: results_in_development_of UBERON:0001032 ! sensory system [Term] id: GO:0048934 name: peripheral nervous system neuron differentiation namespace: biological_process def: "The process in which a relatively unspecialized cell acquires specialized features of a neuron whose cell body resides in the peripheral nervous system." [GOC:dgh] is_a: GO:0030182 ! neuron differentiation intersection_of: GO:0030154 ! cell differentiation intersection_of: results_in_acquisition_of_features_of CL:2000032 ! peripheral nervous system neuron relationship: part_of GO:0007422 ! peripheral nervous system development relationship: results_in_acquisition_of_features_of CL:2000032 ! peripheral nervous system neuron [Term] id: GO:0048935 name: peripheral nervous system neuron development namespace: biological_process def: "The process whose specific outcome is the progression of a neuron whose cell body is located in the peripheral nervous system, from initial commitment of the cell to a neuronal fate, to the fully functional differentiated neuron." [GOC:dgh] is_a: GO:0048666 ! neuron development intersection_of: GO:0048468 ! cell development intersection_of: results_in_development_of CL:2000032 ! peripheral nervous system neuron relationship: part_of GO:0048934 ! peripheral nervous system neuron differentiation relationship: results_in_development_of CL:2000032 ! peripheral nervous system neuron [Term] id: GO:0050000 name: chromosome localization namespace: biological_process def: "Any process in which a chromosome is transported to, or maintained in, a specific location." [GOC:ai] synonym: "chromosome localisation" EXACT [GOC:mah] synonym: "establishment and maintenance of chromosome localization" EXACT [] synonym: "establishment and maintenance of chromosome position" EXACT [] is_a: GO:0051640 ! organelle localization intersection_of: GO:0051179 ! localization intersection_of: transports_or_maintains_localization_of GO:0005694 ! chromosome relationship: transports_or_maintains_localization_of GO:0005694 ! chromosome [Term] id: GO:0050432 name: catecholamine secretion namespace: biological_process def: "The regulated release of catecholamines by a cell. The catecholamines are a group of physiologically important biogenic amines that possess a catechol (3,4-dihydroxyphenyl) nucleus and are derivatives of 3,4-dihydroxyphenylethylamine." [GOC:ai, GOC:ef] is_a: GO:0032940 ! secretion by cell is_a: GO:0051937 ! catecholamine transport intersection_of: GO:0046903 ! secretion intersection_of: transports_or_maintains_localization_of CHEBI:33567 ! catecholamine [Term] id: GO:0050433 name: regulation of catecholamine secretion namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the regulated release of catecholamines." [GOC:ai] is_a: GO:0051952 ! regulation of amine transport is_a: GO:1903530 ! regulation of secretion by cell intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0050432 ! catecholamine secretion relationship: regulates GO:0050432 ! catecholamine secretion [Term] id: GO:0050657 name: nucleic acid transport namespace: biological_process def: "The directed movement of nucleic acids, single or double-stranded polynucleotides involved in the storage, transmission and transfer of genetic information, into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." [GOC:ai, ISBN:0198506732] is_a: GO:0015931 ! nucleobase-containing compound transport intersection_of: GO:0006810 ! transport intersection_of: transports_or_maintains_localization_of CHEBI:33696 ! nucleic acid relationship: transports_or_maintains_localization_of CHEBI:33696 ! nucleic acid [Term] id: GO:0050658 name: RNA transport namespace: biological_process def: "The directed movement of RNA, ribonucleic acids, into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." [GOC:ai] is_a: GO:0050657 ! nucleic acid transport is_a: GO:0051236 ! establishment of RNA localization intersection_of: GO:0006810 ! transport intersection_of: transports_or_maintains_localization_of CHEBI:33697 ! ribonucleic acid relationship: transports_or_maintains_localization_of CHEBI:33697 ! ribonucleic acid [Term] id: GO:0050673 name: epithelial cell proliferation namespace: biological_process def: "The multiplication or reproduction of epithelial cells, resulting in the expansion of a cell population. Epithelial cells make up the epithelium, the covering of internal and external surfaces of the body, including the lining of vessels and other small cavities. It consists of cells joined by small amounts of cementing substances." [ISBN:0721662544] is_a: GO:0008283 ! cell population proliferation intersection_of: GO:0008283 ! cell population proliferation intersection_of: acts_on_population_of CL:0000066 ! epithelial cell relationship: acts_on_population_of CL:0000066 ! epithelial cell [Term] id: GO:0050678 name: regulation of epithelial cell proliferation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of epithelial cell proliferation." [GOC:ai] is_a: GO:0042127 ! regulation of cell population proliferation intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0050673 ! epithelial cell proliferation relationship: regulates GO:0050673 ! epithelial cell proliferation [Term] id: GO:0050679 name: positive regulation of epithelial cell proliferation namespace: biological_process def: "Any process that activates or increases the rate or extent of epithelial cell proliferation." [GOC:ai] synonym: "activation of epithelial cell proliferation" NARROW [] synonym: "stimulation of epithelial cell proliferation" NARROW [] synonym: "up regulation of epithelial cell proliferation" EXACT [] synonym: "up-regulation of epithelial cell proliferation" EXACT [] synonym: "upregulation of epithelial cell proliferation" EXACT [] is_a: GO:0008284 ! positive regulation of cell population proliferation is_a: GO:0050678 ! regulation of epithelial cell proliferation intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0050673 ! epithelial cell proliferation relationship: positively_regulates GO:0050673 ! epithelial cell proliferation [Term] id: GO:0050680 name: negative regulation of epithelial cell proliferation namespace: biological_process def: "Any process that stops, prevents or reduces the rate or extent of epithelial cell proliferation." [GOC:ai] synonym: "down regulation of epithelial cell proliferation" EXACT [] synonym: "down-regulation of epithelial cell proliferation" EXACT [] synonym: "downregulation of epithelial cell proliferation" EXACT [] synonym: "inhibition of epithelial cell proliferation" NARROW [] is_a: GO:0008285 ! negative regulation of cell population proliferation is_a: GO:0050678 ! regulation of epithelial cell proliferation intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0050673 ! epithelial cell proliferation relationship: negatively_regulates GO:0050673 ! epithelial cell proliferation [Term] id: GO:0050708 name: regulation of protein secretion namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the controlled release of a protein from a cell." [GOC:ai] is_a: GO:0051223 ! regulation of protein transport is_a: GO:1903530 ! regulation of secretion by cell intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0009306 ! protein secretion relationship: regulates GO:0009306 ! protein secretion [Term] id: GO:0050709 name: negative regulation of protein secretion namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of the controlled release of a protein from a cell." [GOC:ai] synonym: "down regulation of protein secretion" EXACT [] synonym: "down-regulation of protein secretion" EXACT [] synonym: "downregulation of protein secretion" EXACT [] synonym: "inhibition of protein secretion" NARROW [] is_a: GO:0050708 ! regulation of protein secretion is_a: GO:0051224 ! negative regulation of protein transport is_a: GO:1903531 ! negative regulation of secretion by cell intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0009306 ! protein secretion relationship: negatively_regulates GO:0009306 ! protein secretion [Term] id: GO:0050714 name: positive regulation of protein secretion namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of the controlled release of a protein from a cell." [GOC:ai] synonym: "activation of protein secretion" NARROW [] synonym: "stimulation of protein secretion" NARROW [] synonym: "up regulation of protein secretion" EXACT [] synonym: "up-regulation of protein secretion" EXACT [] synonym: "upregulation of protein secretion" EXACT [] is_a: GO:0050708 ! regulation of protein secretion is_a: GO:0051222 ! positive regulation of protein transport is_a: GO:1903532 ! positive regulation of secretion by cell intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0009306 ! protein secretion relationship: positively_regulates GO:0009306 ! protein secretion [Term] id: GO:0050767 name: regulation of neurogenesis namespace: biological_process def: "Any process that modulates the frequency, rate or extent of neurogenesis, the generation of cells in the nervous system." [GOC:ai] is_a: GO:0051960 ! regulation of nervous system development is_a: GO:0060284 ! regulation of cell development intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0022008 ! neurogenesis relationship: part_of GO:0048699 ! generation of neurons relationship: regulates GO:0022008 ! neurogenesis [Term] id: GO:0050768 name: negative regulation of neurogenesis namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of neurogenesis, the generation of cells within the nervous system." [GOC:ai] synonym: "down regulation of neurogenesis" EXACT [] synonym: "down-regulation of neurogenesis" EXACT [] synonym: "downregulation of neurogenesis" EXACT [] synonym: "inhibition of neurogenesis" NARROW [] is_a: GO:0010721 ! negative regulation of cell development is_a: GO:0050767 ! regulation of neurogenesis is_a: GO:0051961 ! negative regulation of nervous system development intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0022008 ! neurogenesis relationship: negatively_regulates GO:0022008 ! neurogenesis [Term] id: GO:0050769 name: positive regulation of neurogenesis namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of neurogenesis, the generation of cells within the nervous system." [GOC:ai] synonym: "activation of neurogenesis" NARROW [] synonym: "stimulation of neurogenesis" NARROW [] synonym: "up regulation of neurogenesis" EXACT [] synonym: "up-regulation of neurogenesis" EXACT [] synonym: "upregulation of neurogenesis" EXACT [] is_a: GO:0010720 ! positive regulation of cell development is_a: GO:0050767 ! regulation of neurogenesis is_a: GO:0051962 ! positive regulation of nervous system development intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0022008 ! neurogenesis relationship: positively_regulates GO:0022008 ! neurogenesis [Term] id: GO:0050789 name: regulation of biological process namespace: biological_process alt_id: GO:0050791 def: "Any process that modulates the frequency, rate or extent of a biological process. Biological processes are regulated by many means; examples include the control of gene expression, protein modification or interaction with a protein or substrate molecule." [GOC:ai, GOC:go_curators] subset: gocheck_do_not_annotate subset: goslim_aspergillus subset: goslim_candida subset: goslim_pir synonym: "regulation of physiological process" EXACT [] is_a: GO:0065007 ! biological regulation intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0008150 ! biological_process relationship: regulates GO:0008150 ! biological_process [Term] id: GO:0050790 name: regulation of catalytic activity namespace: biological_process alt_id: GO:0048552 def: "Any process that modulates the activity of an enzyme." [GOC:ai, GOC:ebc, GOC:vw] subset: goslim_chembl synonym: "regulation of enzyme activity" EXACT [] synonym: "regulation of metalloenzyme activity" NARROW [] is_a: GO:0065009 ! regulation of molecular function intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0003824 ! catalytic activity relationship: regulates GO:0003824 ! catalytic activity [Term] id: GO:0050793 name: regulation of developmental process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of development, the biological process whose specific outcome is the progression of a multicellular organism over time from an initial condition (e.g. a zygote, or a young adult) to a later condition (e.g. a multicellular animal or an aged adult)." [GOC:go_curators] is_a: GO:0050789 ! regulation of biological process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0032502 ! developmental process relationship: regulates GO:0032502 ! developmental process [Term] id: GO:0050794 name: regulation of cellular process namespace: biological_process alt_id: GO:0051244 def: "Any process that modulates the frequency, rate or extent of a cellular process, any of those that are carried out at the cellular level, but are not necessarily restricted to a single cell. For example, cell communication occurs among more than one cell, but occurs at the cellular level." [GOC:go_curators] subset: gocheck_do_not_annotate synonym: "regulation of cellular physiological process" EXACT [] is_a: GO:0050789 ! regulation of biological process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0009987 ! cellular process relationship: regulates GO:0009987 ! cellular process [Term] id: GO:0050795 name: regulation of behavior is_a: GO:0048583 ! regulation of response to stimulus intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0007610 ! behavior relationship: regulates GO:0007610 ! behavior [Term] id: GO:0050803 name: regulation of synapse structure or activity namespace: biological_process def: "Any process that modulates the physical form or the activity of a synapse, the junction between a neuron and a target (neuron, muscle, or secretory cell)." [GOC:ai] is_a: GO:0065008 ! regulation of biological quality [Term] id: GO:0050804 name: modulation of chemical synaptic transmission namespace: biological_process def: "Any process that modulates the frequency or amplitude of synaptic transmission, the process of communication from a neuron to a target (neuron, muscle, or secretory cell) across a synapse. Amplitude, in this case, refers to the change in postsynaptic membrane potential due to a single instance of synaptic transmission." [GOC:ai] subset: goslim_synapse synonym: "modulation of synaptic transmission" BROAD [] synonym: "regulation of chemical synaptic transmission" EXACT [] synonym: "regulation of synaptic transmission" EXACT [] is_a: GO:0099177 ! regulation of trans-synaptic signaling intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0007268 ! chemical synaptic transmission relationship: regulates GO:0007268 ! chemical synaptic transmission [Term] id: GO:0050805 name: negative regulation of synaptic transmission namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of synaptic transmission, the process of communication from a neuron to a target (neuron, muscle, or secretory cell) across a synapse." [GOC:ai] synonym: "down regulation of synaptic transmission" EXACT [] synonym: "down-regulation of synaptic transmission" EXACT [] synonym: "downregulation of synaptic transmission" EXACT [] synonym: "inhibition of synaptic transmission" NARROW [] is_a: GO:0010648 ! negative regulation of cell communication is_a: GO:0023057 ! negative regulation of signaling is_a: GO:0050804 ! modulation of chemical synaptic transmission intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0007268 ! chemical synaptic transmission relationship: negatively_regulates GO:0007268 ! chemical synaptic transmission [Term] id: GO:0050806 name: positive regulation of synaptic transmission namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of synaptic transmission, the process of communication from a neuron to a target (neuron, muscle, or secretory cell) across a synapse." [GOC:ai] synonym: "activation of synaptic transmission" NARROW [] synonym: "stimulation of synaptic transmission" NARROW [] synonym: "up regulation of synaptic transmission" EXACT [] synonym: "up-regulation of synaptic transmission" EXACT [] synonym: "upregulation of synaptic transmission" EXACT [] is_a: GO:0010647 ! positive regulation of cell communication is_a: GO:0023056 ! positive regulation of signaling is_a: GO:0050804 ! modulation of chemical synaptic transmission intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0007268 ! chemical synaptic transmission relationship: positively_regulates GO:0007268 ! chemical synaptic transmission [Term] id: GO:0050807 name: regulation of synapse organization namespace: biological_process def: "Any process that modulates the physical form of a synapse, the junction between a neuron and a target (neuron, muscle, or secretory cell)." [GOC:ai, GOC:dph, GOC:tb] subset: goslim_synapse synonym: "regulation of synapse organisation" EXACT [GOC:mah] synonym: "regulation of synapse organization and biogenesis" RELATED [GOC:mah] synonym: "regulation of synapse structure" EXACT [] is_a: GO:0051128 ! regulation of cellular component organization intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0050808 ! synapse organization relationship: part_of GO:0050803 ! regulation of synapse structure or activity relationship: regulates GO:0050808 ! synapse organization [Term] id: GO:0050808 name: synapse organization namespace: biological_process def: "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of a synapse, the junction between a neuron and a target (neuron, muscle, or secretory cell)." [GOC:ai, GOC:pr] subset: goslim_drosophila subset: goslim_synapse synonym: "synapse development" RELATED [GOC:aruk] synonym: "synapse morphogenesis" RELATED [GOC:BHF] synonym: "synapse organisation" EXACT [] synonym: "synapse organization and biogenesis" RELATED [GOC:mah] is_a: GO:0034330 ! cell junction organization intersection_of: GO:0009987 ! cellular process intersection_of: results_in_organization_of GO:0045202 ! synapse relationship: results_in_organization_of GO:0045202 ! synapse [Term] id: GO:0050810 name: regulation of steroid biosynthetic process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of steroids, compounds with a 1,2,cyclopentanoperhydrophenanthrene nucleus." [GOC:ai] synonym: "regulation of steroid anabolism" EXACT [] synonym: "regulation of steroid biosynthesis" EXACT [] synonym: "regulation of steroid formation" EXACT [] synonym: "regulation of steroid synthesis" EXACT [] synonym: "regulation of steroidogenesis" EXACT [] is_a: GO:0019218 ! regulation of steroid metabolic process is_a: GO:0046890 ! regulation of lipid biosynthetic process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0006694 ! steroid biosynthetic process relationship: regulates GO:0006694 ! steroid biosynthetic process [Term] id: GO:0050839 name: cell adhesion molecule binding namespace: molecular_function def: "Binding to a cell adhesion molecule." [GOC:ai] synonym: "adhesive extracellular matrix constituent" RELATED [] synonym: "CAM binding" EXACT [] synonym: "cell adhesion molecule activity" RELATED [] synonym: "cell adhesion receptor activity" RELATED [] is_a: GO:0005515 ! protein binding [Term] id: GO:0050840 name: extracellular matrix binding namespace: molecular_function def: "Binding to a component of the extracellular matrix." [GOC:ai] subset: goslim_chembl subset: goslim_pir synonym: "adhesive extracellular matrix constituent" RELATED [] synonym: "extracellular matrix constituent binding" EXACT [] is_a: GO:0005488 ! binding intersection_of: GO:0005488 ! binding intersection_of: has_input GO:0031012 ! extracellular matrix relationship: has_input GO:0031012 ! extracellular matrix [Term] id: GO:0050877 name: nervous system process namespace: biological_process def: "A organ system process carried out by any of the organs or tissues of neurological system." [GOC:ai, GOC:mtg_cardio] subset: goslim_agr subset: goslim_chembl subset: goslim_flybase_ribbon subset: goslim_generic subset: goslim_pir synonym: "neurological system process" EXACT [] synonym: "neurophysiological process" EXACT [] synonym: "pan-neural process" RELATED [] is_a: GO:0003008 ! system process intersection_of: GO:0003008 ! system process intersection_of: has_participant UBERON:0001016 ! nervous system relationship: has_participant UBERON:0001016 ! nervous system relationship: in_taxon NCBITaxon:33208 ! Metazoa relationship: only_in_taxon NCBITaxon:33208 ! Metazoa property_value: IAO:0000233 https://github.com/geneontology/go-ontology/issues/13824 xsd:anyURI [Term] id: GO:0050879 name: multicellular organismal movement namespace: biological_process def: "Any physiological process involved in changing the position of a multicellular organism or an anatomical part of a multicellular organism." [GOC:dph, GOC:mtg_muscle, GOC:tb] subset: goslim_pir is_a: GO:0032501 ! multicellular organismal process [Term] id: GO:0050881 name: musculoskeletal movement namespace: biological_process def: "The movement of an organism or part of an organism using mechanoreceptors, the nervous system, striated muscle and/or the skeletal system." [GOC:dph] is_a: GO:0050879 ! multicellular organismal movement is_a: GO:0050905 ! neuromuscular process [Term] id: GO:0050886 name: endocrine process namespace: biological_process def: "The process that involves the secretion of or response to endocrine hormones. An endocrine hormone is a hormone released into the circulatory system." [ISBN:0721662544] subset: goslim_generic subset: goslim_pir synonym: "endocrine physiological process" EXACT [] synonym: "endocrine physiology" EXACT [] is_a: GO:0003008 ! system process [Term] id: GO:0050896 name: response to stimulus namespace: biological_process alt_id: GO:0051869 def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus. The process begins with detection of the stimulus and ends with a change in state or activity or the cell or organism." [GOC:ai, GOC:bf] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. subset: gocheck_do_not_manually_annotate subset: goslim_agr subset: goslim_flybase_ribbon subset: goslim_mouse subset: goslim_pir synonym: "physiological response to stimulus" EXACT [] is_a: GO:0008150 ! biological_process [Term] id: GO:0050905 name: neuromuscular process namespace: biological_process def: "Any process pertaining to the functions of the nervous and muscular systems of an organism." [GOC:ai] synonym: "neuromotor process" EXACT [] synonym: "neuromuscular physiological process" EXACT [] is_a: GO:0050877 ! nervous system process [Term] id: GO:0050906 name: detection of stimulus involved in sensory perception namespace: biological_process def: "The series of events involved in sensory perception in which a sensory stimulus is received and converted into a molecular signal." [GOC:ai, GOC:dos, GOC:dph] synonym: "sensory detection of stimulus" EXACT [] synonym: "sensory perception, sensory transduction of stimulus" EXACT [] synonym: "sensory perception, stimulus detection" EXACT [] synonym: "sensory transduction" EXACT [] xref: Wikipedia:Transduction_(physiology) is_a: GO:0051606 ! detection of stimulus intersection_of: GO:0051606 ! detection of stimulus intersection_of: part_of GO:0007600 ! sensory perception relationship: part_of GO:0007600 ! sensory perception [Term] id: GO:0050908 name: detection of light stimulus involved in visual perception namespace: biological_process def: "The series of events involved in visual perception in which a light stimulus is received and converted into a molecular signal." [GOC:ai, GOC:dos] synonym: "sensory detection of light during visual perception" EXACT [] synonym: "sensory detection of light stimulus during visual perception" EXACT [] synonym: "sensory transduction of light during visual perception" EXACT [] synonym: "sensory transduction of light stimulus during visual perception" EXACT [] synonym: "visual perception, detection of light stimulus" EXACT [] synonym: "visual perception, sensory transduction during perception of light" EXACT [] synonym: "visual perception, sensory transduction of light stimulus" EXACT [] is_a: GO:0009584 ! detection of visible light is_a: GO:0050962 ! detection of light stimulus involved in sensory perception intersection_of: GO:0009583 ! detection of light stimulus intersection_of: part_of GO:0007601 ! visual perception relationship: part_of GO:0007601 ! visual perception [Term] id: GO:0050931 name: pigment cell differentiation namespace: biological_process alt_id: GO:0043357 alt_id: GO:0043358 def: "The process in which a relatively unspecialized cell acquires the specialized features of a pigmented cell, such as a melanocyte." [GOC:dgh] comment: Note that the chromatophore mentioned here is distinct from the pigment bearing structure found in certain photosynthetic bacteria and cyanobacteria. It is also different from the plant chromoplast, which is also sometimes called a chromatophore. synonym: "chromatophore differentiation" EXACT [] synonym: "pigmented cell differentiation" EXACT [] is_a: GO:0030154 ! cell differentiation intersection_of: GO:0030154 ! cell differentiation intersection_of: results_in_acquisition_of_features_of CL:0000147 ! pigment cell relationship: part_of GO:0048066 ! developmental pigmentation relationship: results_in_acquisition_of_features_of CL:0000147 ! pigment cell [Term] id: GO:0050932 name: regulation of pigment cell differentiation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of pigmented cell differentiation." [GOC:ai] is_a: GO:0045595 ! regulation of cell differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0050931 ! pigment cell differentiation relationship: regulates GO:0050931 ! pigment cell differentiation [Term] id: GO:0050941 name: negative regulation of pigment cell differentiation namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of pigment cell differentiation." [GOC:ai] synonym: "down regulation of pigment cell differentiation" EXACT [] synonym: "down-regulation of pigment cell differentiation" EXACT [] synonym: "downregulation of pigment cell differentiation" EXACT [] synonym: "inhibition of pigment cell differentiation" NARROW [] is_a: GO:0045596 ! negative regulation of cell differentiation is_a: GO:0048086 ! negative regulation of developmental pigmentation is_a: GO:0050932 ! regulation of pigment cell differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0050931 ! pigment cell differentiation relationship: negatively_regulates GO:0050931 ! pigment cell differentiation [Term] id: GO:0050942 name: positive regulation of pigment cell differentiation namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of pigment cell differentiation." [GOC:ai] synonym: "activation of pigment cell differentiation" NARROW [] synonym: "stimulation of pigment cell differentiation" NARROW [] synonym: "up regulation of pigment cell differentiation" EXACT [] synonym: "up-regulation of pigment cell differentiation" EXACT [] synonym: "upregulation of pigment cell differentiation" EXACT [] is_a: GO:0045597 ! positive regulation of cell differentiation is_a: GO:0048087 ! positive regulation of developmental pigmentation is_a: GO:0050932 ! regulation of pigment cell differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0050931 ! pigment cell differentiation relationship: positively_regulates GO:0050931 ! pigment cell differentiation [Term] id: GO:0050953 name: sensory perception of light stimulus namespace: biological_process def: "The series of events required for an organism to receive a sensory light stimulus, convert it to a molecular signal, and recognize and characterize the signal. This is a neurological process." [GOC:ai] is_a: GO:0007600 ! sensory perception [Term] id: GO:0050954 name: sensory perception of mechanical stimulus namespace: biological_process def: "The series of events required for an organism to receive a sensory mechanical stimulus, convert it to a molecular signal, and recognize and characterize the signal. This is a neurological process." [GOC:ai] synonym: "chemi-mechanical coupling" RELATED [] synonym: "mechanosensory perception" EXACT [] synonym: "perception of mechanical stimulus" EXACT [] is_a: GO:0007600 ! sensory perception [Term] id: GO:0050962 name: detection of light stimulus involved in sensory perception namespace: biological_process def: "The series of events in which a light stimulus is received by a cell and converted into a molecular signal as part of the sensory perception of light." [GOC:ai, GOC:dos] synonym: "sensory detection of light stimulus" EXACT [] synonym: "sensory detection of light stimulus during sensory perception" EXACT [] synonym: "sensory perception, sensory detection of light stimulus" EXACT [] synonym: "sensory perception, sensory transduction of light stimulus" EXACT [] synonym: "sensory transduction of light stimulus" EXACT [] synonym: "sensory transduction of light stimulus during sensory perception" EXACT [] is_a: GO:0009583 ! detection of light stimulus is_a: GO:0050906 ! detection of stimulus involved in sensory perception intersection_of: GO:0009583 ! detection of light stimulus intersection_of: part_of GO:0007600 ! sensory perception relationship: part_of GO:0050953 ! sensory perception of light stimulus [Term] id: GO:0051027 name: DNA transport namespace: biological_process def: "The directed movement of RNA, deoxyribonucleic acid, into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." [GOC:ai] is_a: GO:0050657 ! nucleic acid transport intersection_of: GO:0006810 ! transport intersection_of: transports_or_maintains_localization_of CHEBI:16991 ! deoxyribonucleic acid relationship: transports_or_maintains_localization_of CHEBI:16991 ! deoxyribonucleic acid [Term] id: GO:0051046 name: regulation of secretion namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the controlled release of a substance from a cell or a tissue." [GOC:ai] is_a: GO:0051049 ! regulation of transport intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0046903 ! secretion relationship: regulates GO:0046903 ! secretion [Term] id: GO:0051047 name: positive regulation of secretion namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of the controlled release of a substance from a cell or a tissue." [GOC:ai] synonym: "activation of secretion" NARROW [] synonym: "stimulation of secretion" NARROW [] synonym: "up regulation of secretion" EXACT [] synonym: "up-regulation of secretion" EXACT [] synonym: "upregulation of secretion" EXACT [] is_a: GO:0051046 ! regulation of secretion is_a: GO:0051050 ! positive regulation of transport intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0046903 ! secretion relationship: positively_regulates GO:0046903 ! secretion [Term] id: GO:0051048 name: negative regulation of secretion namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of the controlled release of a substance from a cell or a tissue." [GOC:ai] synonym: "down regulation of secretion" EXACT [] synonym: "down-regulation of secretion" EXACT [] synonym: "downregulation of secretion" EXACT [] synonym: "inhibition of secretion" NARROW [] is_a: GO:0051046 ! regulation of secretion is_a: GO:0051051 ! negative regulation of transport intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0046903 ! secretion relationship: negatively_regulates GO:0046903 ! secretion [Term] id: GO:0051049 name: regulation of transport namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the directed movement of substances (such as macromolecules, small molecules, ions) into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." [GOC:ai] subset: goslim_yeast is_a: GO:0032879 ! regulation of localization intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0006810 ! transport relationship: regulates GO:0006810 ! transport [Term] id: GO:0051050 name: positive regulation of transport namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of the directed movement of substances (such as macromolecules, small molecules, ions) into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." [GOC:ai] synonym: "activation of transport" NARROW [] synonym: "stimulation of transport" NARROW [] synonym: "up regulation of transport" EXACT [] synonym: "up-regulation of transport" EXACT [] synonym: "upregulation of transport" EXACT [] is_a: GO:0048518 ! positive regulation of biological process is_a: GO:0051049 ! regulation of transport intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0006810 ! transport relationship: positively_regulates GO:0006810 ! transport [Term] id: GO:0051051 name: negative regulation of transport namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of the directed movement of substances (such as macromolecules, small molecules, ions) into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." [GOC:ai] synonym: "down regulation of transport" EXACT [] synonym: "down-regulation of transport" EXACT [] synonym: "downregulation of transport" EXACT [] synonym: "inhibition of transport" NARROW [] is_a: GO:0048519 ! negative regulation of biological process is_a: GO:0051049 ! regulation of transport intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0006810 ! transport relationship: negatively_regulates GO:0006810 ! transport [Term] id: GO:0051052 name: regulation of DNA metabolic process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways involving DNA." [GOC:ai] subset: goslim_yeast synonym: "regulation of DNA metabolism" EXACT [] is_a: GO:0019219 ! regulation of nucleobase-containing compound metabolic process is_a: GO:0060255 ! regulation of macromolecule metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0006259 ! DNA metabolic process relationship: regulates GO:0006259 ! DNA metabolic process [Term] id: GO:0051053 name: negative regulation of DNA metabolic process namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of the chemical reactions and pathways involving DNA." [GOC:ai] synonym: "down regulation of DNA metabolic process" EXACT [] synonym: "down-regulation of DNA metabolic process" EXACT [] synonym: "downregulation of DNA metabolic process" EXACT [] synonym: "inhibition of DNA metabolic process" NARROW [] synonym: "negative regulation of DNA metabolism" EXACT [] is_a: GO:0010605 ! negative regulation of macromolecule metabolic process is_a: GO:0045934 ! negative regulation of nucleobase-containing compound metabolic process is_a: GO:0051052 ! regulation of DNA metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0006259 ! DNA metabolic process relationship: negatively_regulates GO:0006259 ! DNA metabolic process [Term] id: GO:0051054 name: positive regulation of DNA metabolic process namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways involving DNA." [GOC:ai] synonym: "activation of DNA metabolic process" NARROW [] synonym: "positive regulation of DNA metabolism" EXACT [] synonym: "stimulation of DNA metabolic process" NARROW [] synonym: "up regulation of DNA metabolic process" EXACT [] synonym: "up-regulation of DNA metabolic process" EXACT [] synonym: "upregulation of DNA metabolic process" EXACT [] is_a: GO:0010604 ! positive regulation of macromolecule metabolic process is_a: GO:0045935 ! positive regulation of nucleobase-containing compound metabolic process is_a: GO:0051052 ! regulation of DNA metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0006259 ! DNA metabolic process relationship: positively_regulates GO:0006259 ! DNA metabolic process [Term] id: GO:0051055 name: negative regulation of lipid biosynthetic process namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of lipids." [GOC:ai] synonym: "down regulation of lipid biosynthetic process" EXACT [] synonym: "down-regulation of lipid biosynthetic process" EXACT [] synonym: "downregulation of lipid biosynthetic process" EXACT [] synonym: "inhibition of lipid biosynthetic process" NARROW [] synonym: "negative regulation of lipid anabolism" EXACT [] synonym: "negative regulation of lipid biosynthesis" EXACT [] synonym: "negative regulation of lipid formation" EXACT [] synonym: "negative regulation of lipid synthesis" EXACT [] synonym: "negative regulation of lipogenesis" EXACT [GOC:sl] is_a: GO:0009890 ! negative regulation of biosynthetic process is_a: GO:0045833 ! negative regulation of lipid metabolic process is_a: GO:0046890 ! regulation of lipid biosynthetic process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0008610 ! lipid biosynthetic process relationship: negatively_regulates GO:0008610 ! lipid biosynthetic process [Term] id: GO:0051081 name: nuclear membrane disassembly namespace: biological_process def: "The controlled breakdown of the nuclear membranes, for example during cellular division." [GOC:ai] synonym: "nuclear envelope breakdown" RELATED [] synonym: "nuclear envelope catabolism" RELATED [] synonym: "nuclear envelope degradation" RELATED [] synonym: "nuclear envelope disassembly" RELATED [] is_a: GO:0030397 ! membrane disassembly is_a: GO:0071763 ! nuclear membrane organization intersection_of: GO:0022411 ! cellular component disassembly intersection_of: results_in_disassembly_of GO:0031965 ! nuclear membrane relationship: results_in_disassembly_of GO:0031965 ! nuclear membrane [Term] id: GO:0051093 name: negative regulation of developmental process namespace: biological_process def: "Any process that stops, prevents or reduces the rate or extent of development, the biological process whose specific outcome is the progression of an organism over time from an initial condition (e.g. a zygote, or a young adult) to a later condition (e.g. a multicellular animal or an aged adult)." [GOC:ai] synonym: "down regulation of developmental process" EXACT [] synonym: "down-regulation of developmental process" EXACT [] synonym: "downregulation of developmental process" EXACT [] synonym: "inhibition of developmental process" NARROW [] is_a: GO:0048519 ! negative regulation of biological process is_a: GO:0050793 ! regulation of developmental process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0032502 ! developmental process relationship: negatively_regulates GO:0032502 ! developmental process [Term] id: GO:0051094 name: positive regulation of developmental process namespace: biological_process def: "Any process that activates or increases the rate or extent of development, the biological process whose specific outcome is the progression of an organism over time from an initial condition (e.g. a zygote, or a young adult) to a later condition (e.g. a multicellular animal or an aged adult)." [GOC:ai] synonym: "activation of developmental process" NARROW [] synonym: "stimulation of developmental process" NARROW [] synonym: "up regulation of developmental process" EXACT [] synonym: "up-regulation of developmental process" EXACT [] synonym: "upregulation of developmental process" EXACT [] is_a: GO:0048518 ! positive regulation of biological process is_a: GO:0050793 ! regulation of developmental process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0032502 ! developmental process relationship: positively_regulates GO:0032502 ! developmental process [Term] id: GO:0051098 name: regulation of binding namespace: biological_process def: "Any process that modulates the frequency, rate or extent of binding, the selective interaction of a molecule with one or more specific sites on another molecule." [GOC:ai] is_a: GO:0065009 ! regulation of molecular function intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0005488 ! binding relationship: regulates GO:0005488 ! binding [Term] id: GO:0051099 name: positive regulation of binding namespace: biological_process def: "Any process that activates or increases the rate or extent of binding, the selective interaction of a molecule with one or more specific sites on another molecule." [GOC:ai] synonym: "activation of binding" NARROW [] synonym: "stimulation of binding" NARROW [] synonym: "up regulation of binding" EXACT [] synonym: "up-regulation of binding" EXACT [] synonym: "upregulation of binding" EXACT [] is_a: GO:0044093 ! positive regulation of molecular function is_a: GO:0051098 ! regulation of binding intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0005488 ! binding relationship: positively_regulates GO:0005488 ! binding [Term] id: GO:0051100 name: negative regulation of binding namespace: biological_process def: "Any process that stops or reduces the rate or extent of binding, the selective interaction of a molecule with one or more specific sites on another molecule." [GOC:ai] synonym: "down regulation of binding" EXACT [] synonym: "down-regulation of binding" EXACT [] synonym: "downregulation of binding" EXACT [] synonym: "inhibition of binding" NARROW [] is_a: GO:0044092 ! negative regulation of molecular function is_a: GO:0051098 ! regulation of binding intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0005488 ! binding relationship: negatively_regulates GO:0005488 ! binding [Term] id: GO:0051101 name: regulation of DNA binding namespace: biological_process def: "Any process that modulates the frequency, rate or extent of DNA binding. DNA binding is any process in which a gene product interacts selectively with DNA (deoxyribonucleic acid)." [GOC:ai, GOC:dph, GOC:tb] is_a: GO:0051098 ! regulation of binding intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0003677 ! DNA binding relationship: regulates GO:0003677 ! DNA binding [Term] id: GO:0051128 name: regulation of cellular component organization namespace: biological_process def: "Any process that modulates the frequency, rate or extent of a process involved in the formation, arrangement of constituent parts, or disassembly of cell structures, including the plasma membrane and any external encapsulating structures such as the cell wall and cell envelope." [GOC:ai] synonym: "regulation of cell organisation" RELATED [GOC:mah] synonym: "regulation of cell organization" RELATED [GOC:mah] synonym: "regulation of cellular component organisation" EXACT [] synonym: "regulation of cellular component organization and biogenesis" RELATED [GOC:mah] is_a: GO:0050794 ! regulation of cellular process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0016043 ! cellular component organization relationship: regulates GO:0016043 ! cellular component organization [Term] id: GO:0051129 name: negative regulation of cellular component organization namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of a process involved in the formation, arrangement of constituent parts, or disassembly of cell structures, including the plasma membrane and any external encapsulating structures such as the cell wall and cell envelope." [GOC:ai] synonym: "down regulation of cell organization" EXACT [] synonym: "down-regulation of cell organization" EXACT [] synonym: "downregulation of cell organization" EXACT [] synonym: "inhibition of cell organization" NARROW [] synonym: "negative regulation of cell organisation" RELATED [GOC:mah] synonym: "negative regulation of cellular component organization and biogenesis" RELATED [GOC:mah] is_a: GO:0048523 ! negative regulation of cellular process is_a: GO:0051128 ! regulation of cellular component organization intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0016043 ! cellular component organization relationship: negatively_regulates GO:0016043 ! cellular component organization [Term] id: GO:0051130 name: positive regulation of cellular component organization namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of a process involved in the formation, arrangement of constituent parts, or disassembly of cell structures, including the plasma membrane and any external encapsulating structures such as the cell wall and cell envelope." [GOC:ai] synonym: "activation of cell organization" NARROW [] synonym: "positive regulation of cell organisation" EXACT [] synonym: "positive regulation of cellular component organization and biogenesis" RELATED [GOC:mah] synonym: "stimulation of cell organization" NARROW [] synonym: "up regulation of cell organization" EXACT [] synonym: "up-regulation of cell organization" EXACT [] synonym: "upregulation of cell organization" EXACT [] is_a: GO:0048522 ! positive regulation of cellular process is_a: GO:0051128 ! regulation of cellular component organization intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0016043 ! cellular component organization relationship: positively_regulates GO:0016043 ! cellular component organization [Term] id: GO:0051145 name: smooth muscle cell differentiation namespace: biological_process def: "The process in which a relatively unspecialized cell acquires specialized features of a smooth muscle cell; smooth muscle lacks transverse striations in its constituent fibers and are almost always involuntary." [CL:0000192, GOC:ai] synonym: "nonstriated muscle cell differentiation" EXACT [] is_a: GO:0042692 ! muscle cell differentiation intersection_of: GO:0030154 ! cell differentiation intersection_of: results_in_acquisition_of_features_of CL:0000192 ! smooth muscle cell relationship: results_in_acquisition_of_features_of CL:0000192 ! smooth muscle cell [Term] id: GO:0051146 name: striated muscle cell differentiation namespace: biological_process def: "The process in which a relatively unspecialized cell acquires specialized features of a striated muscle cell; striated muscle fibers are divided by transverse bands into striations, and cardiac and voluntary muscle are types of striated muscle." [CL:0000737, GOC:ai] synonym: "voluntary muscle cell differentiation" NARROW [] is_a: GO:0042692 ! muscle cell differentiation intersection_of: GO:0030154 ! cell differentiation intersection_of: results_in_acquisition_of_features_of CL:0000737 ! striated muscle cell relationship: results_in_acquisition_of_features_of CL:0000737 ! striated muscle cell [Term] id: GO:0051147 name: regulation of muscle cell differentiation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of muscle cell differentiation." [CL:0000187, GOC:ai] is_a: GO:0045595 ! regulation of cell differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0042692 ! muscle cell differentiation relationship: regulates GO:0042692 ! muscle cell differentiation [Term] id: GO:0051148 name: negative regulation of muscle cell differentiation namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of muscle cell differentiation." [CL:0000187, GOC:ai] synonym: "down regulation of muscle cell differentiation" EXACT [] synonym: "down-regulation of muscle cell differentiation" EXACT [] synonym: "downregulation of muscle cell differentiation" EXACT [] synonym: "inhibition of muscle cell differentiation" NARROW [] is_a: GO:0045596 ! negative regulation of cell differentiation is_a: GO:0051147 ! regulation of muscle cell differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0042692 ! muscle cell differentiation relationship: negatively_regulates GO:0042692 ! muscle cell differentiation [Term] id: GO:0051149 name: positive regulation of muscle cell differentiation namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of muscle cell differentiation." [CL:0000187, GOC:ai] synonym: "activation of muscle cell differentiation" NARROW [] synonym: "stimulation of muscle cell differentiation" NARROW [] synonym: "up regulation of muscle cell differentiation" EXACT [] synonym: "up-regulation of muscle cell differentiation" EXACT [] synonym: "upregulation of muscle cell differentiation" EXACT [] is_a: GO:0045597 ! positive regulation of cell differentiation is_a: GO:0051147 ! regulation of muscle cell differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0042692 ! muscle cell differentiation relationship: positively_regulates GO:0042692 ! muscle cell differentiation [Term] id: GO:0051150 name: regulation of smooth muscle cell differentiation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of smooth muscle cell differentiation." [CL:0000192, GOC:ai] is_a: GO:0051147 ! regulation of muscle cell differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0051145 ! smooth muscle cell differentiation relationship: regulates GO:0051145 ! smooth muscle cell differentiation [Term] id: GO:0051151 name: negative regulation of smooth muscle cell differentiation namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of smooth muscle cell differentiation." [CL:0000192, GOC:ai] synonym: "down regulation of smooth muscle cell differentiation" EXACT [] synonym: "down-regulation of smooth muscle cell differentiation" EXACT [] synonym: "downregulation of smooth muscle cell differentiation" EXACT [] synonym: "inhibition of smooth muscle cell differentiation" NARROW [] is_a: GO:0051148 ! negative regulation of muscle cell differentiation is_a: GO:0051150 ! regulation of smooth muscle cell differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0051145 ! smooth muscle cell differentiation relationship: negatively_regulates GO:0051145 ! smooth muscle cell differentiation [Term] id: GO:0051152 name: positive regulation of smooth muscle cell differentiation namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of smooth muscle cell differentiation." [CL:0000192, GOC:ai] synonym: "activation of smooth muscle cell differentiation" NARROW [] synonym: "stimulation of smooth muscle cell differentiation" NARROW [] synonym: "up regulation of smooth muscle cell differentiation" EXACT [] synonym: "up-regulation of smooth muscle cell differentiation" EXACT [] synonym: "upregulation of smooth muscle cell differentiation" EXACT [] is_a: GO:0051149 ! positive regulation of muscle cell differentiation is_a: GO:0051150 ! regulation of smooth muscle cell differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0051145 ! smooth muscle cell differentiation relationship: positively_regulates GO:0051145 ! smooth muscle cell differentiation [Term] id: GO:0051153 name: regulation of striated muscle cell differentiation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of striated muscle cell differentiation." [CL:0000737, GOC:ai] is_a: GO:0051147 ! regulation of muscle cell differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0051146 ! striated muscle cell differentiation relationship: regulates GO:0051146 ! striated muscle cell differentiation [Term] id: GO:0051154 name: negative regulation of striated muscle cell differentiation namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of striated muscle cell differentiation." [CL:0000737, GOC:ai] synonym: "down regulation of striated muscle cell differentiation" EXACT [] synonym: "down-regulation of striated muscle cell differentiation" EXACT [] synonym: "downregulation of striated muscle cell differentiation" EXACT [] synonym: "inhibition of striated muscle cell differentiation" NARROW [] is_a: GO:0051148 ! negative regulation of muscle cell differentiation is_a: GO:0051153 ! regulation of striated muscle cell differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0051146 ! striated muscle cell differentiation relationship: negatively_regulates GO:0051146 ! striated muscle cell differentiation [Term] id: GO:0051155 name: positive regulation of striated muscle cell differentiation namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of striated muscle cell differentiation." [CL:0000737, GOC:ai] synonym: "activation of striated muscle cell differentiation" NARROW [] synonym: "stimulation of striated muscle cell differentiation" NARROW [] synonym: "up regulation of striated muscle cell differentiation" EXACT [] synonym: "up-regulation of striated muscle cell differentiation" EXACT [] synonym: "upregulation of striated muscle cell differentiation" EXACT [] is_a: GO:0051149 ! positive regulation of muscle cell differentiation is_a: GO:0051153 ! regulation of striated muscle cell differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0051146 ! striated muscle cell differentiation relationship: positively_regulates GO:0051146 ! striated muscle cell differentiation [Term] id: GO:0051169 name: nuclear transport namespace: biological_process def: "The directed movement of substances into, out of, or within the nucleus." [GOC:ai] subset: goslim_yeast synonym: "nucleus transport" EXACT [] xref: Wikipedia:Nuclear_transport is_a: GO:0046907 ! intracellular transport intersection_of: GO:0006810 ! transport intersection_of: occurs_in GO:0005622 ! intracellular anatomical structure intersection_of: results_in_transport_to_from_or_in GO:0005634 ! nucleus relationship: results_in_transport_to_from_or_in GO:0005634 ! nucleus [Term] id: GO:0051171 name: regulation of nitrogen compound metabolic process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways involving nitrogen or nitrogenous compounds." [GOC:ai, GOC:tb] synonym: "regulation of nitrogen metabolic process" EXACT [GOC:tb] synonym: "regulation of nitrogen metabolism" EXACT [] is_a: GO:0019222 ! regulation of metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0006807 ! nitrogen compound metabolic process relationship: regulates GO:0006807 ! nitrogen compound metabolic process [Term] id: GO:0051172 name: negative regulation of nitrogen compound metabolic process namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of the chemical reactions and pathways involving nitrogen or nitrogenous compounds." [GOC:ai, GOC:tb] synonym: "down regulation of nitrogen metabolic process" EXACT [] synonym: "down-regulation of nitrogen metabolic process" EXACT [] synonym: "downregulation of nitrogen metabolic process" EXACT [] synonym: "inhibition of nitrogen metabolic process" NARROW [] synonym: "negative regulation of nitrogen metabolic process" EXACT [GOC:tb] synonym: "negative regulation of nitrogen metabolism" EXACT [] is_a: GO:0009892 ! negative regulation of metabolic process is_a: GO:0051171 ! regulation of nitrogen compound metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0006807 ! nitrogen compound metabolic process relationship: negatively_regulates GO:0006807 ! nitrogen compound metabolic process [Term] id: GO:0051173 name: positive regulation of nitrogen compound metabolic process namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways involving nitrogen or nitrogenous compounds." [GOC:ai, GOC:tb] synonym: "activation of nitrogen metabolic process" NARROW [] synonym: "positive regulation of nitrogen metabolic process" EXACT [GOC:tb] synonym: "positive regulation of nitrogen metabolism" EXACT [] synonym: "stimulation of nitrogen metabolic process" NARROW [] synonym: "up regulation of nitrogen metabolic process" EXACT [] synonym: "up-regulation of nitrogen metabolic process" EXACT [] synonym: "upregulation of nitrogen metabolic process" EXACT [] is_a: GO:0009893 ! positive regulation of metabolic process is_a: GO:0051171 ! regulation of nitrogen compound metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0006807 ! nitrogen compound metabolic process relationship: positively_regulates GO:0006807 ! nitrogen compound metabolic process [Term] id: GO:0051174 name: regulation of phosphorus metabolic process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways involving phosphorus or compounds containing phosphorus." [GOC:ai] synonym: "regulation of phosphorus metabolism" EXACT [] is_a: GO:0031323 ! regulation of cellular metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0006793 ! phosphorus metabolic process relationship: regulates GO:0006793 ! phosphorus metabolic process [Term] id: GO:0051175 name: negative regulation of sulfur metabolic process namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of the chemical reactions and pathways involving sulfur or compounds containing sulfur." [GOC:ai] synonym: "down regulation of sulfur metabolic process" EXACT [] synonym: "down-regulation of sulfur metabolic process" EXACT [] synonym: "downregulation of sulfur metabolic process" EXACT [] synonym: "inhibition of sulfur metabolic process" NARROW [] synonym: "negative regulation of sulfur metabolism" EXACT [] synonym: "negative regulation of sulphur metabolic process" EXACT [] synonym: "negative regulation of sulphur metabolism" EXACT [] is_a: GO:0031324 ! negative regulation of cellular metabolic process is_a: GO:0042762 ! regulation of sulfur metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0006790 ! sulfur compound metabolic process relationship: negatively_regulates GO:0006790 ! sulfur compound metabolic process [Term] id: GO:0051176 name: positive regulation of sulfur metabolic process namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways involving sulfur or compounds containing sulfur." [GOC:ai] synonym: "activation of sulfur metabolic process" NARROW [] synonym: "positive regulation of sulfur metabolism" EXACT [] synonym: "positive regulation of sulphur metabolic process" EXACT [] synonym: "positive regulation of sulphur metabolism" EXACT [] synonym: "stimulation of sulfur metabolic process" NARROW [] synonym: "up regulation of sulfur metabolic process" EXACT [] synonym: "up-regulation of sulfur metabolic process" EXACT [] synonym: "upregulation of sulfur metabolic process" EXACT [] is_a: GO:0031325 ! positive regulation of cellular metabolic process is_a: GO:0042762 ! regulation of sulfur metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0006790 ! sulfur compound metabolic process relationship: positively_regulates GO:0006790 ! sulfur compound metabolic process [Term] id: GO:0051179 name: localization namespace: biological_process alt_id: GO:1902578 def: "Any process in which a cell, a substance, or a cellular entity, such as a protein complex or organelle, is transported, tethered to or otherwise maintained in a specific location. In the case of substances, localization may also be achieved via selective degradation." [GOC:ai, GOC:dos] subset: goslim_pir synonym: "establishment and maintenance of cellular component location" NARROW [] synonym: "establishment and maintenance of localization" EXACT [] synonym: "establishment and maintenance of position" EXACT [] synonym: "establishment and maintenance of substance location" NARROW [] synonym: "establishment and maintenance of substrate location" NARROW [] synonym: "localisation" EXACT [GOC:mah] synonym: "single organism localization" RELATED [GOC:TermGenie] synonym: "single-organism localization" RELATED [] is_a: GO:0008150 ! biological_process created_by: jl creation_date: 2013-12-18T13:51:04Z [Term] id: GO:0051216 name: cartilage development namespace: biological_process def: "The process whose specific outcome is the progression of a cartilage element over time, from its formation to the mature structure. Cartilage elements are skeletal elements that consist of connective tissue dominated by extracellular matrix containing collagen type II and large amounts of proteoglycan, particularly chondroitin sulfate." [GOC:cjm, PMID:23251424] synonym: "cartilage biogenesis" EXACT [] synonym: "cartilage biosynthesis" EXACT [] synonym: "cartilage element development" EXACT [] synonym: "cartilage formation" EXACT [] synonym: "cartilage organ development" EXACT [] synonym: "chondrogenesis" EXACT [] xref: Wikipedia:Chondrogenesis is_a: GO:0048513 ! animal organ development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0007844 ! cartilage element relationship: part_of GO:0001501 ! skeletal system development relationship: part_of GO:0061448 ! connective tissue development relationship: results_in_development_of UBERON:0007844 ! cartilage element [Term] id: GO:0051222 name: positive regulation of protein transport namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of the directed movement of a protein into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." [GOC:ai] synonym: "activation of protein transport" NARROW [] synonym: "stimulation of protein transport" NARROW [] synonym: "up regulation of protein transport" EXACT [] synonym: "up-regulation of protein transport" EXACT [] synonym: "upregulation of protein transport" EXACT [] is_a: GO:0051050 ! positive regulation of transport is_a: GO:0051223 ! regulation of protein transport is_a: GO:1904951 ! positive regulation of establishment of protein localization intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0015031 ! protein transport relationship: positively_regulates GO:0015031 ! protein transport [Term] id: GO:0051223 name: regulation of protein transport namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the directed movement of a protein into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." [GOC:ai] is_a: GO:0051049 ! regulation of transport is_a: GO:0070201 ! regulation of establishment of protein localization intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0015031 ! protein transport relationship: regulates GO:0015031 ! protein transport [Term] id: GO:0051224 name: negative regulation of protein transport namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of the directed movement of a protein into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." [GOC:ai] synonym: "down regulation of protein transport" EXACT [] synonym: "down-regulation of protein transport" EXACT [] synonym: "downregulation of protein transport" EXACT [] synonym: "inhibition of protein transport" NARROW [] is_a: GO:0051051 ! negative regulation of transport is_a: GO:0051223 ! regulation of protein transport is_a: GO:1904950 ! negative regulation of establishment of protein localization intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0015031 ! protein transport relationship: negatively_regulates GO:0015031 ! protein transport [Term] id: GO:0051234 name: establishment of localization namespace: biological_process def: "Any process that localizes a substance or cellular component. This may occur via movement, tethering or selective degradation." [GOC:ai, GOC:dos] subset: goslim_agr subset: goslim_flybase_ribbon subset: goslim_mouse subset: goslim_pir synonym: "establishment of localisation" EXACT [GOC:mah] is_a: GO:0051179 ! localization [Term] id: GO:0051236 name: establishment of RNA localization namespace: biological_process def: "The directed movement of RNA to a specific location." [GOC:ai] synonym: "establishment of RNA localisation" EXACT [GOC:mah] synonym: "RNA positioning" EXACT [] synonym: "RNA recruitment" EXACT [] is_a: GO:0051234 ! establishment of localization relationship: part_of GO:0006403 ! RNA localization [Term] id: GO:0051239 name: regulation of multicellular organismal process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of a multicellular organismal process, the processes pertinent to the function of a multicellular organism above the cellular level; includes the integrated processes of tissues and organs." [GOC:ai, GOC:dph, GOC:tb] is_a: GO:0050789 ! regulation of biological process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0032501 ! multicellular organismal process relationship: regulates GO:0032501 ! multicellular organismal process [Term] id: GO:0051240 name: positive regulation of multicellular organismal process namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of an organismal process, any of the processes pertinent to the function of an organism above the cellular level; includes the integrated processes of tissues and organs." [GOC:ai] synonym: "activation of multicellular organismal process" NARROW [] synonym: "stimulation of multicellular organismal process" NARROW [] synonym: "up regulation of multicellular organismal process" EXACT [] synonym: "up-regulation of multicellular organismal process" EXACT [] synonym: "upregulation of multicellular organismal process" EXACT [] is_a: GO:0048518 ! positive regulation of biological process is_a: GO:0051239 ! regulation of multicellular organismal process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0032501 ! multicellular organismal process relationship: positively_regulates GO:0032501 ! multicellular organismal process [Term] id: GO:0051241 name: negative regulation of multicellular organismal process namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of an organismal process, the processes pertinent to the function of an organism above the cellular level; includes the integrated processes of tissues and organs." [GOC:ai] synonym: "down regulation of multicellular organismal process" EXACT [] synonym: "down-regulation of multicellular organismal process" EXACT [] synonym: "downregulation of multicellular organismal process" EXACT [] synonym: "inhibition of multicellular organismal process" NARROW [] is_a: GO:0048519 ! negative regulation of biological process is_a: GO:0051239 ! regulation of multicellular organismal process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0032501 ! multicellular organismal process relationship: negatively_regulates GO:0032501 ! multicellular organismal process [Term] id: GO:0051246 name: regulation of protein metabolic process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways involving a protein." [GOC:ai] synonym: "regulation of protein metabolism" EXACT [] is_a: GO:0051171 ! regulation of nitrogen compound metabolic process is_a: GO:0060255 ! regulation of macromolecule metabolic process is_a: GO:0080090 ! regulation of primary metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0019538 ! protein metabolic process relationship: regulates GO:0019538 ! protein metabolic process [Term] id: GO:0051247 name: positive regulation of protein metabolic process namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways involving a protein." [GOC:ai] synonym: "activation of protein metabolic process" NARROW [] synonym: "positive regulation of protein metabolism" EXACT [] synonym: "stimulation of protein metabolic process" NARROW [] synonym: "up regulation of protein metabolic process" EXACT [] synonym: "up-regulation of protein metabolic process" EXACT [] synonym: "upregulation of protein metabolic process" EXACT [] is_a: GO:0010604 ! positive regulation of macromolecule metabolic process is_a: GO:0051173 ! positive regulation of nitrogen compound metabolic process is_a: GO:0051246 ! regulation of protein metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0019538 ! protein metabolic process relationship: positively_regulates GO:0019538 ! protein metabolic process [Term] id: GO:0051248 name: negative regulation of protein metabolic process namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of chemical reactions and pathways involving a protein." [GOC:ai] synonym: "down regulation of protein metabolic process" EXACT [] synonym: "down-regulation of protein metabolic process" EXACT [] synonym: "downregulation of protein metabolic process" EXACT [] synonym: "inhibition of protein metabolic process" NARROW [] synonym: "negative regulation of protein metabolism" EXACT [] is_a: GO:0010605 ! negative regulation of macromolecule metabolic process is_a: GO:0051172 ! negative regulation of nitrogen compound metabolic process is_a: GO:0051246 ! regulation of protein metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0019538 ! protein metabolic process relationship: negatively_regulates GO:0019538 ! protein metabolic process [Term] id: GO:0051252 name: regulation of RNA metabolic process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways involving RNA." [GOC:ai] synonym: "regulation of RNA metabolism" EXACT [] is_a: GO:0019219 ! regulation of nucleobase-containing compound metabolic process is_a: GO:0060255 ! regulation of macromolecule metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0016070 ! RNA metabolic process relationship: regulates GO:0016070 ! RNA metabolic process [Term] id: GO:0051253 name: negative regulation of RNA metabolic process namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of the chemical reactions and pathways involving RNA." [GOC:ai] synonym: "down regulation of RNA metabolic process" EXACT [] synonym: "down-regulation of RNA metabolic process" EXACT [] synonym: "downregulation of RNA metabolic process" EXACT [] synonym: "inhibition of RNA metabolic process" NARROW [] synonym: "negative regulation of RNA metabolism" EXACT [] is_a: GO:0010605 ! negative regulation of macromolecule metabolic process is_a: GO:0045934 ! negative regulation of nucleobase-containing compound metabolic process is_a: GO:0051252 ! regulation of RNA metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0016070 ! RNA metabolic process relationship: negatively_regulates GO:0016070 ! RNA metabolic process [Term] id: GO:0051254 name: positive regulation of RNA metabolic process namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways involving RNA." [GOC:ai] synonym: "activation of RNA metabolic process" NARROW [] synonym: "positive regulation of RNA metabolism" EXACT [] synonym: "stimulation of RNA metabolic process" NARROW [] synonym: "up regulation of RNA metabolic process" EXACT [] synonym: "up-regulation of RNA metabolic process" EXACT [] synonym: "upregulation of RNA metabolic process" EXACT [] is_a: GO:0010604 ! positive regulation of macromolecule metabolic process is_a: GO:0045935 ! positive regulation of nucleobase-containing compound metabolic process is_a: GO:0051252 ! regulation of RNA metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0016070 ! RNA metabolic process relationship: positively_regulates GO:0016070 ! RNA metabolic process [Term] id: GO:0051258 name: protein polymerization namespace: biological_process def: "The process of creating protein polymers, compounds composed of a large number of component monomers; polymeric proteins may be made up of different or identical monomers. Polymerization occurs by the addition of extra monomers to an existing poly- or oligomeric protein." [GOC:ai] subset: goslim_pir synonym: "protein polymer biosynthesis" EXACT [] synonym: "protein polymer biosynthetic process" EXACT [] synonym: "protein polymer formation" EXACT [] is_a: GO:0065003 ! protein-containing complex assembly [Term] id: GO:0051261 name: protein depolymerization namespace: biological_process def: "The process in which protein polymers, compounds composed of a large number of component monomers, are broken down. Depolymerization occurs by the successive removal of monomers from an existing poly- or oligomeric protein." [GOC:ai] subset: goslim_pir synonym: "protein polymer breakdown" EXACT [] synonym: "protein polymer catabolic process" EXACT [] synonym: "protein polymer catabolism" EXACT [] synonym: "protein polymer degradation" EXACT [] is_a: GO:0032984 ! protein-containing complex disassembly [Term] id: GO:0051270 name: regulation of cellular component movement namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the movement of a cellular component." [GOC:ai, GOC:dph, GOC:jl] synonym: "regulation of cell movement" RELATED [] synonym: "regulation of cellular component motion" EXACT [GOC:mah] is_a: GO:0032879 ! regulation of localization is_a: GO:0050794 ! regulation of cellular process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0006928 ! movement of cell or subcellular component relationship: regulates GO:0006928 ! movement of cell or subcellular component [Term] id: GO:0051271 name: negative regulation of cellular component movement namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of the movement of a cellular component." [GOC:ai, GOC:dph, GOC:jl] synonym: "negative regulation of cellular component motion" EXACT [GOC:mah] is_a: GO:0048523 ! negative regulation of cellular process is_a: GO:0051270 ! regulation of cellular component movement intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0006928 ! movement of cell or subcellular component relationship: negatively_regulates GO:0006928 ! movement of cell or subcellular component [Term] id: GO:0051272 name: positive regulation of cellular component movement namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of the movement of a cellular component." [GOC:ai, GOC:dph, GOC:jl] synonym: "positive regulation of cellular component motion" EXACT [GOC:mah] is_a: GO:0048522 ! positive regulation of cellular process is_a: GO:0051270 ! regulation of cellular component movement intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0006928 ! movement of cell or subcellular component relationship: positively_regulates GO:0006928 ! movement of cell or subcellular component [Term] id: GO:0051276 name: chromosome organization namespace: biological_process alt_id: GO:0007001 alt_id: GO:0051277 def: "A process that is carried out at the cellular level that results in the assembly, arrangement of constituent parts, or disassembly of chromosomes, structures composed of a very long molecule of DNA and associated proteins that carries hereditary information. This term covers covalent modifications at the molecular level as well as spatial relationships among the major components of a chromosome." [GOC:ai, GOC:dph, GOC:jl, GOC:mah] subset: goslim_chembl subset: goslim_drosophila subset: goslim_pir synonym: "chromosome organisation" EXACT [] synonym: "chromosome organization and biogenesis" RELATED [GOC:mah] synonym: "maintenance of genome integrity" RELATED [] synonym: "nuclear genome maintenance" RELATED [] is_a: GO:0006996 ! organelle organization intersection_of: GO:0016043 ! cellular component organization intersection_of: results_in_organization_of GO:0005694 ! chromosome relationship: results_in_organization_of GO:0005694 ! chromosome [Term] id: GO:0051301 name: cell division namespace: biological_process def: "The process resulting in division and partitioning of components of a cell to form more cells; may or may not be accompanied by the physical separation of a cell into distinct, individually membrane-bounded daughter cells." [GOC:di, GOC:go_curators, GOC:pr] comment: Note that this term differs from 'cytokinesis ; GO:0000910' in that cytokinesis does not include nuclear division. subset: goslim_chembl subset: goslim_drosophila subset: goslim_pir xref: Wikipedia:Cell_division is_a: GO:0009987 ! cellular process [Term] id: GO:0051302 name: regulation of cell division namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the physical partitioning and separation of a cell into daughter cells." [GOC:go_curators] is_a: GO:0050794 ! regulation of cellular process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0051301 ! cell division relationship: regulates GO:0051301 ! cell division [Term] id: GO:0051303 name: establishment of chromosome localization namespace: biological_process def: "The directed movement of a chromosome to a specific location." [GOC:ai] synonym: "chromosome positioning" EXACT [] synonym: "establishment of chromosome localisation" EXACT [GOC:mah] is_a: GO:0050000 ! chromosome localization is_a: GO:0051649 ! establishment of localization in cell is_a: GO:0051656 ! establishment of organelle localization intersection_of: GO:0051234 ! establishment of localization intersection_of: transports_or_maintains_localization_of GO:0005694 ! chromosome [Term] id: GO:0051338 name: regulation of transferase activity namespace: biological_process def: "Any process that modulates the frequency, rate or extent of transferase activity, the catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from one compound (generally regarded as the donor) to another compound (generally regarded as the acceptor). Transferase is the systematic name for any enzyme of EC class 2." [GOC:ai] comment: This term is useful for grouping, but is too general for manual annotation. Please use a child term instead. subset: gocheck_do_not_manually_annotate synonym: "transferase regulator" EXACT [] is_a: GO:0050790 ! regulation of catalytic activity intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0016740 ! transferase activity relationship: regulates GO:0016740 ! transferase activity [Term] id: GO:0051347 name: positive regulation of transferase activity namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of transferase activity, the catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from a donor compound to an acceptor." [GOC:ai] comment: This term is useful for grouping, but is too general for manual annotation. Please use a child term instead. subset: gocheck_do_not_manually_annotate synonym: "activation of transferase activity" NARROW [] synonym: "stimulation of transferase activity" NARROW [] synonym: "transferase activator" EXACT [] synonym: "up regulation of transferase activity" EXACT [] synonym: "up-regulation of transferase activity" EXACT [] synonym: "upregulation of transferase activity" EXACT [] is_a: GO:0043085 ! positive regulation of catalytic activity is_a: GO:0051338 ! regulation of transferase activity intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0016740 ! transferase activity relationship: positively_regulates GO:0016740 ! transferase activity [Term] id: GO:0051348 name: negative regulation of transferase activity namespace: biological_process def: "Any process that stops or reduces the rate of transferase activity, the catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from a donor compound to an acceptor." [GOC:ai] comment: This term is useful for grouping, but is too general for manual annotation. Please use a child term instead. subset: gocheck_do_not_manually_annotate synonym: "down regulation of transferase activity" EXACT [] synonym: "down-regulation of transferase activity" EXACT [] synonym: "downregulation of transferase activity" EXACT [] synonym: "inhibition of transferase activity" NARROW [] synonym: "transferase inhibitor" EXACT [] is_a: GO:0043086 ! negative regulation of catalytic activity is_a: GO:0051338 ! regulation of transferase activity intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0016740 ! transferase activity relationship: negatively_regulates GO:0016740 ! transferase activity [Term] id: GO:0051378 name: serotonin binding namespace: molecular_function def: "Binding to serotonin (5-hydroxytryptamine), a monoamine neurotransmitter occurring in the peripheral and central nervous systems, also having hormonal properties." [GOC:ai] synonym: "5-hydroxytryptamine binding" EXACT [] is_a: GO:0043169 ! cation binding is_a: GO:0043176 ! amine binding intersection_of: GO:0005488 ! binding intersection_of: has_input CHEBI:350546 ! serotonin(1+) relationship: has_input CHEBI:350546 ! serotonin(1+) [Term] id: GO:0051380 name: norepinephrine binding namespace: molecular_function def: "Binding to norepinephrine, (3,4-dihydroxyphenyl-2-aminoethanol), a hormone secreted by the adrenal medulla and a neurotransmitter in the sympathetic peripheral nervous system and in some tracts of the CNS. It is also the biosynthetic precursor of epinephrine." [GOC:ai] synonym: "noradrenaline binding" EXACT [] is_a: GO:1901338 ! catecholamine binding intersection_of: GO:0005488 ! binding intersection_of: has_input CHEBI:33569 ! noradrenaline relationship: has_input CHEBI:33569 ! noradrenaline [Term] id: GO:0051402 name: neuron apoptotic process namespace: biological_process def: "Any apoptotic process in a neuron, the basic cellular unit of nervous tissue. Each neuron consists of a body, an axon, and dendrites. Their purpose is to receive, conduct, and transmit impulses in the nervous system." [CL:0000540, GOC:mtg_apoptosis, MeSH:A.08.663] synonym: "apoptosis of neuronal cells" EXACT [] synonym: "apoptosis of neurons" EXACT [] synonym: "neuron apoptosis" NARROW [] synonym: "neuron programmed cell death by apoptosis" EXACT [] synonym: "neuronal cell apoptosis" EXACT [] synonym: "neuronal cell programmed cell death by apoptosis" EXACT [] synonym: "programmed cell death of neuronal cells by apoptosis" EXACT [] synonym: "programmed cell death of neurons by apoptosis" EXACT [] synonym: "programmed cell death, neuronal cells" EXACT [] synonym: "programmed cell death, neurons" EXACT [] is_a: GO:0006915 ! apoptotic process is_a: GO:0070997 ! neuron death intersection_of: GO:0006915 ! apoptotic process intersection_of: occurs_in CL:0000540 ! neuron [Term] id: GO:0051450 name: myoblast proliferation namespace: biological_process def: "The multiplication or reproduction of myoblasts, resulting in the expansion of a myoblast cell population. A myoblast is a mononucleate cell type that, by fusion with other myoblasts, gives rise to the myotubes that eventually develop into skeletal muscle fibers." [CL:0000056, GOC:ai, GOC:mtg_muscle] is_a: GO:0008283 ! cell population proliferation intersection_of: GO:0008283 ! cell population proliferation intersection_of: acts_on_population_of CL:0000056 ! myoblast relationship: acts_on_population_of CL:0000056 ! myoblast [Term] id: GO:0051469 name: vesicle fusion with vacuole namespace: biological_process alt_id: GO:0042146 def: "The joining of the lipid bilayer membrane around a vesicle with the lipid bilayer membrane around the vacuole." [GOC:ai] synonym: "heterotypic vacuole fusion (non-autophagic)" RELATED [] synonym: "heterotypic vacuole fusion, non-autophagic" RELATED [] is_a: GO:0006906 ! vesicle fusion is_a: GO:0097576 ! vacuole fusion intersection_of: GO:0009987 ! cellular process intersection_of: results_in_fusion_of GO:0005773 ! vacuole intersection_of: results_in_fusion_of GO:0031982 ! vesicle relationship: results_in_fusion_of GO:0031982 ! vesicle [Term] id: GO:0051493 name: regulation of cytoskeleton organization namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the formation, arrangement of constituent parts, or disassembly of cytoskeletal structures." [GOC:ai] synonym: "regulation of cytoskeleton organisation" EXACT [GOC:mah] synonym: "regulation of cytoskeleton organization and biogenesis" RELATED [GOC:mah] is_a: GO:0033043 ! regulation of organelle organization intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0007010 ! cytoskeleton organization relationship: regulates GO:0007010 ! cytoskeleton organization [Term] id: GO:0051494 name: negative regulation of cytoskeleton organization namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of the formation, arrangement of constituent parts, or disassembly of cytoskeletal structures." [GOC:ai] synonym: "down regulation of cytoskeleton organization" EXACT [] synonym: "down-regulation of cytoskeleton organization" EXACT [] synonym: "downregulation of cytoskeleton organization" EXACT [] synonym: "inhibition of cytoskeleton organization" NARROW [] synonym: "negative regulation of cytoskeleton organisation" EXACT [GOC:mah] synonym: "negative regulation of cytoskeleton organization and biogenesis" RELATED [GOC:mah] is_a: GO:0010639 ! negative regulation of organelle organization is_a: GO:0051493 ! regulation of cytoskeleton organization intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0007010 ! cytoskeleton organization relationship: negatively_regulates GO:0007010 ! cytoskeleton organization [Term] id: GO:0051495 name: positive regulation of cytoskeleton organization namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of the formation, arrangement of constituent parts, or disassembly of cytoskeletal structures." [GOC:ai] synonym: "activation of cytoskeleton organization" NARROW [] synonym: "positive regulation of cytoskeleton organisation" EXACT [GOC:mah] synonym: "positive regulation of cytoskeleton organization and biogenesis" RELATED [GOC:mah] synonym: "stimulation of cytoskeleton organization" NARROW [] synonym: "up regulation of cytoskeleton organization" EXACT [] synonym: "up-regulation of cytoskeleton organization" EXACT [] synonym: "upregulation of cytoskeleton organization" EXACT [] is_a: GO:0010638 ! positive regulation of organelle organization is_a: GO:0051493 ! regulation of cytoskeleton organization intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0007010 ! cytoskeleton organization relationship: positively_regulates GO:0007010 ! cytoskeleton organization [Term] id: GO:0051606 name: detection of stimulus namespace: biological_process def: "The series of events in which a stimulus is received by a cell or organism and converted into a molecular signal." [GOC:add, GOC:ai, GOC:dph, GOC:mah] subset: goslim_pir synonym: "perception of stimulus" RELATED [] synonym: "stimulus detection" EXACT [] synonym: "stimulus sensing" RELATED [] is_a: GO:0050896 ! response to stimulus [Term] id: GO:0051640 name: organelle localization namespace: biological_process def: "Any process in which an organelle is transported to, and/or maintained in, a specific location." [GOC:ai] subset: goslim_pir synonym: "establishment and maintenance of organelle localization" EXACT [] synonym: "organelle localisation" EXACT [GOC:mah] is_a: GO:0051641 ! cellular localization intersection_of: GO:0051179 ! localization intersection_of: transports_or_maintains_localization_of GO:0043226 ! organelle relationship: in_taxon NCBITaxon:2759 ! Eukaryota relationship: only_in_taxon NCBITaxon:2759 ! Eukaryota relationship: transports_or_maintains_localization_of GO:0043226 ! organelle [Term] id: GO:0051641 name: cellular localization namespace: biological_process alt_id: GO:1902580 def: "A cellular localization process whereby a substance or cellular entity, such as a protein complex or organelle, is transported to, and/or maintained in, a specific location within a cell including the localization of substances or cellular entities to the cell membrane." [GOC:tb, GOC:vw] subset: goslim_pir synonym: "cellular localisation" EXACT [GOC:mah] synonym: "establishment and maintenance of cellular localization" EXACT [] synonym: "establishment and maintenance of localization in cell or cell membrane" EXACT [] synonym: "intracellular localization" NARROW [] synonym: "localization within cell" NARROW [] synonym: "single organism cellular localization" EXACT [GOC:TermGenie] synonym: "single-organism cellular localization" RELATED [] is_a: GO:0009987 ! cellular process is_a: GO:0051179 ! localization created_by: jl creation_date: 2013-12-18T14:04:32Z [Term] id: GO:0051645 name: Golgi localization namespace: biological_process def: "Any process in which the Golgi is transported to, and/or maintained in, a specific location within the cell." [GOC:ai] synonym: "establishment and maintenance of Golgi localization" EXACT [] synonym: "Golgi apparatus localization" EXACT [] synonym: "Golgi body localization" EXACT [] synonym: "Golgi localisation" EXACT [GOC:mah] is_a: GO:0051640 ! organelle localization intersection_of: GO:0051179 ! localization intersection_of: transports_or_maintains_localization_of GO:0005794 ! Golgi apparatus relationship: transports_or_maintains_localization_of GO:0005794 ! Golgi apparatus [Term] id: GO:0051647 name: nucleus localization namespace: biological_process def: "Any process in which the nucleus is transported to, and/or maintained in, a specific location within the cell." [GOC:ai] synonym: "cell nucleus localization" EXACT [] synonym: "establishment and maintenance of nucleus localization" EXACT [] synonym: "localization of nucleus" EXACT [] synonym: "nucleus localisation" EXACT [GOC:mah] is_a: GO:0051640 ! organelle localization intersection_of: GO:0051179 ! localization intersection_of: transports_or_maintains_localization_of GO:0005634 ! nucleus relationship: transports_or_maintains_localization_of GO:0005634 ! nucleus [Term] id: GO:0051648 name: vesicle localization namespace: biological_process def: "Any process in which a vesicle or vesicles are transported to, and/or maintained in, a specific location." [GOC:ai] synonym: "cytoplasmic vesicle localization" EXACT [] synonym: "establishment and maintenance of vesicle localization" EXACT [] synonym: "vesicle localisation" EXACT [GOC:mah] is_a: GO:0051640 ! organelle localization intersection_of: GO:0051179 ! localization intersection_of: transports_or_maintains_localization_of GO:0031982 ! vesicle relationship: transports_or_maintains_localization_of GO:0031982 ! vesicle [Term] id: GO:0051649 name: establishment of localization in cell namespace: biological_process def: "Any process, occuring in a cell, that localizes a substance or cellular component. This may occur via movement, tethering or selective degradation." [GOC:ai, GOC:dos, GOC:dph, GOC:tb] synonym: "establishment of cellular localization" RELATED [GOC:dph, GOC:tb] synonym: "establishment of intracellular localization" NARROW [] synonym: "establishment of localisation in cell" EXACT [GOC:mah] synonym: "establishment of localization within cell" NARROW [] synonym: "positioning within cell" NARROW [] is_a: GO:0051234 ! establishment of localization intersection_of: GO:0051234 ! establishment of localization intersection_of: occurs_in CL:0000000 ! cell relationship: in_taxon NCBITaxon:131567 ! cellular organisms relationship: occurs_in CL:0000000 ! cell relationship: only_in_taxon NCBITaxon:131567 ! cellular organisms relationship: part_of GO:0051641 ! cellular localization [Term] id: GO:0051650 name: establishment of vesicle localization namespace: biological_process def: "The directed movement of a vesicle to a specific location." [GOC:ai] subset: goslim_aspergillus synonym: "establishment of vesicle localisation" EXACT [GOC:mah] is_a: GO:0051648 ! vesicle localization is_a: GO:0051649 ! establishment of localization in cell is_a: GO:0051656 ! establishment of organelle localization intersection_of: GO:0051234 ! establishment of localization intersection_of: transports_or_maintains_localization_of GO:0031982 ! vesicle [Term] id: GO:0051656 name: establishment of organelle localization namespace: biological_process def: "The directed movement of an organelle to a specific location." [GOC:ai] synonym: "establishment of organelle localisation" EXACT [GOC:mah] is_a: GO:0051234 ! establishment of localization is_a: GO:0051640 ! organelle localization intersection_of: GO:0051234 ! establishment of localization intersection_of: transports_or_maintains_localization_of GO:0043226 ! organelle [Term] id: GO:0051668 name: localization within membrane namespace: biological_process def: "Any process in which a substance or cellular entity, such as a protein complex or organelle, is transported to, and/or maintained in, a specific location within a membrane." [GOC:ai] synonym: "establishment and maintenance of localization in membrane" EXACT [] synonym: "establishment and maintenance of position in membrane" EXACT [] synonym: "localisation within membrane" EXACT [GOC:mah] synonym: "localization to membrane" EXACT [] synonym: "positioning within membrane" NARROW [] is_a: GO:0051641 ! cellular localization intersection_of: GO:0051179 ! localization intersection_of: has_target_end_location GO:0016020 ! membrane relationship: has_target_end_location GO:0016020 ! membrane [Term] id: GO:0051674 name: localization of cell namespace: biological_process def: "Any process in which a cell is transported to, and/or maintained in, a specific location." [GOC:ai] synonym: "cell localization" EXACT [] synonym: "establishment and maintenance of cell localization" EXACT [] synonym: "establishment and maintenance of localization of cell" EXACT [] synonym: "localisation of cell" EXACT [GOC:mah] is_a: GO:0009987 ! cellular process is_a: GO:0051179 ! localization intersection_of: GO:0051179 ! localization intersection_of: transports_or_maintains_localization_of CL:0000000 ! cell relationship: transports_or_maintains_localization_of CL:0000000 ! cell [Term] id: GO:0051683 name: establishment of Golgi localization namespace: biological_process def: "The directed movement of the Golgi to a specific location." [GOC:ai] synonym: "establishment of Golgi apparatus localization" EXACT [] synonym: "establishment of Golgi body localization" EXACT [] synonym: "establishment of Golgi localisation" EXACT [GOC:mah] is_a: GO:0051645 ! Golgi localization is_a: GO:0051649 ! establishment of localization in cell is_a: GO:0051656 ! establishment of organelle localization intersection_of: GO:0051234 ! establishment of localization intersection_of: transports_or_maintains_localization_of GO:0005794 ! Golgi apparatus [Term] id: GO:0051703 name: biological process involved in intraspecies interaction between organisms namespace: biological_process def: "Any process in which an organism has an effect on an organism of the same species." [GOC:ai] subset: gocheck_do_not_annotate subset: goslim_pir synonym: "intraspecies interaction between organisms" EXACT [] synonym: "intraspecies interaction with other organisms" EXACT [] is_a: GO:0008150 ! biological_process property_value: IAO:0000233 https://github.com/geneontology/go-ontology/issues/20191 xsd:anyURI [Term] id: GO:0051704 name: multi-organism process name: obsolete multi-organism process namespace: biological_process alt_id: GO:0051706 def: "OBSOLETE. A biological process which involves another organism of the same or different species." [GOC:jl] comment: This term was obsoleted because it was not a biologically meaningful grouping class. subset: gocheck_do_not_annotate subset: goslim_pir synonym: "interaction between organisms" EXACT [] synonym: "physiological interaction between organisms" EXACT [] synonym: "physiological interaction with other organism" EXACT [] is_a: GO:0008150 ! biological_process property_value: IAO:0000233 https://github.com/geneontology/go-ontology/issues/21459 xsd:anyURI is_obsolete: true [Term] id: GO:0051707 name: response to other organism namespace: biological_process alt_id: GO:0009613 alt_id: GO:0042828 def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus from another living organism." [GOC:ai] is_a: GO:0043207 ! response to external biotic stimulus is_a: GO:0044419 ! biological process involved in interspecies interaction between organisms [Term] id: GO:0051716 name: cellular response to stimulus namespace: biological_process def: "Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus. The process begins with detection of the stimulus by a cell and ends with a change in state or activity or the cell." [GOC:bf, GOC:jl] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. subset: gocheck_do_not_manually_annotate is_a: GO:0009987 ! cellular process is_a: GO:0050896 ! response to stimulus [Term] id: GO:0051726 name: regulation of cell cycle namespace: biological_process alt_id: GO:0000074 alt_id: GO:0007050 alt_id: GO:0071156 alt_id: GO:0071157 alt_id: GO:0071158 alt_id: GO:0071850 def: "Any process that modulates the rate or extent of progression through the cell cycle." [GOC:ai, GOC:dph, GOC:tb] subset: goslim_yeast synonym: "arrest of mitotic cell cycle progression" NARROW [GOC:mah] synonym: "cell cycle arrest" NARROW [] synonym: "cell cycle modulation" EXACT [] synonym: "cell cycle regulation" EXACT [] synonym: "cell cycle regulator" RELATED [] synonym: "control of cell cycle progression" EXACT [] synonym: "mitotic cell cycle arrest" NARROW [] synonym: "modulation of cell cycle progression" EXACT [] synonym: "negative regulation of cell cycle arrest" NARROW [] synonym: "positive regulation of cell cycle arrest" NARROW [] synonym: "regulation of cell cycle arrest" NARROW [] synonym: "regulation of cell cycle progression" EXACT [] synonym: "regulation of progression through cell cycle" EXACT [] synonym: "tumor suppressor" RELATED [] is_a: GO:0050794 ! regulation of cellular process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0007049 ! cell cycle relationship: regulates GO:0007049 ! cell cycle [Term] id: GO:0051781 name: positive regulation of cell division namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of cell division." [GOC:ai] synonym: "activation of cell division" NARROW [] synonym: "stimulation of cell division" NARROW [] synonym: "up regulation of cell division" EXACT [] synonym: "up-regulation of cell division" EXACT [] synonym: "upregulation of cell division" EXACT [] is_a: GO:0048522 ! positive regulation of cellular process is_a: GO:0051302 ! regulation of cell division intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0051301 ! cell division relationship: positively_regulates GO:0051301 ! cell division [Term] id: GO:0051782 name: negative regulation of cell division namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of cell division." [GOC:ai] synonym: "down regulation of cell division" EXACT [] synonym: "down-regulation of cell division" EXACT [] synonym: "downregulation of cell division" EXACT [] synonym: "inhibition of cell division" NARROW [] is_a: GO:0048523 ! negative regulation of cellular process is_a: GO:0051302 ! regulation of cell division intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0051301 ! cell division relationship: negatively_regulates GO:0051301 ! cell division [Term] id: GO:0051783 name: regulation of nuclear division namespace: biological_process def: "Any process that modulates the frequency, rate or extent of nuclear division, the partitioning of the nucleus and its genetic information." [GOC:ai] is_a: GO:0033043 ! regulation of organelle organization intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0000280 ! nuclear division relationship: regulates GO:0000280 ! nuclear division [Term] id: GO:0051784 name: negative regulation of nuclear division namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of nuclear division, the partitioning of the nucleus and its genetic information." [GOC:ai] synonym: "down regulation of nuclear division" EXACT [] synonym: "down-regulation of nuclear division" EXACT [] synonym: "downregulation of nuclear division" EXACT [] synonym: "inhibition of nuclear division" NARROW [] is_a: GO:0010639 ! negative regulation of organelle organization is_a: GO:0051783 ! regulation of nuclear division intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0000280 ! nuclear division relationship: negatively_regulates GO:0000280 ! nuclear division [Term] id: GO:0051785 name: positive regulation of nuclear division namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of nuclear division, the partitioning of the nucleus and its genetic information." [GOC:ai] synonym: "activation of nuclear division" NARROW [] synonym: "stimulation of nuclear division" NARROW [] synonym: "up regulation of nuclear division" EXACT [] synonym: "up-regulation of nuclear division" EXACT [] synonym: "upregulation of nuclear division" EXACT [] is_a: GO:0010638 ! positive regulation of organelle organization is_a: GO:0051783 ! regulation of nuclear division intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0000280 ! nuclear division relationship: positively_regulates GO:0000280 ! nuclear division [Term] id: GO:0051875 name: pigment granule localization namespace: biological_process def: "Any process in which a pigment granule is transported to, and/or maintained in, a specific location within the cell." [GOC:ai] synonym: "pigment granule localisation" EXACT [GOC:mah] is_a: GO:0051648 ! vesicle localization intersection_of: GO:0051179 ! localization intersection_of: transports_or_maintains_localization_of GO:0048770 ! pigment granule relationship: part_of GO:0033059 ! cellular pigmentation relationship: transports_or_maintains_localization_of GO:0048770 ! pigment granule [Term] id: GO:0051890 name: regulation of cardioblast differentiation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of cardioblast differentiation, the process in which a relatively unspecialized mesodermal cell acquires the specialized structural and/or functional features of a cardioblast. A cardioblast is a cardiac precursor cell. It is a cell that has been committed to a cardiac fate, but will undergo more cell division rather than terminally differentiating." [GOC:ai] is_a: GO:1905207 ! regulation of cardiocyte differentiation is_a: GO:2000736 ! regulation of stem cell differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0010002 ! cardioblast differentiation relationship: regulates GO:0010002 ! cardioblast differentiation [Term] id: GO:0051891 name: positive regulation of cardioblast differentiation namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of cardioblast differentiation, the process in which a relatively unspecialized mesodermal cell acquires the specialized structural and/or functional features of a cardioblast. A cardioblast is a cardiac precursor cell. It is a cell that has been committed to a cardiac fate, but will undergo more cell division rather than terminally differentiating." [GOC:ai] synonym: "activation of cardioblast differentiation" NARROW [] synonym: "stimulation of cardioblast differentiation" NARROW [] synonym: "up regulation of cardioblast differentiation" EXACT [] synonym: "up-regulation of cardioblast differentiation" EXACT [] synonym: "upregulation of cardioblast differentiation" EXACT [] is_a: GO:0051890 ! regulation of cardioblast differentiation is_a: GO:1905209 ! positive regulation of cardiocyte differentiation is_a: GO:2000738 ! positive regulation of stem cell differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0010002 ! cardioblast differentiation relationship: positively_regulates GO:0010002 ! cardioblast differentiation [Term] id: GO:0051892 name: negative regulation of cardioblast differentiation namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of cardioblast differentiation, the process in which a relatively unspecialized mesodermal cell acquires the specialized structural and/or functional features of a cardioblast. A cardioblast is a cardiac precursor cell. It is a cell that has been committed to a cardiac fate, but will undergo more cell division rather than terminally differentiating." [GOC:ai] synonym: "down regulation of cardioblast differentiation" EXACT [] synonym: "down-regulation of cardioblast differentiation" EXACT [] synonym: "downregulation of cardioblast differentiation" EXACT [] synonym: "inhibition of cardioblast differentiation" NARROW [] is_a: GO:0051890 ! regulation of cardioblast differentiation is_a: GO:1905208 ! negative regulation of cardiocyte differentiation is_a: GO:2000737 ! negative regulation of stem cell differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0010002 ! cardioblast differentiation relationship: negatively_regulates GO:0010002 ! cardioblast differentiation [Term] id: GO:0051904 name: pigment granule transport namespace: biological_process def: "The directed movement of pigment granules into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." [GOC:ai] synonym: "pigment granule translocation" EXACT [] is_a: GO:0006810 ! transport is_a: GO:0051875 ! pigment granule localization is_a: GO:0051905 ! establishment of pigment granule localization intersection_of: GO:0006810 ! transport intersection_of: transports_or_maintains_localization_of GO:0048770 ! pigment granule [Term] id: GO:0051905 name: establishment of pigment granule localization namespace: biological_process def: "The directed movement of a pigment granule to a specific location." [GOC:ai] synonym: "establishment of pigment granule localisation" EXACT [GOC:mah] is_a: GO:0051650 ! establishment of vesicle localization relationship: part_of GO:0051875 ! pigment granule localization [Term] id: GO:0051931 name: regulation of sensory perception namespace: biological_process def: "Any process that modulates the frequency, rate or extent of sensory perception, the series of events required for an organism to receive a sensory stimulus, convert it to a molecular signal, and recognize and characterize the signal." [GOC:ai] is_a: GO:0031644 ! regulation of nervous system process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0007600 ! sensory perception relationship: regulates GO:0007600 ! sensory perception [Term] id: GO:0051937 name: catecholamine transport namespace: biological_process def: "The directed movement of catecholamines, a group of physiologically important biogenic amines that possess a catechol (3,4-dihydroxyphenyl) nucleus and are derivatives of 3,4-dihydroxyphenylethylamine." [GOC:ai, ISBN:0198506732] is_a: GO:0015844 ! monoamine transport is_a: GO:0015850 ! organic hydroxy compound transport intersection_of: GO:0006810 ! transport intersection_of: transports_or_maintains_localization_of CHEBI:33567 ! catecholamine relationship: transports_or_maintains_localization_of CHEBI:33567 ! catecholamine [Term] id: GO:0051952 name: regulation of amine transport namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the directed movement of amines into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." [GOC:ai] is_a: GO:0051049 ! regulation of transport intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0015837 ! amine transport relationship: regulates GO:0015837 ! amine transport [Term] id: GO:0051953 name: negative regulation of amine transport namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of the directed movement of amines into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." [GOC:ai] synonym: "down regulation of amine transport" EXACT [] synonym: "down-regulation of amine transport" EXACT [] synonym: "downregulation of amine transport" EXACT [] synonym: "inhibition of amine transport" NARROW [] is_a: GO:0051051 ! negative regulation of transport is_a: GO:0051952 ! regulation of amine transport intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0015837 ! amine transport relationship: negatively_regulates GO:0015837 ! amine transport [Term] id: GO:0051954 name: positive regulation of amine transport namespace: biological_process def: "Any process that activates, maintains or increases the frequency, rate or extent of the directed movement of amines into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." [GOC:ai] synonym: "activation of amine transport" NARROW [] synonym: "stimulation of amine transport" NARROW [] synonym: "up regulation of amine transport" EXACT [] synonym: "up-regulation of amine transport" EXACT [] synonym: "upregulation of amine transport" EXACT [] is_a: GO:0051050 ! positive regulation of transport is_a: GO:0051952 ! regulation of amine transport intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0015837 ! amine transport relationship: positively_regulates GO:0015837 ! amine transport [Term] id: GO:0051955 name: regulation of amino acid transport namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the directed movement of amino acids into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." [GOC:ai] is_a: GO:0032890 ! regulation of organic acid transport is_a: GO:0051952 ! regulation of amine transport intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0006865 ! amino acid transport relationship: regulates GO:0006865 ! amino acid transport [Term] id: GO:0051956 name: negative regulation of amino acid transport namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of the directed movement of amino acids into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." [GOC:ai] synonym: "down regulation of amino acid transport" EXACT [] synonym: "down-regulation of amino acid transport" EXACT [] synonym: "downregulation of amino acid transport" EXACT [] synonym: "inhibition of amino acid transport" NARROW [] synonym: "negative regulation of amino acid transmembrane transport" EXACT [GOC:mah] is_a: GO:0032891 ! negative regulation of organic acid transport is_a: GO:0051953 ! negative regulation of amine transport is_a: GO:0051955 ! regulation of amino acid transport intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0006865 ! amino acid transport relationship: negatively_regulates GO:0006865 ! amino acid transport [Term] id: GO:0051957 name: positive regulation of amino acid transport namespace: biological_process def: "Any process that activates, maintains or increases the frequency, rate or extent of the directed movement of amino acids into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." [GOC:ai] synonym: "activation of amino acid transport" NARROW [] synonym: "positive regulation of amino acid transmembrane transport" EXACT [GOC:mah] synonym: "stimulation of amino acid transport" NARROW [] synonym: "up regulation of amino acid transport" EXACT [] synonym: "up-regulation of amino acid transport" EXACT [] synonym: "upregulation of amino acid transport" EXACT [] is_a: GO:0032892 ! positive regulation of organic acid transport is_a: GO:0051954 ! positive regulation of amine transport is_a: GO:0051955 ! regulation of amino acid transport intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0006865 ! amino acid transport relationship: positively_regulates GO:0006865 ! amino acid transport [Term] id: GO:0051960 name: regulation of nervous system development namespace: biological_process def: "Any process that modulates the frequency, rate or extent of nervous system development, the origin and formation of nervous tissue." [GOC:ai] is_a: GO:2000026 ! regulation of multicellular organismal development intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0007399 ! nervous system development relationship: regulates GO:0007399 ! nervous system development [Term] id: GO:0051961 name: negative regulation of nervous system development namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of nervous system development, the origin and formation of nervous tissue." [GOC:ai] synonym: "down regulation of nervous system development" EXACT [] synonym: "down-regulation of nervous system development" EXACT [] synonym: "downregulation of nervous system development" EXACT [] synonym: "inhibition of nervous system development" NARROW [] is_a: GO:0051093 ! negative regulation of developmental process is_a: GO:0051241 ! negative regulation of multicellular organismal process is_a: GO:0051960 ! regulation of nervous system development intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0007399 ! nervous system development relationship: negatively_regulates GO:0007399 ! nervous system development [Term] id: GO:0051962 name: positive regulation of nervous system development namespace: biological_process def: "Any process that activates, maintains or increases the frequency, rate or extent of nervous system development, the origin and formation of nervous tissue." [GOC:ai] synonym: "activation of nervous system development" NARROW [] synonym: "stimulation of nervous system development" NARROW [] synonym: "up regulation of nervous system development" EXACT [] synonym: "up-regulation of nervous system development" EXACT [] synonym: "upregulation of nervous system development" EXACT [] is_a: GO:0051094 ! positive regulation of developmental process is_a: GO:0051240 ! positive regulation of multicellular organismal process is_a: GO:0051960 ! regulation of nervous system development intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0007399 ! nervous system development relationship: positively_regulates GO:0007399 ! nervous system development [Term] id: GO:0051963 name: regulation of synapse assembly namespace: biological_process def: "Any process that modulates the frequency, rate or extent of synapse assembly, the aggregation, arrangement and bonding together of a set of components to form a synapse." [GOC:ai, GOC:pr] subset: goslim_synapse synonym: "regulation of synapse biogenesis" EXACT [] synonym: "regulation of synaptogenesis" EXACT [] is_a: GO:0050807 ! regulation of synapse organization is_a: GO:1901888 ! regulation of cell junction assembly intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0007416 ! synapse assembly relationship: regulates GO:0007416 ! synapse assembly [Term] id: GO:0051964 name: negative regulation of synapse assembly namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of synapse assembly, the aggregation, arrangement and bonding together of a set of components to form a synapse." [GOC:ai, GOC:pr] synonym: "down regulation of synapse assembly" EXACT [] synonym: "down-regulation of synapse assembly" EXACT [] synonym: "downregulation of synapse assembly" EXACT [] synonym: "inhibition of synapse assembly" NARROW [] synonym: "negative regulation of synapse biogenesis" EXACT [] synonym: "negative regulation of synaptogenesis" EXACT [] is_a: GO:0051961 ! negative regulation of nervous system development is_a: GO:0051963 ! regulation of synapse assembly is_a: GO:1901889 ! negative regulation of cell junction assembly is_a: GO:1905809 ! negative regulation of synapse organization intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0007416 ! synapse assembly relationship: negatively_regulates GO:0007416 ! synapse assembly [Term] id: GO:0051965 name: positive regulation of synapse assembly namespace: biological_process def: "Any process that activates, maintains or increases the frequency, rate or extent of synapse assembly, the aggregation, arrangement and bonding together of a set of components to form a synapse." [GOC:ai, GOC:pr] synonym: "activation of synapse assembly" NARROW [] synonym: "positive regulation of synapse biogenesis" EXACT [] synonym: "positive regulation of synaptogenesis" EXACT [] synonym: "stimulation of synapse assembly" NARROW [] synonym: "up regulation of synapse assembly" EXACT [] synonym: "up-regulation of synapse assembly" EXACT [] synonym: "upregulation of synapse assembly" EXACT [] is_a: GO:0051962 ! positive regulation of nervous system development is_a: GO:0051963 ! regulation of synapse assembly is_a: GO:1901890 ! positive regulation of cell junction assembly intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0007416 ! synapse assembly relationship: positively_regulates GO:0007416 ! synapse assembly [Term] id: GO:0051969 name: regulation of transmission of nerve impulse namespace: biological_process def: "Any process that modulates the frequency, rate or extent of transmission of a nerve impulse, the sequential electrochemical polarization and depolarization that travels across the membrane of a neuron in response to stimulation." [GOC:ai] synonym: "regulation of conduction of nerve impulse" EXACT [GOC:dph] is_a: GO:0010646 ! regulation of cell communication is_a: GO:0023051 ! regulation of signaling is_a: GO:0031644 ! regulation of nervous system process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0019226 ! transmission of nerve impulse relationship: regulates GO:0019226 ! transmission of nerve impulse [Term] id: GO:0051970 name: negative regulation of transmission of nerve impulse namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of transmission of a nerve impulse, the sequential electrochemical polarization and depolarization that travels across the membrane of a neuron in response to stimulation." [GOC:ai] synonym: "down regulation of transmission of nerve impulse" EXACT [] synonym: "down-regulation of transmission of nerve impulse" EXACT [] synonym: "downregulation of transmission of nerve impulse" EXACT [] synonym: "inhibition of transmission of nerve impulse" NARROW [] synonym: "negative regulation of conduction of nerve impulse" EXACT [GOC:dph] is_a: GO:0010648 ! negative regulation of cell communication is_a: GO:0023057 ! negative regulation of signaling is_a: GO:0031645 ! negative regulation of nervous system process is_a: GO:0051969 ! regulation of transmission of nerve impulse intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0019226 ! transmission of nerve impulse relationship: negatively_regulates GO:0019226 ! transmission of nerve impulse [Term] id: GO:0051971 name: positive regulation of transmission of nerve impulse namespace: biological_process def: "Any process that activates, maintains or increases the frequency, rate or extent of transmission of a nerve impulse, the sequential electrochemical polarization and depolarization that travels across the membrane of a neuron in response to stimulation." [GOC:ai] synonym: "activation of transmission of nerve impulse" NARROW [] synonym: "positive regulation of conduction of nerve impulse" EXACT [GOC:dph] synonym: "stimulation of transmission of nerve impulse" NARROW [] synonym: "up regulation of transmission of nerve impulse" EXACT [] synonym: "up-regulation of transmission of nerve impulse" EXACT [] synonym: "upregulation of transmission of nerve impulse" EXACT [] is_a: GO:0010647 ! positive regulation of cell communication is_a: GO:0023056 ! positive regulation of signaling is_a: GO:0031646 ! positive regulation of nervous system process is_a: GO:0051969 ! regulation of transmission of nerve impulse intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0019226 ! transmission of nerve impulse relationship: positively_regulates GO:0019226 ! transmission of nerve impulse [Term] id: GO:0051983 name: regulation of chromosome segregation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of chromosome segregation, the process in which genetic material, in the form of chromosomes, is organized and then physically separated and apportioned to two or more sets." [GOC:ai] is_a: GO:0050794 ! regulation of cellular process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0007059 ! chromosome segregation relationship: regulates GO:0007059 ! chromosome segregation [Term] id: GO:0051984 name: positive regulation of chromosome segregation namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of chromosome segregation, the process in which genetic material, in the form of chromosomes, is organized and then physically separated and apportioned to two or more sets." [GOC:ai] synonym: "activation of chromosome segregation" NARROW [] synonym: "stimulation of chromosome segregation" NARROW [] synonym: "up regulation of chromosome segregation" EXACT [] synonym: "up-regulation of chromosome segregation" EXACT [] synonym: "upregulation of chromosome segregation" EXACT [] is_a: GO:0048522 ! positive regulation of cellular process is_a: GO:0051983 ! regulation of chromosome segregation intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0007059 ! chromosome segregation relationship: positively_regulates GO:0007059 ! chromosome segregation [Term] id: GO:0051985 name: negative regulation of chromosome segregation namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of chromosome segregation, the process in which genetic material, in the form of chromosomes, is organized and then physically separated and apportioned to two or more sets." [GOC:ai] synonym: "down regulation of chromosome segregation" EXACT [] synonym: "down-regulation of chromosome segregation" EXACT [] synonym: "downregulation of chromosome segregation" EXACT [] synonym: "inhibition of chromosome segregation" NARROW [] is_a: GO:0048523 ! negative regulation of cellular process is_a: GO:0051983 ! regulation of chromosome segregation intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0007059 ! chromosome segregation relationship: negatively_regulates GO:0007059 ! chromosome segregation [Term] id: GO:0052002 name: obsolete metabolism by symbiont of substance in host namespace: biological_process def: "OBSOLETE. The chemical reactions and pathways performed by an organism in its host organism. The host is defined as the larger of the organisms involved in a symbiotic interaction." [GOC:mtg_pamgo_17jul06] comment: This term was obsoleted because it represents a molecular function. property_value: IAO:0000233 https://github.com/geneontology/go-ontology/issues/21469 xsd:anyURI is_obsolete: true [Term] id: GO:0052214 name: obsolete metabolism of substance in other organism involved in symbiotic interaction namespace: biological_process def: "OBSOLETE. The chemical reactions and pathways performed by an organism in a second organism, where the two organisms are in a symbiotic interaction." [GOC:mtg_pamgo_17jul06] comment: This term was obsoleted because it represents a molecular function. synonym: "metabolism of substance in other organism during symbiotic interaction" RELATED [GOC:dph] property_value: IAO:0000233 https://github.com/geneontology/go-ontology/issues/21469 xsd:anyURI is_obsolete: true [Term] id: GO:0052226 name: obsolete biosynthesis of substance in other organism involved in symbiotic interaction namespace: biological_process def: "OBSOLETE. The chemical reactions and pathways performed by an organism in a second organism resulting in the formation of substances, where the two organisms are in a symbiotic interaction." [ISBN:0198547684] comment: This term was obsoleted because there is no evidence that this process exists. synonym: "biosynthesis of substance in other organism during symbiotic interaction" RELATED [GOC:dph] property_value: IAO:0000233 https://github.com/geneontology/go-ontology/issues/18787 xsd:anyURI is_obsolete: true [Term] id: GO:0055001 name: muscle cell development namespace: biological_process alt_id: GO:0048747 def: "The process whose specific outcome is the progression of a muscle cell over time, from its formation to the mature structure. Muscle cell development does not include the steps involved in committing an unspecified cell to the muscle cell fate." [CL:0000187, GOC:devbiol] synonym: "muscle fiber development" EXACT [] synonym: "muscle fibre development" EXACT [] synonym: "myofiber development" EXACT [] synonym: "myofibre development" EXACT [] is_a: GO:0048468 ! cell development intersection_of: GO:0032502 ! developmental process intersection_of: results_in_development_of CL:0000187 ! muscle cell relationship: part_of GO:0042692 ! muscle cell differentiation relationship: results_in_development_of CL:0000187 ! muscle cell [Term] id: GO:0055002 name: striated muscle cell development namespace: biological_process def: "The process whose specific outcome is the progression of a striated muscle cell over time, from its formation to the mature structure. Striated muscle cells contain fibers that are divided by transverse bands into striations, and cardiac and skeletal muscle are types of striated muscle." [CL:0000737, GOC:devbiol] is_a: GO:0055001 ! muscle cell development intersection_of: GO:0032502 ! developmental process intersection_of: results_in_development_of CL:0000737 ! striated muscle cell relationship: part_of GO:0051146 ! striated muscle cell differentiation relationship: results_in_development_of CL:0000737 ! striated muscle cell [Term] id: GO:0055003 name: cardiac myofibril assembly namespace: biological_process def: "The process whose specific outcome is the progression of the cardiac myofibril over time, from its formation to the mature structure. A cardiac myofibril is a myofibril specific to cardiac muscle cells." [GOC:devbiol] synonym: "cardiac myofibril development" EXACT [] synonym: "cardiac myofibril morphogenesis" EXACT [] synonym: "heart myofibril assembly" RELATED [] is_a: GO:0030239 ! myofibril assembly intersection_of: GO:0022607 ! cellular component assembly intersection_of: results_in_assembly_of GO:0097512 ! cardiac myofibril relationship: part_of GO:0055013 ! cardiac muscle cell development relationship: results_in_assembly_of GO:0097512 ! cardiac myofibril [Term] id: GO:0055006 name: cardiac cell development namespace: biological_process def: "The process whose specific outcome is the progression of a cardiac cell over time, from its formation to the mature state. A cardiac cell is a cell that will form part of the cardiac organ of an individual." [GOC:devbiol] synonym: "cardiocyte development" EXACT [GOC:dph] synonym: "heart cell development" RELATED [] is_a: GO:0048468 ! cell development intersection_of: GO:0032502 ! developmental process intersection_of: results_in_development_of CL:0002494 ! cardiocyte relationship: part_of GO:0035051 ! cardiocyte differentiation relationship: results_in_development_of CL:0002494 ! cardiocyte [Term] id: GO:0055007 name: cardiac muscle cell differentiation namespace: biological_process def: "The process in which a cardiac muscle precursor cell acquires specialized features of a cardiac muscle cell. Cardiac muscle cells are striated muscle cells that are responsible for heart contraction." [GOC:devbiol, GOC:mtg_heart] synonym: "cardiomyocyte differentiation" EXACT [] synonym: "heart muscle cell differentiation" RELATED [] is_a: GO:0035051 ! cardiocyte differentiation is_a: GO:0051146 ! striated muscle cell differentiation intersection_of: GO:0030154 ! cell differentiation intersection_of: results_in_acquisition_of_features_of CL:0000746 ! cardiac muscle cell relationship: part_of GO:0048738 ! cardiac muscle tissue development relationship: results_in_acquisition_of_features_of CL:0000746 ! cardiac muscle cell [Term] id: GO:0055008 name: cardiac muscle tissue morphogenesis namespace: biological_process def: "The process in which the anatomical structures of cardiac muscle tissue are generated and organized." [GOC:devbiol] synonym: "heart muscle morphogenesis" EXACT [] synonym: "myocardium morphogenesis" BROAD [GOC:mtg_heart] is_a: GO:0060415 ! muscle tissue morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0001133 ! cardiac muscle tissue relationship: part_of GO:0003007 ! heart morphogenesis relationship: part_of GO:0048738 ! cardiac muscle tissue development relationship: results_in_morphogenesis_of UBERON:0001133 ! cardiac muscle tissue [Term] id: GO:0055009 name: atrial cardiac muscle tissue morphogenesis namespace: biological_process def: "The process in which the anatomical structure of cardiac atrium muscle is generated and organized." [GOC:devbiol] synonym: "atrial heart muscle morphogenesis" EXACT [] synonym: "atrial myocardium morphogenesis" EXACT [GOC:mtg_heart] synonym: "cardiac atrium muscle morphogenesis" EXACT [] is_a: GO:0055008 ! cardiac muscle tissue morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0004490 ! cardiac muscle tissue of atrium relationship: part_of GO:0003209 ! cardiac atrium morphogenesis relationship: part_of GO:0003228 ! atrial cardiac muscle tissue development relationship: results_in_morphogenesis_of UBERON:0004490 ! cardiac muscle tissue of atrium [Term] id: GO:0055010 name: ventricular cardiac muscle tissue morphogenesis namespace: biological_process def: "The process in which the anatomical structures of cardiac ventricle muscle is generated and organized." [GOC:devbiol] synonym: "cardiac ventricle muscle morphogenesis" EXACT [] synonym: "ventricular heart muscle morphogenesis" EXACT [] is_a: GO:0055008 ! cardiac muscle tissue morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0018649 ! cardiac muscle tissue of ventricle relationship: part_of GO:0003208 ! cardiac ventricle morphogenesis relationship: part_of GO:0003229 ! ventricular cardiac muscle tissue development relationship: results_in_morphogenesis_of UBERON:0018649 ! cardiac muscle tissue of ventricle [Term] id: GO:0055013 name: cardiac muscle cell development namespace: biological_process alt_id: GO:0048739 def: "The process whose specific outcome is the progression of a cardiac muscle cell over time, from its formation to the mature state." [GOC:devbiol, GOC:mtg_heart] synonym: "cardiac muscle fiber development" EXACT [] synonym: "cardiac muscle fibre development" EXACT [] synonym: "cardiomyocyte cell development" EXACT [GOC:mtg_muscle] synonym: "heart muscle cell development" EXACT [] synonym: "heart muscle fiber development" RELATED [] is_a: GO:0055002 ! striated muscle cell development is_a: GO:0055006 ! cardiac cell development intersection_of: GO:0032502 ! developmental process intersection_of: results_in_development_of CL:0000746 ! cardiac muscle cell relationship: part_of GO:0055007 ! cardiac muscle cell differentiation relationship: results_in_development_of CL:0000746 ! cardiac muscle cell [Term] id: GO:0055017 name: cardiac muscle tissue growth namespace: biological_process def: "The increase in size or mass of a cardiac muscle, where the increase in size or mass has the specific outcome of the progression of the organism over time from one condition to another." [GOC:devbiol] synonym: "heart muscle growth" EXACT [] is_a: GO:0048589 ! developmental growth intersection_of: GO:0048589 ! developmental growth intersection_of: results_in_growth_of UBERON:0001133 ! cardiac muscle tissue relationship: part_of GO:0048738 ! cardiac muscle tissue development relationship: part_of GO:0060419 ! heart growth relationship: results_in_growth_of UBERON:0001133 ! cardiac muscle tissue [Term] id: GO:0055018 name: regulation of cardiac muscle fiber development namespace: biological_process def: "Any process that modulates the frequency, rate or extent of cardiac muscle fiber development." [GOC:vk] synonym: "regulation of cardiac muscle fibre development" EXACT [] synonym: "regulation of heart muscle fiber development" EXACT [] is_a: GO:0060284 ! regulation of cell development is_a: GO:2000725 ! regulation of cardiac muscle cell differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0055013 ! cardiac muscle cell development relationship: regulates GO:0055013 ! cardiac muscle cell development [Term] id: GO:0055019 name: negative regulation of cardiac muscle fiber development namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of cardiac muscle fiber development." [GOC:vk] synonym: "down regulation of cardiac muscle fiber development" EXACT [] synonym: "down-regulation of cardiac muscle fiber development" EXACT [] synonym: "downregulation of cardiac muscle fiber development" EXACT [] synonym: "inhibition of cardiac muscle fiber development" NARROW [] synonym: "negative regulation of cardiac muscle fibre development" EXACT [] synonym: "negative regulation of heart muscle fiber development" RELATED [] is_a: GO:0010721 ! negative regulation of cell development is_a: GO:0051154 ! negative regulation of striated muscle cell differentiation is_a: GO:0055018 ! regulation of cardiac muscle fiber development intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0055013 ! cardiac muscle cell development relationship: negatively_regulates GO:0055013 ! cardiac muscle cell development [Term] id: GO:0055020 name: positive regulation of cardiac muscle fiber development namespace: biological_process def: "Any process that activates, maintains or increases the frequency, rate or extent of cardiac muscle fiber development." [GOC:vk] synonym: "activation of cardiac muscle fiber development" NARROW [] synonym: "positive regulation of cardiac muscle fibre development" EXACT [] synonym: "positive regulation of heart muscle fiber development" EXACT [] synonym: "stimulation of cardiac muscle fiber development" NARROW [] synonym: "up regulation of cardiac muscle fiber development" EXACT [] synonym: "up-regulation of cardiac muscle fiber development" EXACT [] synonym: "upregulation of cardiac muscle fiber development" EXACT [] is_a: GO:0010720 ! positive regulation of cell development is_a: GO:0055018 ! regulation of cardiac muscle fiber development is_a: GO:2000727 ! positive regulation of cardiac muscle cell differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0055013 ! cardiac muscle cell development relationship: positively_regulates GO:0055013 ! cardiac muscle cell development [Term] id: GO:0055021 name: regulation of cardiac muscle tissue growth namespace: biological_process def: "Any process that modulates the frequency, rate or extent of cardiac muscle growth." [GOC:vk] is_a: GO:0060420 ! regulation of heart growth intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0055017 ! cardiac muscle tissue growth relationship: regulates GO:0055017 ! cardiac muscle tissue growth [Term] id: GO:0055022 name: negative regulation of cardiac muscle tissue growth namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of cardiac muscle growth." [GOC:vk] synonym: "down regulation of cardiac muscle growth" EXACT [] synonym: "down-regulation of cardiac muscle growth" EXACT [] synonym: "downregulation of cardiac muscle growth" EXACT [] synonym: "inhibition of cardiac muscle growth" NARROW [] synonym: "negative regulation of heart muscle growth" RELATED [] is_a: GO:0055021 ! regulation of cardiac muscle tissue growth is_a: GO:0061117 ! negative regulation of heart growth intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0055017 ! cardiac muscle tissue growth relationship: negatively_regulates GO:0055017 ! cardiac muscle tissue growth [Term] id: GO:0055023 name: positive regulation of cardiac muscle tissue growth namespace: biological_process def: "Any process that activates, maintains or increases the frequency, rate or extent of cardiac muscle growth." [GOC:vk] synonym: "activation of cardiac muscle growth" NARROW [] synonym: "positive regulation of heart muscle growth" EXACT [] synonym: "stimulation of cardiac muscle growth" NARROW [] synonym: "up regulation of cardiac muscle growth" EXACT [] synonym: "up-regulation of cardiac muscle growth" EXACT [] synonym: "upregulation of cardiac muscle growth" EXACT [] is_a: GO:0055021 ! regulation of cardiac muscle tissue growth is_a: GO:0060421 ! positive regulation of heart growth intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0055017 ! cardiac muscle tissue growth relationship: positively_regulates GO:0055017 ! cardiac muscle tissue growth [Term] id: GO:0055024 name: regulation of cardiac muscle tissue development namespace: biological_process def: "Any process that modulates the frequency, rate or extent of cardiac muscle tissue development." [GOC:vk] synonym: "regulation of heart muscle development" EXACT [] is_a: GO:0016202 ! regulation of striated muscle tissue development intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0048738 ! cardiac muscle tissue development relationship: regulates GO:0048738 ! cardiac muscle tissue development [Term] id: GO:0055025 name: positive regulation of cardiac muscle tissue development namespace: biological_process def: "Any process that activates, maintains or increases the frequency, rate or extent of cardiac muscle tissue development." [GOC:vk] synonym: "activation of cardiac muscle development" NARROW [] synonym: "positive regulation of heart muscle development" EXACT [] synonym: "stimulation of cardiac muscle development" NARROW [] synonym: "up regulation of cardiac muscle development" EXACT [] synonym: "up-regulation of cardiac muscle development" EXACT [] synonym: "upregulation of cardiac muscle development" EXACT [] is_a: GO:0045844 ! positive regulation of striated muscle tissue development is_a: GO:0055024 ! regulation of cardiac muscle tissue development intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0048738 ! cardiac muscle tissue development relationship: positively_regulates GO:0048738 ! cardiac muscle tissue development [Term] id: GO:0055026 name: negative regulation of cardiac muscle tissue development namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of cardiac muscle tissue development." [GOC:vk] synonym: "down regulation of cardiac muscle development" EXACT [] synonym: "down-regulation of cardiac muscle development" EXACT [] synonym: "downregulation of cardiac muscle development" EXACT [] synonym: "inhibition of cardiac muscle development" NARROW [] synonym: "negative regulation of heart muscle development" EXACT [] is_a: GO:0045843 ! negative regulation of striated muscle tissue development is_a: GO:0055024 ! regulation of cardiac muscle tissue development intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0048738 ! cardiac muscle tissue development relationship: negatively_regulates GO:0048738 ! cardiac muscle tissue development [Term] id: GO:0055057 name: neuroblast division namespace: biological_process def: "The process resulting in the physical partitioning and separation of a neuroblast into daughter cells. A neuroblast is any cell that will divide and give rise to a neuron." [PMID:11163136, PMID:11250167] synonym: "neuroblast cell division" EXACT [] is_a: GO:0051301 ! cell division intersection_of: GO:0051301 ! cell division intersection_of: has_input CL:0000031 ! neuroblast (sensu Vertebrata) relationship: has_input CL:0000031 ! neuroblast (sensu Vertebrata) relationship: part_of GO:0007405 ! neuroblast proliferation [Term] id: GO:0055086 name: nucleobase-containing small molecule metabolic process namespace: biological_process def: "The cellular chemical reactions and pathways involving a nucleobase-containing small molecule: a nucleobase, a nucleoside, or a nucleotide." [GOC:vw] subset: goslim_drosophila subset: goslim_generic subset: goslim_pombe subset: goslim_yeast synonym: "nucleobase, nucleoside and nucleotide metabolic process" RELATED [] synonym: "nucleobase, nucleoside and nucleotide metabolism" EXACT [] is_a: GO:0006139 ! nucleobase-containing compound metabolic process is_a: GO:0044281 ! small molecule metabolic process [Term] id: GO:0055108 name: Golgi to transport vesicle transport namespace: biological_process def: "The directed movement of proteins from the Golgi to a transport vesicle. Continuously secreted proteins are sorted into transport vesicles that fuse with the plasma membrane, releasing their contents by exocytosis." [GOC:jid] is_a: GO:0046907 ! intracellular transport intersection_of: GO:0006810 ! transport intersection_of: has_target_end_location GO:0030133 ! transport vesicle intersection_of: has_target_start_location GO:0005794 ! Golgi apparatus intersection_of: occurs_in GO:0005737 ! cytoplasm relationship: has_target_end_location GO:0030133 ! transport vesicle relationship: has_target_start_location GO:0005794 ! Golgi apparatus relationship: occurs_in GO:0005737 ! cytoplasm relationship: part_of GO:0048193 ! Golgi vesicle transport [Term] id: GO:0055117 name: regulation of cardiac muscle contraction namespace: biological_process def: "Any process that modulates the frequency, rate or extent of cardiac muscle contraction." [GOC:ecd] is_a: GO:0006942 ! regulation of striated muscle contraction is_a: GO:0008016 ! regulation of heart contraction intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0060048 ! cardiac muscle contraction relationship: regulates GO:0060048 ! cardiac muscle contraction [Term] id: GO:0055118 name: negative regulation of cardiac muscle contraction namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of cardiac muscle contraction." [GOC:ecd] is_a: GO:0045822 ! negative regulation of heart contraction is_a: GO:0045988 ! negative regulation of striated muscle contraction is_a: GO:0055117 ! regulation of cardiac muscle contraction intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0060048 ! cardiac muscle contraction relationship: negatively_regulates GO:0060048 ! cardiac muscle contraction [Term] id: GO:0055123 name: digestive system development namespace: biological_process def: "The process whose specific outcome is the progression of the digestive system over time, from its formation to the mature structure. The digestive system is the entire structure in which digestion takes place. Digestion is all of the physical, chemical, and biochemical processes carried out by multicellular organisms to break down ingested nutrients into components that may be easily absorbed and directed into metabolism." [GOC:jid] is_a: GO:0048731 ! system development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0001007 ! digestive system relationship: results_in_development_of UBERON:0001007 ! digestive system [Term] id: GO:0060037 name: pharyngeal system development namespace: biological_process def: "The process whose specific outcome is the progression of the pharyngeal system over time, from its formation to the mature structure. The pharyngeal system is a transient embryonic complex that is specific to vertebrates. It comprises the pharyngeal arches, bulges of tissues of mesoderm and neural crest derivation through which pass nerves and pharyngeal arch arteries. The arches are separated internally by pharyngeal pouches, evaginations of foregut endoderm, and externally by pharyngeal clefts, invaginations of surface ectoderm. The development of the system ends when the stucture it contributes to are forming: the thymus, thyroid, parathyroids, maxilla, mandible, aortic arch, cardiac outflow tract, external and middle ear." [GOC:dph] is_a: GO:0048731 ! system development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0008814 ! pharyngeal arch system relationship: part_of GO:0043009 ! chordate embryonic development relationship: results_in_development_of UBERON:0008814 ! pharyngeal arch system [Term] id: GO:0060038 name: cardiac muscle cell proliferation namespace: biological_process def: "The expansion of a cardiac muscle cell population by cell division." [GOC:dph, GOC:rph, PMID:11161571] synonym: "cardiac myocyte proliferation" EXACT [] synonym: "cardiomyocyte proliferation" RELATED [GOC:dph, PMID:10074473] synonym: "heart muscle cell proliferation" EXACT [] is_a: GO:0014855 ! striated muscle cell proliferation intersection_of: GO:0008283 ! cell population proliferation intersection_of: acts_on_population_of CL:0000746 ! cardiac muscle cell relationship: acts_on_population_of CL:0000746 ! cardiac muscle cell relationship: part_of GO:0055017 ! cardiac muscle tissue growth [Term] id: GO:0060039 name: pericardium development namespace: biological_process def: "The process whose specific outcome is the progression of the pericardium over time, from its formation to the mature structure. The pericardium is a double-walled sac that contains the heart and the roots of the aorta, vena cava and the pulmonary artery." [GOC:dph, GOC:rph, PMID:15138308, PMID:16376438] is_a: GO:0060429 ! epithelium development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0002407 ! pericardium relationship: part_of GO:0007507 ! heart development relationship: results_in_development_of UBERON:0002407 ! pericardium [Term] id: GO:0060041 name: retina development in camera-type eye namespace: biological_process alt_id: GO:0002073 def: "The process whose specific outcome is the progression of the retina over time, from its formation to the mature structure. The retina is the innermost layer or coating at the back of the eyeball, which is sensitive to light and in which the optic nerve terminates." [GOC:bf, GOC:dph, ISBN:0815340729] synonym: "retina development in camera-style eye" EXACT [] synonym: "retinal development" RELATED [GOC:dph, GOC:tb] is_a: GO:0048856 ! anatomical structure development intersection_of: GO:0048856 ! anatomical structure development intersection_of: part_of GO:0043010 ! camera-type eye development intersection_of: results_in_development_of UBERON:0000966 ! retina relationship: part_of GO:0043010 ! camera-type eye development relationship: results_in_development_of UBERON:0000966 ! retina [Term] id: GO:0060042 name: retina morphogenesis in camera-type eye namespace: biological_process def: "The process in which the anatomical structure of the retina is generated and organized." [GOC:bf, GOC:dph, GOC:mtg_sensu] synonym: "retina morphogenesis in camera-style eye" EXACT [] synonym: "retinogenesis" EXACT [] is_a: GO:0009653 ! anatomical structure morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0000966 ! retina relationship: part_of GO:0048593 ! camera-type eye morphogenesis relationship: part_of GO:0060041 ! retina development in camera-type eye relationship: results_in_morphogenesis_of UBERON:0000966 ! retina [Term] id: GO:0060043 name: regulation of cardiac muscle cell proliferation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of cardiac muscle cell proliferation." [GOC:dph, GOC:rph] synonym: "regulation of cardiomyocyte proliferation" RELATED [GOC:dph] synonym: "regulation of heart muscle cell proliferation" EXACT [] is_a: GO:0042127 ! regulation of cell population proliferation is_a: GO:0055021 ! regulation of cardiac muscle tissue growth intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0060038 ! cardiac muscle cell proliferation relationship: regulates GO:0060038 ! cardiac muscle cell proliferation [Term] id: GO:0060044 name: negative regulation of cardiac muscle cell proliferation namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of cardiac muscle cell proliferation." [GOC:dph, GOC:rph] synonym: "negative regulation of heart muscle cell proliferation" EXACT [] is_a: GO:0008285 ! negative regulation of cell population proliferation is_a: GO:0055022 ! negative regulation of cardiac muscle tissue growth is_a: GO:0060043 ! regulation of cardiac muscle cell proliferation intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0060038 ! cardiac muscle cell proliferation relationship: negatively_regulates GO:0060038 ! cardiac muscle cell proliferation [Term] id: GO:0060045 name: positive regulation of cardiac muscle cell proliferation namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of cardiac muscle cell proliferation." [GOC:dph, GOC:rph] synonym: "positive regulation of heart muscle cell proliferation" RELATED [] is_a: GO:0008284 ! positive regulation of cell population proliferation is_a: GO:0055023 ! positive regulation of cardiac muscle tissue growth is_a: GO:0060043 ! regulation of cardiac muscle cell proliferation intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0060038 ! cardiac muscle cell proliferation relationship: positively_regulates GO:0060038 ! cardiac muscle cell proliferation [Term] id: GO:0060047 name: heart contraction namespace: biological_process def: "The multicellular organismal process in which the heart decreases in volume in a characteristic way to propel blood through the body." [GOC:dph] synonym: "cardiac contraction" RELATED [] synonym: "heart beating" EXACT [] synonym: "hemolymph circulation" RELATED [] is_a: GO:0003015 ! heart process relationship: part_of GO:0008015 ! blood circulation [Term] id: GO:0060048 name: cardiac muscle contraction namespace: biological_process def: "Muscle contraction of cardiac muscle tissue." [GOC:dph] synonym: "heart muscle contraction" EXACT [] is_a: GO:0006941 ! striated muscle contraction intersection_of: GO:0006936 ! muscle contraction intersection_of: occurs_in UBERON:0001133 ! cardiac muscle tissue relationship: occurs_in UBERON:0001133 ! cardiac muscle tissue relationship: part_of GO:0060047 ! heart contraction [Term] id: GO:0060136 name: embryonic process involved in female pregnancy is_a: GO:0048609 ! multicellular organismal reproductive process intersection_of: GO:0022414 ! reproductive process intersection_of: part_of GO:0007565 ! female pregnancy intersection_of: part_of GO:0009790 ! embryo development relationship: part_of GO:0007565 ! female pregnancy relationship: part_of GO:0009792 ! embryo development ending in birth or egg hatching [Term] id: GO:0060142 name: regulation of syncytium formation by plasma membrane fusion namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the formation of a syncytium, a mass of cytoplasm containing several nuclei enclosed within a single plasma membrane, by the fusion of the plasma membranes of two or more individual cells." [GOC:dph] is_a: GO:0050793 ! regulation of developmental process is_a: GO:0051128 ! regulation of cellular component organization intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0000768 ! syncytium formation by plasma membrane fusion relationship: regulates GO:0000768 ! syncytium formation by plasma membrane fusion [Term] id: GO:0060143 name: positive regulation of syncytium formation by plasma membrane fusion namespace: biological_process def: "Any process that increases the frequency, rate or extent of the formation of a syncytium, a mass of cytoplasm containing several nuclei enclosed within a single plasma membrane, by the fusion of the plasma membranes of two or more individual cells." [GOC:dph] is_a: GO:0051094 ! positive regulation of developmental process is_a: GO:0051130 ! positive regulation of cellular component organization is_a: GO:0060142 ! regulation of syncytium formation by plasma membrane fusion intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0000768 ! syncytium formation by plasma membrane fusion relationship: positively_regulates GO:0000768 ! syncytium formation by plasma membrane fusion [Term] id: GO:0060170 name: ciliary membrane namespace: cellular_component alt_id: GO:0020017 def: "The portion of the plasma membrane surrounding a cilium." [GOC:cilia, GOC:dph, GOC:rph] comment: Note that cilia and eukaryotic flagella are deemed to be equivalent. synonym: "cilial membrane" EXACT [] synonym: "cilium membrane" EXACT [] synonym: "flagellar membrane" NARROW [] synonym: "flagellum membrane" NARROW [] is_a: GO:0031253 ! cell projection membrane is_a: GO:0098588 ! bounding membrane of organelle intersection_of: GO:0016020 ! membrane intersection_of: bounding_layer_of GO:0005929 ! cilium relationship: bounding_layer_of GO:0005929 ! cilium relationship: part_of GO:0005929 ! cilium [Term] id: GO:0060214 name: endocardium formation namespace: biological_process def: "Formation of the endocardium of the heart. The endocardium is an anatomical structure comprised of an endothelium and an extracellular matrix that forms the innermost layer of tissue of the heart, and lines the heart chambers." [GOC:bf, GOC:dph, PMID:17722983] is_a: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: results_in_formation_of UBERON:0002165 ! endocardium relationship: part_of GO:0003160 ! endocardium morphogenesis relationship: results_in_formation_of UBERON:0002165 ! endocardium [Term] id: GO:0060218 name: hematopoietic stem cell differentiation namespace: biological_process def: "The process in which a relatively unspecialized cell acquires specialized features of a hematopoietic stem cell. A stem cell is a cell that retains the ability to divide and proliferate throughout life to provide progenitor cells that can differentiate into specialized cells." [GOC:bf, GOC:BHF, GOC:dph, GOC:rl, PMID:15378083] synonym: "haematopoietic stem cell differentiation" EXACT [] synonym: "haemopoietic stem cell differentiation" EXACT [] synonym: "hemopoietic stem cell differentiation" EXACT [] is_a: GO:0002244 ! hematopoietic progenitor cell differentiation is_a: GO:0048863 ! stem cell differentiation intersection_of: GO:0030154 ! cell differentiation intersection_of: results_in_acquisition_of_features_of CL:0000037 ! hematopoietic stem cell relationship: results_in_acquisition_of_features_of CL:0000037 ! hematopoietic stem cell [Term] id: GO:0060219 name: camera-type eye photoreceptor cell differentiation namespace: biological_process def: "The process in which a relatively unspecialized cell acquires the specialized features of a photoreceptor cell in a camera-type eye." [GOC:ascb_2009, GOC:dph, GOC:tb] is_a: GO:0001754 ! eye photoreceptor cell differentiation intersection_of: GO:0030154 ! cell differentiation intersection_of: results_in_acquisition_of_features_of CL:0010009 ! camera-type eye photoreceptor cell relationship: part_of GO:0003407 ! neural retina development relationship: part_of GO:0060042 ! retina morphogenesis in camera-type eye relationship: results_in_acquisition_of_features_of CL:0010009 ! camera-type eye photoreceptor cell [Term] id: GO:0060221 name: retinal rod cell differentiation namespace: biological_process def: "The process in which a relatively unspecialized cell acquires the specialized features of a retinal rod cell." [GOC:dph] is_a: GO:0060219 ! camera-type eye photoreceptor cell differentiation intersection_of: GO:0030154 ! cell differentiation intersection_of: results_in_acquisition_of_features_of CL:0000604 ! retinal rod cell relationship: results_in_acquisition_of_features_of CL:0000604 ! retinal rod cell [Term] id: GO:0060231 name: mesenchymal to epithelial transition namespace: biological_process def: "A transition where a mesenchymal cell establishes apical/basolateral polarity, forms intercellular adhesive junctions, synthesizes basement membrane components and becomes an epithelial cell." [GOC:ascb_2009, GOC:dph, GOC:tb] synonym: "epithelial cell differentiation from mesenchymal cell" EXACT [GOC:BHF, GOC:dph, GOC:rl] synonym: "mesenchymal-epithelial transition" EXACT [GOC:dph] is_a: GO:0030855 ! epithelial cell differentiation intersection_of: GO:0030154 ! cell differentiation intersection_of: has_input CL:0008019 ! mesenchymal cell intersection_of: results_in_acquisition_of_features_of CL:0000066 ! epithelial cell relationship: has_input CL:0008019 ! mesenchymal cell [Term] id: GO:0060249 name: anatomical structure homeostasis namespace: biological_process def: "A homeostatic process involved in the maintenance of an internal steady state within a defined anatomical structure of an organism, including control of cellular proliferation and death and control of metabolic function. An anatomical structure is any biological entity that occupies space and is distinguished from its surroundings. Anatomical structures can be macroscopic such as a carpel, or microscopic such as an acrosome." [GOC:dph] synonym: "anatomical structure maintenance" EXACT [GOC:dph] is_a: GO:0042592 ! homeostatic process [Term] id: GO:0060251 name: regulation of glial cell proliferation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of glial cell proliferation." [GOC:dph, GOC:tb] is_a: GO:0042127 ! regulation of cell population proliferation intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0014009 ! glial cell proliferation relationship: regulates GO:0014009 ! glial cell proliferation [Term] id: GO:0060252 name: positive regulation of glial cell proliferation namespace: biological_process def: "Any process that activates or increases the rate or extent of glial cell proliferation." [GOC:dph, GOC:sl, GOC:tb] is_a: GO:0008284 ! positive regulation of cell population proliferation is_a: GO:0014015 ! positive regulation of gliogenesis is_a: GO:0060251 ! regulation of glial cell proliferation intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0014009 ! glial cell proliferation relationship: positively_regulates GO:0014009 ! glial cell proliferation [Term] id: GO:0060253 name: negative regulation of glial cell proliferation namespace: biological_process def: "Any process that stops or decreases the rate or extent of glial cell proliferation." [GOC:dph, GOC:sl, GOC:tb] is_a: GO:0008285 ! negative regulation of cell population proliferation is_a: GO:0014014 ! negative regulation of gliogenesis is_a: GO:0060251 ! regulation of glial cell proliferation intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0014009 ! glial cell proliferation relationship: negatively_regulates GO:0014009 ! glial cell proliferation [Term] id: GO:0060255 name: regulation of macromolecule metabolic process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways involving macromolecules, any molecule of high relative molecular mass, the structure of which essentially comprises the multiple repetition of units derived, actually or conceptually, from molecules of low relative molecular mass." [GOC:dph, GOC:tb] is_a: GO:0019222 ! regulation of metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0043170 ! macromolecule metabolic process relationship: regulates GO:0043170 ! macromolecule metabolic process [Term] id: GO:0060271 name: cilium assembly namespace: biological_process alt_id: GO:0042384 def: "The assembly of a cilium, a specialized eukaryotic organelle that consists of a filiform extrusion of the cell surface. Each cilium is bounded by an extrusion of the cytoplasmic membrane, and contains a regular longitudinal array of microtubules, anchored basally in a centriole." [GOC:BHF, GOC:cilia, GOC:dph, GOC:kmv, GOC:pr, GOC:vw, ISBN:0198506732, PMID:13978319, PMID:27350441, Reactome:R-HSA-5617833.2] comment: Note that we deem cilium and microtubule-based flagellum to be equivalent. synonym: "ciliogenesis" EXACT [] synonym: "cilium biogenesis" RELATED [GOC:mah] synonym: "cilium formation" EXACT [] synonym: "cilium morphogenesis" RELATED [] synonym: "cilium organization" RELATED [GOC:dph] synonym: "microtubule-based flagellum assembly" EXACT [] xref: Reactome:R-HSA-5617833.2 is_a: GO:0044782 ! cilium organization is_a: GO:0070925 ! organelle assembly is_a: GO:0120031 ! plasma membrane bounded cell projection assembly intersection_of: GO:0022607 ! cellular component assembly intersection_of: results_in_assembly_of GO:0005929 ! cilium relationship: has_part GO:0035082 ! axoneme assembly relationship: has_part GO:0035735 ! intraciliary transport involved in cilium assembly relationship: has_part GO:0061512 ! protein localization to cilium relationship: has_part GO:0097712 ! vesicle targeting, trans-Golgi to periciliary membrane compartment relationship: has_part GO:1905349 ! ciliary transition zone assembly relationship: in_taxon NCBITaxon:2759 ! Eukaryota relationship: results_in_assembly_of GO:0005929 ! cilium relationship: starts_with GO:0097711 ! ciliary basal body-plasma membrane docking property_value: RO:0002161 NCBITaxon:3176 property_value: RO:0002161 NCBITaxon:3312 property_value: RO:0002161 NCBITaxon:3378 property_value: RO:0002161 NCBITaxon:3398 property_value: RO:0002161 NCBITaxon:4890 property_value: RO:0002161 NCBITaxon:5782 [Term] id: GO:0060284 name: regulation of cell development namespace: biological_process def: "Any process that modulates the rate, frequency or extent of the progression of the cell over time, from its formation to the mature structure. Cell development does not include the steps involved in committing a cell to a specific fate." [GOC:dph, GOC:tb] is_a: GO:0045595 ! regulation of cell differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0048468 ! cell development relationship: regulates GO:0048468 ! cell development [Term] id: GO:0060297 name: regulation of sarcomere organization namespace: biological_process def: "Any process that modulates the rate, frequency or extent of myofibril assembly by organization of muscle actomyosin into sarcomeres. The sarcomere is the repeating unit of a myofibril in a muscle cell, composed of an array of overlapping thick and thin filaments between two adjacent Z discs." [GOC:BHF, GOC:dph, GOC:tb] synonym: "regulation of sarcomere organisation" EXACT [GOC:mah] is_a: GO:0110020 ! regulation of actomyosin structure organization is_a: GO:1902903 ! regulation of supramolecular fiber organization intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0045214 ! sarcomere organization relationship: regulates GO:0045214 ! sarcomere organization [Term] id: GO:0060298 name: positive regulation of sarcomere organization namespace: biological_process def: "Any process that increases the rate, frequency or extent of myofibril assembly by organization of muscle actomyosin into sarcomeres. The sarcomere is the repeating unit of a myofibril in a muscle cell, composed of an array of overlapping thick and thin filaments between two adjacent Z discs." [GOC:BHF, GOC:dph, GOC:tb] synonym: "positive regulation of sarcomere organisation" EXACT [GOC:mah] is_a: GO:0051155 ! positive regulation of striated muscle cell differentiation is_a: GO:0051495 ! positive regulation of cytoskeleton organization is_a: GO:0060297 ! regulation of sarcomere organization is_a: GO:1902905 ! positive regulation of supramolecular fiber organization intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0045214 ! sarcomere organization relationship: positively_regulates GO:0045214 ! sarcomere organization [Term] id: GO:0060299 name: negative regulation of sarcomere organization namespace: biological_process def: "Any process that decreases the rate, frequency or extent of myofibril assembly by organization of muscle actomyosin into sarcomeres. The sarcomere is the repeating unit of a myofibril in a muscle cell, composed of an array of overlapping thick and thin filaments between two adjacent Z discs." [GOC:BHF, GOC:dph, GOC:tb] synonym: "negative regulation of sarcomere organisation" EXACT [GOC:mah] is_a: GO:0010721 ! negative regulation of cell development is_a: GO:0051494 ! negative regulation of cytoskeleton organization is_a: GO:0060297 ! regulation of sarcomere organization is_a: GO:1902116 ! negative regulation of organelle assembly is_a: GO:1902904 ! negative regulation of supramolecular fiber organization intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0045214 ! sarcomere organization relationship: negatively_regulates GO:0045214 ! sarcomere organization [Term] id: GO:0060322 name: head development namespace: biological_process def: "The biological process whose specific outcome is the progression of a head from an initial condition to its mature state. The head is the anterior-most division of the body." [GOC:dph] is_a: GO:0048856 ! anatomical structure development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0000033 ! head relationship: results_in_development_of UBERON:0000033 ! head [Term] id: GO:0060323 name: head morphogenesis namespace: biological_process def: "The process in which the anatomical structures of the head are generated and organized. The head is the anterior-most division of the body." [GOC:dph] is_a: GO:0009653 ! anatomical structure morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0000033 ! head relationship: part_of GO:0010171 ! body morphogenesis relationship: part_of GO:0060322 ! head development relationship: results_in_morphogenesis_of UBERON:0000033 ! head [Term] id: GO:0060324 name: face development namespace: biological_process def: "The biological process whose specific outcome is the progression of a face from an initial condition to its mature state. The face is the ventral division of the head." [GOC:dph] is_a: GO:0048856 ! anatomical structure development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0001456 ! face relationship: part_of GO:0060322 ! head development relationship: results_in_development_of UBERON:0001456 ! face [Term] id: GO:0060325 name: face morphogenesis namespace: biological_process def: "The process in which the anatomical structures of the face are generated and organized. The face is the ventral division of the head." [GOC:dph] is_a: GO:0009653 ! anatomical structure morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0001456 ! face relationship: part_of GO:0060323 ! head morphogenesis relationship: part_of GO:0060324 ! face development relationship: results_in_morphogenesis_of UBERON:0001456 ! face [Term] id: GO:0060341 name: regulation of cellular localization namespace: biological_process def: "Any process that modulates the frequency, rate or extent of a process in which a cell, a substance, or a cellular entity is transported to, or maintained in a specific location within or in the membrane of a cell." [GOC:dph, GOC:tb] synonym: "regulation of cellular localisation" EXACT [GOC:mah] is_a: GO:0032879 ! regulation of localization is_a: GO:0050794 ! regulation of cellular process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0051641 ! cellular localization relationship: regulates GO:0051641 ! cellular localization [Term] id: GO:0060348 name: bone development namespace: biological_process def: "The process whose specific outcome is the progression of bone over time, from its formation to the mature structure. Bone is the hard skeletal connective tissue consisting of both mineral and cellular components." [GOC:dph] is_a: GO:0048513 ! animal organ development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0001474 ! bone element relationship: part_of GO:0001501 ! skeletal system development relationship: results_in_development_of UBERON:0001474 ! bone element [Term] id: GO:0060349 name: bone morphogenesis namespace: biological_process def: "The process in which bones are generated and organized." [GOC:dph] is_a: GO:0009887 ! animal organ morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0001474 ! bone element relationship: part_of GO:0048705 ! skeletal system morphogenesis relationship: part_of GO:0060348 ! bone development relationship: results_in_morphogenesis_of UBERON:0001474 ! bone element [Term] id: GO:0060350 name: endochondral bone morphogenesis namespace: biological_process def: "The process in which bones are generated and organized as a result of the conversion of initial cartilaginous anlage into bone." [GOC:dph, PMID:11680679] is_a: GO:0060349 ! bone morphogenesis intersection_of: GO:0060349 ! bone morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0002513 ! endochondral bone relationship: results_in_morphogenesis_of UBERON:0002513 ! endochondral bone [Term] id: GO:0060351 name: cartilage development involved in endochondral bone morphogenesis namespace: biological_process def: "The process whose specific outcome is the progression of the cartilage that will provide a scaffold for mineralization of endochondral bones." [GOC:dph] is_a: GO:0051216 ! cartilage development intersection_of: GO:0051216 ! cartilage development intersection_of: part_of GO:0060350 ! endochondral bone morphogenesis relationship: part_of GO:0060350 ! endochondral bone morphogenesis [Term] id: GO:0060359 name: response to ammonium ion namespace: biological_process alt_id: GO:1903717 def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an ammonium stimulus." [GO_REF:0000071, GOC:TermGenie, PMID:23509267] synonym: "response to ammonia" EXACT [] is_a: GO:0010035 ! response to inorganic substance is_a: GO:1901698 ! response to nitrogen compound intersection_of: GO:0050896 ! response to stimulus intersection_of: has_input CHEBI:28938 ! ammonium relationship: has_input CHEBI:28938 ! ammonium [Term] id: GO:0060379 name: cardiac muscle cell myoblast differentiation namespace: biological_process def: "The process in which a relatively unspecialized cell acquires specialized features of a cardiac myoblast. A cardiac myoblast is a precursor cell that has been committed to a cardiac muscle cell fate but retains the ability to divide and proliferate throughout life." [GOC:dph, GOC:tb] synonym: "cardiac myoblast differentiation" RELATED [GOC:dph, GOC:tb] synonym: "myocardial precursor cell differentiation" EXACT [GOC:mtg_heart] is_a: GO:0010002 ! cardioblast differentiation is_a: GO:0045445 ! myoblast differentiation intersection_of: GO:0030154 ! cell differentiation intersection_of: results_in_acquisition_of_features_of CL:0000513 ! cardiac muscle myoblast relationship: results_in_acquisition_of_features_of CL:0000513 ! cardiac muscle myoblast [Term] id: GO:0060404 name: axonemal microtubule depolymerization namespace: biological_process def: "The removal of tubulin heterodimers from one or both ends of an axonemal microtubule. An axonemal microtubule is a microtubule in the axoneme of a cilium or flagellum; an axoneme contains nine modified doublet microtubules surrounding a pair of single microtubules." [GOC:cilia, GOC:dph, GOC:krc, GOC:tb] is_a: GO:0010938 ! cytoplasmic microtubule depolymerization is_a: GO:0061523 ! cilium disassembly intersection_of: GO:0007019 ! microtubule depolymerization intersection_of: occurs_in GO:0005930 ! axoneme relationship: occurs_in GO:0005930 ! axoneme [Term] id: GO:0060411 name: cardiac septum morphogenesis namespace: biological_process alt_id: GO:0003280 def: "The process in which the anatomical structure of a cardiac septum is generated and organized. A cardiac septum is a partition that separates parts of the heart." [GOC:dph, GOC:mtg_heart] synonym: "heart septum morphogenesis" EXACT [] is_a: GO:0009653 ! anatomical structure morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0002099 ! cardiac septum relationship: part_of GO:0003206 ! cardiac chamber morphogenesis relationship: part_of GO:0003279 ! cardiac septum development relationship: results_in_morphogenesis_of UBERON:0002099 ! cardiac septum [Term] id: GO:0060412 name: ventricular septum morphogenesis namespace: biological_process def: "The developmental process in which a ventricular septum is generated and organized. A ventricular septum is an anatomical structure that separates the lower chambers (ventricles) of the heart from one another." [GOC:dph] synonym: "interventricular septum morphogenesis" EXACT [GOC:dph] is_a: GO:0060411 ! cardiac septum morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0002094 ! interventricular septum relationship: part_of GO:0003281 ! ventricular septum development relationship: results_in_morphogenesis_of UBERON:0002094 ! interventricular septum [Term] id: GO:0060413 name: atrial septum morphogenesis namespace: biological_process alt_id: GO:0003287 def: "The developmental process in which atrial septum is generated and organized. The atrial septum separates the upper chambers (the atria) of the heart from one another." [GOC:dph, GOC:mtg_heart] synonym: "interatrial septum morphogenesis" EXACT [GOC:dph] is_a: GO:0060411 ! cardiac septum morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0002085 ! interatrial septum relationship: part_of GO:0003209 ! cardiac atrium morphogenesis relationship: part_of GO:0003283 ! atrial septum development relationship: results_in_morphogenesis_of UBERON:0002085 ! interatrial septum [Term] id: GO:0060414 name: aorta smooth muscle tissue morphogenesis namespace: biological_process def: "The process in which the structure of the smooth muscle tissue surrounding the aorta is generated and organized. An aorta is an artery that carries blood from the heart to other parts of the body." [GOC:bf, GOC:dgh, GOC:dph, Wikipedia:Aorta] is_a: GO:0060415 ! muscle tissue morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0004178 ! aorta smooth muscle tissue relationship: part_of GO:0035909 ! aorta morphogenesis relationship: part_of GO:0048745 ! smooth muscle tissue development relationship: results_in_morphogenesis_of UBERON:0004178 ! aorta smooth muscle tissue [Term] id: GO:0060415 name: muscle tissue morphogenesis namespace: biological_process def: "The process in which the anatomical structures of muscle tissue are generated and organized. Muscle tissue consists of a set of cells that are part of an organ and carry out a contractive function." [GOC:dph] is_a: GO:0048729 ! tissue morphogenesis intersection_of: GO:0048729 ! tissue morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0002385 ! muscle tissue relationship: part_of GO:0048644 ! muscle organ morphogenesis relationship: results_in_morphogenesis_of UBERON:0002385 ! muscle tissue [Term] id: GO:0060419 name: heart growth namespace: biological_process def: "The increase in size or mass of the heart." [GOC:dph, GOC:tb] is_a: GO:0035265 ! organ growth intersection_of: GO:0040007 ! growth intersection_of: results_in_growth_of UBERON:0000948 ! heart relationship: part_of GO:0007507 ! heart development relationship: results_in_growth_of UBERON:0000948 ! heart [Term] id: GO:0060420 name: regulation of heart growth namespace: biological_process def: "Any process that modulates the rate or extent of heart growth. Heart growth is the increase in size or mass of the heart." [GOC:dph, GOC:tb] is_a: GO:0046620 ! regulation of organ growth is_a: GO:2000026 ! regulation of multicellular organismal development intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0060419 ! heart growth relationship: regulates GO:0060419 ! heart growth [Term] id: GO:0060421 name: positive regulation of heart growth namespace: biological_process def: "Any process that increases the rate or extent of heart growth. Heart growth is the increase in size or mass of the heart." [GOC:BHF, GOC:dph, GOC:tb] is_a: GO:0046622 ! positive regulation of organ growth is_a: GO:0060420 ! regulation of heart growth intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0060419 ! heart growth relationship: positively_regulates GO:0060419 ! heart growth [Term] id: GO:0060425 name: lung morphogenesis namespace: biological_process def: "The process in which the anatomical structures of the lung are generated and organized." [GOC:dph] is_a: GO:0009887 ! animal organ morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0002048 ! lung relationship: part_of GO:0030324 ! lung development relationship: results_in_morphogenesis_of UBERON:0002048 ! lung [Term] id: GO:0060426 name: lung vasculature development namespace: biological_process def: "The biological process whose specific outcome is the progression of a lung vasculature from an initial condition to its mature state. This process begins with the formation of the lung vasculature and ends with the mature structure. The lung vasculature is composed of the tubule structures that carry blood or lymph in the lungs." [GOC:dph, GOC:mtg_lung] synonym: "pulmonary vasculature development" EXACT [GOC:dph, GOC:mtg_lung] is_a: GO:0001944 ! vasculature development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0000102 ! lung vasculature relationship: part_of GO:0030324 ! lung development relationship: results_in_development_of UBERON:0000102 ! lung vasculature [Term] id: GO:0060427 name: lung connective tissue development namespace: biological_process def: "The biological process whose specific outcome is the progression of lung connective tissue from an initial condition to its mature state. This process begins with the formation of lung connective tissue and ends with the mature structure. The lung connective tissue is a material made up of fibers forming a framework and support structure for the lungs." [GOC:dph, GOC:mtg_lung] synonym: "pulmonary connective tissue development" EXACT [] is_a: GO:0061448 ! connective tissue development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0000114 ! lung connective tissue relationship: part_of GO:0030324 ! lung development relationship: results_in_development_of UBERON:0000114 ! lung connective tissue [Term] id: GO:0060428 name: lung epithelium development namespace: biological_process def: "The biological process whose specific outcome is the progression of the lung epithelium from an initial condition to its mature state. This process begins with the formation of lung epithelium and ends with the mature structure. The lung epithelium is the specialized epithelium that lines the inside of the lung." [GOC:dph, GOC:mtg_lung] synonym: "pulmonary epithelium development" EXACT [GOC:dph, GOC:mtg_lung] is_a: GO:0060429 ! epithelium development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0000115 ! lung epithelium relationship: part_of GO:0030324 ! lung development relationship: results_in_development_of UBERON:0000115 ! lung epithelium [Term] id: GO:0060429 name: epithelium development namespace: biological_process def: "The process whose specific outcome is the progression of an epithelium over time, from its formation to the mature structure. An epithelium is a tissue that covers the internal or external surfaces of an anatomical structure." [GOC:dph, GOC:mtg_lung] subset: goslim_drosophila is_a: GO:0009888 ! tissue development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0000483 ! epithelium relationship: results_in_development_of UBERON:0000483 ! epithelium [Term] id: GO:0060431 name: primary lung bud formation namespace: biological_process def: "The morphogenetic process in which the foregut region specified to become the lung forms the initial left and right buds." [GOC:dph, GOC:mtg_lung] synonym: "lung formation" EXACT [GOC:dph] is_a: GO:0016331 ! morphogenesis of embryonic epithelium is_a: GO:0048645 ! animal organ formation is_a: GO:0060441 ! epithelial tube branching involved in lung morphogenesis is_a: GO:0060572 ! morphogenesis of an epithelial bud intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: results_in_formation_of UBERON:0002048 ! lung relationship: results_in_formation_of UBERON:0002048 ! lung [Term] id: GO:0060437 name: lung growth namespace: biological_process def: "The increase in size or mass of a lung. In all air-breathing vertebrates the lungs are developed from the ventral wall of the oesophagus as a pouch which divides into two sacs. In amphibians and many reptiles the lungs retain very nearly this primitive sac-like character, but in the higher forms the connection with the esophagus becomes elongated into the windpipe and the inner walls of the sacs become more and more divided, until, in the mammals, the air spaces become minutely divided into tubes ending in small air cells, in the walls of which the blood circulates in a fine network of capillaries. In mammals the lungs are more or less divided into lobes, and each lung occupies a separate cavity in the thorax." [GOC:dph] is_a: GO:0035265 ! organ growth intersection_of: GO:0040007 ! growth intersection_of: results_in_growth_of UBERON:0002048 ! lung relationship: part_of GO:0030324 ! lung development relationship: results_in_growth_of UBERON:0002048 ! lung [Term] id: GO:0060438 name: trachea development namespace: biological_process def: "The process whose specific outcome is the progression of a trachea over time, from its formation to the mature structure. The trachea is the portion of the airway that attaches to the bronchi as it branches." [GOC:dph] is_a: GO:0048513 ! animal organ development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0001005 ! respiratory airway relationship: part_of GO:0060541 ! respiratory system development relationship: results_in_development_of UBERON:0001005 ! respiratory airway [Term] id: GO:0060439 name: trachea morphogenesis namespace: biological_process def: "The process in which a trachea is generated and organized. The trachea is the portion of the airway that attaches to the bronchi as it branches." [GOC:dph] is_a: GO:0009887 ! animal organ morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0001005 ! respiratory airway relationship: part_of GO:0060438 ! trachea development relationship: results_in_morphogenesis_of UBERON:0001005 ! respiratory airway [Term] id: GO:0060440 name: trachea formation namespace: biological_process def: "The process pertaining to the initial formation of a trachea from unspecified parts. The process begins with the specific processes that contribute to the appearance of the discrete structure and ends when the trachea is recognizable. The trachea is the portion of the airway that attaches to the bronchi as it branches." [GOC:dph] is_a: GO:0048645 ! animal organ formation intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: results_in_formation_of UBERON:0001005 ! respiratory airway relationship: part_of GO:0060439 ! trachea morphogenesis relationship: results_in_formation_of UBERON:0001005 ! respiratory airway [Term] id: GO:0060441 name: epithelial tube branching involved in lung morphogenesis namespace: biological_process def: "The process in which a highly ordered sequence of patterning events generates the branched epithelial tubes of the lung, consisting of reiterated combinations of bud outgrowth, elongation, and dichotomous subdivision of terminal units." [GOC:dph, GOC:mtg_lung] synonym: "lung branching morphogenesis" EXACT [GOC:dph] is_a: GO:0048754 ! branching morphogenesis of an epithelial tube intersection_of: GO:0048754 ! branching morphogenesis of an epithelial tube intersection_of: part_of GO:0060425 ! lung morphogenesis relationship: part_of GO:0060425 ! lung morphogenesis [Term] id: GO:0060452 name: positive regulation of cardiac muscle contraction namespace: biological_process def: "Any process that increases the frequency, rate or extent of cardiac muscle contraction." [GOC:dph, GOC:tb] is_a: GO:0045823 ! positive regulation of heart contraction is_a: GO:0045989 ! positive regulation of striated muscle contraction is_a: GO:0055117 ! regulation of cardiac muscle contraction intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0060048 ! cardiac muscle contraction relationship: positively_regulates GO:0060048 ! cardiac muscle contraction [Term] id: GO:0060453 name: regulation of gastric acid secretion namespace: biological_process def: "Any process that modulates the rate frequency or extent of gastric secretion. Gastric secretion is the regulated release of gastric acid (hydrochloric acid) by parietal or oxyntic cells during digestion." [GOC:dph, GOC:tb] is_a: GO:0044058 ! regulation of digestive system process is_a: GO:0051046 ! regulation of secretion intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0001696 ! gastric acid secretion relationship: regulates GO:0001696 ! gastric acid secretion [Term] id: GO:0060454 name: positive regulation of gastric acid secretion namespace: biological_process def: "Any process that increases the rate frequency or extent of gastric secretion. Gastric secretion is the regulated release of gastric acid (hydrochloric acid) by parietal or oxyntic cells during digestion." [GOC:dph, GOC:tb] is_a: GO:0051047 ! positive regulation of secretion is_a: GO:0060453 ! regulation of gastric acid secretion is_a: GO:0060456 ! positive regulation of digestive system process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0001696 ! gastric acid secretion relationship: positively_regulates GO:0001696 ! gastric acid secretion [Term] id: GO:0060455 name: negative regulation of gastric acid secretion namespace: biological_process def: "Any process that decreases the rate frequency or extent of gastric secretion. Gastric secretion is the regulated release of gastric acid (hydrochloric acid) by parietal or oxyntic cells during digestion." [GOC:dph, GOC:tb] is_a: GO:0051048 ! negative regulation of secretion is_a: GO:0060453 ! regulation of gastric acid secretion is_a: GO:0060457 ! negative regulation of digestive system process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0001696 ! gastric acid secretion relationship: negatively_regulates GO:0001696 ! gastric acid secretion [Term] id: GO:0060456 name: positive regulation of digestive system process namespace: biological_process def: "Any process that increases the frequency, rate or extent of a digestive system process, a physical, chemical, or biochemical process carried out by living organisms to break down ingested nutrients into components that may be easily absorbed and directed into metabolism." [GOC:dph, GOC:tb] is_a: GO:0044058 ! regulation of digestive system process is_a: GO:0051240 ! positive regulation of multicellular organismal process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0022600 ! digestive system process relationship: positively_regulates GO:0022600 ! digestive system process [Term] id: GO:0060457 name: negative regulation of digestive system process namespace: biological_process def: "Any process that decreases the frequency, rate or extent of a digestive system process, a physical, chemical, or biochemical process carried out by living organisms to break down ingested nutrients into components that may be easily absorbed and directed into metabolism." [GOC:dph, GOC:tb] is_a: GO:0044058 ! regulation of digestive system process is_a: GO:0051241 ! negative regulation of multicellular organismal process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0022600 ! digestive system process relationship: negatively_regulates GO:0022600 ! digestive system process [Term] id: GO:0060458 name: right lung development namespace: biological_process def: "The biological process whose specific outcome is the progression of a right lung from an initial condition to its mature state. This process begins with the formation of the right lung and ends with the mature structure. The right lung is the lung which is on the right side of the anterior posterior axis looking from a dorsal to ventral aspect." [GOC:dph, GOC:mtg_lung] synonym: "right pulmonary development" EXACT [GOC:dph, GOC:mtg_lung] is_a: GO:0030324 ! lung development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0002167 ! right lung relationship: results_in_development_of UBERON:0002167 ! right lung [Term] id: GO:0060459 name: left lung development namespace: biological_process def: "The biological process whose specific outcome is the progression of a left lung from an initial condition to its mature state. This process begins with the formation of the left lung and ends with the mature structure. The left lung is the lung which is on the left side of the anterior posterior axis looking from a dorsal to ventral aspect." [GOC:dph, GOC:mtg_lung] synonym: "left pulmonary development" EXACT [GOC:dph] is_a: GO:0030324 ! lung development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0002168 ! left lung relationship: results_in_development_of UBERON:0002168 ! left lung [Term] id: GO:0060460 name: left lung morphogenesis namespace: biological_process def: "The process in which anatomical structures of the left lung are generated and organized." [GOC:dph] is_a: GO:0060425 ! lung morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0002168 ! left lung relationship: part_of GO:0060459 ! left lung development relationship: results_in_morphogenesis_of UBERON:0002168 ! left lung [Term] id: GO:0060461 name: right lung morphogenesis namespace: biological_process def: "The process in which anatomical structures of the right lung are generated and organized." [GOC:dph, GOC:mtg_lung] is_a: GO:0060425 ! lung morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0002167 ! right lung relationship: part_of GO:0060458 ! right lung development relationship: results_in_morphogenesis_of UBERON:0002167 ! right lung [Term] id: GO:0060465 name: pharynx development namespace: biological_process def: "The biological process whose specific outcome is the progression of a pharynx from an initial condition to its mature state. The pharynx is the part of the digestive system immediately posterior to the mouth." [GOC:dph, GOC:rk] synonym: "pharyngeal development" RELATED [] is_a: GO:0048856 ! anatomical structure development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0006562 ! pharynx relationship: part_of GO:0048565 ! digestive tract development relationship: results_in_development_of UBERON:0006562 ! pharynx [Term] id: GO:0060479 name: lung cell differentiation namespace: biological_process def: "The process in which relatively unspecialized cells, e.g. embryonic or regenerative cells, acquire specialized structural and/or functional features of a mature cell found in the lung. Differentiation includes the processes involved in commitment of a cell to a specific fate." [GOC:dph, GOC:mtg_lung] synonym: "pulmonary cell differentiation" EXACT [GOC:dph] is_a: GO:0030154 ! cell differentiation relationship: part_of GO:0030324 ! lung development [Term] id: GO:0060485 name: mesenchyme development namespace: biological_process def: "The process whose specific outcome is the progression of a mesenchymal tissue over time, from its formation to the mature structure. A mesenchymal tissue is made up of loosely packed stellate cells." [GOC:dph] synonym: "mesenchymal development" EXACT [GOC:dph] is_a: GO:0009888 ! tissue development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0003104 ! mesenchyme relationship: part_of GO:0048513 ! animal organ development relationship: results_in_development_of UBERON:0003104 ! mesenchyme [Term] id: GO:0060487 name: lung epithelial cell differentiation namespace: biological_process def: "The process in which a relatively unspecialized cell acquires specialized features of an epithelial cell that contributes to the epithelium of the lung." [GOC:dph] synonym: "pulmonary epithelial cell differentiation" RELATED [GOC:dph] is_a: GO:0030855 ! epithelial cell differentiation is_a: GO:0060479 ! lung cell differentiation intersection_of: GO:0030154 ! cell differentiation intersection_of: results_in_acquisition_of_features_of CL:0000082 ! epithelial cell of lung relationship: part_of GO:0060428 ! lung epithelium development relationship: results_in_acquisition_of_features_of CL:0000082 ! epithelial cell of lung [Term] id: GO:0060491 name: regulation of cell projection assembly namespace: biological_process def: "Any process that modulates the rate, frequency, or extent of cell projection assembly." [GOC:dph, GOC:tb] synonym: "regulation of cell projection formation" RELATED [GOC:dph, GOC:tb] is_a: GO:0031344 ! regulation of cell projection organization is_a: GO:0044087 ! regulation of cellular component biogenesis intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0030031 ! cell projection assembly relationship: regulates GO:0030031 ! cell projection assembly [Term] id: GO:0060495 name: cell-cell signaling involved in lung development namespace: biological_process def: "Any process that mediates the transfer of information from one cell to another and contributes to the progression of the lung, from its initial state to the mature structure." [GOC:dph, GOC:mtg_lung] synonym: "cell-cell signalling involved in lung development" EXACT [GOC:mah] is_a: GO:0007267 ! cell-cell signaling intersection_of: GO:0007267 ! cell-cell signaling intersection_of: part_of GO:0030324 ! lung development relationship: part_of GO:0030324 ! lung development [Term] id: GO:0060501 name: positive regulation of epithelial cell proliferation involved in lung morphogenesis namespace: biological_process def: "Any process that increases the rate or frequency of epithelial cell proliferation that results in the lung attaining its shape." [GOC:dph] is_a: GO:0050679 ! positive regulation of epithelial cell proliferation is_a: GO:2000794 ! regulation of epithelial cell proliferation involved in lung morphogenesis intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0060502 ! epithelial cell proliferation involved in lung morphogenesis relationship: positively_regulates GO:0060502 ! epithelial cell proliferation involved in lung morphogenesis [Term] id: GO:0060502 name: epithelial cell proliferation involved in lung morphogenesis namespace: biological_process def: "The multiplication or reproduction of epithelial cells, resulting in the expansion of a cell population that contributes to the shaping of the lung." [GOC:dph] is_a: GO:0050673 ! epithelial cell proliferation intersection_of: GO:0050673 ! epithelial cell proliferation intersection_of: part_of GO:0060425 ! lung morphogenesis relationship: part_of GO:0060425 ! lung morphogenesis relationship: part_of GO:0060428 ! lung epithelium development [Term] id: GO:0060536 name: cartilage morphogenesis namespace: biological_process def: "The process in which the anatomical structures of cartilage are generated and organized." [GOC:dph] is_a: GO:0009887 ! animal organ morphogenesis is_a: GO:0048729 ! tissue morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0007844 ! cartilage element relationship: part_of GO:0051216 ! cartilage development relationship: results_in_morphogenesis_of UBERON:0007844 ! cartilage element created_by: dph creation_date: 2009-04-10T09:13:27Z [Term] id: GO:0060537 name: muscle tissue development namespace: biological_process def: "The progression of muscle tissue over time, from its initial formation to its mature state. Muscle tissue is a contractile tissue made up of actin and myosin fibers." [GOC:dph] is_a: GO:0009888 ! tissue development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0002385 ! muscle tissue relationship: results_in_development_of UBERON:0002385 ! muscle tissue created_by: dph creation_date: 2009-04-10T08:05:37Z [Term] id: GO:0060538 name: skeletal muscle organ development namespace: biological_process def: "The progression of a skeletal muscle organ over time from its initial formation to its mature state. A skeletal muscle organ includes the skeletal muscle tissue and its associated connective tissue." [GOC:dph] is_a: GO:0007517 ! muscle organ development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0014892 ! skeletal muscle organ relationship: results_in_development_of UBERON:0014892 ! skeletal muscle organ created_by: dph creation_date: 2009-04-10T08:25:12Z [Term] id: GO:0060539 name: diaphragm development namespace: biological_process def: "The progression of the diaphragm over time from its initial formation to the mature structure. The diaphragm is a skeletal muscle that is responsible for contraction and expansion of the lungs." [GOC:dph] is_a: GO:0060538 ! skeletal muscle organ development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0001103 ! diaphragm relationship: part_of GO:0060541 ! respiratory system development relationship: results_in_development_of UBERON:0001103 ! diaphragm property_value: RO:0002161 NCBITaxon:8782 created_by: dph creation_date: 2009-04-10T08:44:56Z [Term] id: GO:0060540 name: diaphragm morphogenesis namespace: biological_process def: "The process in which the anatomical structures of the diaphragm are generated and organized." [GOC:dph] is_a: GO:0048644 ! muscle organ morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0001103 ! diaphragm relationship: part_of GO:0060539 ! diaphragm development relationship: results_in_morphogenesis_of UBERON:0001103 ! diaphragm property_value: RO:0002161 NCBITaxon:8782 created_by: dph creation_date: 2009-04-10T08:47:51Z [Term] id: GO:0060541 name: respiratory system development namespace: biological_process def: "The progression of the respiratory system over time from its formation to its mature structure. The respiratory system carries out respiratory gaseous exchange." [GOC:dph] subset: goslim_drosophila is_a: GO:0048731 ! system development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0001004 ! respiratory system relationship: results_in_development_of UBERON:0001004 ! respiratory system created_by: dph creation_date: 2009-04-10T08:55:42Z [Term] id: GO:0060548 name: negative regulation of cell death namespace: biological_process def: "Any process that decreases the rate or frequency of cell death. Cell death is the specific activation or halting of processes within a cell so that its vital functions markedly cease, rather than simply deteriorating gradually over time, which culminates in cell death." [GOC:BHF, GOC:dph, GOC:tb] is_a: GO:0010941 ! regulation of cell death is_a: GO:0048523 ! negative regulation of cellular process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0008219 ! cell death relationship: negatively_regulates GO:0008219 ! cell death created_by: dph creation_date: 2009-04-13T01:56:10Z [Term] id: GO:0060560 name: developmental growth involved in morphogenesis namespace: biological_process def: "The increase in size or mass of an anatomical structure that contributes to the structure attaining its shape." [GOC:dph] synonym: "differential growth" EXACT [GOC:dph] is_a: GO:0048589 ! developmental growth intersection_of: GO:0048589 ! developmental growth intersection_of: part_of GO:0009653 ! anatomical structure morphogenesis relationship: part_of GO:0009653 ! anatomical structure morphogenesis created_by: dph creation_date: 2009-04-28T08:42:53Z [Term] id: GO:0060561 name: apoptotic process involved in morphogenesis namespace: biological_process def: "Any apoptotic process that contributes to the shaping of an anatomical structure." [GOC:dph, GOC:mtg_apoptosis] synonym: "apoptosis involved in development" RELATED [] synonym: "apoptosis involved in morphogenesis" NARROW [] synonym: "morphogenetic apoptosis" RELATED [GOC:dph] is_a: GO:1902742 ! apoptotic process involved in development intersection_of: GO:0006915 ! apoptotic process intersection_of: part_of GO:0009653 ! anatomical structure morphogenesis relationship: part_of GO:0009653 ! anatomical structure morphogenesis created_by: dph creation_date: 2009-04-28T09:17:27Z [Term] id: GO:0060562 name: epithelial tube morphogenesis namespace: biological_process def: "The process in which the anatomical structures of a tube are generated and organized from an epithelium. Epithelial tubes transport gases, liquids and cells from one site to another and form the basic structure of many organs and tissues, with tube shape and organization varying from the single-celled excretory organ in Caenorhabditis elegans to the branching trees of the mammalian kidney and insect tracheal system." [GOC:dph] is_a: GO:0002009 ! morphogenesis of an epithelium is_a: GO:0035239 ! tube morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0003914 ! epithelial tube relationship: results_in_morphogenesis_of UBERON:0003914 ! epithelial tube created_by: dph creation_date: 2009-04-28T09:33:36Z [Term] id: GO:0060563 name: neuroepithelial cell differentiation namespace: biological_process def: "The process in which epiblast cells acquire specialized features of neuroepithelial cells." [GOC:dph, GOC:tb] is_a: GO:0002065 ! columnar/cuboidal epithelial cell differentiation intersection_of: GO:0030154 ! cell differentiation intersection_of: results_in_acquisition_of_features_of CL:0000710 ! neurecto-epithelial cell relationship: results_in_acquisition_of_features_of CL:0000710 ! neurecto-epithelial cell created_by: dph creation_date: 2009-04-29T01:50:05Z [Term] id: GO:0060571 name: morphogenesis of an epithelial fold namespace: biological_process def: "The morphogenetic process in which an epithelial sheet bends along a linear axis." [GOC:dph] synonym: "epithelial folding" EXACT [GOC:dph] synonym: "folding of an epithelial sheet" RELATED [GOC:dph] is_a: GO:0002009 ! morphogenesis of an epithelium intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0005157 ! epithelial fold relationship: results_in_morphogenesis_of UBERON:0005157 ! epithelial fold created_by: dph creation_date: 2009-04-30T09:27:17Z [Term] id: GO:0060572 name: morphogenesis of an epithelial bud namespace: biological_process def: "The morphogenetic process in which a bud forms from an epithelial sheet. A bud is a protrusion that forms form the sheet by localized folding." [GOC:dph] is_a: GO:0060571 ! morphogenesis of an epithelial fold intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0005153 ! epithelial bud relationship: results_in_morphogenesis_of UBERON:0005153 ! epithelial bud created_by: dph creation_date: 2009-04-30T09:38:35Z [Term] id: GO:0060577 name: pulmonary vein morphogenesis namespace: biological_process def: "The process in which the anatomical structure of the pulmonary venous blood vessels are generated and organized. Pulmonary veins are blood vessels that transport blood from the lungs to the heart." [GOC:dph] synonym: "pulmonary venous blood vessel morphogenesis" RELATED [GOC:dph] is_a: GO:0048845 ! venous blood vessel morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0002016 ! pulmonary vein relationship: results_in_morphogenesis_of UBERON:0002016 ! pulmonary vein created_by: dph creation_date: 2009-05-06T08:44:04Z [Term] id: GO:0060591 name: chondroblast differentiation namespace: biological_process def: "The process in which a mesenchymal cell, acquires specialized structural and/or functional features of a chondroblast. Differentiation includes the processes involved in commitment of a cell to a chondroblast fate. A chondroblast is a precursor cell to chondrocytes." [GOC:dph] synonym: "chondrocyte progenitor cell differentiation" RELATED [GOC:dph] is_a: GO:0030154 ! cell differentiation intersection_of: GO:0030154 ! cell differentiation intersection_of: results_in_acquisition_of_features_of CL:0000058 ! chondroblast relationship: part_of GO:0051216 ! cartilage development relationship: results_in_acquisition_of_features_of CL:0000058 ! chondroblast created_by: dph creation_date: 2009-05-11T07:47:36Z [Term] id: GO:0060605 name: tube lumen cavitation namespace: biological_process def: "The formation of a lumen by hollowing out a solid rod or cord." [GOC:dph] is_a: GO:0035148 ! tube formation intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: results_in_formation_of UBERON:0005082 ! tube lumen relationship: results_in_formation_of UBERON:0005082 ! tube lumen created_by: dph creation_date: 2009-05-15T09:39:49Z [Term] id: GO:0060609 name: apoptotic process involved in tube lumen cavitation namespace: biological_process def: "Any apoptotic process that contributes to the hollowing out of an epithelial rod or cord to form the central hole in a tube." [GOC:dph, GOC:mtg_apoptosis] synonym: "apoptosis involved in tube lumen cavitation" NARROW [] is_a: GO:0060561 ! apoptotic process involved in morphogenesis intersection_of: GO:0006915 ! apoptotic process intersection_of: part_of GO:0060605 ! tube lumen cavitation relationship: part_of GO:0060605 ! tube lumen cavitation created_by: dph creation_date: 2009-05-15T10:05:39Z [Term] id: GO:0060612 name: adipose tissue development namespace: biological_process def: "The process whose specific outcome is the progression of adipose tissue over time, from its formation to the mature structure. Adipose tissue is specialized tissue that is used to store fat." [GOC:dph] synonym: "adipogenesis" RELATED [GOC:mah, GOC:sl] is_a: GO:0061448 ! connective tissue development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0001013 ! adipose tissue relationship: part_of GO:0048513 ! animal organ development relationship: results_in_development_of UBERON:0001013 ! adipose tissue created_by: dph creation_date: 2009-05-15T12:36:28Z [Term] id: GO:0060623 name: regulation of chromosome condensation namespace: biological_process def: "Any process that modulates the rate, frequency, or extent of chromosome condensation, the progressive compaction of dispersed interphase chromatin into threadlike chromosomes prior to mitotic or meiotic nuclear division, or during apoptosis, in eukaryotic cells." [GOC:dph, GOC:tb] is_a: GO:0033044 ! regulation of chromosome organization intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0030261 ! chromosome condensation relationship: regulates GO:0030261 ! chromosome condensation created_by: dph creation_date: 2009-05-18T02:12:13Z [Term] id: GO:0060627 name: regulation of vesicle-mediated transport namespace: biological_process def: "Any process that modulates the rate, frequency, or extent of vesicle-mediated transport, the directed movement of substances, either within a vesicle or in the vesicle membrane, into, out of or within a cell." [GOC:dph, GOC:tb] is_a: GO:0050794 ! regulation of cellular process is_a: GO:0051049 ! regulation of transport intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0016192 ! vesicle-mediated transport relationship: regulates GO:0016192 ! vesicle-mediated transport created_by: dph creation_date: 2009-05-18T02:29:43Z [Term] id: GO:0060632 name: regulation of microtubule-based movement namespace: biological_process def: "Any process that modulates the rate, frequency, or extent of microtubule-based movement, the movement of organelles, other microtubules and other particles along microtubules, mediated by motor proteins." [GOC:dph, GOC:tb] is_a: GO:0032886 ! regulation of microtubule-based process is_a: GO:0051270 ! regulation of cellular component movement intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0007018 ! microtubule-based movement relationship: regulates GO:0007018 ! microtubule-based movement created_by: dph creation_date: 2009-05-18T03:07:02Z [Term] id: GO:0060688 name: regulation of morphogenesis of a branching structure namespace: biological_process def: "Any process that modulates the rate, frequency, or extent of branching morphogenesis, the process in which the anatomical structures of branches are generated and organized." [GOC:dph] is_a: GO:0022603 ! regulation of anatomical structure morphogenesis is_a: GO:0051239 ! regulation of multicellular organismal process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0001763 ! morphogenesis of a branching structure relationship: regulates GO:0001763 ! morphogenesis of a branching structure created_by: dph creation_date: 2009-06-05T12:41:44Z [Term] id: GO:0060756 name: foraging behavior namespace: biological_process def: "Behavior by which an organism locates food." [GOC:dph, GOC:tb] is_a: GO:0007610 ! behavior created_by: dph creation_date: 2009-06-22T02:46:25Z [Term] id: GO:0060788 name: ectodermal placode formation namespace: biological_process def: "The developmental process in which an ectodermal placode forms. An ectodermal placode is a thickening of the ectoderm that is the primordium of many structures derived from the ectoderm." [GOC:dph, GOC:sdb_2009, GOC:tb] is_a: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: results_in_formation_of UBERON:0005085 ! ectodermal placode relationship: part_of GO:0071697 ! ectodermal placode morphogenesis relationship: results_in_formation_of UBERON:0005085 ! ectodermal placode created_by: dph creation_date: 2009-08-04T12:15:57Z [Term] id: GO:0060837 name: blood vessel endothelial cell differentiation namespace: biological_process def: "The process in which a relatively unspecialized cell acquires specialized features of a blood vessel endothelial cell, a thin flattened cell that lines the inside surfaces of blood vessels." [GOC:dph, GOC:sdb_2009, GOC:tb] is_a: GO:0045446 ! endothelial cell differentiation intersection_of: GO:0030154 ! cell differentiation intersection_of: results_in_acquisition_of_features_of CL:0000071 ! blood vessel endothelial cell relationship: part_of GO:0001568 ! blood vessel development relationship: results_in_acquisition_of_features_of CL:0000071 ! blood vessel endothelial cell created_by: dph creation_date: 2009-08-11T03:47:36Z [Term] id: GO:0060840 name: artery development namespace: biological_process def: "The progression of the artery over time, from its initial formation to the mature structure. An artery is a blood vessel that carries blood away from the heart to a capillary bed." [GOC:dph, GOC:sdb_2009, GOC:tb] is_a: GO:0001568 ! blood vessel development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0001637 ! artery relationship: results_in_development_of UBERON:0001637 ! artery created_by: dph creation_date: 2009-08-12T10:10:51Z [Term] id: GO:0060841 name: venous blood vessel development namespace: biological_process def: "The progression of the venous blood vessel over time from its initial formation to the mature structure. Venous blood vessels carry blood back to the heart after the capillary bed." [GOC:dph, GOC:sdb_2009, GOC:tb] is_a: GO:0001568 ! blood vessel development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0001638 ! vein relationship: results_in_development_of UBERON:0001638 ! vein created_by: dph creation_date: 2009-08-12T10:14:07Z [Term] id: GO:0060842 name: arterial endothelial cell differentiation namespace: biological_process def: "The process in which a relatively unspecialized endothelial cell acquires specialized features of an arterial endothelial cell, a thin flattened cell that lines the inside surfaces of arteries." [GOC:dph, GOC:sdb_2009, GOC:tb] is_a: GO:0060837 ! blood vessel endothelial cell differentiation intersection_of: GO:0030154 ! cell differentiation intersection_of: results_in_acquisition_of_features_of CL:1000413 ! endothelial cell of artery relationship: results_in_acquisition_of_features_of CL:1000413 ! endothelial cell of artery created_by: dph creation_date: 2009-08-12T10:41:34Z [Term] id: GO:0060843 name: venous endothelial cell differentiation namespace: biological_process def: "The process in which a relatively unspecialized endothelial cell acquires specialized features of a venous endothelial cell, a thin flattened cell that lines the inside surfaces of veins." [GOC:dph, GOC:sdb_2009, GOC:tb] is_a: GO:0060837 ! blood vessel endothelial cell differentiation intersection_of: GO:0030154 ! cell differentiation intersection_of: results_in_acquisition_of_features_of CL:0002543 ! vein endothelial cell relationship: results_in_acquisition_of_features_of CL:0002543 ! vein endothelial cell created_by: dph creation_date: 2009-08-12T10:43:40Z [Term] id: GO:0060896 name: neural plate pattern specification namespace: biological_process def: "The developmental process that results in the creation of defined areas or spaces within the neural plate to which cells respond and eventually are instructed to differentiate." [GOC:dph, GOC:sdb_2009, GOC:tb] is_a: GO:0007389 ! pattern specification process created_by: dph creation_date: 2009-08-13T02:06:27Z [Term] id: GO:0060897 name: neural plate regionalization namespace: biological_process def: "The pattern specification process that results in the subdivision of an axis or axes of the neural plate in space to define an area or volume in which specific patterns of cell differentiation will take place or in which cells interpret a specific environment." [GOC:dph, GOC:sdb_2009, GOC:tb] is_a: GO:0003002 ! regionalization is_a: GO:0060896 ! neural plate pattern specification created_by: dph creation_date: 2009-08-13T02:09:04Z [Term] id: GO:0060900 name: embryonic camera-type eye formation namespace: biological_process def: "The developmental process pertaining to the initial formation of a camera-type eye from unspecified neurectoderm. This process begins with the differentiation of cells that form the optic field and ends when the optic cup has attained its shape." [GOC:dph, GOC:sdb_2009, GOC:tb] is_a: GO:0048646 ! anatomical structure formation involved in morphogenesis relationship: part_of GO:0048596 ! embryonic camera-type eye morphogenesis created_by: dph creation_date: 2009-08-13T02:26:54Z [Term] id: GO:0060914 name: heart formation namespace: biological_process def: "The developmental process pertaining to the initial formation of the heart from unspecified parts. This process begins with the specific processes that contribute to the appearance of the heart field and the arrival of cardiac neural crest to the heart region. The process ends when the structural rudiment is recognizable." [GOC:mtg_heart] synonym: "cardiogenesis" RELATED [GOC:mtg_heart] is_a: GO:0048645 ! animal organ formation intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: results_in_formation_of UBERON:0000948 ! heart relationship: part_of GO:0003007 ! heart morphogenesis relationship: results_in_formation_of UBERON:0000948 ! heart created_by: dph creation_date: 2009-09-17T09:02:13Z [Term] id: GO:0060915 name: mesenchymal cell differentiation involved in lung development namespace: biological_process def: "The process in which a relatively unspecialized cell acquires specialized features of a mesenchymal cell of the lung. A mesenchymal cell is a loosely associated cell that is part of the connective tissue in an organism. Mesenchymal cells give rise to more mature connective tissue cell types." [GOC:dph] is_a: GO:0048762 ! mesenchymal cell differentiation intersection_of: GO:0048762 ! mesenchymal cell differentiation intersection_of: part_of GO:0030324 ! lung development relationship: part_of GO:0030324 ! lung development created_by: dph creation_date: 2009-09-18T11:45:33Z [Term] id: GO:0060916 name: mesenchymal cell proliferation involved in lung development namespace: biological_process def: "The multiplication or reproduction of cells, resulting in the expansion of a mesenchymal cell population that contributes to the progression of the lung over time. A mesenchymal cell is a cell that normally gives rise to other cells that are organized as three-dimensional masses, rather than sheets." [GOC:dph] is_a: GO:0010463 ! mesenchymal cell proliferation intersection_of: GO:0010463 ! mesenchymal cell proliferation intersection_of: part_of GO:0030324 ! lung development relationship: part_of GO:0030324 ! lung development created_by: dph creation_date: 2009-09-18T11:50:17Z [Term] id: GO:0060920 name: cardiac pacemaker cell differentiation namespace: biological_process def: "The process in which a relatively unspecialized cell acquires specialized features of a pacemaker cell. Pacemaker cells are specialized cardiomyocytes that are responsible for regulating the timing of heart contractions." [GOC:mtg_cardiac_conduct_nov11, GOC:mtg_heart] synonym: "pacemaker cell differentiation" BROAD [] is_a: GO:0055007 ! cardiac muscle cell differentiation intersection_of: GO:0030154 ! cell differentiation intersection_of: results_in_acquisition_of_features_of CL:0002072 ! nodal myocyte relationship: results_in_acquisition_of_features_of CL:0002072 ! nodal myocyte created_by: dph creation_date: 2009-09-29T11:01:31Z [Term] id: GO:0060921 name: sinoatrial node cell differentiation namespace: biological_process def: "The process in which a relatively unspecialized cell acquires specialized features of a sinoatrial (SA) node cell. SA node cells are pacemaker cells that are found in the sinoatrial node." [GOC:mtg_heart] synonym: "SA node cell differentiation" EXACT [GOC:mtg_heart] synonym: "SAN cell differentiation" EXACT [GOC:BHF, GOC:mtg_cardiac_conduct_nov11] synonym: "sinus node cell differentiation" NARROW [GOC:BHF, GOC:mtg_cardiac_conduct_nov11] is_a: GO:0060920 ! cardiac pacemaker cell differentiation intersection_of: GO:0030154 ! cell differentiation intersection_of: results_in_acquisition_of_features_of CL:1000409 ! myocyte of sinoatrial node relationship: part_of GO:0003163 ! sinoatrial node development relationship: results_in_acquisition_of_features_of CL:1000409 ! myocyte of sinoatrial node created_by: dph creation_date: 2009-09-29T11:03:30Z [Term] id: GO:0060922 name: atrioventricular node cell differentiation namespace: biological_process def: "The process in which a relatively unspecialized cell acquires specialized features of an atrioventricular (AV) node cell. AV node cells are pacemaker cells that are found in the atrioventricular node." [GOC:mtg_heart] synonym: "AV node cell differentiation" RELATED [GOC:mtg_heart] is_a: GO:0003292 ! cardiac septum cell differentiation is_a: GO:0060920 ! cardiac pacemaker cell differentiation intersection_of: GO:0030154 ! cell differentiation intersection_of: results_in_acquisition_of_features_of CL:1000410 ! myocyte of atrioventricular node relationship: part_of GO:0003162 ! atrioventricular node development relationship: results_in_acquisition_of_features_of CL:1000410 ! myocyte of atrioventricular node created_by: dph creation_date: 2009-09-29T11:07:06Z [Term] id: GO:0060926 name: cardiac pacemaker cell development namespace: biological_process def: "The process whose specific outcome is the progression of a pacemaker cell over time, from its formation to the mature state. Pacemaker cells are specialized cardiomyocytes that are responsible for regulating the timing of heart contractions." [GOC:mtg_cardiac_conduct_nov11, GOC:mtg_heart] synonym: "pacemaker cell development" BROAD [] is_a: GO:0055013 ! cardiac muscle cell development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of CL:0002072 ! nodal myocyte relationship: part_of GO:0060920 ! cardiac pacemaker cell differentiation relationship: results_in_development_of CL:0002072 ! nodal myocyte created_by: dph creation_date: 2009-09-29T11:51:55Z [Term] id: GO:0060928 name: atrioventricular node cell development namespace: biological_process def: "The process whose specific outcome is the progression of an atrioventricular (AV) node cell over time, from its formation to the mature state." [GOC:mtg_heart] synonym: "AV node cell development" EXACT [GOC:mtg_heart] is_a: GO:0060926 ! cardiac pacemaker cell development intersection_of: GO:0048468 ! cell development intersection_of: results_in_development_of CL:1000410 ! myocyte of atrioventricular node relationship: part_of GO:0060922 ! atrioventricular node cell differentiation relationship: results_in_development_of CL:1000410 ! myocyte of atrioventricular node created_by: dph creation_date: 2009-09-29T11:59:26Z [Term] id: GO:0060931 name: sinoatrial node cell development namespace: biological_process def: "The process whose specific outcome is the progression of a sinoatrial (SA) node cell over time, from its formation to the mature state. SA node cells are pacemaker cells that are found in the sinoatrial node." [GOC:mtg_heart] synonym: "SA node cell development" EXACT [GOC:mtg_heart] synonym: "SAN cell development" EXACT [GOC:BHF, GOC:mtg_cardiac_conduct_nov11] synonym: "sinus node cell development" NARROW [GOC:BHF, GOC:mtg_cardiac_conduct_nov11] is_a: GO:0060926 ! cardiac pacemaker cell development intersection_of: GO:0048468 ! cell development intersection_of: results_in_development_of CL:1000409 ! myocyte of sinoatrial node relationship: part_of GO:0060921 ! sinoatrial node cell differentiation relationship: results_in_development_of CL:1000409 ! myocyte of sinoatrial node created_by: dph creation_date: 2009-09-29T12:05:47Z [Term] id: GO:0060932 name: His-Purkinje system cell differentiation namespace: biological_process def: "The process in which a relatively unspecialized cell acquires the specialized structural and/or functional features of a cell of the His-Purkinje system. These cells form the fibers regulate cardiac muscle contraction in the ventricles." [GOC:mtg_heart] is_a: GO:0055007 ! cardiac muscle cell differentiation intersection_of: GO:0030154 ! cell differentiation intersection_of: results_in_acquisition_of_features_of CL:0010007 ! His-Purkinje system cell relationship: part_of GO:0003164 ! His-Purkinje system development relationship: results_in_acquisition_of_features_of CL:0010007 ! His-Purkinje system cell created_by: dph creation_date: 2009-09-29T01:10:32Z [Term] id: GO:0060933 name: His-Purkinje system cell development namespace: biological_process def: "The process whose specific outcome is the progression of a His-Purkinje cell over time, from its formation to the mature state. These cells form the fibers that regulate cardiac muscle contraction in the ventricles." [GOC:mtg_heart] is_a: GO:0055006 ! cardiac cell development intersection_of: GO:0048468 ! cell development intersection_of: results_in_development_of CL:0010007 ! His-Purkinje system cell relationship: part_of GO:0060932 ! His-Purkinje system cell differentiation relationship: results_in_development_of CL:0010007 ! His-Purkinje system cell created_by: dph creation_date: 2009-09-29T01:15:02Z [Term] id: GO:0060935 name: cardiac fibroblast cell differentiation namespace: biological_process def: "The process in which a relatively unspecialized cell acquires the specialized structural and/or functional features of a cardiac fibroblast. A cardiac fibroblast is a connective tissue cell in the heart which secretes an extracellular matrix rich in collagen and other macromolecules." [GOC:mtg_heart] is_a: GO:0035051 ! cardiocyte differentiation intersection_of: GO:0030154 ! cell differentiation intersection_of: results_in_acquisition_of_features_of CL:0002548 ! fibroblast of cardiac tissue relationship: results_in_acquisition_of_features_of CL:0002548 ! fibroblast of cardiac tissue created_by: dph creation_date: 2009-09-29T01:20:04Z [Term] id: GO:0060936 name: cardiac fibroblast cell development namespace: biological_process def: "The process whose specific outcome is the progression of a cardiac fibroblast over time, from its formation to the mature state. A cardiac fibroblast is a connective tissue cell of the heart which secretes an extracellular matrix rich in collagen and other macromolecules." [GOC:mtg_heart] is_a: GO:0055006 ! cardiac cell development intersection_of: GO:0048468 ! cell development intersection_of: results_in_development_of CL:0002548 ! fibroblast of cardiac tissue relationship: part_of GO:0060935 ! cardiac fibroblast cell differentiation relationship: results_in_development_of CL:0002548 ! fibroblast of cardiac tissue created_by: dph creation_date: 2009-09-29T01:23:03Z [Term] id: GO:0060945 name: cardiac neuron differentiation namespace: biological_process def: "The process in which a relatively unspecialized cell acquires specialized features of a neuron of the heart." [GOC:mtg_heart] synonym: "heart neuron differentiation" EXACT [GOC:mtg_heart] is_a: GO:0030182 ! neuron differentiation is_a: GO:0035051 ! cardiocyte differentiation intersection_of: GO:0030154 ! cell differentiation intersection_of: results_in_acquisition_of_features_of CL:0010022 ! cardiac neuron relationship: part_of GO:0048483 ! autonomic nervous system development relationship: results_in_acquisition_of_features_of CL:0010022 ! cardiac neuron created_by: dph creation_date: 2009-09-29T02:45:33Z [Term] id: GO:0060946 name: cardiac blood vessel endothelial cell differentiation namespace: biological_process def: "The process in which a relatively unspecialized cell acquires specialized features of a blood vessel endothelial cell of the heart. Blood vessel endothelial cells are thin flattened cells that line the inside surfaces of blood vessels." [GOC:mtg_heart] is_a: GO:0003348 ! cardiac endothelial cell differentiation is_a: GO:0060837 ! blood vessel endothelial cell differentiation intersection_of: GO:0030154 ! cell differentiation intersection_of: results_in_acquisition_of_features_of CL:0010006 ! cardiac blood vessel endothelial cell relationship: results_in_acquisition_of_features_of CL:0010006 ! cardiac blood vessel endothelial cell created_by: dph creation_date: 2009-09-29T02:48:55Z [Term] id: GO:0060950 name: cardiac glial cell differentiation namespace: biological_process def: "The process in which a relatively unspecialized cell acquires the specialized features of a glial cell of the heart." [GOC:mtg_heart] is_a: GO:0010001 ! glial cell differentiation is_a: GO:0035051 ! cardiocyte differentiation intersection_of: GO:0030154 ! cell differentiation intersection_of: results_in_acquisition_of_features_of CL:0010020 ! cardiac glial cell relationship: results_in_acquisition_of_features_of CL:0010020 ! cardiac glial cell created_by: dph creation_date: 2009-09-29T03:06:37Z [Term] id: GO:0060952 name: cardiac glial cell development namespace: biological_process def: "The process aimed at the progression of a cardiac glial cell over time, from its formation to the fully functional mature cell." [GOC:mtg_heart] is_a: GO:0021782 ! glial cell development is_a: GO:0055006 ! cardiac cell development intersection_of: GO:0048468 ! cell development intersection_of: results_in_development_of CL:0010020 ! cardiac glial cell relationship: part_of GO:0060950 ! cardiac glial cell differentiation relationship: results_in_development_of CL:0010020 ! cardiac glial cell created_by: dph creation_date: 2009-09-29T03:09:24Z [Term] id: GO:0060956 name: endocardial cell differentiation namespace: biological_process def: "The process in which a relatively unspecialized cell acquires the specialized structural and/or functional features of an endocardial cell. An endocardial cell is a specialized endothelial cell that makes up the endocardium portion of the heart. The endocardium is the innermost layer of tissue of the heart, and lines the heart chambers." [GOC:mtg_heart] is_a: GO:0003348 ! cardiac endothelial cell differentiation intersection_of: GO:0030154 ! cell differentiation intersection_of: results_in_acquisition_of_features_of CL:0002350 ! endocardial cell relationship: part_of GO:0003157 ! endocardium development relationship: results_in_acquisition_of_features_of CL:0002350 ! endocardial cell created_by: dph creation_date: 2009-09-29T03:20:39Z [Term] id: GO:0060958 name: endocardial cell development namespace: biological_process def: "The progression of an endocardial cell over time, from its formation to the mature cell. An endocardial cell is a specialized endothelial cell that makes up the endocardium portion of the heart." [GOC:mtg_heart] is_a: GO:0001885 ! endothelial cell development is_a: GO:0055006 ! cardiac cell development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of CL:0002350 ! endocardial cell relationship: part_of GO:0060956 ! endocardial cell differentiation relationship: results_in_development_of CL:0002350 ! endocardial cell created_by: dph creation_date: 2009-09-29T03:26:59Z [Term] id: GO:0060959 name: cardiac neuron development namespace: biological_process def: "The process whose specific outcome is the progression of a cardiac neuron over time, from its formation to the mature state." [GOC:mtg_heart] synonym: "heart neuron development" EXACT [GOC:mtg_heart] is_a: GO:0048666 ! neuron development is_a: GO:0055006 ! cardiac cell development intersection_of: GO:0048468 ! cell development intersection_of: results_in_development_of CL:0010022 ! cardiac neuron relationship: part_of GO:0060945 ! cardiac neuron differentiation relationship: results_in_development_of CL:0010022 ! cardiac neuron created_by: dph creation_date: 2009-09-30T10:14:56Z [Term] id: GO:0060973 name: cell migration involved in heart development namespace: biological_process def: "The orderly movement of a cell from one site to another that will contribute to the progression of the heart over time, from its initial formation, to the mature organ." [GOC:mtg_heart] is_a: GO:0016477 ! cell migration intersection_of: GO:0016477 ! cell migration intersection_of: part_of GO:0007507 ! heart development relationship: part_of GO:0007507 ! heart development created_by: dph creation_date: 2009-10-06T10:53:49Z [Term] id: GO:0060974 name: cell migration involved in heart formation namespace: biological_process def: "The orderly movement of a cell from one site to another that contribute to the formation of the heart. The initial heart structure is made up of mesoderm-derived heart progenitor cells and neural crest-derived cells." [GOC:mtg_heart] is_a: GO:0060973 ! cell migration involved in heart development intersection_of: GO:0016477 ! cell migration intersection_of: part_of GO:0060914 ! heart formation relationship: part_of GO:0060914 ! heart formation created_by: dph creation_date: 2009-10-06T10:56:33Z [Term] id: GO:0060976 name: coronary vasculature development namespace: biological_process def: "The process whose specific outcome is the progression of the blood vessels of the heart over time, from its formation to the mature structure." [GOC:mtg_heart] synonym: "cardiac blood vessel development" EXACT [GOC:mtg_heart] synonym: "cardiac vasculature development" EXACT [GOC:mtg_heart] synonym: "coronary blood vessel development" EXACT [GOC:mtg_heart] synonym: "heart blood vessel development" EXACT [GOC:mtg_heart] synonym: "heart vasculature development" EXACT [GOC:mtg_heart] is_a: GO:0001568 ! blood vessel development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0003498 ! heart blood vessel relationship: part_of GO:0007507 ! heart development relationship: results_in_development_of UBERON:0003498 ! heart blood vessel created_by: dph creation_date: 2009-10-06T12:15:23Z [Term] id: GO:0060977 name: coronary vasculature morphogenesis namespace: biological_process def: "The process in which the anatomical structures of blood vessels of the heart are generated and organized. The blood vessel is the vasculature carrying blood." [GOC:mtg_heart] synonym: "cardiac blood vessel morphogenesis" EXACT [GOC:mtg_heart] synonym: "cardiac vasculature morphogenesis" EXACT [GOC:mtg_heart] synonym: "coronary blood vessel morphogenesis" EXACT [GOC:mtg_heart] synonym: "heart blood vessel morphogenesis" EXACT [GOC:mtg_heart] synonym: "heart vasculature morphogenesis" EXACT [GOC:mtg_heart] is_a: GO:0048514 ! blood vessel morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0003498 ! heart blood vessel relationship: part_of GO:0060976 ! coronary vasculature development relationship: results_in_morphogenesis_of UBERON:0003498 ! heart blood vessel created_by: dph creation_date: 2009-10-06T12:28:23Z [Term] id: GO:0060978 name: angiogenesis involved in coronary vascular morphogenesis namespace: biological_process def: "Blood vessel formation in the heart when new vessels emerge from the proliferation of pre-existing blood vessels." [GOC:mtg_heart] synonym: "angiogenesis involved in cardiac vascular morphogenesis" EXACT [GOC:mtg_heart] synonym: "angiogenesis involved in heart vascular morphogenesis" EXACT [GOC:mtg_heart] synonym: "coronary blood vessel angiogenesis" EXACT [GOC:mtg_heart] synonym: "coronary vasculature angiogenesis" EXACT [GOC:mtg_heart] is_a: GO:0001525 ! angiogenesis intersection_of: GO:0001525 ! angiogenesis intersection_of: part_of GO:0060976 ! coronary vasculature development relationship: part_of GO:0060977 ! coronary vasculature morphogenesis created_by: dph creation_date: 2009-10-06T02:02:12Z [Term] id: GO:0060979 name: vasculogenesis involved in coronary vascular morphogenesis namespace: biological_process def: "The differentiation of endothelial cells from progenitor cells that contributes to blood vessel development in the heart, and the de novo formation of blood vessels and tubes." [GOC:mtg_heart] synonym: "coronary vasculogenesis" EXACT [GOC:mtg_heart] synonym: "vasculogenesis involved in coronary blood vessel morphogenesis" EXACT [GOC:mtg_heart] is_a: GO:0001570 ! vasculogenesis intersection_of: GO:0001570 ! vasculogenesis intersection_of: part_of GO:0060977 ! coronary vasculature morphogenesis relationship: part_of GO:0060977 ! coronary vasculature morphogenesis created_by: dph creation_date: 2009-10-06T02:19:42Z [Term] id: GO:0060980 name: cell migration involved in coronary vasculogenesis namespace: biological_process def: "The orderly movement of a cell from one site to another that will contribute to the differentiation of an endothelial cell that will form the blood vessels of the heart." [GOC:mtg_heart] is_a: GO:0035441 ! cell migration involved in vasculogenesis is_a: GO:0060973 ! cell migration involved in heart development intersection_of: GO:0016477 ! cell migration intersection_of: part_of GO:0060979 ! vasculogenesis involved in coronary vascular morphogenesis relationship: part_of GO:0060979 ! vasculogenesis involved in coronary vascular morphogenesis created_by: dph creation_date: 2009-10-06T02:33:06Z [Term] id: GO:0060981 name: cell migration involved in coronary angiogenesis namespace: biological_process def: "The orderly movement of a cell from one site to another that will contribute to the formation of new blood vessels in the heart from pre-existing blood vessels." [GOC:mtg_heart] is_a: GO:0060973 ! cell migration involved in heart development intersection_of: GO:0016477 ! cell migration intersection_of: part_of GO:0060978 ! angiogenesis involved in coronary vascular morphogenesis relationship: part_of GO:0060978 ! angiogenesis involved in coronary vascular morphogenesis created_by: dph creation_date: 2009-10-06T02:49:12Z [Term] id: GO:0060986 name: endocrine hormone secretion namespace: biological_process def: "The regulated release of a hormone into the circulatory system." [GOC:dph] is_a: GO:0046879 ! hormone secretion relationship: part_of GO:0050886 ! endocrine process created_by: dph creation_date: 2010-01-11T09:03:48Z [Term] id: GO:0061024 name: membrane organization namespace: biological_process alt_id: GO:0016044 alt_id: GO:0044802 def: "A process which results in the assembly, arrangement of constituent parts, or disassembly of a membrane. A membrane is a double layer of lipid molecules that encloses all cells, and, in eukaryotes, many organelles; may be a single or double lipid bilayer; also includes associated proteins." [GOC:dph, GOC:tb] subset: goslim_chembl subset: goslim_drosophila subset: goslim_generic subset: goslim_pir subset: goslim_pombe synonym: "cellular membrane organisation" EXACT [] synonym: "cellular membrane organization" EXACT [] synonym: "membrane organisation" EXACT [GOC:mah] synonym: "membrane organization and biogenesis" RELATED [GOC:mah] synonym: "single-organism membrane organization" RELATED [] is_a: GO:0016043 ! cellular component organization intersection_of: GO:0016043 ! cellular component organization intersection_of: results_in_organization_of GO:0016020 ! membrane relationship: results_in_organization_of GO:0016020 ! membrane created_by: jl creation_date: 2010-02-08T02:43:11Z [Term] id: GO:0061025 name: membrane fusion namespace: biological_process alt_id: GO:0006944 alt_id: GO:0044801 def: "The membrane organization process that joins two lipid bilayers to form a single membrane." [GOC:dph, GOC:tb] subset: goslim_yeast synonym: "cellular membrane fusion" EXACT [] synonym: "single-organism membrane fusion" RELATED [] xref: Wikipedia:Lipid_bilayer_fusion is_a: GO:0061024 ! membrane organization intersection_of: GO:0061024 ! membrane organization intersection_of: results_in_fusion_of GO:0016020 ! membrane relationship: results_in_fusion_of GO:0016020 ! membrane created_by: jl creation_date: 2010-02-08T02:48:06Z [Term] id: GO:0061032 name: visceral serous pericardium development namespace: biological_process def: "The progression of the visceral serous pericardium from its formation to the mature structure. The visceral serous pericardium is the inner layer of the pericardium." [GOC:dph, GOC:yaf] synonym: "epicardium development" EXACT [GOC:dph] is_a: GO:0048856 ! anatomical structure development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0002425 ! visceral serous pericardium relationship: part_of GO:0060039 ! pericardium development relationship: results_in_development_of UBERON:0002425 ! visceral serous pericardium created_by: dph creation_date: 2010-02-09T09:52:49Z [Term] id: GO:0061035 name: regulation of cartilage development namespace: biological_process def: "Any process that modulates the rate, frequency, or extent of cartilage development, the process whose specific outcome is the progression of the cartilage over time, from its formation to the mature structure. Cartilage is a connective tissue dominated by extracellular matrix containing collagen type II and large amounts of proteoglycan, particularly chondroitin sulfate." [GOC:dph] is_a: GO:2000026 ! regulation of multicellular organismal development intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0051216 ! cartilage development relationship: regulates GO:0051216 ! cartilage development created_by: dph creation_date: 2010-02-09T03:41:35Z [Term] id: GO:0061036 name: positive regulation of cartilage development namespace: biological_process def: "Any process that increases the rate, frequency, or extent of cartilage development, the process whose specific outcome is the progression of the cartilage over time, from its formation to the mature structure. Cartilage is a connective tissue dominated by extracellular matrix containing collagen type II and large amounts of proteoglycan, particularly chondroitin sulfate." [GOC:dph] is_a: GO:0051094 ! positive regulation of developmental process is_a: GO:0051240 ! positive regulation of multicellular organismal process is_a: GO:0061035 ! regulation of cartilage development intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0051216 ! cartilage development relationship: positively_regulates GO:0051216 ! cartilage development created_by: dph creation_date: 2010-02-09T03:41:35Z [Term] id: GO:0061037 name: negative regulation of cartilage development namespace: biological_process def: "Any process that decreases the rate, frequency, or extent of cartilage development, the process whose specific outcome is the progression of the cartilage over time, from its formation to the mature structure. Cartilage is a connective tissue dominated by extracellular matrix containing collagen type II and large amounts of proteoglycan, particularly chondroitin sulfate." [GOC:dph] is_a: GO:0051093 ! negative regulation of developmental process is_a: GO:0051241 ! negative regulation of multicellular organismal process is_a: GO:0061035 ! regulation of cartilage development intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0051216 ! cartilage development relationship: negatively_regulates GO:0051216 ! cartilage development created_by: dph creation_date: 2010-02-09T03:41:35Z [Term] id: GO:0061040 name: female gonad morphogenesis namespace: biological_process def: "The process in which a female gonad is generated and organized." [GOC:BHF, GOC:dph] synonym: "ovary morphogenesis" RELATED [GOC:dph, GOC:tb] is_a: GO:0035262 ! gonad morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0000992 ! ovary relationship: part_of GO:0008585 ! female gonad development relationship: results_in_morphogenesis_of UBERON:0000992 ! ovary created_by: dph creation_date: 2010-02-22T11:29:28Z [Term] id: GO:0061046 name: regulation of branching involved in lung morphogenesis namespace: biological_process def: "Any process that modulates the rate, frequency, or extent of the process in which a highly ordered sequence of patterning events generates the branched structures of the lung, consisting of reiterated combinations of bud outgrowth, elongation, and dichotomous subdivision of terminal units." [GOC:dph, GOC:yaf] is_a: GO:0060688 ! regulation of morphogenesis of a branching structure is_a: GO:1905330 ! regulation of morphogenesis of an epithelium intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0060441 ! epithelial tube branching involved in lung morphogenesis relationship: regulates GO:0060441 ! epithelial tube branching involved in lung morphogenesis created_by: dph creation_date: 2010-02-25T10:41:38Z [Term] id: GO:0061047 name: positive regulation of branching involved in lung morphogenesis namespace: biological_process def: "Any process that increases the rate, frequency, or extent of the process in which a highly ordered sequence of patterning events generates the branched structures of the lung, consisting of reiterated combinations of bud outgrowth, elongation, and dichotomous subdivision of terminal units." [GOC:dph, GOC:yaf] is_a: GO:0051240 ! positive regulation of multicellular organismal process is_a: GO:0061046 ! regulation of branching involved in lung morphogenesis is_a: GO:1905332 ! positive regulation of morphogenesis of an epithelium intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0060441 ! epithelial tube branching involved in lung morphogenesis relationship: positively_regulates GO:0060441 ! epithelial tube branching involved in lung morphogenesis created_by: dph creation_date: 2010-02-25T10:50:01Z [Term] id: GO:0061048 name: negative regulation of branching involved in lung morphogenesis namespace: biological_process def: "Any process that decreases the rate, frequency, or extent of the process in which a highly ordered sequence of patterning events generates the branched structures of the lung, consisting of reiterated combinations of bud outgrowth, elongation, and dichotomous subdivision of terminal units." [GOC:dph, GOC:yaf] is_a: GO:0051241 ! negative regulation of multicellular organismal process is_a: GO:0061046 ! regulation of branching involved in lung morphogenesis is_a: GO:1905331 ! negative regulation of morphogenesis of an epithelium intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0060441 ! epithelial tube branching involved in lung morphogenesis relationship: negatively_regulates GO:0060441 ! epithelial tube branching involved in lung morphogenesis created_by: dph creation_date: 2010-02-25T10:51:31Z [Term] id: GO:0061049 name: cell growth involved in cardiac muscle cell development namespace: biological_process def: "The growth of a cardiac muscle cell, where growth contributes to the progression of the cell over time from its initial formation to its mature state." [GOC:dph] synonym: "cardiac muscle cell hypertrophy" RELATED [GOC:dph] synonym: "cardiomyocyte growth" RELATED [GOC:dph] synonym: "heart muscle cell growth" RELATED [GOC:dph] is_a: GO:0048588 ! developmental cell growth intersection_of: GO:0016049 ! cell growth intersection_of: part_of GO:0055013 ! cardiac muscle cell development relationship: part_of GO:0003301 ! physiological cardiac muscle hypertrophy relationship: part_of GO:0055013 ! cardiac muscle cell development created_by: dph creation_date: 2010-02-25T12:56:07Z [Term] id: GO:0061050 name: regulation of cell growth involved in cardiac muscle cell development namespace: biological_process def: "Any process that modulates the rate, frequency, or extent of the growth of a cardiac muscle cell, where growth contributes to the progression of the cell over time from its initial formation to its mature state." [GOC:dph] is_a: GO:0001558 ! regulation of cell growth is_a: GO:0055021 ! regulation of cardiac muscle tissue growth intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0061049 ! cell growth involved in cardiac muscle cell development relationship: regulates GO:0061049 ! cell growth involved in cardiac muscle cell development created_by: dph creation_date: 2010-02-25T01:05:16Z [Term] id: GO:0061051 name: positive regulation of cell growth involved in cardiac muscle cell development namespace: biological_process def: "Any process that increases the rate, frequency, or extent of the growth of a cardiac muscle cell, where growth contributes to the progression of the cell over time from its initial formation to its mature state." [GOC:dph] is_a: GO:0010613 ! positive regulation of cardiac muscle hypertrophy is_a: GO:0030307 ! positive regulation of cell growth is_a: GO:0051155 ! positive regulation of striated muscle cell differentiation is_a: GO:0055023 ! positive regulation of cardiac muscle tissue growth is_a: GO:0061050 ! regulation of cell growth involved in cardiac muscle cell development intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0061049 ! cell growth involved in cardiac muscle cell development relationship: positively_regulates GO:0061049 ! cell growth involved in cardiac muscle cell development created_by: dph creation_date: 2010-02-25T01:08:08Z [Term] id: GO:0061052 name: negative regulation of cell growth involved in cardiac muscle cell development namespace: biological_process def: "Any process that decreases the rate, frequency, or extent of the growth of a cardiac muscle cell, where growth contributes to the progression of the cell over time from its initial formation to its mature state." [GOC:dph] is_a: GO:0010614 ! negative regulation of cardiac muscle hypertrophy is_a: GO:0030308 ! negative regulation of cell growth is_a: GO:0051154 ! negative regulation of striated muscle cell differentiation is_a: GO:0055022 ! negative regulation of cardiac muscle tissue growth is_a: GO:0061050 ! regulation of cell growth involved in cardiac muscle cell development intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0061049 ! cell growth involved in cardiac muscle cell development relationship: negatively_regulates GO:0061049 ! cell growth involved in cardiac muscle cell development created_by: dph creation_date: 2010-02-25T01:11:30Z [Term] id: GO:0061053 name: somite development namespace: biological_process def: "The progression of a somite from its initial formation to the mature structure. Somites are mesodermal clusters that are arranged segmentally along the anterior posterior axis of an embryo." [GOC:dph] is_a: GO:0060429 ! epithelium development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0002329 ! somite relationship: part_of GO:0009790 ! embryo development relationship: results_in_development_of UBERON:0002329 ! somite created_by: dph creation_date: 2010-03-02T12:05:13Z [Term] id: GO:0061054 name: dermatome development namespace: biological_process def: "The progression of the dermatome over time, from its initial formation to the mature structure. The dermatome is the portion of a somite that will form skin." [GOC:dph] is_a: GO:0048856 ! anatomical structure development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0004016 ! dermatome relationship: part_of GO:0061053 ! somite development relationship: results_in_development_of UBERON:0004016 ! dermatome created_by: dph creation_date: 2010-03-02T12:07:37Z [Term] id: GO:0061055 name: myotome development namespace: biological_process def: "The progression of the myotome over time, from its formation to the mature structure. The myotome is the portion of the somite that will give rise to muscle." [GOC:dph] is_a: GO:0048856 ! anatomical structure development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0003082 ! myotome relationship: part_of GO:0061053 ! somite development relationship: results_in_development_of UBERON:0003082 ! myotome created_by: dph creation_date: 2010-03-02T12:11:01Z [Term] id: GO:0061056 name: sclerotome development namespace: biological_process def: "The progression of the sclerotome over time, from its initial formation to the mature structure. The sclerotome is the portion of the somite that will give rise to a vertebra." [GOC:dph] is_a: GO:0060485 ! mesenchyme development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0003089 ! sclerotome relationship: part_of GO:0061053 ! somite development relationship: results_in_development_of UBERON:0003089 ! sclerotome created_by: dph creation_date: 2010-03-02T12:12:40Z [Term] id: GO:0061061 name: muscle structure development namespace: biological_process def: "The progression of a muscle structure over time, from its formation to its mature state. Muscle structures are contractile cells, tissues or organs that are found in multicellular organisms." [GOC:dph] subset: goslim_drosophila is_a: GO:0048856 ! anatomical structure development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0005090 ! muscle structure relationship: in_taxon NCBITaxon:6072 ! Eumetazoa relationship: only_in_taxon NCBITaxon:6072 ! Eumetazoa relationship: results_in_development_of UBERON:0005090 ! muscle structure created_by: dph creation_date: 2010-03-09T08:55:14Z [Term] id: GO:0061072 name: iris morphogenesis namespace: biological_process def: "The process in which the iris is generated and organized. The iris is an anatomical structure in the eye whose opening forms the pupil. The iris is responsible for controlling the diameter and size of the pupil and the amount of light reaching the retina." [GOC:dph] is_a: GO:0009653 ! anatomical structure morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0001769 ! iris relationship: part_of GO:0048593 ! camera-type eye morphogenesis relationship: results_in_morphogenesis_of UBERON:0001769 ! iris created_by: dph creation_date: 2010-03-16T10:48:42Z [Term] id: GO:0061073 name: ciliary body morphogenesis namespace: biological_process def: "The process in which the ciliary body generated and organized. The ciliary body is the circumferential tissue inside the eye composed of the ciliary muscle and ciliary processes." [GOC:dph] is_a: GO:0009653 ! anatomical structure morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0001775 ! ciliary body relationship: part_of GO:0048593 ! camera-type eye morphogenesis relationship: results_in_morphogenesis_of UBERON:0001775 ! ciliary body created_by: dph creation_date: 2010-03-16T10:55:19Z [Term] id: GO:0061074 name: regulation of neural retina development namespace: biological_process def: "Any process that modulates the rate, frequency, or extent of neural retina development, the progression of the neural retina over time from its initial formation to the mature structure. The neural retina is the part of the retina that contains neurons and photoreceptor cells." [GOC:dph] is_a: GO:0050793 ! regulation of developmental process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0003407 ! neural retina development relationship: regulates GO:0003407 ! neural retina development created_by: dph creation_date: 2010-03-16T11:47:05Z [Term] id: GO:0061075 name: positive regulation of neural retina development namespace: biological_process def: "Any process that increases the rate, frequency, or extent of neural retina development, the progression of the neural retina over time from its initial formation to the mature structure. The neural retina is the part of the retina that contains neurons and photoreceptor cells." [GOC:dph] is_a: GO:0061074 ! regulation of neural retina development is_a: GO:1902868 ! positive regulation of retina development in camera-type eye intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0003407 ! neural retina development relationship: positively_regulates GO:0003407 ! neural retina development created_by: dph creation_date: 2010-03-16T11:59:48Z [Term] id: GO:0061076 name: negative regulation of neural retina development namespace: biological_process def: "Any process that decreases the rate, frequency, or extent of neural retina development, the progression of the neural retina over time from its initial formation to the mature structure. The neural retina is the part of the retina that contains neurons and photoreceptor cells." [GOC:dph] is_a: GO:0061074 ! regulation of neural retina development is_a: GO:1902867 ! negative regulation of retina development in camera-type eye intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0003407 ! neural retina development relationship: negatively_regulates GO:0003407 ! neural retina development created_by: dph creation_date: 2010-03-16T12:46:11Z [Term] id: GO:0061080 name: right horn of sinus venosus development namespace: biological_process def: "The progression of the right horn of the sinus venosus from its formation to the mature structure." [GOC:dph] is_a: GO:0048856 ! anatomical structure development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0005092 ! right horn of sinus venosus relationship: part_of GO:0003235 ! sinus venosus development relationship: results_in_development_of UBERON:0005092 ! right horn of sinus venosus created_by: dph creation_date: 2010-04-08T02:45:10Z [Term] id: GO:0061100 name: lung neuroendocrine cell differentiation namespace: biological_process def: "The process in which a relatively unspecialized cell acquires specialized features of a neuroendocrine cell of the lung epithelium." [GOC:dph, PMID:9126746] is_a: GO:0061101 ! neuroendocrine cell differentiation is_a: GO:0061140 ! lung secretory cell differentiation intersection_of: GO:0030154 ! cell differentiation intersection_of: results_in_acquisition_of_features_of CL:1000223 ! lung neuroendocrine cell relationship: results_in_acquisition_of_features_of CL:1000223 ! lung neuroendocrine cell created_by: dph creation_date: 2010-04-27T03:28:46Z [Term] id: GO:0061101 name: neuroendocrine cell differentiation namespace: biological_process def: "The process in which a relatively unspecialized cell acquires specialized structural and/or functional features of a neuroendocrine cell. A neuroendocrine cell is a cell that receives input form a neuron which controls the secretion of an endocrine substance." [GOC:dph] is_a: GO:0060563 ! neuroepithelial cell differentiation intersection_of: GO:0030154 ! cell differentiation intersection_of: results_in_acquisition_of_features_of CL:0000165 ! neuroendocrine cell relationship: results_in_acquisition_of_features_of CL:0000165 ! neuroendocrine cell created_by: dph creation_date: 2010-04-28T09:42:20Z [Term] id: GO:0061102 name: stomach neuroendocrine cell differentiation namespace: biological_process def: "The process in which a relatively unspecialized cell acquires specialized features of a neuroendocrine cell of the stomach epithelium." [GOC:dph, PMID:18173746] synonym: "gastric neuroendocrine cell differentiation" RELATED [GOC:dph] is_a: GO:0061101 ! neuroendocrine cell differentiation intersection_of: GO:0030154 ! cell differentiation intersection_of: results_in_acquisition_of_features_of CL:1000222 ! stomach neuroendocrine cell relationship: part_of GO:0062094 ! stomach development relationship: results_in_acquisition_of_features_of CL:1000222 ! stomach neuroendocrine cell created_by: dph creation_date: 2010-04-28T09:47:07Z [Term] id: GO:0061105 name: regulation of stomach neuroendocrine cell differentiation namespace: biological_process def: "Any process that modulates the rate, frequency or extent of the differentiation of a neuroendocrine cell in the stomach." [GOC:dph] is_a: GO:0030856 ! regulation of epithelial cell differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0061102 ! stomach neuroendocrine cell differentiation relationship: regulates GO:0061102 ! stomach neuroendocrine cell differentiation created_by: dph creation_date: 2010-04-29T12:19:37Z [Term] id: GO:0061106 name: negative regulation of stomach neuroendocrine cell differentiation namespace: biological_process def: "Any process that decreases the rate, frequency or extent of the differentiation of a neuroendocrine cell in the stomach." [GOC:dph] is_a: GO:0002085 ! inhibition of neuroepithelial cell differentiation is_a: GO:0061105 ! regulation of stomach neuroendocrine cell differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0061102 ! stomach neuroendocrine cell differentiation relationship: negatively_regulates GO:0061102 ! stomach neuroendocrine cell differentiation created_by: dph creation_date: 2010-04-29T12:23:05Z [Term] id: GO:0061117 name: negative regulation of heart growth namespace: biological_process def: "Any process that decreases the rate or extent of heart growth. Heart growth is the increase in size or mass of the heart." [GOC:dph, GOC:hjd] is_a: GO:0046621 ! negative regulation of organ growth is_a: GO:0060420 ! regulation of heart growth intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0060419 ! heart growth relationship: negatively_regulates GO:0060419 ! heart growth created_by: dph creation_date: 2010-05-17T07:31:28Z [Term] id: GO:0061138 name: morphogenesis of a branching epithelium namespace: biological_process def: "The process in which the anatomical structures of a branched epithelium are generated and organized." [GOC:dph] is_a: GO:0001763 ! morphogenesis of a branching structure is_a: GO:0002009 ! morphogenesis of an epithelium created_by: dph creation_date: 2010-05-25T09:05:34Z [Term] id: GO:0061140 name: lung secretory cell differentiation namespace: biological_process def: "The process in which a relatively unspecialized cell acquires specialized features of a lung secretory cell. A lung secretory cell is a specialized epithelial cell of the lung that contains large secretory granules in its apical part." [GOC:dph] is_a: GO:0060487 ! lung epithelial cell differentiation intersection_of: GO:0030154 ! cell differentiation intersection_of: results_in_acquisition_of_features_of CL:1000272 ! lung secretory cell relationship: results_in_acquisition_of_features_of CL:1000272 ! lung secretory cell created_by: dph creation_date: 2010-05-25T09:28:53Z [Term] id: GO:0061141 name: lung ciliated cell differentiation namespace: biological_process def: "The process in which a relatively unspecialized cell acquires specialized features of a lung ciliated cell. A lung ciliated cell is a specialized lung epithelial cell that contains cilia for moving substances released from lung secretory cells." [GOC:cilia, GOC:dph, GOC:krc] is_a: GO:0060487 ! lung epithelial cell differentiation intersection_of: GO:0030154 ! cell differentiation intersection_of: results_in_acquisition_of_features_of CL:1000271 ! lung ciliated cell relationship: results_in_acquisition_of_features_of CL:1000271 ! lung ciliated cell created_by: dph creation_date: 2010-05-25T09:31:14Z [Term] id: GO:0061147 name: endocardial endothelium development namespace: biological_process def: "The progression of the endocardial endothelium over time, from its initial formation to the mature structure. The endocardium is an anatomical structure comprised of an endothelium and an extracellular matrix that forms the innermost layer of tissue of the heart, and lines the heart chambers." [GOC:dph] is_a: GO:0003158 ! endothelium development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0005316 ! endocardial endothelium relationship: part_of GO:0003157 ! endocardium development relationship: results_in_development_of UBERON:0005316 ! endocardial endothelium created_by: dph creation_date: 2010-06-03T09:15:31Z [Term] id: GO:0061148 name: extracellular matrix organization involved in endocardium development namespace: biological_process def: "A process which results in the assembly, arrangement of constituent parts, or disassembly of an extracellular matrix of the endocardium. The endocardium is an anatomical structure comprised of an endothelium and an extracellular matrix that forms the innermost layer of tissue of the heart, and lines the heart chambers." [GOC:dph] synonym: "extracellular matrix organisation involved in endocardium development" EXACT [GOC:mah] is_a: GO:0030198 ! extracellular matrix organization intersection_of: GO:0030198 ! extracellular matrix organization intersection_of: part_of GO:0003157 ! endocardium development relationship: part_of GO:0003157 ! endocardium development created_by: dph creation_date: 2010-06-03T09:18:02Z [Term] id: GO:0061154 name: endothelial tube morphogenesis namespace: biological_process def: "The process in which the anatomical structures of a tube are generated and organized from an endothelium. Endothelium refers to the layer of cells lining blood vessels, lymphatics, the heart, and serous cavities, and is derived from bone marrow or mesoderm. Corneal endothelium is a special case, derived from neural crest cells." [GOC:dph, GOC:yaf] is_a: GO:0003159 ! morphogenesis of an endothelium is_a: GO:0060562 ! epithelial tube morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0003915 ! endothelial tube relationship: results_in_morphogenesis_of UBERON:0003915 ! endothelial tube created_by: dph creation_date: 2010-06-15T09:05:00Z [Term] id: GO:0061155 name: pulmonary artery endothelial tube morphogenesis namespace: biological_process def: "The process in which the anatomical structures of a tube are generated and organized from the pulmonary artery endothelium. An pulmonary artery endothelium is an epithelium that lines the pulmonary artery." [GOC:dph, GOC:yaf] is_a: GO:0061154 ! endothelial tube morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0005317 ! pulmonary artery endothelium relationship: part_of GO:0061156 ! pulmonary artery morphogenesis relationship: results_in_morphogenesis_of UBERON:0005317 ! pulmonary artery endothelium created_by: dph creation_date: 2010-06-15T09:09:04Z [Term] id: GO:0061156 name: pulmonary artery morphogenesis namespace: biological_process def: "The process in which the anatomical structures of the pulmonary artery are generated and organized. The pulmonary artery is the artery that carries blood from the heart to the lungs." [GOC:dph, GOC:yaf] is_a: GO:0048844 ! artery morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0002012 ! pulmonary artery relationship: results_in_morphogenesis_of UBERON:0002012 ! pulmonary artery created_by: dph creation_date: 2010-06-15T09:13:47Z [Term] id: GO:0061181 name: regulation of chondrocyte development namespace: biological_process def: "Any process that modulates the rate, frequency, or extent of the process whose specific outcome is the progression of a chondrocyte over time, from its commitment to its mature state. Chondrocyte development does not include the steps involved in committing a chondroblast to a chondrocyte fate." [GOC:BHF, GOC:dph] is_a: GO:0032330 ! regulation of chondrocyte differentiation is_a: GO:0060284 ! regulation of cell development intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0002063 ! chondrocyte development relationship: regulates GO:0002063 ! chondrocyte development created_by: dph creation_date: 2010-07-14T08:28:52Z [Term] id: GO:0061182 name: negative regulation of chondrocyte development namespace: biological_process def: "Any process that decreases the rate, frequency, or extent of the process whose specific outcome is the progression of a chondrocyte over time, from its commitment to its mature state. Chondrocyte development does not include the steps involved in committing a chondroblast to a chondrocyte fate." [GOC:BHF, GOC:dph] is_a: GO:0010721 ! negative regulation of cell development is_a: GO:0032331 ! negative regulation of chondrocyte differentiation is_a: GO:0061181 ! regulation of chondrocyte development intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0002063 ! chondrocyte development relationship: negatively_regulates GO:0002063 ! chondrocyte development created_by: dph creation_date: 2010-07-14T08:33:05Z [Term] id: GO:0061183 name: regulation of dermatome development namespace: biological_process def: "Any process that modulates the rate, frequency, or extent of the progression of the dermatome over time, from its initial formation to the mature structure. The dermatome is the portion of a somite that will form skin." [GOC:BHF, GOC:dph] is_a: GO:0050793 ! regulation of developmental process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0061054 ! dermatome development relationship: regulates GO:0061054 ! dermatome development created_by: dph creation_date: 2010-07-14T08:40:26Z [Term] id: GO:0061184 name: positive regulation of dermatome development namespace: biological_process def: "Any process that increases the rate, frequency, or extent of the progression of the dermatome over time, from its initial formation to the mature structure. The dermatome is the portion of a somite that will form skin." [GOC:BHF, GOC:dph] is_a: GO:0040019 ! positive regulation of embryonic development is_a: GO:0061183 ! regulation of dermatome development intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0061054 ! dermatome development relationship: positively_regulates GO:0061054 ! dermatome development created_by: dph creation_date: 2010-07-14T08:42:03Z [Term] id: GO:0061185 name: negative regulation of dermatome development namespace: biological_process def: "Any process that decreases the rate, frequency, or extent of the progression of the dermatome over time, from its initial formation to the mature structure. The dermatome is the portion of a somite that will form skin." [GOC:BHF, GOC:dph] is_a: GO:0045992 ! negative regulation of embryonic development is_a: GO:0061183 ! regulation of dermatome development intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0061054 ! dermatome development relationship: negatively_regulates GO:0061054 ! dermatome development created_by: dph creation_date: 2010-07-14T08:43:08Z [Term] id: GO:0061189 name: positive regulation of sclerotome development namespace: biological_process def: "Any process that increases the rate, frequency, or extent of the progression of the sclerotome over time, from its initial formation to the mature structure. The sclerotome is the portion of the somite that will give rise to a vertebra." [GOC:BHF, GOC:dph] is_a: GO:0051094 ! positive regulation of developmental process is_a: GO:0061190 ! regulation of sclerotome development intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0061056 ! sclerotome development relationship: positively_regulates GO:0061056 ! sclerotome development created_by: dph creation_date: 2010-07-14T09:17:23Z [Term] id: GO:0061190 name: regulation of sclerotome development namespace: biological_process def: "Any process that modulates the rate, frequency, or extent of the progression of the sclerotome over time, from its initial formation to the mature structure. The sclerotome is the portion of the somite that will give rise to a vertebra." [GOC:dph] is_a: GO:0050793 ! regulation of developmental process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0061056 ! sclerotome development relationship: regulates GO:0061056 ! sclerotome development created_by: dph creation_date: 2010-07-14T09:19:47Z [Term] id: GO:0061298 name: retina vasculature development in camera-type eye namespace: biological_process def: "The process whose specific outcome is the progression of the vasculature of the retina over time, from its formation to the mature structure." [GOC:BHF, GOC:dph] synonym: "retinal vasculature development" EXACT [GOC:dph] is_a: GO:0001944 ! vasculature development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0004864 ! vasculature of retina relationship: part_of GO:0060041 ! retina development in camera-type eye relationship: results_in_development_of UBERON:0004864 ! vasculature of retina created_by: dph creation_date: 2010-09-06T03:27:06Z [Term] id: GO:0061299 name: retina vasculature morphogenesis in camera-type eye namespace: biological_process def: "The process in which the vasculature of the retina is generated and organized." [GOC:BHF, GOC:dph] synonym: "retinal vasculature morphogenesis" EXACT [GOC:dph] is_a: GO:0009653 ! anatomical structure morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0004864 ! vasculature of retina relationship: part_of GO:0061298 ! retina vasculature development in camera-type eye relationship: results_in_morphogenesis_of UBERON:0004864 ! vasculature of retina created_by: dph creation_date: 2010-09-06T03:28:25Z [Term] id: GO:0061303 name: cornea development in camera-type eye namespace: biological_process def: "The progression of the cornea over time, from its formation to the mature structure. The cornea is the transparent structure that covers the anterior of the eye." [GOC:dph] is_a: GO:0048856 ! anatomical structure development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0000964 ! cornea relationship: part_of GO:0043010 ! camera-type eye development relationship: results_in_development_of UBERON:0000964 ! cornea created_by: dph creation_date: 2010-09-14T02:09:08Z [Term] id: GO:0061304 name: retinal blood vessel morphogenesis namespace: biological_process def: "The process whose specific outcome is the progression of a blood vessel of the retina over time, from its formation to the mature structure." [GOC:BHF, GOC:dph] is_a: GO:0048514 ! blood vessel morphogenesis is_a: GO:0061299 ! retina vasculature morphogenesis in camera-type eye intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0003501 ! retina blood vessel relationship: results_in_morphogenesis_of UBERON:0003501 ! retina blood vessel created_by: dph creation_date: 2010-09-16T09:02:59Z [Term] id: GO:0061307 name: cardiac neural crest cell differentiation involved in heart development namespace: biological_process def: "The process in which a relatively unspecialized cell acquires specialized features of a cardiac neural crest cell that will migrate to the heart and contribute to its development. Cardiac neural crest cells are specialized cells that migrate toward the heart from the third, fourth and sixth pharyngeal arches." [GOC:dph, GOC:mtg_heart, PMID:19705442] is_a: GO:0014033 ! neural crest cell differentiation is_a: GO:0035051 ! cardiocyte differentiation intersection_of: GO:0014033 ! neural crest cell differentiation intersection_of: part_of GO:0007507 ! heart development created_by: dph creation_date: 2010-09-23T08:50:56Z [Term] id: GO:0061308 name: cardiac neural crest cell development involved in heart development namespace: biological_process def: "The process aimed at the progression of a cardiac neural crest cell over time, from initial commitment of the cell to its specific fate, to the fully functional differentiated cell that contributes to the development of the heart." [GOC:dph, GOC:mtg_heart] is_a: GO:0014032 ! neural crest cell development intersection_of: GO:0014032 ! neural crest cell development intersection_of: part_of GO:0007507 ! heart development relationship: part_of GO:0061307 ! cardiac neural crest cell differentiation involved in heart development created_by: dph creation_date: 2010-09-23T09:01:49Z [Term] id: GO:0061309 name: cardiac neural crest cell development involved in outflow tract morphogenesis namespace: biological_process def: "The process aimed at the progression of a cardiac neural crest cell over time, from initial commitment of the cell to its specific fate, to the fully functional differentiated cell that contributes to the shaping of the outflow tract." [GOC:dph, GOC:mtg_heart] is_a: GO:0061308 ! cardiac neural crest cell development involved in heart development intersection_of: GO:0014032 ! neural crest cell development intersection_of: part_of GO:0003151 ! outflow tract morphogenesis relationship: part_of GO:0003151 ! outflow tract morphogenesis created_by: dph creation_date: 2010-09-23T09:08:37Z [Term] id: GO:0061323 name: cell proliferation involved in heart morphogenesis namespace: biological_process def: "The multiplication or reproduction of cells, resulting in the expansion of a cell population that contributes to the shaping of the heart." [GOC:dph, GOC:mtg_heart] is_a: GO:0008283 ! cell population proliferation intersection_of: GO:0008283 ! cell population proliferation intersection_of: part_of GO:0003007 ! heart morphogenesis relationship: part_of GO:0003007 ! heart morphogenesis created_by: dph creation_date: 2010-09-28T09:05:26Z [Term] id: GO:0061325 name: cell proliferation involved in outflow tract morphogenesis namespace: biological_process def: "The multiplication or reproduction of cells, resulting in the expansion of a cell population that contributes to the shaping of the outflow tract." [GOC:dph, GOC:mtg_heart] is_a: GO:0061323 ! cell proliferation involved in heart morphogenesis intersection_of: GO:0008283 ! cell population proliferation intersection_of: part_of GO:0003151 ! outflow tract morphogenesis relationship: part_of GO:0003151 ! outflow tract morphogenesis created_by: dph creation_date: 2010-09-28T09:29:30Z [Term] id: GO:0061337 name: cardiac conduction namespace: biological_process def: "Transfer of an organized electrical impulse across the heart to coordinate the contraction of cardiac muscles. The process begins with generation of an action potential (in the sinoatrial node (SA) in humans) and ends with a change in the rate, frequency, or extent of the contraction of the heart muscles." [GOC:dph] is_a: GO:0008016 ! regulation of heart contraction is_a: GO:0035637 ! multicellular organismal signaling created_by: dph creation_date: 2010-09-29T08:46:05Z [Term] id: GO:0061351 name: neural precursor cell proliferation namespace: biological_process def: "The multiplication or reproduction of neural precursor cells, resulting in the expansion of a cell population. A neural precursor cell is either a nervous system stem cell or a nervous system progenitor cell." [GOC:dph, GOC:yaf] is_a: GO:0008283 ! cell population proliferation created_by: dph creation_date: 2010-10-01T11:06:04Z [Term] id: GO:0061385 name: fibroblast proliferation involved in heart morphogenesis namespace: biological_process def: "The multiplication or reproduction of fibroblasts, resulting in the expansion of a fibroblast population that contributes to the shaping of the heart." [GOC:dph] is_a: GO:0048144 ! fibroblast proliferation is_a: GO:0061323 ! cell proliferation involved in heart morphogenesis intersection_of: GO:0048144 ! fibroblast proliferation intersection_of: part_of GO:0003007 ! heart morphogenesis created_by: dph creation_date: 2011-02-10T01:41:59Z [Term] id: GO:0061448 name: connective tissue development namespace: biological_process def: "The progression of a connective tissue over time, from its formation to the mature structure." [GOC:BHF] is_a: GO:0009888 ! tissue development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0002384 ! connective tissue relationship: results_in_development_of UBERON:0002384 ! connective tissue created_by: dph creation_date: 2012-03-22T12:53:41Z [Term] id: GO:0061458 name: reproductive system development namespace: biological_process def: "The progression of the reproductive system over time from its formation to the mature structure. The reproductive system consists of the organs that function in reproduction." [GOC:dph] is_a: GO:0048731 ! system development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0000990 ! reproductive system relationship: results_in_development_of UBERON:0000990 ! reproductive system created_by: dph creation_date: 2012-08-22T17:47:53Z [Term] id: GO:0061484 name: hematopoietic stem cell homeostasis namespace: biological_process def: "Any biological process involved in the maintenance of the steady-state number of hematopoietic stem cells within a population of cells." [GOC:dph, PMID:21508411] is_a: GO:0048872 ! homeostasis of number of cells intersection_of: GO:0048872 ! homeostasis of number of cells intersection_of: acts_on_population_of CL:0000037 ! hematopoietic stem cell relationship: acts_on_population_of CL:0000037 ! hematopoietic stem cell created_by: dph creation_date: 2012-12-04T09:41:02Z [Term] id: GO:0061512 name: protein localization to cilium namespace: biological_process def: "A process in which a protein is transported to, or maintained in, a location within a cilium." [GOC:dph] is_a: GO:0033365 ! protein localization to organelle intersection_of: GO:0008104 ! protein localization intersection_of: has_target_end_location GO:0005929 ! cilium relationship: has_target_end_location GO:0005929 ! cilium relationship: in_taxon NCBITaxon:2759 ! Eukaryota relationship: only_in_taxon NCBITaxon:2759 ! Eukaryota property_value: RO:0002161 NCBITaxon:3176 property_value: RO:0002161 NCBITaxon:3312 property_value: RO:0002161 NCBITaxon:3378 property_value: RO:0002161 NCBITaxon:3398 property_value: RO:0002161 NCBITaxon:4890 property_value: RO:0002161 NCBITaxon:5782 created_by: dph creation_date: 2013-03-22T15:41:44Z [Term] id: GO:0061515 name: myeloid cell development namespace: biological_process def: "The process whose specific outcome is the progression of a myeloid cell over time, from its formation to the mature structure." [GOC:dph] is_a: GO:0048468 ! cell development intersection_of: GO:0048468 ! cell development intersection_of: results_in_development_of CL:0000763 ! myeloid cell relationship: part_of GO:0030099 ! myeloid cell differentiation relationship: results_in_development_of CL:0000763 ! myeloid cell created_by: dph creation_date: 2013-04-18T13:03:16Z [Term] id: GO:0061523 name: cilium disassembly namespace: biological_process def: "A cellular process that results in the breakdown of a cilium." [GOC:cilia, GOC:dph, PMID:17604723, PMID:27350441] comment: Note that we deem cilium and microtubule-based flagellum to be equivalent. synonym: "cilium resorption" EXACT [GOC:dph] is_a: GO:0044782 ! cilium organization is_a: GO:1903008 ! organelle disassembly intersection_of: GO:0022411 ! cellular component disassembly intersection_of: results_in_disassembly_of GO:0005929 ! cilium relationship: results_in_disassembly_of GO:0005929 ! cilium created_by: dph creation_date: 2013-04-18T14:59:59Z [Term] id: GO:0061548 name: ganglion development namespace: biological_process def: "The process whose specific outcome is the progression of a ganglion over time, from its formation to the mature structure." [GOC:dph] synonym: "ganglia development" RELATED [GOC:dph] synonym: "gangliogenesis" NARROW [GOC:BHF, GOC:rl] is_a: GO:0009888 ! tissue development is_a: GO:0048513 ! animal organ development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0000045 ! ganglion relationship: part_of GO:0007399 ! nervous system development relationship: results_in_development_of UBERON:0000045 ! ganglion created_by: dph creation_date: 2013-07-10T08:36:12Z [Term] id: GO:0061549 name: sympathetic ganglion development namespace: biological_process def: "The process whose specific outcome is the progression of a sympathetic ganglion over time, from its formation to the mature structure." [GOC:BHF, GOC:rl] synonym: "sympathetic ganglia development" RELATED [GOC:dph] is_a: GO:0061548 ! ganglion development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0001806 ! sympathetic ganglion relationship: part_of GO:0048485 ! sympathetic nervous system development relationship: results_in_development_of UBERON:0001806 ! sympathetic ganglion created_by: dph creation_date: 2013-07-10T08:38:01Z [Term] id: GO:0061550 name: cranial ganglion development namespace: biological_process def: "The process whose specific outcome is the progression of a cranial ganglion over time, from its formation to the mature structure." [GOC:dph] synonym: "cranial ganglia development" RELATED [GOC:dph] is_a: GO:0061548 ! ganglion development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0001714 ! cranial ganglion relationship: part_of GO:0021545 ! cranial nerve development relationship: results_in_development_of UBERON:0001714 ! cranial ganglion created_by: dph creation_date: 2013-07-10T08:40:14Z [Term] id: GO:0061551 name: trigeminal ganglion development namespace: biological_process def: "The process whose specific outcome is the progression of a trigeminal ganglion over time, from its formation to the mature structure." [GOC:dph] synonym: "trigeminal ganglia development" RELATED [GOC:dph] is_a: GO:0061550 ! cranial ganglion development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0001675 ! trigeminal ganglion relationship: results_in_development_of UBERON:0001675 ! trigeminal ganglion created_by: dph creation_date: 2013-07-10T08:42:19Z [Term] id: GO:0061552 name: ganglion morphogenesis namespace: biological_process def: "The process in which the anatomical structures of ganglion are generated and organized." [GOC:dph] synonym: "ganglia morphogenesis" RELATED [GOC:dph] is_a: GO:0009887 ! animal organ morphogenesis is_a: GO:0048729 ! tissue morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0000045 ! ganglion relationship: part_of GO:0061548 ! ganglion development relationship: results_in_morphogenesis_of UBERON:0000045 ! ganglion created_by: dph creation_date: 2013-07-10T08:44:57Z [Term] id: GO:0061554 name: ganglion formation namespace: biological_process def: "The process that gives rise to ganglion. This process pertains to the initial formation of a structure from unspecified parts." [GOC:dph] synonym: "ganglia formation" RELATED [GOC:dph] is_a: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: results_in_formation_of UBERON:0000045 ! ganglion relationship: part_of GO:0061552 ! ganglion morphogenesis relationship: results_in_formation_of UBERON:0000045 ! ganglion created_by: dph creation_date: 2013-07-10T08:51:50Z [Term] id: GO:0061556 name: trigeminal ganglion morphogenesis namespace: biological_process def: "The process in which the anatomical structure of a trigeminal ganglion is generated and organized." [GOC:dph] synonym: "trigeminal ganglia morphogenesis" RELATED [GOC:dph] is_a: GO:0061559 ! cranial ganglion morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0001675 ! trigeminal ganglion relationship: part_of GO:0021636 ! trigeminal nerve morphogenesis relationship: part_of GO:0061551 ! trigeminal ganglion development relationship: results_in_morphogenesis_of UBERON:0001675 ! trigeminal ganglion created_by: dph creation_date: 2013-07-10T08:57:12Z [Term] id: GO:0061559 name: cranial ganglion morphogenesis namespace: biological_process def: "The process in which the anatomical structure of a cranial ganglion is generated and organized." [GOC:dph] synonym: "cranial ganglia morphogenesis" RELATED [GOC:dph] is_a: GO:0061552 ! ganglion morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0001714 ! cranial ganglion relationship: part_of GO:0021602 ! cranial nerve morphogenesis relationship: part_of GO:0061550 ! cranial ganglion development relationship: results_in_morphogenesis_of UBERON:0001714 ! cranial ganglion created_by: dph creation_date: 2013-07-10T09:02:15Z [Term] id: GO:0061560 name: cranial ganglion formation namespace: biological_process def: "The process that gives rise to a cranial ganglion. This process pertains to the initial formation of a structure from unspecified parts." [GOC:dph] synonym: "cranial ganglia formation" RELATED [GOC:dph] is_a: GO:0061554 ! ganglion formation intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: results_in_formation_of UBERON:0001714 ! cranial ganglion relationship: part_of GO:0061559 ! cranial ganglion morphogenesis relationship: results_in_formation_of UBERON:0001714 ! cranial ganglion created_by: dph creation_date: 2013-07-10T09:07:27Z [Term] id: GO:0061561 name: trigeminal ganglion formation namespace: biological_process def: "The process that gives rise to the trigeminal ganglion. This process pertains to the initial formation of a structure from unspecified parts." [GOC:dph] synonym: "trigeminal ganglia formation" RELATED [GOC:dph] is_a: GO:0061560 ! cranial ganglion formation intersection_of: GO:0048646 ! anatomical structure formation involved in morphogenesis intersection_of: results_in_formation_of UBERON:0001675 ! trigeminal ganglion relationship: part_of GO:0061556 ! trigeminal ganglion morphogenesis relationship: results_in_formation_of UBERON:0001675 ! trigeminal ganglion created_by: dph creation_date: 2013-07-10T09:08:13Z [Term] id: GO:0061626 name: pharyngeal arch artery morphogenesis namespace: biological_process def: "The process in which the anatomical structures of a pharyngeal arch artery is generated and organized. The pharyngeal arch arteries are a series of six paired embryological vascular structures, the development of which give rise to several major arteries, such as the stapedial artery, the middle meningeal artery, the internal carotid artery and the pulmonary artery." [GOC:BHF, GOC:dph, PMID:20122914] synonym: "aortic arch artery morphogenesis" BROAD [GOC:dph] is_a: GO:0048844 ! artery morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0004363 ! pharyngeal arch artery relationship: part_of GO:0060037 ! pharyngeal system development relationship: results_in_morphogenesis_of UBERON:0004363 ! pharyngeal arch artery created_by: dph creation_date: 2014-05-09T15:34:06Z [Term] id: GO:0061695 name: transferase complex, transferring phosphorus-containing groups namespace: cellular_component def: "A transferase complex capable of catalysis of the transfer of a phosphorus-containing group from one compound (donor) to another (acceptor)." [GOC:bhm, GOC:dph] is_a: GO:1990234 ! transferase complex intersection_of: GO:0032991 ! protein-containing complex intersection_of: capable_of GO:0016772 ! transferase activity, transferring phosphorus-containing groups relationship: capable_of GO:0016772 ! transferase activity, transferring phosphorus-containing groups created_by: dph creation_date: 2015-05-06T11:22:38Z [Term] id: GO:0061938 name: protein localization to somatodendritic compartment namespace: biological_process def: "A process in which a protein is transported to or maintained in a location within the somatodendritic compartment." [PMID:18341993] synonym: "somatodendritic protein localization" EXACT [] is_a: GO:0008104 ! protein localization intersection_of: GO:0008104 ! protein localization intersection_of: has_target_end_location GO:0036477 ! somatodendritic compartment relationship: has_target_end_location GO:0036477 ! somatodendritic compartment created_by: dph creation_date: 2017-09-08T13:22:26Z [Term] id: GO:0061951 name: establishment of protein localization to plasma membrane namespace: biological_process def: "The directed movement of a protein to a specific location in a plasma membrane." [GOC:dph, GOC:vw] is_a: GO:0072659 ! protein localization to plasma membrane is_a: GO:0090150 ! establishment of protein localization to membrane intersection_of: GO:0045184 ! establishment of protein localization intersection_of: has_target_end_location GO:0005886 ! plasma membrane intersection_of: has_target_start_location GO:0005622 ! intracellular anatomical structure created_by: dph creation_date: 2017-10-26T12:55:15Z [Term] id: GO:0061971 name: replacement bone morphogenesis namespace: biological_process def: "The process in which bones are generated and organized as a result of the conversion of another structural tissue into bone." [DOI:10.1002/(SICI)1097-4687(199608)229\:2<121\:\:AID-JMOR1>3.0.CO;2-4] is_a: GO:0060349 ! bone morphogenesis intersection_of: GO:0060349 ! bone morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0012075 ! replacement bone relationship: results_in_morphogenesis_of UBERON:0012075 ! replacement bone created_by: dph creation_date: 2018-02-12T18:10:59Z [Term] id: GO:0061972 name: dermal bone morphogenesis namespace: biological_process def: "The process in which bone which forms superficially in the organism are generated and organized." [PMID:12588850, PMID:15003632] is_a: GO:0061973 ! membrane bone morphogenesis intersection_of: GO:0060349 ! bone morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0008907 ! dermal bone relationship: results_in_morphogenesis_of UBERON:0008907 ! dermal bone created_by: dph creation_date: 2018-02-12T18:16:21Z [Term] id: GO:0061973 name: membrane bone morphogenesis namespace: biological_process def: "The process in which bone which forms deep in the organism are generated and organized." [PMID:14579374] is_a: GO:0060349 ! bone morphogenesis intersection_of: GO:0060349 ! bone morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0007842 ! membrane bone relationship: results_in_morphogenesis_of UBERON:0007842 ! membrane bone created_by: dph creation_date: 2018-02-12T18:21:09Z [Term] id: GO:0062012 name: regulation of small molecule metabolic process namespace: biological_process def: "Any process that modulates the rate, frequency or extent of a small molecule metabolic process." [GOC:vw] synonym: "regulation of small molecule metabolism" EXACT [] is_a: GO:0019222 ! regulation of metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0044281 ! small molecule metabolic process relationship: regulates GO:0044281 ! small molecule metabolic process created_by: dph creation_date: 2018-03-19T14:11:54Z [Term] id: GO:0062013 name: positive regulation of small molecule metabolic process namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of a small molecule metabolic process." [GOC:vw] synonym: "positive regulation of small molecule metabolism" EXACT [] is_a: GO:0009893 ! positive regulation of metabolic process is_a: GO:0062012 ! regulation of small molecule metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0044281 ! small molecule metabolic process relationship: positively_regulates GO:0044281 ! small molecule metabolic process created_by: dph creation_date: 2018-03-19T14:25:10Z [Term] id: GO:0062014 name: negative regulation of small molecule metabolic process namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of a small molecule metabolic process." [GOC:vw] synonym: "negative regulation of small molecule metabolism" EXACT [] is_a: GO:0009892 ! negative regulation of metabolic process is_a: GO:0062012 ! regulation of small molecule metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0044281 ! small molecule metabolic process relationship: negatively_regulates GO:0044281 ! small molecule metabolic process created_by: dph creation_date: 2018-03-19T14:27:23Z [Term] id: GO:0062023 name: collagen-containing extracellular matrix namespace: cellular_component def: "An extracellular matrix consisting mainly of proteins (especially collagen) and glycosaminoglycans (mostly as proteoglycans) that provides not only essential physical scaffolding for the cellular constituents but can also initiate crucial biochemical and biomechanical cues required for tissue morphogenesis, differentiation and homeostasis. The components are secreted by cells in the vicinity and form a sheet underlying or overlying cells such as endothelial and epithelial cells." [GOC:BHF, GOC:rph, PMID:21123617] is_a: GO:0031012 ! extracellular matrix relationship: in_taxon NCBITaxon:33208 ! Metazoa relationship: only_in_taxon NCBITaxon:33208 ! Metazoa created_by: dph creation_date: 2018-04-13T12:47:21Z [Term] id: GO:0062033 name: positive regulation of mitotic sister chromatid segregation namespace: biological_process def: "Any process that starts or increases the frequency, rate or extent of sister chromatid segregation during mitosis." [PMID:12773390] is_a: GO:0033047 ! regulation of mitotic sister chromatid segregation is_a: GO:0051984 ! positive regulation of chromosome segregation is_a: GO:0090068 ! positive regulation of cell cycle process is_a: GO:2001252 ! positive regulation of chromosome organization intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0000070 ! mitotic sister chromatid segregation relationship: positively_regulates GO:0000070 ! mitotic sister chromatid segregation created_by: dph creation_date: 2018-04-23T14:32:23Z [Term] id: GO:0062094 name: stomach development namespace: biological_process def: "The process whose specific outcome is the progression of the stomach over time, from its formation to the mature structure. The stomach is an expanded region of the vertebrate alimentary tract that serves as a food storage compartment and digestive organ." [PMID:11967278] is_a: GO:0048513 ! animal organ development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0000945 ! stomach relationship: part_of GO:0048565 ! digestive tract development relationship: results_in_development_of UBERON:0000945 ! stomach created_by: dph creation_date: 2018-11-20T18:15:45Z [Term] id: GO:0062097 name: chemosynthesis namespace: biological_process def: "The cellular metabolic process in which organic chemical compounds are synthesized from carbon-containing molecules and nutrients using energy obtained from the oxidation of inorganic compounds or methane." [PMID:25050523] xref: Wikipedia:Chemosynthesis is_a: GO:0044237 ! cellular metabolic process created_by: dph creation_date: 2018-11-29T13:18:55Z [Term] id: GO:0062237 name: protein localization to postsynapse namespace: biological_process def: "Any process in which a protein is transported to, and/or maintained at the postsynapse, the part of a synapse that is part of the post-synaptic cell." [PMID:31189538] is_a: GO:0035418 ! protein localization to synapse intersection_of: GO:0008104 ! protein localization intersection_of: has_target_end_location GO:0098794 ! postsynapse relationship: has_target_end_location GO:0098794 ! postsynapse created_by: dph creation_date: 2020-04-20T13:58:43Z [Term] id: GO:0065003 name: protein-containing complex assembly namespace: biological_process alt_id: GO:0006461 alt_id: GO:0034622 alt_id: GO:0043623 def: "The aggregation, arrangement and bonding together of a set of macromolecules to form a protein-containing complex." [GOC:jl] subset: goslim_chembl subset: goslim_drosophila subset: goslim_generic subset: goslim_metagenomics subset: goslim_pir subset: goslim_pombe synonym: "cellular macromolecule complex assembly" RELATED [] synonym: "cellular protein complex assembly" EXACT [] synonym: "cellular protein-containing complex assembly" RELATED [] synonym: "chaperone activity" RELATED [] synonym: "macromolecular complex assembly" RELATED [] synonym: "macromolecule complex assembly" RELATED [] synonym: "protein complex assembly" RELATED [] synonym: "protein complex formation" RELATED [] is_a: GO:0022607 ! cellular component assembly is_a: GO:0043933 ! protein-containing complex organization intersection_of: GO:0022607 ! cellular component assembly intersection_of: results_in_assembly_of GO:0032991 ! protein-containing complex relationship: results_in_assembly_of GO:0032991 ! protein-containing complex property_value: IAO:0000233 https://github.com/geneontology/go-ontology/issues/22580 xsd:anyURI [Term] id: GO:0065007 name: biological regulation namespace: biological_process def: "Any process that modulates a measurable attribute of any biological process, quality or function." [GOC:dph, GOC:isa_complete, GOC:mah, GOC:pr, GOC:vw] subset: gocheck_do_not_annotate subset: goslim_pir synonym: "regulation" BROAD [] is_a: GO:0008150 ! biological_process [Term] id: GO:0065008 name: regulation of biological quality namespace: biological_process def: "Any process that modulates a qualitative or quantitative trait of a biological quality. A biological quality is a measurable attribute of an organism or part of an organism, such as size, mass, shape, color, etc." [GOC:dph, GOC:isa_complete, GOC:mah, GOC:pr, GOC:vw] subset: goslim_pir synonym: "regulation of biological attribute" EXACT [] synonym: "regulation of biological characteristic" EXACT [] is_a: GO:0065007 ! biological regulation [Term] id: GO:0065009 name: regulation of molecular function namespace: biological_process def: "Any process that modulates the frequency, rate or extent of a molecular function, an elemental biological activity occurring at the molecular level, such as catalysis or binding." [GOC:isa_complete] subset: gocheck_do_not_annotate subset: goslim_pir subset: goslim_plant synonym: "regulation of a molecular function" EXACT [] is_a: GO:0065007 ! biological regulation intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0003674 ! molecular_function relationship: regulates GO:0003674 ! molecular_function [Term] id: GO:0065010 name: extracellular membrane-bounded organelle namespace: cellular_component def: "Organized structure of distinctive morphology and function, bounded by a lipid bilayer membrane and occurring outside the cell." [GOC:isa_complete] synonym: "extracellular membrane-enclosed organelle" EXACT [] is_a: GO:0043227 ! membrane-bounded organelle is_a: GO:0043230 ! extracellular organelle intersection_of: GO:0043227 ! membrane-bounded organelle intersection_of: part_of GO:0005576 ! extracellular region [Term] id: GO:0070013 name: intracellular organelle lumen namespace: cellular_component def: "An organelle lumen that is part of an intracellular organelle." [GOC:mah] subset: goslim_mouse is_a: GO:0043233 ! organelle lumen intersection_of: GO:0031974 ! membrane-enclosed lumen intersection_of: part_of GO:0043229 ! intracellular organelle relationship: part_of GO:0043229 ! intracellular organelle [Term] id: GO:0070050 name: neuron cellular homeostasis namespace: biological_process def: "The cellular homeostatic process that preserves a neuron in a stable, differentiated functional and structural state." [GOC:BHF, GOC:mah] synonym: "neuron maintenance" EXACT [] is_a: GO:0019725 ! cellular homeostasis is_a: GO:0060249 ! anatomical structure homeostasis intersection_of: GO:0019725 ! cellular homeostasis intersection_of: occurs_in CL:0000540 ! neuron relationship: occurs_in CL:0000540 ! neuron [Term] id: GO:0070051 name: fibrinogen binding namespace: molecular_function def: "Binding to fibrinogen, a highly soluble hexameric glycoprotein complex that is found in blood plasma and is converted to fibrin by thrombin in the coagulation cascade." [GOC:BHF, GOC:mah, GOC:vk] is_a: GO:0044877 ! protein-containing complex binding intersection_of: GO:0005488 ! binding intersection_of: has_input GO:0005577 ! fibrinogen complex relationship: has_input GO:0005577 ! fibrinogen complex [Term] id: GO:0070062 name: extracellular exosome namespace: cellular_component def: "A vesicle that is released into the extracellular region by fusion of the limiting endosomal membrane of a multivesicular body with the plasma membrane. Extracellular exosomes, also simply called exosomes, have a diameter of about 40-100 nm." [GOC:BHF, GOC:mah, GOC:vesicles, PMID:15908444, PMID:17641064, PMID:19442504, PMID:19498381, PMID:22418571, PMID:24009894] synonym: "exosome" EXACT [GOC:pr] synonym: "extracellular vesicular exosome" EXACT [GOC:vesicles] is_a: GO:1903561 ! extracellular vesicle relationship: part_of GO:0005615 ! extracellular space [Term] id: GO:0070091 name: glucagon secretion namespace: biological_process def: "The regulated release of glucagon from secretory granules in the A (alpha) cells of the pancreas (islets of Langerhans)." [GOC:BHF, GOC:rl] is_a: GO:0030072 ! peptide hormone secretion intersection_of: GO:0046903 ! secretion intersection_of: transports_or_maintains_localization_of CHEBI:5391 ! glucagon relationship: transports_or_maintains_localization_of CHEBI:5391 ! glucagon [Term] id: GO:0070092 name: regulation of glucagon secretion namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the regulated release of glucagon." [GOC:BHF, GOC:mah] is_a: GO:0090276 ! regulation of peptide hormone secretion intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0070091 ! glucagon secretion relationship: regulates GO:0070091 ! glucagon secretion [Term] id: GO:0070093 name: negative regulation of glucagon secretion namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of the regulated release of glucagon." [GOC:BHF, GOC:mah] synonym: "down regulation of glucagon secretion" EXACT [] synonym: "down-regulation of glucagon secretion" EXACT [] synonym: "downregulation of glucagon secretion" EXACT [] synonym: "inhibition of glucagon secretion" NARROW [] is_a: GO:0070092 ! regulation of glucagon secretion is_a: GO:0090278 ! negative regulation of peptide hormone secretion intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0070091 ! glucagon secretion relationship: negatively_regulates GO:0070091 ! glucagon secretion [Term] id: GO:0070094 name: positive regulation of glucagon secretion namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of the regulated release of glucagon." [GOC:BHF, GOC:mah] synonym: "activation of glucagon secretion" NARROW [] synonym: "stimulation of glucagon secretion" NARROW [] synonym: "up regulation of glucagon secretion" EXACT [] synonym: "up-regulation of glucagon secretion" EXACT [] synonym: "upregulation of glucagon secretion" EXACT [] is_a: GO:0070092 ! regulation of glucagon secretion is_a: GO:0090277 ! positive regulation of peptide hormone secretion intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0070091 ! glucagon secretion relationship: positively_regulates GO:0070091 ! glucagon secretion [Term] id: GO:0070161 name: anchoring junction namespace: cellular_component def: "A cell junction that mechanically attaches a cell (and its cytoskeleton) to neighboring cells or to the extracellular matrix." [ISBN:0815332181] synonym: "anchoring cell junction" EXACT [GOC:mah] is_a: GO:0030054 ! cell junction [Term] id: GO:0070199 name: establishment of protein localization to chromosome namespace: biological_process def: "The directed movement of a protein to a specific location on a chromosome." [GOC:BHF, GOC:mah] synonym: "establishment of protein localisation to chromosome" EXACT [GOC:mah] is_a: GO:0034502 ! protein localization to chromosome is_a: GO:0072594 ! establishment of protein localization to organelle intersection_of: GO:0045184 ! establishment of protein localization intersection_of: has_target_end_location GO:0005694 ! chromosome [Term] id: GO:0070201 name: regulation of establishment of protein localization namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the directed movement of a protein to a specific location." [GOC:BHF, GOC:mah] synonym: "regulation of establishment of protein localisation" EXACT [GOC:mah] is_a: GO:0032880 ! regulation of protein localization intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0045184 ! establishment of protein localization relationship: regulates GO:0045184 ! establishment of protein localization [Term] id: GO:0070202 name: regulation of establishment of protein localization to chromosome namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the directed movement of a protein to a specific location on a chromosome." [GOC:BHF, GOC:mah] synonym: "regulation of establishment of protein localisation to chromosome" EXACT [GOC:mah] is_a: GO:0060341 ! regulation of cellular localization is_a: GO:0070201 ! regulation of establishment of protein localization intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0070199 ! establishment of protein localization to chromosome relationship: regulates GO:0070199 ! establishment of protein localization to chromosome [Term] id: GO:0070253 name: somatostatin secretion namespace: biological_process def: "The regulated release of somatostatin from secretory granules in the D cells of the pancreas." [GOC:mah] is_a: GO:0030072 ! peptide hormone secretion intersection_of: GO:0046903 ! secretion intersection_of: transports_or_maintains_localization_of CHEBI:64628 ! somatostatin relationship: transports_or_maintains_localization_of CHEBI:64628 ! somatostatin [Term] id: GO:0070285 name: pigment cell development namespace: biological_process def: "The process whose specific outcome is the progression of a pigment cell over time, from its formation to the mature structure. Cell development does not include the steps involved in committing a cell to a pigment cell fate." [GOC:cvs] is_a: GO:0048468 ! cell development intersection_of: GO:0032502 ! developmental process intersection_of: results_in_development_of CL:0000147 ! pigment cell relationship: part_of GO:0050931 ! pigment cell differentiation relationship: results_in_development_of CL:0000147 ! pigment cell [Term] id: GO:0070341 name: fat cell proliferation namespace: biological_process def: "The multiplication or reproduction of fat cells by cell division, resulting in the expansion of their population. A fat cell is an animal connective tissue cell specialized for the synthesis and storage of fat." [GOC:mah, GOC:sl] synonym: "adipocyte proliferation" EXACT [GOC:sl] synonym: "adipose cell proliferation" EXACT [GOC:sl] is_a: GO:0008283 ! cell population proliferation intersection_of: GO:0008283 ! cell population proliferation intersection_of: acts_on_population_of CL:0000136 ! fat cell relationship: acts_on_population_of CL:0000136 ! fat cell [Term] id: GO:0070344 name: regulation of fat cell proliferation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of fat cell proliferation." [GOC:mah, GOC:sl] synonym: "regulation of adipocyte proliferation" EXACT [GOC:sl] synonym: "regulation of adipose cell proliferation" EXACT [GOC:sl] is_a: GO:0042127 ! regulation of cell population proliferation intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0070341 ! fat cell proliferation relationship: regulates GO:0070341 ! fat cell proliferation [Term] id: GO:0070345 name: negative regulation of fat cell proliferation namespace: biological_process def: "Any process that stops or decreases the rate or extent of fat cell proliferation." [GOC:mah, GOC:sl] synonym: "down regulation of fat cell proliferation" EXACT [GOC:mah] synonym: "down-regulation of fat cell proliferation" EXACT [GOC:mah] synonym: "downregulation of fat cell proliferation" EXACT [GOC:mah] synonym: "inhibition of fat cell proliferation" NARROW [GOC:mah] synonym: "negative regulation of adipocyte proliferation" EXACT [GOC:sl] synonym: "negative regulation of adipose cell proliferation" EXACT [GOC:sl] is_a: GO:0008285 ! negative regulation of cell population proliferation is_a: GO:0070344 ! regulation of fat cell proliferation intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0070341 ! fat cell proliferation relationship: negatively_regulates GO:0070341 ! fat cell proliferation [Term] id: GO:0070346 name: positive regulation of fat cell proliferation namespace: biological_process def: "Any process that activates or increases the rate or extent of fat cell proliferation." [GOC:mah, GOC:sl] synonym: "activation of fat cell proliferation" NARROW [GOC:mah] synonym: "positive regulation of adipocyte proliferation" EXACT [GOC:sl] synonym: "positive regulation of adipose cell proliferation" EXACT [GOC:sl] synonym: "stimulation of fat cell proliferation" NARROW [GOC:mah] synonym: "up regulation of fat cell proliferation" EXACT [GOC:mah] synonym: "up-regulation of fat cell proliferation" EXACT [GOC:mah] synonym: "upregulation of fat cell proliferation" EXACT [GOC:mah] is_a: GO:0008284 ! positive regulation of cell population proliferation is_a: GO:0070344 ! regulation of fat cell proliferation intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0070341 ! fat cell proliferation relationship: positively_regulates GO:0070341 ! fat cell proliferation [Term] id: GO:0070382 name: exocytic vesicle namespace: cellular_component def: "A transport vesicle that mediates transport from an intracellular compartment to the plasma membrane, and fuses with the plasma membrane to release various cargo molecules, such as proteins or hormones, by exocytosis." [GOC:kad, GOC:mah] synonym: "exocytic constitutive secretory pathway transport vesicle" EXACT [] synonym: "exocytotic vesicle" EXACT [GOC:kad] is_a: GO:0030133 ! transport vesicle is_a: GO:0099503 ! secretory vesicle intersection_of: GO:0030133 ! transport vesicle intersection_of: capable_of GO:0099500 ! vesicle fusion to plasma membrane [Term] id: GO:0070405 name: ammonium ion binding namespace: molecular_function def: "Binding to ammonium ions (NH4+)." [CHEBI:28938, GOC:ecd] synonym: "ammonium binding" RELATED [] is_a: GO:0043169 ! cation binding intersection_of: GO:0005488 ! binding intersection_of: has_input CHEBI:28938 ! ammonium relationship: has_input CHEBI:28938 ! ammonium [Term] id: GO:0070507 name: regulation of microtubule cytoskeleton organization namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the formation, arrangement of constituent parts, or disassembly of cytoskeletal structures comprising microtubules and their associated proteins." [GOC:mah] synonym: "regulation of microtubule cytoskeleton organisation" EXACT [GOC:mah] synonym: "regulation of microtubule dynamics" EXACT [GOC:dph, GOC:tb] is_a: GO:0032886 ! regulation of microtubule-based process is_a: GO:0051493 ! regulation of cytoskeleton organization intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0000226 ! microtubule cytoskeleton organization relationship: regulates GO:0000226 ! microtubule cytoskeleton organization [Term] id: GO:0070661 name: leukocyte proliferation namespace: biological_process def: "The expansion of a leukocyte population by cell division." [GOC:add] is_a: GO:0008283 ! cell population proliferation intersection_of: GO:0008283 ! cell population proliferation intersection_of: acts_on_population_of CL:0000738 ! leukocyte relationship: acts_on_population_of CL:0000738 ! leukocyte created_by: mah creation_date: 2009-05-28T05:25:28Z [Term] id: GO:0070663 name: regulation of leukocyte proliferation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of leukocyte proliferation." [GOC:add, GOC:mah] is_a: GO:0042127 ! regulation of cell population proliferation intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0070661 ! leukocyte proliferation relationship: regulates GO:0070661 ! leukocyte proliferation created_by: mah creation_date: 2009-05-28T05:30:39Z [Term] id: GO:0070664 name: negative regulation of leukocyte proliferation namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of leukocyte proliferation." [GOC:add, GOC:mah] synonym: "down regulation of leukocyte proliferation" EXACT [GOC:mah] synonym: "down-regulation of leukocyte proliferation" EXACT [GOC:mah] synonym: "downregulation of leukocyte proliferation" EXACT [GOC:mah] synonym: "inhibition of leukocyte proliferation" NARROW [GOC:mah] is_a: GO:0008285 ! negative regulation of cell population proliferation is_a: GO:0070663 ! regulation of leukocyte proliferation intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0070661 ! leukocyte proliferation relationship: negatively_regulates GO:0070661 ! leukocyte proliferation created_by: mah creation_date: 2009-05-28T05:34:50Z [Term] id: GO:0070665 name: positive regulation of leukocyte proliferation namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of leukocyte proliferation." [GOC:add, GOC:mah] synonym: "activation of leukocyte proliferation" NARROW [GOC:mah] synonym: "stimulation of leukocyte proliferation" NARROW [GOC:mah] synonym: "up regulation of leukocyte proliferation" EXACT [GOC:mah] synonym: "up-regulation of leukocyte proliferation" EXACT [GOC:mah] synonym: "upregulation of leukocyte proliferation" EXACT [GOC:mah] is_a: GO:0008284 ! positive regulation of cell population proliferation is_a: GO:0070663 ! regulation of leukocyte proliferation intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0070661 ! leukocyte proliferation relationship: positively_regulates GO:0070661 ! leukocyte proliferation created_by: mah creation_date: 2009-05-28T05:36:46Z [Term] id: GO:0070727 name: cellular macromolecule localization namespace: biological_process def: "Any process in which a macromolecule is transported to, and/or maintained in, a specific location at the level of a cell. Localization at the cellular level encompasses movement within the cell, from within the cell to the cell surface, or from one location to another at the surface of a cell." [GOC:mah] synonym: "cellular macromolecule localisation" EXACT [GOC:mah] is_a: GO:0033036 ! macromolecule localization is_a: GO:0051641 ! cellular localization created_by: mah creation_date: 2009-06-16T04:08:29Z [Term] id: GO:0070828 name: heterochromatin organization namespace: biological_process def: "Any process that results in the specification, formation or maintenance of the physical structure of eukaryotic heterochromatin, a compact and highly condensed form of chromatin." [GOC:mah] synonym: "heterochromatin organisation" EXACT [GOC:mah] is_a: GO:0006325 ! chromatin organization intersection_of: GO:0016043 ! cellular component organization intersection_of: results_in_organization_of GO:0000792 ! heterochromatin relationship: results_in_organization_of GO:0000792 ! heterochromatin created_by: mah creation_date: 2009-07-23T04:12:48Z [Term] id: GO:0070831 name: basement membrane assembly namespace: biological_process def: "The aggregation, arrangement and bonding together of a set of components to form a basement membrane, a part of the extracellular region that consists of a thin layer of dense material found in various animal tissues interposed between the cells and the adjacent connective tissue." [GOC:mah] comment: Note that this term has no relationship to 'membrane assembly ; GO:0071709' because the basement membrane is not a lipid bilayer. is_a: GO:0071711 ! basement membrane organization is_a: GO:0085029 ! extracellular matrix assembly intersection_of: GO:0022607 ! cellular component assembly intersection_of: results_in_assembly_of GO:0005604 ! basement membrane relationship: results_in_assembly_of GO:0005604 ! basement membrane created_by: mah creation_date: 2009-07-23T05:01:51Z [Term] id: GO:0070851 name: growth factor receptor binding namespace: molecular_function def: "Binding to a growth factor receptor." [GOC:mah, GOC:vw] is_a: GO:0005102 ! signaling receptor binding created_by: mah creation_date: 2009-08-07T11:23:02Z [Term] id: GO:0070925 name: organelle assembly namespace: biological_process def: "The aggregation, arrangement and bonding together of a set of components to form an organelle. An organelle is an organized structure of distinctive morphology and function. Includes the nucleus, mitochondria, plastids, vacuoles, vesicles, ribosomes and the cytoskeleton. Excludes the plasma membrane." [GOC:mah] subset: goslim_yeast is_a: GO:0006996 ! organelle organization is_a: GO:0022607 ! cellular component assembly intersection_of: GO:0022607 ! cellular component assembly intersection_of: results_in_assembly_of GO:0043226 ! organelle relationship: results_in_assembly_of GO:0043226 ! organelle created_by: mah creation_date: 2009-09-15T03:00:51Z [Term] id: GO:0070997 name: neuron death namespace: biological_process def: "The process of cell death in a neuron." [GOC:BHF, GOC:mah] comment: This term should not be used for direct annotation. The only exception should be when experimental data (e.g., staining with trypan blue or propidium iodide or use of neuron-specific markers) show that neuron death has occurred, but fail to provide details on death modality (accidental versus programmed). When information is provided on the neuron death mechanism, annotations should be made to the appropriate descendant of 'cell death' (such as, but not limited to, GO:0097300 'programmed necrotic cell death' or GO:0006915 'apoptotic process'), and the cell type captured as an annotation extension; or the term GO:0051402 'neuron apoptotic process' may be considered, if appropriate. synonym: "neuron cell death" EXACT [GOC:mah, GOC:rl] synonym: "neuronal cell death" EXACT [GOC:mah] is_a: GO:0008219 ! cell death intersection_of: GO:0008219 ! cell death intersection_of: occurs_in CL:0000540 ! neuron relationship: occurs_in CL:0000540 ! neuron created_by: mah creation_date: 2009-11-03T02:37:17Z [Term] id: GO:0071103 name: DNA conformation change namespace: biological_process def: "A cellular process that results in a change in the spatial configuration of a DNA molecule. A conformation change can bend DNA, or alter the, twist, writhe, or linking number of a DNA molecule." [GOC:mah] subset: goslim_metagenomics synonym: "DNA conformation modification" EXACT [GOC:mah] is_a: GO:0051276 ! chromosome organization created_by: mah creation_date: 2009-11-09T11:36:34Z [Term] id: GO:0071168 name: protein localization to chromatin namespace: biological_process def: "Any process in which a protein is transported to, or maintained at, a part of a chromosome that is organized into chromatin." [GOC:mah] synonym: "protein localisation to chromatin" EXACT [GOC:mah] is_a: GO:0034502 ! protein localization to chromosome intersection_of: GO:0008104 ! protein localization intersection_of: has_target_end_location GO:0000785 ! chromatin relationship: has_target_end_location GO:0000785 ! chromatin created_by: mah creation_date: 2009-11-20T11:51:20Z [Term] id: GO:0071169 name: establishment of protein localization to chromatin namespace: biological_process def: "The directed movement of a protein to a part of a chromosome that is organized into chromatin." [GOC:mah] synonym: "establishment of protein localisation to chromatin" EXACT [GOC:mah] is_a: GO:0070199 ! establishment of protein localization to chromosome is_a: GO:0071168 ! protein localization to chromatin intersection_of: GO:0045184 ! establishment of protein localization intersection_of: has_target_end_location GO:0000785 ! chromatin created_by: mah creation_date: 2009-11-20T11:52:43Z [Term] id: GO:0071425 name: hematopoietic stem cell proliferation namespace: biological_process def: "The expansion of a hematopoietic stem cell population by cell division. A hematopoietic stem cell is a stem cell from which all cells of the lymphoid and myeloid lineages develop." [CL:0000037, GOC:add, GOC:BHF, GOC:mah, GOC:rl] synonym: "hemopoietic stem cell proliferation" EXACT [] is_a: GO:0072089 ! stem cell proliferation intersection_of: GO:0008283 ! cell population proliferation intersection_of: acts_on_population_of CL:0000037 ! hematopoietic stem cell relationship: acts_on_population_of CL:0000037 ! hematopoietic stem cell relationship: part_of GO:0030097 ! hemopoiesis created_by: mah creation_date: 2009-12-16T10:22:52Z [Term] id: GO:0071626 name: mastication namespace: biological_process def: "The process of biting and mashing food with the teeth prior to swallowing." [GOC:gvg] synonym: "chewing" EXACT [GOC:mah] is_a: GO:0022600 ! digestive system process created_by: mah creation_date: 2010-02-10T11:19:48Z [Term] id: GO:0071692 name: protein localization to extracellular region namespace: biological_process def: "Any process in which a protein is transported from one specific location in the extracellular region to another, or maintained in a specific extracellular location." [GOC:mah] synonym: "protein localisation in extracellular region" EXACT [GOC:mah] synonym: "protein localization in extracellular region" EXACT [] is_a: GO:0008104 ! protein localization intersection_of: GO:0008104 ! protein localization intersection_of: has_target_end_location GO:0005576 ! extracellular region relationship: has_target_end_location GO:0005576 ! extracellular region created_by: mah creation_date: 2010-02-25T04:00:13Z [Term] id: GO:0071696 name: ectodermal placode development namespace: biological_process def: "The progression of an ectodermal placode over time from its initial formation until its mature state. An ectodermal placode is a thickening of the ectoderm that is the primordium of many structures derived from the ectoderm." [GOC:mah] is_a: GO:0048856 ! anatomical structure development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0005085 ! ectodermal placode relationship: results_in_development_of UBERON:0005085 ! ectodermal placode created_by: mah creation_date: 2010-03-02T11:48:01Z [Term] id: GO:0071697 name: ectodermal placode morphogenesis namespace: biological_process def: "The process in which the anatomical structures of an ectodermal placode are generated and organized. An ectodermal placode is a thickening of the ectoderm that is the primordium of many structures derived from the ectoderm." [GOC:mah] is_a: GO:0009653 ! anatomical structure morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0005085 ! ectodermal placode relationship: part_of GO:0071696 ! ectodermal placode development relationship: results_in_morphogenesis_of UBERON:0005085 ! ectodermal placode created_by: mah creation_date: 2010-03-02T11:49:51Z [Term] id: GO:0071702 name: organic substance transport namespace: biological_process def: "The directed movement of organic substances into, out of or within a cell, or between cells, or within a multicellular organism by means of some agent such as a transporter or pore. An organic substance is a molecular entity that contains carbon." [GOC:mah] is_a: GO:0006810 ! transport intersection_of: GO:0006810 ! transport intersection_of: transports_or_maintains_localization_of CHEBI:50860 ! organic molecular entity relationship: transports_or_maintains_localization_of CHEBI:50860 ! organic molecular entity created_by: mah creation_date: 2010-03-08T02:15:14Z [Term] id: GO:0071704 name: organic substance metabolic process namespace: biological_process def: "The chemical reactions and pathways involving an organic substance, any molecular entity containing carbon." [GOC:mah] synonym: "organic molecular entity metabolic process" EXACT [] synonym: "organic molecular entity metabolism" EXACT [] synonym: "organic substance metabolism" EXACT [] is_a: GO:0008152 ! metabolic process intersection_of: GO:0008152 ! metabolic process intersection_of: has_primary_input_or_output CHEBI:50860 ! organic molecular entity relationship: has_primary_input_or_output CHEBI:50860 ! organic molecular entity created_by: mah creation_date: 2010-03-08T03:32:18Z [Term] id: GO:0071705 name: nitrogen compound transport namespace: biological_process def: "The directed movement of nitrogen-containing compounds into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." [GOC:mah] is_a: GO:0006810 ! transport intersection_of: GO:0006810 ! transport intersection_of: transports_or_maintains_localization_of CHEBI:51143 ! nitrogen molecular entity relationship: transports_or_maintains_localization_of CHEBI:51143 ! nitrogen molecular entity created_by: mah creation_date: 2010-03-08T03:56:28Z [Term] id: GO:0071709 name: membrane assembly namespace: biological_process def: "The aggregation, arrangement and bonding together of a set of components to form a membrane." [GOC:mah] is_a: GO:0022607 ! cellular component assembly is_a: GO:0061024 ! membrane organization intersection_of: GO:0022607 ! cellular component assembly intersection_of: results_in_assembly_of GO:0016020 ! membrane relationship: part_of GO:0044091 ! membrane biogenesis relationship: results_in_assembly_of GO:0016020 ! membrane created_by: mah creation_date: 2010-03-10T11:19:17Z [Term] id: GO:0071711 name: basement membrane organization namespace: biological_process def: "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of the basement membrane." [GOC:mah] comment: Note that this term has no relationship to 'membrane organization ; GO:0061024' because the basement membrane is not a lipid bilayer. synonym: "basement membrane organisation" EXACT [GOC:mah] is_a: GO:0030198 ! extracellular matrix organization intersection_of: GO:0016043 ! cellular component organization intersection_of: results_in_organization_of GO:0005604 ! basement membrane relationship: results_in_organization_of GO:0005604 ! basement membrane created_by: mah creation_date: 2010-03-10T11:57:10Z [Term] id: GO:0071763 name: nuclear membrane organization namespace: biological_process def: "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of the nuclear inner or outer membrane." [GOC:mah] synonym: "nuclear membrane organisation" EXACT [GOC:mah] synonym: "nuclear membrane organization and biogenesis" RELATED [GOC:mah] is_a: GO:0061024 ! membrane organization intersection_of: GO:0016043 ! cellular component organization intersection_of: results_in_organization_of GO:0031965 ! nuclear membrane relationship: part_of GO:0006998 ! nuclear envelope organization relationship: results_in_organization_of GO:0031965 ! nuclear membrane created_by: mah creation_date: 2010-03-29T03:59:35Z [Term] id: GO:0071764 name: nuclear outer membrane organization namespace: biological_process def: "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of the nuclear outer membrane." [GOC:mah] synonym: "nuclear outer membrane organisation" EXACT [GOC:mah] synonym: "nuclear outer membrane organization and biogenesis" RELATED [GOC:mah] is_a: GO:0071763 ! nuclear membrane organization intersection_of: GO:0016043 ! cellular component organization intersection_of: results_in_organization_of GO:0005640 ! nuclear outer membrane relationship: results_in_organization_of GO:0005640 ! nuclear outer membrane created_by: mah creation_date: 2010-03-29T04:03:37Z [Term] id: GO:0071826 name: ribonucleoprotein complex subunit organization namespace: biological_process def: "Any process in which macromolecules aggregate, disaggregate, or are modified, resulting in the formation, disassembly, or alteration of a ribonucleoprotein complex." [GOC:mah] synonym: "protein-RNA complex subunit organization" EXACT [GOC:mah] synonym: "ribonucleoprotein complex subunit organisation" EXACT [GOC:mah] synonym: "RNA-protein complex subunit organization" EXACT [GOC:mah] is_a: GO:0043933 ! protein-containing complex organization intersection_of: GO:0016043 ! cellular component organization intersection_of: results_in_organization_of GO:1990904 ! ribonucleoprotein complex relationship: results_in_organization_of GO:1990904 ! ribonucleoprotein complex created_by: mah creation_date: 2010-09-08T10:10:35Z [Term] id: GO:0071840 name: cellular component organization or biogenesis namespace: biological_process alt_id: GO:0071841 def: "A process that results in the biosynthesis of constituent macromolecules, assembly, arrangement of constituent parts, or disassembly of a cellular component." [GOC:mah] subset: goslim_flybase_ribbon subset: goslim_metagenomics synonym: "cellular component organisation or biogenesis" EXACT [GOC:mah] synonym: "cellular component organisation or biogenesis at cellular level" EXACT [GOC:mah] synonym: "cellular component organization or biogenesis at cellular level" EXACT [] is_a: GO:0009987 ! cellular process created_by: mah creation_date: 2010-09-10T01:39:16Z [Term] id: GO:0071867 name: response to monoamine namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a monoamine stimulus. A monoamine is any of a group of molecular messengers that contain one amino group that is connected to an aromatic ring by ethylene group (-CH2-CH2-). Monoamines are derived from the aromatic amino acids phenylalanine, tyrosine, histidine and tryptophan." [GOC:mah] synonym: "response to monoamine stimulus" EXACT [GOC:dos] is_a: GO:0010243 ! response to organonitrogen compound intersection_of: GO:0050896 ! response to stimulus intersection_of: has_input CHEBI:63534 ! monoamine relationship: has_input CHEBI:63534 ! monoamine created_by: mah creation_date: 2010-09-13T02:36:37Z [Term] id: GO:0071869 name: response to catecholamine namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a catecholamine stimulus. A catecholamine is any of a group of biogenic amines that includes 4-(2-aminoethyl)pyrocatechol [4-(2-aminoethyl)benzene-1,2-diol] and derivatives formed by substitution." [GOC:BHF, GOC:mah] synonym: "response to catecholamine stimulus" EXACT [GOC:dos] is_a: GO:0014070 ! response to organic cyclic compound is_a: GO:0071867 ! response to monoamine is_a: GO:1901700 ! response to oxygen-containing compound intersection_of: GO:0050896 ! response to stimulus intersection_of: has_input CHEBI:33567 ! catecholamine relationship: has_input CHEBI:33567 ! catecholamine created_by: mah creation_date: 2010-09-13T02:51:13Z [Term] id: GO:0071873 name: response to norepinephrine namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a norepinephrine stimulus. Norepinephrine is a catecholamine that has the formula C8H11NO3; it acts as a hormone, and as a neurotransmitter in most of the sympathetic nervous system." [GOC:BHF, GOC:mah] comment: Note that epinephrine and norepinephrine are ligands for the same receptors, and there are multiple adrenergic receptors. synonym: "response to noradrenaline stimulus" EXACT [GOC:mah] synonym: "response to norepinephrine stimulus" EXACT [GOC:dos] is_a: GO:0071869 ! response to catecholamine intersection_of: GO:0050896 ! response to stimulus intersection_of: has_input CHEBI:33569 ! noradrenaline relationship: has_input CHEBI:33569 ! noradrenaline created_by: mah creation_date: 2010-09-13T03:31:53Z [Term] id: GO:0071887 name: leukocyte apoptotic process namespace: biological_process def: "Any apoptotic process in a leukocyte, an achromatic cell of the myeloid or lymphoid lineages capable of ameboid movement, found in blood or other tissue." [CL:0000738, GOC:BHF, GOC:mah, GOC:mtg_apoptosis] comment: Note that a lymphocyte is a cell of the B cell, T cell, or natural killer cell lineage (CL:0000542). synonym: "leukocyte apoptosis" NARROW [] is_a: GO:0006915 ! apoptotic process intersection_of: GO:0006915 ! apoptotic process intersection_of: occurs_in CL:0000738 ! leukocyte relationship: occurs_in CL:0000738 ! leukocyte created_by: mah creation_date: 2010-09-14T12:44:09Z [Term] id: GO:0071897 name: DNA biosynthetic process namespace: biological_process def: "The cellular DNA metabolic process resulting in the formation of DNA, deoxyribonucleic acid, one of the two main types of nucleic acid, consisting of a long unbranched macromolecule formed from one or two strands of linked deoxyribonucleotides, the 3'-phosphate group of each constituent deoxyribonucleotide being joined in 3',5'-phosphodiester linkage to the 5'-hydroxyl group of the deoxyribose moiety of the next one." [GOC:mah] synonym: "DNA anabolism" EXACT [GOC:mah] synonym: "DNA biosynthesis" EXACT [GOC:mah] synonym: "DNA formation" EXACT [GOC:mah] synonym: "DNA synthesis" EXACT [GOC:mah] is_a: GO:0006259 ! DNA metabolic process is_a: GO:0034645 ! cellular macromolecule biosynthetic process is_a: GO:0034654 ! nucleobase-containing compound biosynthetic process intersection_of: GO:0009058 ! biosynthetic process intersection_of: has_primary_output CHEBI:16991 ! deoxyribonucleic acid relationship: has_primary_output CHEBI:16991 ! deoxyribonucleic acid created_by: mah creation_date: 2010-09-15T02:14:33Z [Term] id: GO:0071944 name: cell periphery namespace: cellular_component def: "The part of a cell encompassing the cell cortex, the plasma membrane, and any external encapsulating structures." [GOC:mah] subset: goslim_flybase_ribbon is_a: GO:0110165 ! cellular anatomical entity created_by: mah creation_date: 2010-10-04T01:51:47Z [Term] id: GO:0071953 name: elastic fiber namespace: cellular_component def: "An supramolecular fiber that consists of an insoluble core of polymerized tropoelastin monomers and a surrounding mantle of microfibrils. Elastic fibers provide elasticity and recoiling to tissues and organs, and maintain structural integrity against mechanical strain." [GOC:BHF, GOC:mah, PMID:20236620] synonym: "elastic fibre" EXACT [GOC:mah] synonym: "elastin fiber" EXACT [GOC:BHF] is_a: GO:0099512 ! supramolecular fiber relationship: part_of GO:0031012 ! extracellular matrix created_by: mah creation_date: 2010-10-11T11:44:57Z [Term] id: GO:0071971 name: extracellular exosome assembly namespace: biological_process def: "The aggregation, arrangement and bonding together of a set of components to form an extracellular vesicular exosome, a membrane-bounded vesicle that is released into the extracellular region by fusion of the limiting endosomal membrane of a multivesicular body with the plasma membrane. Exosomes are defined by their size, which generally ranges from 30 nm to 100 nm." [GOC:mah, GOC:tfm, PMID:19442504, PMID:27462458] synonym: "extracellular vesicular exosome assembly" EXACT [GOC:vesicles] is_a: GO:0016050 ! vesicle organization is_a: GO:0070925 ! organelle assembly intersection_of: GO:0022607 ! cellular component assembly intersection_of: results_in_assembly_of GO:0070062 ! extracellular exosome relationship: part_of GO:0097734 ! extracellular exosome biogenesis relationship: results_in_assembly_of GO:0070062 ! extracellular exosome created_by: mah creation_date: 2010-10-18T03:44:18Z [Term] id: GO:0072089 name: stem cell proliferation namespace: biological_process def: "The multiplication or reproduction of stem cells, resulting in the expansion of a stem cell population. A stem cell is a cell that retains the ability to divide and proliferate throughout life to provide progenitor cells that can differentiate into specialized cells." [GOC:mtg_kidney_jan10] is_a: GO:0008283 ! cell population proliferation intersection_of: GO:0008283 ! cell population proliferation intersection_of: acts_on_population_of CL:0000034 ! stem cell relationship: acts_on_population_of CL:0000034 ! stem cell relationship: has_part GO:0017145 ! stem cell division created_by: mah creation_date: 2010-02-08T02:03:36Z [Term] id: GO:0072091 name: regulation of stem cell proliferation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of stem cell proliferation. A stem cell is a cell that retains the ability to divide and proliferate throughout life to provide progenitor cells that can differentiate into specialized cells." [GOC:mtg_kidney_jan10] is_a: GO:0042127 ! regulation of cell population proliferation intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0072089 ! stem cell proliferation relationship: regulates GO:0072089 ! stem cell proliferation created_by: mah creation_date: 2010-02-08T02:09:03Z [Term] id: GO:0072132 name: mesenchyme morphogenesis namespace: biological_process def: "The process in which the anatomical structures of a mesenchymal tissue are generated and organized. A mesenchymal tissue is made up of loosely packed stellate cells." [GOC:mtg_kidney_jan10] is_a: GO:0048729 ! tissue morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0003104 ! mesenchyme relationship: part_of GO:0009887 ! animal organ morphogenesis relationship: part_of GO:0060485 ! mesenchyme development relationship: results_in_morphogenesis_of UBERON:0003104 ! mesenchyme created_by: mah creation_date: 2010-02-22T02:17:15Z [Term] id: GO:0072175 name: epithelial tube formation namespace: biological_process def: "The developmental process pertaining to the initial formation of an epithelial tube." [GOC:mtg_kidney_jan10] is_a: GO:0035148 ! tube formation intersection_of: GO:0035148 ! tube formation intersection_of: results_in_formation_of UBERON:0003914 ! epithelial tube relationship: part_of GO:0060562 ! epithelial tube morphogenesis relationship: results_in_formation_of UBERON:0003914 ! epithelial tube created_by: mah creation_date: 2010-02-26T02:15:40Z [Term] id: GO:0072201 name: negative regulation of mesenchymal cell proliferation namespace: biological_process def: "Any process that decreases the frequency, rate or extent of mesenchymal cell proliferation. A mesenchymal cell is a cell that normally gives rise to other cells that are organized as three-dimensional masses, rather than sheets." [GOC:mtg_kidney_jan10] is_a: GO:0008285 ! negative regulation of cell population proliferation is_a: GO:0010464 ! regulation of mesenchymal cell proliferation intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0010463 ! mesenchymal cell proliferation relationship: negatively_regulates GO:0010463 ! mesenchymal cell proliferation created_by: mah creation_date: 2010-03-01T03:43:29Z [Term] id: GO:0072348 name: sulfur compound transport namespace: biological_process def: "The directed movement of compounds that contain sulfur, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." [GOC:mah] synonym: "sulfur-containing compound transport" EXACT [GOC:mah] is_a: GO:0006810 ! transport intersection_of: GO:0006810 ! transport intersection_of: transports_or_maintains_localization_of CHEBI:26835 ! sulfur molecular entity relationship: transports_or_maintains_localization_of CHEBI:26835 ! sulfur molecular entity created_by: mah creation_date: 2010-11-11T11:43:56Z [Term] id: GO:0072359 name: circulatory system development namespace: biological_process alt_id: GO:0072358 def: "The process whose specific outcome is the progression of the circulatory system over time, from its formation to the mature structure. The circulatory system is the organ system that passes nutrients (such as amino acids and electrolytes), gases, hormones, blood cells, etc. to and from cells in the body to help fight diseases and help stabilize body temperature and pH to maintain homeostasis." [GOC:mah, UBERON:0001009] subset: goslim_drosophila synonym: "cardiovascular system development" NARROW [] is_a: GO:0048731 ! system development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0001009 ! circulatory system relationship: results_in_development_of UBERON:0001009 ! circulatory system created_by: mah creation_date: 2010-11-16T11:27:39Z [Term] id: GO:0072360 name: vascular cord development namespace: biological_process def: "The progression of the vascular cord over time from its initial formation until its mature state. The vascular cord is the primordial vasculature that will develop into blood vessels by the process of tubulogenesis." [GOC:mah, PMID:7084422, ZFA:0005077] is_a: GO:0048856 ! anatomical structure development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0006965 ! vascular cord relationship: part_of GO:0072359 ! circulatory system development relationship: results_in_development_of UBERON:0006965 ! vascular cord created_by: mah creation_date: 2010-11-16T11:46:55Z [Term] id: GO:0072384 name: organelle transport along microtubule namespace: biological_process def: "The directed movement of an organelle along a microtubule, mediated by motor proteins. This process begins with the attachment of an organelle to a microtubule, and ends when the organelle reaches its final destination." [GOC:mah] synonym: "microtubule-based organelle localization" EXACT [GOC:rl] is_a: GO:0010970 ! transport along microtubule is_a: GO:0051656 ! establishment of organelle localization intersection_of: GO:0046907 ! intracellular transport intersection_of: results_in_transport_along GO:0005874 ! microtubule intersection_of: transports_or_maintains_localization_of GO:0043226 ! organelle created_by: mah creation_date: 2010-12-01T04:59:11Z [Term] id: GO:0072577 name: endothelial cell apoptotic process namespace: biological_process def: "Any apoptotic process in an endothelial cell. An endothelial cell comprises the outermost layer or lining of anatomical structures and can be squamous or cuboidal." [CL:0000115, GOC:BHF, GOC:mah, GOC:mtg_apoptosis] synonym: "apoptosis of endothelial cells" EXACT [GOC:mah] synonym: "endothelial cell apoptosis" NARROW [] synonym: "endothelial cell programmed cell death by apoptosis" EXACT [GOC:mah] synonym: "killing of endothelial cells" EXACT [GOC:mah] synonym: "programmed cell death of endothelial cells by apoptosis" EXACT [GOC:mah] synonym: "programmed cell death, endothelial cells" EXACT [GOC:mah] is_a: GO:1904019 ! epithelial cell apoptotic process intersection_of: GO:0006915 ! apoptotic process intersection_of: occurs_in CL:0000115 ! endothelial cell relationship: occurs_in CL:0000115 ! endothelial cell created_by: mah creation_date: 2011-02-02T03:56:24Z [Term] id: GO:0072592 name: oxygen metabolic process namespace: biological_process def: "The chemical reactions and pathways involving diatomic oxygen (O2)." [GOC:mah] synonym: "diatomic oxygen metabolic process" EXACT [CHEBI:33263] synonym: "oxygen metabolism" EXACT [GOC:mah] is_a: GO:0044237 ! cellular metabolic process intersection_of: GO:0008152 ! metabolic process intersection_of: has_primary_input_or_output CHEBI:15379 ! dioxygen relationship: has_primary_input_or_output CHEBI:15379 ! dioxygen created_by: mah creation_date: 2011-02-11T10:46:51Z [Term] id: GO:0072594 name: establishment of protein localization to organelle namespace: biological_process def: "The directed movement of a protein to a specific location on or in an organelle. Encompasses establishment of localization in the membrane or lumen of a membrane-bounded organelle." [GOC:mah] synonym: "establishment of protein localisation to organelle" EXACT [GOC:mah] is_a: GO:0033365 ! protein localization to organelle is_a: GO:0045184 ! establishment of protein localization intersection_of: GO:0045184 ! establishment of protein localization intersection_of: has_target_end_location GO:0043226 ! organelle created_by: mah creation_date: 2011-02-14T01:56:51Z [Term] id: GO:0072657 name: protein localization to membrane namespace: biological_process def: "A process in which a protein is transported to, or maintained in, a specific location in a membrane." [GOC:mah] synonym: "protein localisation in membrane" EXACT [GOC:mah] synonym: "protein localization in membrane" EXACT [] is_a: GO:0034613 ! cellular protein localization is_a: GO:0051668 ! localization within membrane intersection_of: GO:0008104 ! protein localization intersection_of: has_target_end_location GO:0016020 ! membrane created_by: mah creation_date: 2011-02-14T02:35:18Z [Term] id: GO:0072659 name: protein localization to plasma membrane namespace: biological_process alt_id: GO:0072661 alt_id: GO:0090002 def: "A process in which a protein is transported to, or maintained in, a specific location in the plasma membrane." [GOC:mah] subset: goslim_generic subset: goslim_pombe synonym: "protein localisation in plasma membrane" RELATED [GOC:mah] synonym: "protein localization in plasma membrane" RELATED [] synonym: "protein targeting to plasma membrane" RELATED [] synonym: "protein-plasma membrane targeting" RELATED [GOC:mah] is_a: GO:0072657 ! protein localization to membrane is_a: GO:1990778 ! protein localization to cell periphery intersection_of: GO:0008104 ! protein localization intersection_of: has_target_end_location GO:0005886 ! plasma membrane intersection_of: has_target_start_location GO:0005622 ! intracellular anatomical structure relationship: has_target_end_location GO:0005886 ! plasma membrane relationship: has_target_start_location GO:0005622 ! intracellular anatomical structure created_by: tb creation_date: 2009-07-10T10:29:23Z [Term] id: GO:0072665 name: protein localization to vacuole namespace: biological_process def: "A process in which a protein is transported to, or maintained at, a location in a vacuole." [GOC:ecd] synonym: "protein localisation to vacuole" EXACT [GOC:mah] is_a: GO:0033365 ! protein localization to organelle intersection_of: GO:0008104 ! protein localization intersection_of: has_target_end_location GO:0005773 ! vacuole relationship: has_target_end_location GO:0005773 ! vacuole created_by: mah creation_date: 2011-02-14T02:55:35Z [Term] id: GO:0072666 name: establishment of protein localization to vacuole namespace: biological_process def: "The directed movement of a protein to a specific location in a vacuole." [GOC:mah] synonym: "establishment of protein localisation to vacuole" EXACT [GOC:mah] is_a: GO:0072594 ! establishment of protein localization to organelle is_a: GO:0072665 ! protein localization to vacuole intersection_of: GO:0045184 ! establishment of protein localization intersection_of: has_target_end_location GO:0005773 ! vacuole created_by: mah creation_date: 2011-02-14T02:56:29Z [Term] id: GO:0072697 name: protein localization to cell cortex namespace: biological_process def: "A process in which a protein is transported to, or maintained in, the cell cortex." [GOC:mah] synonym: "protein localisation to cell cortex" EXACT [GOC:mah] is_a: GO:1990778 ! protein localization to cell periphery intersection_of: GO:0008104 ! protein localization intersection_of: has_target_end_location GO:0005938 ! cell cortex relationship: has_target_end_location GO:0005938 ! cell cortex created_by: mah creation_date: 2012-04-11T01:16:33Z [Term] id: GO:0072698 name: protein localization to microtubule cytoskeleton namespace: biological_process def: "A cellular protein localization process in which a protein is transported to, or maintained at, a location within the microtubule cytoskeleton." [GOC:mah] synonym: "protein localisation to microtubule cytoskeleton" EXACT [GOC:mah] is_a: GO:0044380 ! protein localization to cytoskeleton intersection_of: GO:0008104 ! protein localization intersection_of: has_target_end_location GO:0015630 ! microtubule cytoskeleton relationship: has_target_end_location GO:0015630 ! microtubule cytoskeleton created_by: mah creation_date: 2012-04-11T01:19:35Z [Term] id: GO:0080090 name: regulation of primary metabolic process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways within a cell or an organism involving those compounds formed as a part of the normal anabolic and catabolic processes. These processes take place in most, if not all, cells of the organism." [PMID:19211694] is_a: GO:0019222 ! regulation of metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0044238 ! primary metabolic process relationship: regulates GO:0044238 ! primary metabolic process created_by: dhl creation_date: 2009-04-22T04:30:52Z [Term] id: GO:0085029 name: extracellular matrix assembly namespace: biological_process def: "The aggregation, arrangement and bonding together of the extracellular matrix." [GOC:jl] is_a: GO:0022607 ! cellular component assembly is_a: GO:0030198 ! extracellular matrix organization intersection_of: GO:0022607 ! cellular component assembly intersection_of: results_in_assembly_of GO:0031012 ! extracellular matrix relationship: results_in_assembly_of GO:0031012 ! extracellular matrix created_by: jl creation_date: 2010-07-14T12:52:49Z [Term] id: GO:0085030 name: symbiotic process benefiting host namespace: biological_process def: "A process carried out by symbiont gene products that enables a symbiotic interaction with a host organism, that is beneficial to the host organism." [GOC:pdt] synonym: "mutualism" RELATED [] is_a: GO:0044403 ! biological process involved in symbiotic interaction created_by: jl creation_date: 2010-07-27T01:25:21Z [Term] id: GO:0086001 name: cardiac muscle cell action potential namespace: biological_process def: "An action potential that occurs in a cardiac muscle cell." [GOC:BHF, GOC:mtg_cardiac_conduct_nov11] is_a: GO:0001508 ! action potential intersection_of: GO:0001508 ! action potential intersection_of: occurs_in CL:0000746 ! cardiac muscle cell relationship: occurs_in CL:0000746 ! cardiac muscle cell created_by: tb creation_date: 2011-11-10T07:45:11Z [Term] id: GO:0086015 name: SA node cell action potential namespace: biological_process def: "An action potential that occurs in a sinoatrial node cardiac muscle cell." [GOC:BHF, GOC:mtg_cardiac_conduct_nov11] synonym: "SA node cardiac muscle cell action potential" EXACT [] synonym: "SAN cardiac muscle cell action potential" EXACT [] synonym: "sinoatrial node cardiac muscle cell action potential" EXACT [] synonym: "sinus node cardiac muscle cell action potential" NARROW [] is_a: GO:0086001 ! cardiac muscle cell action potential intersection_of: GO:0001508 ! action potential intersection_of: occurs_in CL:1000409 ! myocyte of sinoatrial node relationship: occurs_in CL:1000409 ! myocyte of sinoatrial node relationship: part_of GO:0086018 ! SA node cell to atrial cardiac muscle cell signaling created_by: tb creation_date: 2011-11-10T08:50:15Z [Term] id: GO:0086016 name: AV node cell action potential namespace: biological_process def: "An action potential that occurs in an atrioventricular node cardiac muscle cell." [GOC:BHF, GOC:mtg_cardiac_conduct_nov11] synonym: "atrioventricular node cardiac muscle cell action potential" EXACT [] synonym: "AV node cardiac muscle cell action potential" EXACT [] is_a: GO:0086001 ! cardiac muscle cell action potential intersection_of: GO:0001508 ! action potential intersection_of: occurs_in CL:1000410 ! myocyte of atrioventricular node relationship: occurs_in CL:1000410 ! myocyte of atrioventricular node relationship: part_of GO:0086027 ! AV node cell to bundle of His cell signaling created_by: tb creation_date: 2011-11-10T08:58:56Z [Term] id: GO:0086017 name: Purkinje myocyte action potential namespace: biological_process def: "An action potential that occurs in a Purkinje myocyte." [GOC:BHF, GOC:mtg_cardiac_conduct_nov11] is_a: GO:0086001 ! cardiac muscle cell action potential intersection_of: GO:0001508 ! action potential intersection_of: occurs_in CL:0002068 ! Purkinje myocyte relationship: occurs_in CL:0002068 ! Purkinje myocyte relationship: part_of GO:0086029 ! Purkinje myocyte to ventricular cardiac muscle cell signaling created_by: tb creation_date: 2011-11-10T08:58:56Z [Term] id: GO:0086018 name: SA node cell to atrial cardiac muscle cell signaling namespace: biological_process def: "Any process that mediates the transfer of information from an SA node cardiomyocyte to an atrial cardiomyocyte." [GOC:BHF, GOC:mtg_cardiac_conduct_nov11] synonym: "SA node cardiac muscle cell to atrial cardiac muscle cell signalling" EXACT [] synonym: "SA node cardiomyocyte to atrial cardiomyocyte signalling" EXACT [] synonym: "SAN cardiomyocyte to atrial cardiomyocyte signalling" EXACT [] synonym: "sinoatrial node cardiomyocyte to atrial cardiomyocyte signalling" EXACT [] synonym: "sinus node cardiomyocyte to atrial cardiomyocyte signalling" NARROW [] is_a: GO:0086019 ! cell-cell signaling involved in cardiac conduction is_a: GO:0086070 ! SA node cell to atrial cardiac muscle cell communication created_by: tb creation_date: 2011-11-10T09:15:01Z [Term] id: GO:0086019 name: cell-cell signaling involved in cardiac conduction namespace: biological_process def: "Any process that mediates the transfer of information from one cell to another and contributes to the heart process that regulates cardiac muscle contraction; beginning with the generation of an action potential in the sinoatrial node and ending with regulation of contraction of the myocardium." [GOC:BHF, GOC:mtg_cardiac_conduct_nov11] synonym: "cell-cell signalling involved in cardiac conduction" EXACT [GOC:mah] is_a: GO:0007267 ! cell-cell signaling is_a: GO:0086065 ! cell communication involved in cardiac conduction intersection_of: GO:0007267 ! cell-cell signaling intersection_of: part_of GO:0061337 ! cardiac conduction created_by: dph creation_date: 2011-11-16T03:43:52Z [Term] id: GO:0086027 name: AV node cell to bundle of His cell signaling namespace: biological_process def: "Any process that mediates the transfer of information from an AV node cardiac muscle cell to a bundle of His cardiomyocyte." [GOC:BHF, GOC:mtg_cardiac_conduct_nov11] synonym: "atrioventricular node to bundle of His cell signaling" EXACT [] synonym: "AV node cell to bundle of His cell signalling" EXACT [GOC:mah] is_a: GO:0086019 ! cell-cell signaling involved in cardiac conduction is_a: GO:0086067 ! AV node cell to bundle of His cell communication created_by: tb creation_date: 2011-11-11T02:02:14Z [Term] id: GO:0086029 name: Purkinje myocyte to ventricular cardiac muscle cell signaling namespace: biological_process def: "Any process that mediates the transfer of information from a Purkinje myocyte to a ventricular cardiac muscle cell." [GOC:BHF, GOC:mtg_cardiac_conduct_nov11] synonym: "Purkinje myocyte to ventricular cardiac muscle cell signalling" EXACT [GOC:mah] is_a: GO:0086019 ! cell-cell signaling involved in cardiac conduction is_a: GO:0086068 ! Purkinje myocyte to ventricular cardiac muscle cell communication created_by: tb creation_date: 2011-11-11T02:02:14Z [Term] id: GO:0086065 name: cell communication involved in cardiac conduction namespace: biological_process def: "Any process that mediates interactions between a cell and its surroundings that contributes to the process of cardiac conduction. Encompasses interactions such as signaling or attachment between one cell and another cell, between a cell and an extracellular matrix, or between a cell and any other aspect of its environment." [GOC:BHF, GOC:mtg_cardiac_conduct_nov11] is_a: GO:0007154 ! cell communication intersection_of: GO:0007154 ! cell communication intersection_of: part_of GO:0061337 ! cardiac conduction relationship: part_of GO:0061337 ! cardiac conduction created_by: dph creation_date: 2011-11-22T08:57:02Z [Term] id: GO:0086067 name: AV node cell to bundle of His cell communication namespace: biological_process def: "The process that mediates interactions between an AV node cell and its surroundings that contributes to the process of the AV node cell communicating with a bundle of His cell in cardiac conduction. Encompasses interactions such as signaling or attachment between one cell and another cell, between a cell and an extracellular matrix, or between a cell and any other aspect of its environment." [GOC:BHF, GOC:mtg_cardiac_conduct_nov11] synonym: "atrioventricular node cell to bundle of His cell communication" EXACT [] is_a: GO:0086065 ! cell communication involved in cardiac conduction created_by: dph creation_date: 2011-11-22T09:11:44Z [Term] id: GO:0086068 name: Purkinje myocyte to ventricular cardiac muscle cell communication namespace: biological_process def: "The process that mediates interactions between a Purkinje myocyte and its surroundings that contributes to the process of the Purkinje myocyte communicating with a ventricular cardiac muscle cell in cardiac conduction. Encompasses interactions such as signaling or attachment between one cell and another cell, between a cell and an extracellular matrix, or between a cell and any other aspect of its environment." [GOC:BHF, GOC:mtg_cardiac_conduct_nov11] is_a: GO:0086065 ! cell communication involved in cardiac conduction created_by: dph creation_date: 2011-11-22T09:14:49Z [Term] id: GO:0086070 name: SA node cell to atrial cardiac muscle cell communication namespace: biological_process def: "The process that mediates interactions between an SA node cardiomyocyte and its surroundings that contributes to the process of the SA node cardiomyocyte communicating with an atrial cardiomyocyte in cardiac conduction. Encompasses interactions such as signaling or attachment between one cell and another cell, between a cell and an extracellular matrix, or between a cell and any other aspect of its environment." [GOC:BHF, GOC:mtg_cardiac_conduct_nov11] synonym: "SA node cardiac muscle cell to atrial cardiac muscle cell communication" EXACT [] synonym: "SA node cardiomyocyte to atrial cardiomyocyte communication" EXACT [] synonym: "SAN cardiomyocyte to atrial cardiomyocyte communication" EXACT [] synonym: "sinoatrial node cardiomyocyte to atrial cardiomyocyte communication" EXACT [] synonym: "sinus node cardiomyocyte to atrial cardiomyocyte communication" NARROW [] is_a: GO:0086065 ! cell communication involved in cardiac conduction created_by: dph creation_date: 2011-11-22T09:32:45Z [Term] id: GO:0090063 name: positive regulation of microtubule nucleation namespace: biological_process def: "Any process that increases the rate, frequency or extent of microtubule nucleation. Microtubule nucleation is the 'de novo' formation of a microtubule, in which tubulin heterodimers form metastable oligomeric aggregates, some of which go on to support formation of a complete microtubule. Microtubule nucleation usually occurs from a specific site within a cell." [GOC:dph, GOC:tb] is_a: GO:0010968 ! regulation of microtubule nucleation is_a: GO:0031116 ! positive regulation of microtubule polymerization intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0007020 ! microtubule nucleation relationship: positively_regulates GO:0007020 ! microtubule nucleation created_by: tb creation_date: 2009-08-12T11:33:09Z [Term] id: GO:0090068 name: positive regulation of cell cycle process namespace: biological_process def: "Any process that increases the rate, frequency or extent of a cellular process that is involved in the progression of biochemical and morphological phases and events that occur in a cell during successive cell replication or nuclear replication events." [GOC:dph, GOC:tb] is_a: GO:0010564 ! regulation of cell cycle process is_a: GO:0045787 ! positive regulation of cell cycle intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0022402 ! cell cycle process relationship: positively_regulates GO:0022402 ! cell cycle process created_by: tb creation_date: 2009-09-09T11:39:52Z [Term] id: GO:0090069 name: regulation of ribosome biogenesis namespace: biological_process def: "Any process that modulates the rate, frequency or extent of ribosome biogenesis. Ribosome biogenesis is the cellular process that results in the biosynthesis of constituent macromolecules, assembly, and arrangement of constituent parts of ribosome subunits." [GOC:dph, GOC:tb] is_a: GO:0044087 ! regulation of cellular component biogenesis intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0042254 ! ribosome biogenesis relationship: regulates GO:0042254 ! ribosome biogenesis created_by: tb creation_date: 2009-09-11T10:32:17Z [Term] id: GO:0090070 name: positive regulation of ribosome biogenesis namespace: biological_process def: "Any process that increases the rate, frequency or extent of ribosome biogenesis. Ribosome biogenesis is the cellular process that results in the biosynthesis of constituent macromolecules, assembly, and arrangement of constituent parts of ribosome subunits." [GOC:dph, GOC:tb] is_a: GO:0044089 ! positive regulation of cellular component biogenesis is_a: GO:0090069 ! regulation of ribosome biogenesis intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0042254 ! ribosome biogenesis relationship: positively_regulates GO:0042254 ! ribosome biogenesis created_by: tb creation_date: 2009-09-11T10:32:17Z [Term] id: GO:0090071 name: negative regulation of ribosome biogenesis namespace: biological_process def: "Any process that decreases the rate, frequency or extent of ribosome biogenesis. Ribosome biogenesis is the cellular process that results in the biosynthesis of constituent macromolecules, assembly, and arrangement of constituent parts of ribosome subunits." [GOC:dph, GOC:tb] is_a: GO:0048523 ! negative regulation of cellular process is_a: GO:0090069 ! regulation of ribosome biogenesis intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0042254 ! ribosome biogenesis relationship: negatively_regulates GO:0042254 ! ribosome biogenesis created_by: tb creation_date: 2009-09-11T10:32:17Z [Term] id: GO:0090087 name: regulation of peptide transport namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the directed movement of peptides, compounds of two or more amino acids where the alpha carboxyl group of one is bound to the alpha amino group of another, into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." [GOC:dph, GOC:tb] is_a: GO:0051049 ! regulation of transport intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0015833 ! peptide transport relationship: regulates GO:0015833 ! peptide transport created_by: tb creation_date: 2009-10-23T11:21:38Z [Term] id: GO:0090091 name: positive regulation of extracellular matrix disassembly namespace: biological_process def: "Any process that increases the rate, frequency or extent of extracellular matrix disassembly. Extracellular matrix disassembly is a process that results in the breakdown of the extracellular matrix." [GOC:dph, GOC:tb] is_a: GO:0010715 ! regulation of extracellular matrix disassembly is_a: GO:1903055 ! positive regulation of extracellular matrix organization intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0022617 ! extracellular matrix disassembly relationship: positively_regulates GO:0022617 ! extracellular matrix disassembly created_by: tb creation_date: 2009-11-04T10:03:25Z [Term] id: GO:0090150 name: establishment of protein localization to membrane namespace: biological_process def: "The directed movement of a protein to a specific location in a membrane." [GOC:ascb_2009, GOC:dph, GOC:tb] synonym: "establishment of protein localisation in membrane" EXACT [GOC:mah] synonym: "establishment of protein localization in membrane" EXACT [] is_a: GO:0045184 ! establishment of protein localization is_a: GO:0072657 ! protein localization to membrane intersection_of: GO:0045184 ! establishment of protein localization intersection_of: has_target_end_location GO:0016020 ! membrane created_by: tb creation_date: 2009-12-08T03:18:51Z [Term] id: GO:0090166 name: Golgi disassembly namespace: biological_process def: "A cellular process that results in the breakdown of a Golgi apparatus that contributes to Golgi inheritance." [GOC:ascb_2009, GOC:dph, GOC:tb] is_a: GO:0007030 ! Golgi organization is_a: GO:1903008 ! organelle disassembly intersection_of: GO:0022411 ! cellular component disassembly intersection_of: results_in_disassembly_of GO:0005794 ! Golgi apparatus relationship: part_of GO:0048313 ! Golgi inheritance relationship: results_in_disassembly_of GO:0005794 ! Golgi apparatus created_by: tb creation_date: 2009-12-08T09:15:11Z [Term] id: GO:0090168 name: Golgi reassembly namespace: biological_process def: "The reformation of the Golgi following its breakdown and partitioning contributing to Golgi inheritance." [GOC:ascb_2009, GOC:dph, GOC:tb] is_a: GO:0007030 ! Golgi organization is_a: GO:0022607 ! cellular component assembly relationship: part_of GO:0048313 ! Golgi inheritance created_by: tb creation_date: 2009-12-08T09:15:11Z [Term] id: GO:0090170 name: regulation of Golgi inheritance namespace: biological_process def: "Any process that modulates the rate, frequency or extent of Golgi inheritance. Golgi inheritance is the partitioning of Golgi apparatus between daughter cells at cell division." [GOC:ascb_2009, GOC:dph, GOC:tb] is_a: GO:1903358 ! regulation of Golgi organization intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0048313 ! Golgi inheritance relationship: regulates GO:0048313 ! Golgi inheritance created_by: tb creation_date: 2009-12-11T10:21:59Z [Term] id: GO:0090171 name: chondrocyte morphogenesis namespace: biological_process def: "The process in which the structures of a chondrocyte are generated and organized. This process occurs while the initially relatively unspecialized cell is acquiring the specialized features of a chondrocyte." [GOC:ascb_2009, GOC:dph, GOC:tb] is_a: GO:0000904 ! cell morphogenesis involved in differentiation intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_maturation_of CL:0000138 ! chondrocyte relationship: part_of GO:0002063 ! chondrocyte development relationship: results_in_maturation_of CL:0000138 ! chondrocyte created_by: tb creation_date: 2009-12-11T10:36:02Z [Term] id: GO:0090174 name: organelle membrane fusion namespace: biological_process def: "The joining of two lipid bilayers to form a single organelle membrane." [GOC:ascb_2009, GOC:dph, GOC:tb] is_a: GO:0048284 ! organelle fusion is_a: GO:0061025 ! membrane fusion intersection_of: GO:0061025 ! membrane fusion intersection_of: results_in_fusion_of GO:0031090 ! organelle membrane relationship: results_in_fusion_of GO:0031090 ! organelle membrane created_by: tb creation_date: 2009-12-11T11:44:58Z [Term] id: GO:0090257 name: regulation of muscle system process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of a muscle system process, a multicellular organismal process carried out by any of the organs or tissues in a muscle system." [GOC:dph, GOC:tb] is_a: GO:0044057 ! regulation of system process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0003012 ! muscle system process relationship: regulates GO:0003012 ! muscle system process created_by: tb creation_date: 2010-02-03T11:48:13Z [Term] id: GO:0090273 name: regulation of somatostatin secretion namespace: biological_process def: "Any process that modulates the rate, frequency, extent of the regulated release of somatostatin from secretory granules in the D cells of the pancreas." [GOC:BHF] is_a: GO:0090276 ! regulation of peptide hormone secretion intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0070253 ! somatostatin secretion relationship: regulates GO:0070253 ! somatostatin secretion created_by: tb creation_date: 2010-02-05T02:54:14Z [Term] id: GO:0090274 name: positive regulation of somatostatin secretion namespace: biological_process def: "Any process that increases the rate, frequency, extent of the regulated release of somatostatin from secretory granules in the D cells of the pancreas." [GOC:BHF] is_a: GO:0090273 ! regulation of somatostatin secretion is_a: GO:0090277 ! positive regulation of peptide hormone secretion intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0070253 ! somatostatin secretion relationship: positively_regulates GO:0070253 ! somatostatin secretion created_by: tb creation_date: 2010-02-05T02:54:14Z [Term] id: GO:0090275 name: negative regulation of somatostatin secretion namespace: biological_process def: "Any process that decreases the rate, frequency, extent of the regulated release of somatostatin from secretory granules in the D cells of the pancreas." [GOC:BHF] is_a: GO:0090273 ! regulation of somatostatin secretion is_a: GO:0090278 ! negative regulation of peptide hormone secretion intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0070253 ! somatostatin secretion relationship: negatively_regulates GO:0070253 ! somatostatin secretion created_by: tb creation_date: 2010-02-05T02:54:14Z [Term] id: GO:0090276 name: regulation of peptide hormone secretion namespace: biological_process def: "Any process that modulates the rate, frequency, or extent of the regulated release of a peptide hormone from secretory granules." [GOC:tb] is_a: GO:0002791 ! regulation of peptide secretion is_a: GO:0046883 ! regulation of hormone secretion intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0030072 ! peptide hormone secretion relationship: regulates GO:0030072 ! peptide hormone secretion created_by: tb creation_date: 2010-02-05T02:56:39Z [Term] id: GO:0090277 name: positive regulation of peptide hormone secretion namespace: biological_process def: "Any process that increases the rate, frequency, or extent of the regulated release of a peptide hormone from secretory granules." [GOC:tb] is_a: GO:0002793 ! positive regulation of peptide secretion is_a: GO:0046887 ! positive regulation of hormone secretion is_a: GO:0090276 ! regulation of peptide hormone secretion intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0030072 ! peptide hormone secretion relationship: positively_regulates GO:0030072 ! peptide hormone secretion created_by: tb creation_date: 2010-02-05T02:56:39Z [Term] id: GO:0090278 name: negative regulation of peptide hormone secretion namespace: biological_process def: "Any process that decreases the rate, frequency, or extent of the regulated release of a peptide hormone from secretory granules." [GOC:tb] is_a: GO:0002792 ! negative regulation of peptide secretion is_a: GO:0046888 ! negative regulation of hormone secretion is_a: GO:0090276 ! regulation of peptide hormone secretion intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0030072 ! peptide hormone secretion relationship: negatively_regulates GO:0030072 ! peptide hormone secretion created_by: tb creation_date: 2010-02-05T02:56:39Z [Term] id: GO:0090299 name: regulation of neural crest formation namespace: biological_process def: "Any process that modulates the rate, frequency, or extent of neural crest formation. Neural crest formation is the formation of the specialized region of ectoderm between the neural ectoderm (neural plate) and non-neural ectoderm. The neural crest gives rise to the neural crest cells that migrate away from this region as neural tube formation proceeds." [GOC:tb] is_a: GO:0010717 ! regulation of epithelial to mesenchymal transition is_a: GO:0022603 ! regulation of anatomical structure morphogenesis intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0014029 ! neural crest formation relationship: regulates GO:0014029 ! neural crest formation created_by: tb creation_date: 2010-03-12T04:08:26Z [Term] id: GO:0090300 name: positive regulation of neural crest formation namespace: biological_process def: "Any process that increases the rate, frequency, or extent of neural crest formation. Neural crest formation is the formation of the specialized region of ectoderm between the neural ectoderm (neural plate) and non-neural ectoderm. The neural crest gives rise to the neural crest cells that migrate away from this region as neural tube formation procedes." [GOC:tb] is_a: GO:0010718 ! positive regulation of epithelial to mesenchymal transition is_a: GO:0090299 ! regulation of neural crest formation intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0014029 ! neural crest formation relationship: positively_regulates GO:0014029 ! neural crest formation created_by: tb creation_date: 2010-03-12T04:08:26Z [Term] id: GO:0090301 name: negative regulation of neural crest formation namespace: biological_process def: "Any process that decreases the rate, frequency, or extent of neural crest formation. Neural crest formation is the formation of the specialized region of ectoderm between the neural ectoderm (neural plate) and non-neural ectoderm. The neural crest gives rise to the neural crest cells that migrate away from this region as neural tube formation procedes." [GOC:tb] is_a: GO:0010719 ! negative regulation of epithelial to mesenchymal transition is_a: GO:0090299 ! regulation of neural crest formation intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0014029 ! neural crest formation relationship: negatively_regulates GO:0014029 ! neural crest formation created_by: tb creation_date: 2010-03-12T04:08:26Z [Term] id: GO:0090304 name: nucleic acid metabolic process namespace: biological_process def: "Any cellular metabolic process involving nucleic acids." [GOC:dph, GOC:tb] is_a: GO:0006139 ! nucleobase-containing compound metabolic process is_a: GO:0043170 ! macromolecule metabolic process intersection_of: GO:0008152 ! metabolic process intersection_of: has_primary_input_or_output CHEBI:33696 ! nucleic acid relationship: has_primary_input_or_output CHEBI:33696 ! nucleic acid created_by: tb creation_date: 2010-04-07T10:18:47Z [Term] id: GO:0090316 name: positive regulation of intracellular protein transport namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of the directed movement of proteins within cells." [GOC:tb] is_a: GO:0032388 ! positive regulation of intracellular transport is_a: GO:0033157 ! regulation of intracellular protein transport is_a: GO:0051222 ! positive regulation of protein transport intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0006886 ! intracellular protein transport relationship: positively_regulates GO:0006886 ! intracellular protein transport created_by: tb creation_date: 2010-04-16T03:45:07Z [Term] id: GO:0090317 name: negative regulation of intracellular protein transport namespace: biological_process def: "Any process that decreases the frequency, rate or extent of the directed movement of proteins within cells." [GOC:tb] is_a: GO:0032387 ! negative regulation of intracellular transport is_a: GO:0033157 ! regulation of intracellular protein transport is_a: GO:0051224 ! negative regulation of protein transport intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0006886 ! intracellular protein transport relationship: negatively_regulates GO:0006886 ! intracellular protein transport relationship: negatively_regulates GO:0034613 {http://purl.obolibrary.org/obo/IAO_0000233="https://github.com/geneontology/go-ontology/issues/13926"} ! cellular protein localization created_by: tb creation_date: 2010-04-16T03:45:07Z [Term] id: GO:0090435 name: protein localization to nuclear envelope namespace: biological_process def: "A process in which a protein is transported to, or maintained at, a location within a nuclear envelope." [GOC:tb] synonym: "protein localization in nuclear envelope" EXACT [] is_a: GO:0034504 ! protein localization to nucleus intersection_of: GO:0008104 ! protein localization intersection_of: has_target_end_location GO:0005635 ! nuclear envelope relationship: has_target_end_location GO:0005635 ! nuclear envelope created_by: tb creation_date: 2012-07-30T01:50:41Z [Term] id: GO:0090596 name: sensory organ morphogenesis namespace: biological_process def: "Morphogenesis of a sensory organ. A sensory organ is defined as a tissue or set of tissues that work together to receive and transmit signals from external or internal stimuli. Morphogenesis is the process in which anatomical structures are generated and organized. Organs are commonly observed as visibly distinct structures, but may also exist as loosely associated clusters of cells that work together to perform a specific function or functions." [GOC:kmv, ISBN:978-0199210893] is_a: GO:0009887 ! animal organ morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0000020 ! sense organ relationship: part_of GO:0007423 ! sensory organ development relationship: results_in_morphogenesis_of UBERON:0000020 ! sense organ created_by: tb creation_date: 2014-08-22T13:23:20Z [Term] id: GO:0090685 name: RNA localization to nucleus namespace: biological_process def: "A macromolecular localization process in which RNA is transported to and maintained in a location within the nucleus." [GOC:mah, PMID:26305931] synonym: "RNA localisation to nucleus" EXACT [GOC:mah] is_a: GO:0006403 ! RNA localization intersection_of: GO:0006403 ! RNA localization intersection_of: has_target_end_location GO:0005634 ! nucleus relationship: has_target_end_location GO:0005634 ! nucleus created_by: tb creation_date: 2016-07-19T17:00:49Z [Term] id: GO:0090741 name: pigment granule membrane namespace: cellular_component def: "Any membrane that is part of a pigment granule." [PMID:11294610] is_a: GO:0030659 ! cytoplasmic vesicle membrane is_a: GO:0098588 ! bounding membrane of organelle intersection_of: GO:0016020 ! membrane intersection_of: bounding_layer_of GO:0048770 ! pigment granule relationship: bounding_layer_of GO:0048770 ! pigment granule created_by: tb creation_date: 2017-05-16T22:33:39Z [Term] id: GO:0097014 name: ciliary plasm namespace: cellular_component def: "All of the contents of a cilium, excluding the plasma membrane surrounding the cilium." [GOC:BHF, GOC:cilia, GOC:dos, PMID:17895364] comment: Note that we deem cilium and microtubule-based flagellum to be equivalent. Also, researchers consider the composition of both the plasm and the membrane of the cilium to be detectably different from that in the non-ciliary cytosol and plasma membrane (e.g. in terms of calcium ion concentration, membrane lipid composition, and more). For this reason, the term "ciliary plasm" is not linked to "cytoplasm". synonym: "cilial cytoplasm" RELATED [] synonym: "ciliary cytoplasm" RELATED [] synonym: "cilium cytoplasm" RELATED [] synonym: "cilium plasm" EXACT [] synonym: "microtubule-based flagellar cytoplasm" RELATED [] synonym: "microtubule-based flagellar matrix" NARROW [] synonym: "microtubule-based flagellum cytoplasm" RELATED [] synonym: "microtubule-based flagellum matrix" NARROW [] is_a: GO:0032838 ! plasma membrane bounded cell projection cytoplasm intersection_of: GO:0005737 ! cytoplasm intersection_of: part_of GO:0005929 ! cilium relationship: part_of GO:0005929 ! cilium created_by: pr creation_date: 2011-03-23T01:52:31Z [Term] id: GO:0097049 name: motor neuron apoptotic process namespace: biological_process def: "Any apoptotic process in a motor neuron, an efferent neuron that passes from the central nervous system or a ganglion toward or to a muscle and conducts an impulse that causes movement." [CL:0000100, GOC:BHF, GOC:mtg_apoptosis, PMID:14523086] synonym: "motoneuron apoptosis" EXACT [] synonym: "motor neuron apoptosis" NARROW [] is_a: GO:0051402 ! neuron apoptotic process intersection_of: GO:0006915 ! apoptotic process intersection_of: occurs_in CL:0000100 ! motor neuron relationship: occurs_in CL:0000100 ! motor neuron created_by: pr creation_date: 2011-05-04T02:21:43Z [Term] id: GO:0097060 name: synaptic membrane namespace: cellular_component def: "A specialized area of membrane on either the presynaptic or the postsynaptic side of a synapse, the junction between a nerve fiber of one neuron and another neuron or muscle fiber or glial cell." [GOC:BHF, PMID:20410104] subset: goslim_synapse is_a: GO:0098590 ! plasma membrane region intersection_of: GO:0098590 ! plasma membrane region intersection_of: part_of GO:0045202 ! synapse relationship: part_of GO:0045202 ! synapse created_by: pr creation_date: 2011-06-07T11:22:09Z [Term] id: GO:0097084 name: vascular associated smooth muscle cell development namespace: biological_process def: "The process aimed at the progression of a vascular smooth muscle cell over time, from initial commitment of the cell to a specific fate, to the fully functional differentiated cell. A vascular smooth muscle cell is a non-striated, elongated, spindle-shaped cell found lining the blood vessels." [GOC:BHF] synonym: "vascular smooth muscle cell development" EXACT [] is_a: GO:0055001 ! muscle cell development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of CL:0000359 ! vascular associated smooth muscle cell relationship: part_of GO:0035886 ! vascular associated smooth muscle cell differentiation relationship: results_in_development_of CL:0000359 ! vascular associated smooth muscle cell created_by: pr creation_date: 2011-06-20T04:03:08Z [Term] id: GO:0097152 name: mesenchymal cell apoptotic process namespace: biological_process def: "Any apoptotic process in a mesenchymal cell. A mesenchymal cell is a loosely associated cell that is part of the connective tissue in an organism. Mesenchymal cells give rise to more mature connective tissue cell types." [CL:0000134, GOC:mtg_apoptosis, GOC:yaf, PMID:18231833] synonym: "mesenchymal cell apoptosis" NARROW [] is_a: GO:0006915 ! apoptotic process intersection_of: GO:0006915 ! apoptotic process intersection_of: occurs_in CL:0008019 ! mesenchymal cell relationship: occurs_in CL:0008019 ! mesenchymal cell created_by: pr creation_date: 2011-09-06T02:31:59Z [Term] id: GO:0097159 name: organic cyclic compound binding namespace: molecular_function def: "Binding to an organic cyclic compound, any molecular entity that contains carbon arranged in a cyclic molecular structure." [GOC:sjw, PMID:7583672] is_a: GO:0005488 ! binding intersection_of: GO:0005488 ! binding intersection_of: has_input CHEBI:33832 ! organic cyclic compound relationship: has_input CHEBI:33832 ! organic cyclic compound created_by: pr creation_date: 2011-09-23T02:31:01Z [Term] id: GO:0097164 name: ammonium ion metabolic process namespace: biological_process def: "The chemical reactions and pathways involving the ammonium ion." [GOC:dhl, GOC:tb, PMID:14671018] synonym: "ammonium ion metabolism" EXACT [] synonym: "ammonium metabolic process" RELATED [] is_a: GO:0006807 ! nitrogen compound metabolic process intersection_of: GO:0008152 ! metabolic process intersection_of: has_primary_input_or_output CHEBI:28938 ! ammonium relationship: has_primary_input_or_output CHEBI:28938 ! ammonium created_by: pr creation_date: 2011-09-28T04:21:30Z [Term] id: GO:0097190 name: apoptotic signaling pathway namespace: biological_process alt_id: GO:0008624 def: "A series of molecular signals which triggers the apoptotic death of a cell. The pathway starts with reception of a signal, and ends when the execution phase of apoptosis is triggered." [GOC:mtg_apoptosis] comment: This term can be used to annotate gene products involved in apoptotic events happening downstream of the cross-talk point between the extrinsic and intrinsic apoptotic pathways. The cross-talk starts when caspase-8 cleaves Bid and truncated Bid interacts with mitochondria. From this point on it is not possible to distinguish between extrinsic and intrinsic pathways. synonym: "apoptotic signalling pathway" EXACT [GOC:mah] synonym: "induction of apoptosis by extracellular signals" EXACT [] is_a: GO:0007165 ! signal transduction relationship: part_of GO:0006915 ! apoptotic process created_by: pr creation_date: 2011-11-23T09:30:23Z [Term] id: GO:0097194 name: execution phase of apoptosis namespace: biological_process def: "A stage of the apoptotic process that starts with the controlled breakdown of the cell through the action of effector caspases or other effector molecules (e.g. cathepsins, calpains etc.). Key steps of the execution phase are rounding-up of the cell, retraction of pseudopodes, reduction of cellular volume (pyknosis), chromatin condensation, nuclear fragmentation (karyorrhexis), plasma membrane blebbing and fragmentation of the cell into apoptotic bodies. When the execution phase is completed, the cell has died." [GOC:mtg_apoptosis, PMID:21760595] synonym: "apoptosis" NARROW [] synonym: "execution phase of apoptotic process" EXACT [] is_a: GO:0009987 ! cellular process relationship: has_part GO:0032060 ! bleb assembly relationship: part_of GO:0006915 ! apoptotic process created_by: pr creation_date: 2011-11-23T09:45:24Z [Term] id: GO:0097355 name: protein localization to heterochromatin namespace: biological_process def: "Any process in which a protein is transported to, or maintained at, a part of a chromosome that is organized into heterochromatin." [GOC:mah] synonym: "protein localisation to heterochromatin" EXACT [GOC:mah] is_a: GO:0071168 ! protein localization to chromatin intersection_of: GO:0008104 ! protein localization intersection_of: has_target_end_location GO:0000792 ! heterochromatin relationship: has_target_end_location GO:0000792 ! heterochromatin created_by: pr creation_date: 2012-07-03T03:19:07Z [Term] id: GO:0097367 name: carbohydrate derivative binding namespace: molecular_function def: "Binding to a carbohydrate derivative." [GOC:pr] subset: goslim_agr subset: goslim_mouse is_a: GO:0005488 ! binding intersection_of: GO:0005488 ! binding intersection_of: has_input CHEBI:63299 ! carbohydrate derivative relationship: has_input CHEBI:63299 ! carbohydrate derivative created_by: pr creation_date: 2012-08-02T13:03:39Z [Term] id: GO:0097386 name: glial cell projection namespace: cellular_component def: "A prolongation or process extending from a glial cell." [GOC:mc] synonym: "glial process" RELATED [] synonym: "glial projection" RELATED [] is_a: CARO:0000000 ! anatomical entity is_a: GO:0120025 ! plasma membrane bounded cell projection intersection_of: GO:0120025 ! plasma membrane bounded cell projection intersection_of: part_of CL:0000125 ! glial cell relationship: part_of CL:0000125 ! glial cell created_by: pr creation_date: 2012-10-22T13:55:54Z [Term] id: GO:0097427 name: microtubule bundle namespace: cellular_component def: "An arrangement of closely apposed microtubules running parallel to each other." [NIF_Subcellular:sao1872343973] synonym: "microtubule fascicle" EXACT [] xref: NIF_Subcellular:sao1872343973 is_a: GO:0110165 ! cellular anatomical entity relationship: has_part GO:0005874 ! microtubule relationship: part_of GO:0005856 ! cytoskeleton created_by: pr creation_date: 2012-11-07T15:01:27Z [Term] id: GO:0097435 name: supramolecular fiber organization namespace: biological_process alt_id: GO:0043206 def: "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of a supramolecular fiber, a polymer consisting of an indefinite number of protein or protein complex subunits that have polymerised to form a fiber-shaped structure." [GOC:pr] synonym: "extracellular fibril organisation" NARROW [] synonym: "extracellular fibril organization" NARROW [] synonym: "extracellular fibril organization and biogenesis" NARROW [GOC:mah] synonym: "fibril organisation" RELATED [] synonym: "fibril organization" RELATED [] is_a: GO:0016043 ! cellular component organization intersection_of: GO:0016043 ! cellular component organization intersection_of: results_in_organization_of GO:0099512 ! supramolecular fiber relationship: results_in_organization_of GO:0099512 ! supramolecular fiber created_by: pr creation_date: 2012-11-27T15:46:25Z [Term] id: GO:0097473 name: retinal rod cell apoptotic process namespace: biological_process def: "Any apoptotic process in a retinal rod cell, one of the two photoreceptor cell types of the vertebrate retina." [CL:0000604, GOC:jc, PMID:17202487] synonym: "rod photoreceptor apoptotic process" EXACT [] is_a: GO:0051402 ! neuron apoptotic process is_a: GO:1990009 ! retinal cell apoptotic process intersection_of: GO:0006915 ! apoptotic process intersection_of: occurs_in CL:0000604 ! retinal rod cell relationship: occurs_in CL:0000604 ! retinal rod cell created_by: pr creation_date: 2013-03-21T09:44:45Z [Term] id: GO:0097474 name: retinal cone cell apoptotic process namespace: biological_process def: "Any apoptotic process in a retinal cone cell, one of the two photoreceptor cell types of the vertebrate retina." [CL:0000573, GOC:jc] synonym: "cone photoreceptor apoptotic process" EXACT [] is_a: GO:0051402 ! neuron apoptotic process is_a: GO:1990009 ! retinal cell apoptotic process intersection_of: GO:0006915 ! apoptotic process intersection_of: occurs_in CL:0000573 ! retinal cone cell relationship: occurs_in CL:0000573 ! retinal cone cell created_by: pr creation_date: 2013-03-21T09:46:22Z [Term] id: GO:0097512 name: cardiac myofibril namespace: cellular_component def: "A cardiac myofibril is a myofibril specific to cardiac muscle cells." [GOC:cjm, GOC:devbiol] is_a: GO:0030016 ! myofibril intersection_of: GO:0030016 ! myofibril intersection_of: part_of CL:0000746 ! cardiac muscle cell relationship: part_of CL:0000746 ! cardiac muscle cell created_by: pr creation_date: 2013-10-16T13:04:58Z [Term] id: GO:0097576 name: vacuole fusion namespace: biological_process def: "Merging of two or more vacuoles, or of vacuoles and vesicles within a cell to form a single larger vacuole." [GOC:pr, GOC:vw, Wikipedia:Vacuole] is_a: GO:0007033 ! vacuole organization is_a: GO:0048284 ! organelle fusion intersection_of: GO:0009987 ! cellular process intersection_of: results_in_fusion_of GO:0005773 ! vacuole relationship: results_in_fusion_of GO:0005773 ! vacuole created_by: pr creation_date: 2014-02-28T09:49:31Z [Term] id: GO:0097708 name: intracellular vesicle namespace: cellular_component def: "Any vesicle that is part of the intracellular region." [GOC:vesicles] is_a: GO:0031982 ! vesicle is_a: GO:0043231 ! intracellular membrane-bounded organelle intersection_of: GO:0031982 ! vesicle intersection_of: part_of GO:0005622 ! intracellular anatomical structure created_by: pr creation_date: 2016-03-29T17:39:45Z [Term] id: GO:0097711 name: ciliary basal body-plasma membrane docking namespace: biological_process def: "The docking of a cytosolic centriole/basal body to the plasma membrane via the ciliary transition fibers. In some species this may happen via an intermediate step, by first docking to the ciliary vesicle via the ciliary transition fibers. The basal body-ciliary vesicle then relocates to the plasma membrane, followed by the ciliary vesicle fusing with the plasma membrane, effectively attaching the basal body to the plasma membrane." [GOC:cilia, PMID:13978319, PMID:23348840, PMID:23530209, PMID:25686250, PMID:26981235, Reactome:R-HSA-5620912.1] comment: Basal bodies in jawed vertebrates appear to first attach to a ciliary vesicle. It is unclear how specific this is to jawed vertebrates or if other organisms also employ this sequence. Some species like Giardia intestinalis do not relocate their basal bodies to the plasma membrane, but have their axonemes extend through the cytosol to then protrude out of the cell to form flagella. synonym: "anchoring of the basal body to the plasma membrane" RELATED [] synonym: "ciliary basal body docking" EXACT [] xref: Reactome:R-HSA-5620912.1 is_a: GO:0140056 ! organelle localization by membrane tethering relationship: part_of GO:0060271 ! cilium assembly created_by: pr creation_date: 2016-08-05T16:12:33Z [Term] id: GO:0097712 name: vesicle targeting, trans-Golgi to periciliary membrane compartment namespace: biological_process def: "The process in which vesicles formed at the trans-Golgi network are directed to the plasma membrane surrounding the base of the cilium, including the ciliary pocket, mediated by molecules at the vesicle membrane and target membrane surfaces." [GOC:cilia, PMID:20106869, PMID:23351793, PMID:24814148, PMID:26485645, Reactome:R-HSA-5620920.1] is_a: GO:0048199 ! vesicle targeting, to, from or within Golgi relationship: part_of GO:0060271 ! cilium assembly created_by: pr creation_date: 2016-08-05T16:16:28Z [Term] id: GO:0097734 name: extracellular exosome biogenesis namespace: biological_process def: "The assembly and secretion of an extracellular exosome, a membrane-bounded vesicle that is released into the extracellular region by fusion of the limiting endosomal membrane of a multivesicular body with the plasma membrane." [GOC:bf, GOC:PARL, PMID:19442504, PMID:25392495] synonym: "exosome assembly or secretion" EXACT [] synonym: "exosome biogenesis" EXACT [] synonym: "exosome production" EXACT [] synonym: "ILV assembly" RELATED [] synonym: "intraluminal vesicle assembly" RELATED [] is_a: GO:0140112 ! extracellular vesicle biogenesis created_by: pr creation_date: 2016-10-03T14:35:25Z [Term] id: GO:0098523 name: neuromuscular junction of myotube namespace: cellular_component def: "A neuromuscular junction in which the target muscle cell is a myotube." [GOC:dos] comment: In vertebrates, the term 'neuromuscular junction' is limited to synapses targeting the myotubes of skeletal muscle (AKA skeletal muscle fibers). Neuromuscular junctions targeting other muscle cell types exist in invertebrates such as the mononucleate somatic muscles of nematodes. is_a: GO:0031594 ! neuromuscular junction intersection_of: GO:0045202 ! synapse intersection_of: overlaps CL:0000100 ! motor neuron intersection_of: overlaps CL:0002372 ! myotube relationship: overlaps CL:0002372 ! myotube created_by: dos creation_date: 2013-10-14T12:05:12Z [Term] id: GO:0098528 name: skeletal muscle fiber differentiation namespace: biological_process def: "The process in which a relatively unspecialized cell acquires specialized features of a skeletal muscle fiber cell. Skeletal muscle fiber differentiation starts with myoblast fusion and the appearance of specific cell markers (this is the cell development step). Then individual skeletal muscle fibers fuse to form bigger myotubes and start to contract." [GOC:dos] is_a: GO:0014902 ! myotube differentiation is_a: GO:0035914 ! skeletal muscle cell differentiation intersection_of: GO:0030154 ! cell differentiation intersection_of: results_in_acquisition_of_features_of CL:0008002 ! skeletal muscle fiber relationship: results_in_acquisition_of_features_of CL:0008002 ! skeletal muscle fiber created_by: dos creation_date: 2013-10-15T14:00:34Z [Term] id: GO:0098588 name: bounding membrane of organelle namespace: cellular_component def: "The lipid bilayer that forms the outer-most layer of an organelle." [GOC:dos] comment: Examples include the outer membranes of double membrane bound organelles such as mitochondria as well as the bounding membranes of single-membrane bound organelles such as lysosomes. is_a: GO:0031090 ! organelle membrane intersection_of: GO:0016020 ! membrane intersection_of: bounding_layer_of GO:0043226 ! organelle relationship: bounding_layer_of GO:0043226 ! organelle created_by: dos creation_date: 2014-02-26T13:41:31Z [Term] id: GO:0098590 name: plasma membrane region namespace: cellular_component def: "A membrane that is a (regional) part of the plasma membrane." [GOC:dos] comment: Note that this term should not be used for direct manual annotation as it should always be possible to choose a more specific subclass. subset: gocheck_do_not_manually_annotate synonym: "region of plasma membrane" EXACT [] is_a: GO:0016020 ! membrane intersection_of: GO:0016020 ! membrane intersection_of: part_of GO:0005886 ! plasma membrane relationship: part_of GO:0005886 ! plasma membrane created_by: dos creation_date: 2014-03-06T11:55:32Z [Term] id: GO:0098633 name: collagen fibril binding namespace: molecular_function def: "Binding to a collagen fibril." [GOC:dos, PMID:21421911] is_a: GO:0044877 ! protein-containing complex binding intersection_of: GO:0005488 ! binding intersection_of: has_input GO:0098643 ! banded collagen fibril relationship: has_input GO:0098643 ! banded collagen fibril [Term] id: GO:0098642 name: network-forming collagen trimer namespace: cellular_component def: "A collagen trimer that forms networks." [PMID:21421911] is_a: GO:0005581 ! collagen trimer intersection_of: GO:0005581 ! collagen trimer intersection_of: part_of GO:0098645 ! collagen network relationship: part_of GO:0098645 ! collagen network [Term] id: GO:0098643 name: banded collagen fibril namespace: cellular_component def: "A supramolecular assembly of fibrillar collagen complexes in the form of a long fiber (fibril) with transverse striations (bands)." [GOC:dos, PMID:21421911] is_a: GO:0098644 ! complex of collagen trimers is_a: GO:0099512 ! supramolecular fiber [Term] id: GO:0098644 name: complex of collagen trimers namespace: cellular_component def: "A complex of collagen trimers such as a fibril or collagen network." [GOC:dos] synonym: "Supramolecular aggregate of collagen" EXACT [PMID:19693541] synonym: "Supramolecular collagen assembly" EXACT [PMID:21421911] is_a: GO:0099080 ! supramolecular complex relationship: has_part GO:0005581 ! collagen trimer relationship: part_of GO:0062023 ! collagen-containing extracellular matrix [Term] id: GO:0098645 name: collagen network namespace: cellular_component def: "A supramolecular complex that consists of collagen triple helices associated to form a network." [GOC:dos, PMID:21421911] is_a: GO:0098644 ! complex of collagen trimers is_a: GO:0099081 ! supramolecular polymer [Term] id: GO:0098651 name: basement membrane collagen trimer namespace: cellular_component def: "Any collagen timer that is part of a basement membrane." [GOC:dos, PMID:21421911] is_a: GO:0005581 ! collagen trimer intersection_of: GO:0005581 ! collagen trimer intersection_of: part_of GO:0005604 ! basement membrane relationship: part_of GO:0005604 ! basement membrane [Term] id: GO:0098657 name: import into cell namespace: biological_process def: "The directed movement of some substance from outside of a cell into a cell. This may occur via transport across the plasma membrane or via endocytosis." [GOC:dos] synonym: "uptake" BROAD [] is_a: GO:0006810 ! transport intersection_of: GO:0006810 ! transport intersection_of: has_target_end_location GO:0005622 ! intracellular anatomical structure intersection_of: has_target_start_location GO:0005576 ! extracellular region intersection_of: transports_or_maintains_localization_of CHEBI:24431 ! chemical entity relationship: has_target_end_location GO:0005622 ! intracellular anatomical structure relationship: has_target_start_location GO:0005576 ! extracellular region relationship: transports_or_maintains_localization_of CHEBI:24431 ! chemical entity [Term] id: GO:0098723 name: skeletal muscle myofibril namespace: cellular_component def: "A myofibril of a skeletal muscle fiber." [GOC:dos] is_a: GO:0030016 ! myofibril intersection_of: GO:0030016 ! myofibril intersection_of: part_of CL:0008002 ! skeletal muscle fiber relationship: part_of CL:0008002 ! skeletal muscle fiber [Term] id: GO:0098751 name: bone cell development namespace: biological_process def: "The process whose specific outcome is the progression of a bone cell over time, from initial commitment of the cell to a specific fate, to the fully functional differentiated cell." [GOC:dos] comment: Not to be used for manual annotation. Please choose a more specific cell development term or if not possible, bone or bone tissue development. subset: gocheck_do_not_annotate is_a: GO:0048468 ! cell development intersection_of: GO:0032502 ! developmental process intersection_of: results_in_development_of CL:0001035 ! bone cell relationship: part_of GO:0060348 ! bone development relationship: results_in_development_of CL:0001035 ! bone cell [Term] id: GO:0098773 name: skin epidermis development namespace: biological_process def: "The process whose specific outcome is the progression of the skin epidermis over time, from its formation to the mature structure." [GOC:dos] is_a: GO:0008544 ! epidermis development is_a: GO:0060429 ! epithelium development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0001003 ! skin epidermis relationship: part_of GO:0043588 ! skin development relationship: results_in_development_of UBERON:0001003 ! skin epidermis [Term] id: GO:0098793 name: presynapse namespace: cellular_component def: "The part of a synapse that is part of the presynaptic cell." [GOC:dos] subset: goslim_synapse synonym: "presynaptic terminal" EXACT [] is_a: CARO:0000000 ! anatomical entity is_a: GO:0110165 ! cellular anatomical entity relationship: part_of CL:0000540 ! neuron relationship: part_of GO:0045202 ! synapse [Term] id: GO:0098794 name: postsynapse namespace: cellular_component def: "The part of a synapse that is part of the post-synaptic cell." [GOC:dos] subset: goslim_synapse is_a: GO:0110165 ! cellular anatomical entity relationship: part_of CL:0000000 ! cell relationship: part_of GO:0045202 ! synapse [Term] id: GO:0098796 name: membrane protein complex namespace: cellular_component def: "Any protein complex that is part of a membrane." [GOC:dos] subset: goslim_metagenomics is_a: GO:0032991 ! protein-containing complex intersection_of: GO:0032991 ! protein-containing complex intersection_of: part_of GO:0016020 ! membrane relationship: part_of GO:0016020 ! membrane [Term] id: GO:0098797 name: plasma membrane protein complex namespace: cellular_component def: "Any protein complex that is part of the plasma membrane." [GOC:dos] is_a: GO:0098796 ! membrane protein complex intersection_of: GO:0032991 ! protein-containing complex intersection_of: part_of GO:0005886 ! plasma membrane relationship: part_of GO:0005886 ! plasma membrane [Term] id: GO:0098813 name: nuclear chromosome segregation namespace: biological_process def: "The process in which genetic material, in the form of nuclear chromosomes, is organized into specific structures and then physically separated and apportioned to two or more sets. Nuclear chromosome segregation begins with the condensation of chromosomes, includes chromosome separation, and ends when chromosomes have completed movement to the spindle poles." [GOC:dos] is_a: GO:0007059 ! chromosome segregation is_a: GO:0022402 ! cell cycle process [Term] id: GO:0098840 name: protein transport along microtubule namespace: biological_process def: "The directed movement of a protein along a microtubule, mediated by motor proteins." [PMID:25987607] synonym: "microtubule-based protein transport" BROAD [] is_a: GO:0006886 ! intracellular protein transport is_a: GO:0010970 ! transport along microtubule is_a: GO:0099118 ! microtubule-based protein transport intersection_of: GO:0046907 ! intracellular transport intersection_of: results_in_transport_along GO:0005874 ! microtubule intersection_of: transports_or_maintains_localization_of PR:000000001 ! protein [Term] id: GO:0098867 name: intramembranous bone growth namespace: biological_process def: "The increase in size or mass of an intramembranous bone that contributes to the shaping of the bone." [PMID:26399686] is_a: GO:0098868 ! bone growth intersection_of: GO:0048589 ! developmental growth intersection_of: results_in_growth_of UBERON:0002514 ! intramembranous bone relationship: results_in_growth_of UBERON:0002514 ! intramembranous bone [Term] id: GO:0098868 name: bone growth namespace: biological_process def: "The increase in size or mass of a bone that contributes to the shaping of that bone." [GOC:dos] is_a: GO:0035265 ! organ growth intersection_of: GO:0048589 ! developmental growth intersection_of: results_in_growth_of UBERON:0001474 ! bone element relationship: results_in_growth_of UBERON:0001474 ! bone element [Term] id: GO:0098871 name: postsynaptic actin cytoskeleton namespace: cellular_component def: "The actin cytoskeleton that is part of a postsynapse." [GOC:dos] subset: goslim_synapse is_a: GO:0015629 ! actin cytoskeleton is_a: GO:0099571 ! postsynaptic cytoskeleton intersection_of: GO:0015629 ! actin cytoskeleton intersection_of: part_of GO:0098794 ! postsynapse [Term] id: GO:0098876 name: vesicle-mediated transport to the plasma membrane namespace: biological_process def: "The directed movement of substances to the plasma membrane in transport vesicles that fuse with the plasma membrane by exocytosis." [GOC:dos] is_a: GO:0016192 ! vesicle-mediated transport is_a: GO:0051668 ! localization within membrane intersection_of: GO:0006810 ! transport intersection_of: has_target_end_location GO:0005886 ! plasma membrane intersection_of: process_has_causal_agent GO:0031982 ! vesicle relationship: ends_with GO:0006887 ! exocytosis relationship: has_target_end_location GO:0005886 ! plasma membrane [Term] id: GO:0098883 name: synapse pruning namespace: biological_process def: "A cellular process that results in the controlled breakdown of synapse. After it starts the process is continuous until the synapse has disappeared." [GOC:dos, PMID:12062020, PMID:18083105, PMID:22632716, PMID:29844190] subset: goslim_synapse synonym: "synapse clearance" EXACT [GOC:aruk, GOC:bc, PMID:22632716] synonym: "synapse disassembly" EXACT syngo_official_label [PMID:12062020] synonym: "synapse elimination" EXACT [GOC:aruk, GOC:bc, PMID:18083105, PMID:29844190] synonym: "synapse removal" EXACT [GOC:aruk, GOC:bc, PMID:22632716] is_a: GO:0050808 ! synapse organization is_a: GO:0150146 ! cell junction disassembly intersection_of: GO:0022411 ! cellular component disassembly intersection_of: results_in_disassembly_of GO:0045202 ! synapse relationship: results_in_disassembly_of GO:0045202 ! synapse [Term] id: GO:0098900 name: regulation of action potential namespace: biological_process def: "Any process that modulates the frequency, rate or extent of action potential creation, propagation or termination. This typically occurs via modulation of the activity or expression of voltage-gated ion channels." [GOC:dos, GOC:dph, GOC:go_curators, GOC:tb, ISBN:978-0-07-139011-8] comment: The ion channels through which current flows during an action potential should be annotated to the process 'action potential'. Gene products involved in modulating the characteristics of an action potential via changing the expression levels or the activity of these channels (e.g. modulating their kinetics or voltage sensitivity) should be annotated to this regulation term. is_a: GO:0050789 ! regulation of biological process intersection_of: GO:0050789 ! regulation of biological process intersection_of: regulates GO:0001508 ! action potential relationship: regulates GO:0001508 ! action potential [Term] id: GO:0098901 name: regulation of cardiac muscle cell action potential namespace: biological_process def: "Any process that modulates the frequency, rate or extent of action potential creation, propagation or termination in a cardiac muscle cell. This typically occurs via modulation of the activity or expression of voltage-gated ion channels." [GOC:dos, GOC:mtg_cardiac_conduct_nov11] is_a: GO:0098900 ! regulation of action potential intersection_of: GO:0050789 ! regulation of biological process intersection_of: regulates GO:0086001 ! cardiac muscle cell action potential relationship: regulates GO:0086001 ! cardiac muscle cell action potential [Term] id: GO:0098904 name: regulation of AV node cell action potential namespace: biological_process def: "Any process that modulates the frequency, rate or extent of action potential creation, propagation or termination in an atrioventricular node myocyte. This typically occurs via modulation of the activity or expression of voltage-gated ion channels." [GOC:BHF, GOC:mtg_cardiac_conduct_nov11] synonym: "regulation of atrioventricular node cardiac muscle cell action potential" EXACT [] synonym: "regulation of AV node cardiac muscle cell action potential" EXACT [] is_a: GO:0010646 ! regulation of cell communication is_a: GO:0098901 ! regulation of cardiac muscle cell action potential intersection_of: GO:0050789 ! regulation of biological process intersection_of: regulates GO:0086016 ! AV node cell action potential relationship: regulates GO:0086016 ! AV node cell action potential created_by: tb creation_date: 2011-11-10T08:58:56Z [Term] id: GO:0098906 name: regulation of Purkinje myocyte action potential namespace: biological_process def: "Any process that modulates the frequency, rate or extent of action potential creation, propagation or termination in a Purkinje myocyte. This typically occurs via modulation of the activity or expression of voltage-gated ion channels." [GOC:BHF, GOC:mtg_cardiac_conduct_nov11] is_a: GO:0010646 ! regulation of cell communication is_a: GO:0098901 ! regulation of cardiac muscle cell action potential intersection_of: GO:0050789 ! regulation of biological process intersection_of: regulates GO:0086017 ! Purkinje myocyte action potential relationship: regulates GO:0086017 ! Purkinje myocyte action potential created_by: tb creation_date: 2011-11-10T08:58:56Z [Term] id: GO:0098907 name: regulation of SA node cell action potential namespace: biological_process def: "Any process that modulates the frequency, rate or extent of action potential creation, propagation or termination in an SA node cardiac myocyte. This typically occurs via modulation of the activity or expression of voltage-gated ion channels." [GOC:BHF, GOC:mtg_cardiac_conduct_nov11] synonym: "regulation of SA node cardiac muscle cell action potential" EXACT [] synonym: "regulation of SAN cardiac muscle cell action potential" EXACT [] synonym: "regulation of sinoatrial node cardiac muscle cell action potential" EXACT [] synonym: "regulation of sinus node cardiac muscle cell action potential" NARROW [] is_a: GO:0010646 ! regulation of cell communication is_a: GO:0098901 ! regulation of cardiac muscle cell action potential intersection_of: GO:0050789 ! regulation of biological process intersection_of: regulates GO:0086015 ! SA node cell action potential relationship: regulates GO:0086015 ! SA node cell action potential created_by: tb creation_date: 2011-11-10T08:50:15Z [Term] id: GO:0098908 name: regulation of neuronal action potential namespace: biological_process def: "Any process that modulates the frequency, rate or extent of action potential creation, propagation or termination in a neuron. This typically occurs via modulation of the activity or expression of voltage-gated ion channels." [GOC:dph, GOC:isa_complete, GOC:tb] synonym: "generation of action potential" RELATED [GOC:dph, GOC:tb] is_a: GO:0051969 ! regulation of transmission of nerve impulse is_a: GO:0098900 ! regulation of action potential intersection_of: GO:0050789 ! regulation of biological process intersection_of: regulates GO:0019228 ! neuronal action potential relationship: regulates GO:0019228 ! neuronal action potential [Term] id: GO:0098916 name: anterograde trans-synaptic signaling namespace: biological_process def: "Cell-cell signaling from pre to post-synapse, across the synaptic cleft." [GOC:dos] is_a: GO:0099537 ! trans-synaptic signaling intersection_of: GO:0099537 ! trans-synaptic signaling intersection_of: has_end_location GO:0098794 ! postsynapse intersection_of: has_start_location GO:0098793 ! presynapse relationship: has_end_location GO:0098794 ! postsynapse relationship: has_start_location GO:0098793 ! presynapse [Term] id: GO:0098917 name: retrograde trans-synaptic signaling namespace: biological_process def: "Cell-cell signaling from post to pre-synapse, across the synaptic cleft." [GOC:dos] is_a: GO:0099537 ! trans-synaptic signaling intersection_of: GO:0099537 ! trans-synaptic signaling intersection_of: has_end_location GO:0098793 ! presynapse intersection_of: has_start_location GO:0098794 ! postsynapse relationship: has_end_location GO:0098793 ! presynapse relationship: has_start_location GO:0098794 ! postsynapse [Term] id: GO:0098920 name: retrograde trans-synaptic signaling by lipid namespace: biological_process def: "Cell-cell signaling from postsynapse to presynapse, across the synaptic cleft, mediated by a lipid ligand." [GOC:dos] subset: goslim_synapse is_a: GO:0098917 ! retrograde trans-synaptic signaling is_a: GO:0099541 ! trans-synaptic signaling by lipid intersection_of: GO:0099537 ! trans-synaptic signaling intersection_of: has_end_location GO:0098793 ! presynapse intersection_of: has_start_location GO:0098794 ! postsynapse intersection_of: process_has_causal_agent CHEBI:18059 ! lipid [Term] id: GO:0098926 name: postsynaptic signal transduction namespace: biological_process def: "Signal transduction in which the initial step occurs in a postsynapse." [GOC:dos] comment: Do not directly annotate. This term is intended for automatically grouping annotations to signal transduction classes extended with has_start_location/occurs_in postsynapse or one of its parts. subset: gocheck_do_not_manually_annotate subset: goslim_synapse synonym: "postsynaptic signaling pathway" EXACT syngo_official_label [] is_a: GO:0007165 ! signal transduction intersection_of: GO:0007165 ! signal transduction intersection_of: has_start_location GO:0098794 ! postsynapse relationship: has_start_location GO:0098794 ! postsynapse relationship: part_of GO:0099536 ! synaptic signaling [Term] id: GO:0098928 name: presynaptic signal transduction namespace: biological_process def: "Signal transduction in which the initial step occurs in a presynapse." [GOC:dos] comment: Do not directly annotate. This term intended for grouping. Annotate to either a subclass or to some other subclass of signal transduction extended with has_start_location/occurs_in presynapse or one of its parts. Such extensions will result in automatic annotation to this term. subset: gocheck_do_not_manually_annotate subset: goslim_synapse synonym: "presynaptic signaling pathway" EXACT syngo_official_label [] is_a: GO:0007165 ! signal transduction intersection_of: GO:0007165 ! signal transduction intersection_of: has_start_location GO:0098793 ! presynapse relationship: has_start_location GO:0098793 ! presynapse [Term] id: GO:0098974 name: postsynaptic actin cytoskeleton organization namespace: biological_process def: "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of cytoskeletal structures comprising actin filaments and their associated proteins in the postsynaptic actin cytoskeleton." [GOC:dos] subset: goslim_synapse is_a: GO:0030036 ! actin cytoskeleton organization is_a: GO:0099188 ! postsynaptic cytoskeleton organization intersection_of: GO:0016043 ! cellular component organization intersection_of: results_in_organization_of GO:0098871 ! postsynaptic actin cytoskeleton relationship: results_in_organization_of GO:0098871 ! postsynaptic actin cytoskeleton [Term] id: GO:0098975 name: postsynapse of neuromuscular junction namespace: cellular_component def: "The postsynapse of a neuromuscular junction. In vertebrate muscles this includes the motor end-plate, consisting of postjunctional folds of the sarcolemma." [GOC:dos, Wikipedia:Neuromuscular_junction&oldid=723623502] is_a: CARO:0000000 ! anatomical entity is_a: GO:0098794 ! postsynapse intersection_of: GO:0098794 ! postsynapse intersection_of: part_of CL:0000187 ! muscle cell intersection_of: part_of GO:0031594 ! neuromuscular junction relationship: part_of CL:0000187 ! muscle cell relationship: part_of GO:0031594 ! neuromuscular junction [Term] id: GO:0099003 name: vesicle-mediated transport in synapse namespace: biological_process def: "Any vesicle-mediated transport that occurs in a synapse." [GOC:dos] subset: goslim_synapse is_a: GO:0016192 ! vesicle-mediated transport intersection_of: GO:0016192 ! vesicle-mediated transport intersection_of: occurs_in GO:0045202 ! synapse relationship: in_taxon NCBITaxon:33208 ! Metazoa relationship: occurs_in GO:0045202 ! synapse relationship: only_in_taxon NCBITaxon:33208 ! Metazoa [Term] id: GO:0099054 name: presynapse assembly namespace: biological_process def: "The aggregation, arrangement and bonding together of a set of components to form a presynapse." [GOC:bf, GOC:dos, GOC:PARL, PMID:24449494] subset: goslim_synapse synonym: "presynapse biogenesis" EXACT [GOC:mah] synonym: "presynaptic terminal assembly" EXACT [PMID:24449494] is_a: GO:0022607 ! cellular component assembly is_a: GO:0099172 ! presynapse organization intersection_of: GO:0009987 ! cellular process intersection_of: results_in_assembly_of GO:0098793 ! presynapse relationship: part_of GO:0007416 ! synapse assembly relationship: results_in_assembly_of GO:0098793 ! presynapse [Term] id: GO:0099068 name: postsynapse assembly namespace: biological_process def: "The aggregation, arrangement and bonding together of a set of components to form a postsynapse." [GOC:bf, GOC:dos, GOCL:PARL] synonym: "postsynapse biogenesis" EXACT [GOC:mah] is_a: GO:0022607 ! cellular component assembly is_a: GO:0099173 ! postsynapse organization intersection_of: GO:0009987 ! cellular process intersection_of: results_in_assembly_of GO:0098794 ! postsynapse relationship: part_of GO:0007416 ! synapse assembly relationship: results_in_assembly_of GO:0098794 ! postsynapse [Term] id: GO:0099080 name: supramolecular complex namespace: cellular_component def: "A cellular component that consists of an indeterminate number of proteins or macromolecular complexes, organized into a regular, higher-order structure such as a polymer, sheet, network or a fiber." [GOC:dos] is_a: GO:0110165 ! cellular anatomical entity [Term] id: GO:0099081 name: supramolecular polymer namespace: cellular_component def: "A polymeric supramolecular structure." [GOC:dos] is_a: GO:0099080 ! supramolecular complex intersection_of: GO:0099080 ! supramolecular complex intersection_of: bearer_of PATO:0015006 ! polymeric relationship: bearer_of PATO:0015006 ! polymeric [Term] id: GO:0099082 name: retrograde trans-synaptic signaling by neuropeptide namespace: biological_process def: "Cell-cell signaling from postsynapse to presynapse, across the synaptic cleft, mediated by a neuropeptide." [GOC:bf, GOC:dos, GOC:PARL, PMID:19448629] subset: goslim_synapse is_a: GO:0098917 ! retrograde trans-synaptic signaling is_a: GO:0099540 ! trans-synaptic signaling by neuropeptide intersection_of: GO:0099537 ! trans-synaptic signaling intersection_of: has_end_location GO:0098793 ! presynapse intersection_of: has_start_location GO:0098794 ! postsynapse intersection_of: process_has_causal_agent CHEBI:16670 ! peptide [Term] id: GO:0099083 name: retrograde trans-synaptic signaling by neuropeptide, modulating synaptic transmission namespace: biological_process def: "Modulation of synaptic transmittion by cell-cell signaling across the synaptic cleft from postsynapse to presynapse, mediated by a neuropeptide." [GOC:bf, GOC:dos, GOC:PARL, PMID:19448629] comment: Note that this term was created for the SynGO project, and will be obsoleted when the SynGO annotations are made in Noctua. subset: goslim_synapse is_a: GO:0099082 ! retrograde trans-synaptic signaling by neuropeptide is_a: GO:0099551 ! trans-synaptic signaling by neuropeptide, modulating synaptic transmission intersection_of: GO:0099537 ! trans-synaptic signaling intersection_of: has_end_location GO:0098793 ! presynapse intersection_of: has_start_location GO:0098794 ! postsynapse intersection_of: process_has_causal_agent CHEBI:16670 ! peptide intersection_of: regulates GO:0007268 ! chemical synaptic transmission [Term] id: GO:0099098 name: microtubule polymerization based movement namespace: biological_process def: "The movement of a cellular component as a result of microtubule polymerization." [GOC:cjm, ISBN:0815316194] is_a: GO:0007018 ! microtubule-based movement intersection_of: GO:0007018 ! microtubule-based movement intersection_of: has_part GO:0046785 ! microtubule polymerization relationship: has_part GO:0046785 ! microtubule polymerization [Term] id: GO:0099111 name: microtubule-based transport namespace: biological_process def: "A microtubule-based process that results in the transport of organelles, other microtubules, or other cellular components. Examples include motor-driven movement along microtubules and movement driven by polymerization or depolymerization of microtubules." [GOC:cjm, ISBN:0815316194] is_a: GO:0006810 ! transport is_a: GO:0007018 ! microtubule-based movement intersection_of: GO:0006810 ! transport intersection_of: process_has_causal_agent GO:0005874 ! microtubule [Term] id: GO:0099112 name: microtubule polymerization based protein transport namespace: biological_process def: "The transport of a protein driven by polymerization of a microtubule to which it is attached." [GOC:dos, GOC:vw, PMID:11018050] is_a: GO:0006886 ! intracellular protein transport is_a: GO:0099098 ! microtubule polymerization based movement is_a: GO:0099118 ! microtubule-based protein transport intersection_of: GO:0046907 ! intracellular transport intersection_of: has_part GO:0046785 ! microtubule polymerization intersection_of: process_has_causal_agent GO:0005874 ! microtubule intersection_of: transports_or_maintains_localization_of CHEBI:36080 ! protein [Term] id: GO:0099118 name: microtubule-based protein transport namespace: biological_process def: "A microtubule-based process that results in the transport of proteins." [GOC:vw] is_a: GO:0015031 ! protein transport is_a: GO:0099111 ! microtubule-based transport intersection_of: GO:0006810 ! transport intersection_of: process_has_causal_agent GO:0005874 ! microtubule intersection_of: transports_or_maintains_localization_of PR:000000001 ! protein [Term] id: GO:0099140 name: presynaptic actin cytoskeleton organization namespace: biological_process def: "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of cytoskeletal structures comprising actin filaments and their associated proteins in the presynaptic actin cytoskeleton." [GOC:dos] subset: goslim_synapse is_a: GO:0030036 ! actin cytoskeleton organization is_a: GO:0099187 ! presynaptic cytoskeleton organization intersection_of: GO:0016043 ! cellular component organization intersection_of: results_in_organization_of GO:0099143 ! presynaptic actin cytoskeleton relationship: results_in_organization_of GO:0099143 ! presynaptic actin cytoskeleton created_by: dos creation_date: 2017-06-09T18:34:19Z [Term] id: GO:0099143 name: presynaptic actin cytoskeleton namespace: cellular_component def: "The actin cytoskeleton that is part of a presynapse." [GOC:dos] subset: goslim_synapse is_a: GO:0015629 ! actin cytoskeleton is_a: GO:0099569 ! presynaptic cytoskeleton intersection_of: GO:0015629 ! actin cytoskeleton intersection_of: part_of GO:0098793 ! presynapse created_by: dos creation_date: 2017-06-09T18:36:19Z [Term] id: GO:0099156 name: cell-cell signaling via exosome namespace: biological_process def: "Cell-cell signaling in which the ligand is carried between cells by an exosome." [GOC:dos, PMID:19837038] synonym: "exosome mediated" EXACT [] is_a: GO:0007267 ! cell-cell signaling intersection_of: GO:0007267 ! cell-cell signaling intersection_of: process_has_causal_agent GO:0070062 ! extracellular exosome relationship: process_has_causal_agent GO:0070062 ! extracellular exosome created_by: dos creation_date: 2017-07-05T16:40:45Z [Term] id: GO:0099157 name: trans-synaptic signalling via exosome namespace: biological_process def: "Transynaptic signaling in which the ligand is carried across the synapse by an exosome." [GOC:dos, PMID:19837038] subset: goslim_synapse synonym: "exosome mediated transynaptic signalling" EXACT [] is_a: GO:0099156 ! cell-cell signaling via exosome is_a: GO:0099537 ! trans-synaptic signaling intersection_of: GO:0099537 ! trans-synaptic signaling intersection_of: process_has_causal_agent GO:0070062 ! extracellular exosome created_by: dos creation_date: 2017-07-05T16:49:44Z [Term] id: GO:0099170 name: postsynaptic modulation of chemical synaptic transmission namespace: biological_process def: "Any process, acting in the postsynapse that results in modulation of chemical synaptic transmission." [GOC:dos] subset: goslim_synapse is_a: GO:0050804 ! modulation of chemical synaptic transmission intersection_of: GO:0050804 ! modulation of chemical synaptic transmission intersection_of: occurs_in GO:0098794 ! postsynapse relationship: occurs_in GO:0098794 ! postsynapse created_by: dos creation_date: 2017-09-11T17:09:17Z [Term] id: GO:0099171 name: presynaptic modulation of chemical synaptic transmission namespace: biological_process def: "Any process, acting in the presynapse that results in modulation of chemical synaptic transmission." [GOC:dos] subset: goslim_synapse is_a: GO:0050804 ! modulation of chemical synaptic transmission intersection_of: GO:0050804 ! modulation of chemical synaptic transmission intersection_of: occurs_in GO:0098793 ! presynapse relationship: occurs_in GO:0098793 ! presynapse created_by: dos creation_date: 2017-09-11T17:09:31Z [Term] id: GO:0099172 name: presynapse organization namespace: biological_process def: "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of a presynapse." [GOC:dos] subset: goslim_synapse synonym: "presynapse development" EXACT [] synonym: "presynapse morphogenesis" RELATED [GOC:BHF] synonym: "presynapse organisation" EXACT [] synonym: "presynapse organization and biogenesis" RELATED [GOC:mah] is_a: GO:0016043 ! cellular component organization intersection_of: GO:0009987 ! cellular process intersection_of: results_in_organization_of GO:0098793 ! presynapse relationship: part_of GO:0050808 ! synapse organization relationship: results_in_organization_of GO:0098793 ! presynapse [Term] id: GO:0099173 name: postsynapse organization namespace: biological_process def: "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of a postsynapse." [GOC:dos] subset: goslim_synapse synonym: "postsynapse development" EXACT [] synonym: "postsynapse morphogenesis" RELATED [GOC:BHF] synonym: "postsynapse organisation" EXACT [] synonym: "postsynapse organization and biogenesis" RELATED [GOC:mah] is_a: GO:0016043 ! cellular component organization intersection_of: GO:0009987 ! cellular process intersection_of: results_in_organization_of GO:0098794 ! postsynapse relationship: part_of GO:0050808 ! synapse organization relationship: results_in_organization_of GO:0098794 ! postsynapse [Term] id: GO:0099174 name: regulation of presynapse organization namespace: biological_process def: "Any process that modulates the physical form of a presynapse." [GOC:ai, GOC:dph, GOC:tb] subset: goslim_synapse synonym: "regulation of presynapse organisation" EXACT [GOC:mah] synonym: "regulation of presynapse organization and biogenesis" RELATED [GOC:mah] synonym: "regulation of presynapse structure" EXACT [] is_a: GO:0050807 ! regulation of synapse organization intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0099172 ! presynapse organization relationship: regulates GO:0099172 ! presynapse organization [Term] id: GO:0099175 name: regulation of postsynapse organization namespace: biological_process def: "Any process that modulates the physical form of a postsynapse." [GOC:ai, GOC:dph, GOC:tb] subset: goslim_synapse synonym: "regulation of postsynapse organisation" EXACT [GOC:mah] synonym: "regulation of postsynapse organization and biogenesis" RELATED [GOC:mah] synonym: "regulation of postsynapse structure" EXACT [] is_a: GO:0050807 ! regulation of synapse organization intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0099173 ! postsynapse organization relationship: regulates GO:0099173 ! postsynapse organization [Term] id: GO:0099177 name: regulation of trans-synaptic signaling namespace: biological_process def: "Any process that modulates the frequency, rate or extent of trans-synaptic signaling." [GOC:dos] is_a: GO:0010646 ! regulation of cell communication is_a: GO:0023051 ! regulation of signaling intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0099537 ! trans-synaptic signaling relationship: regulates GO:0099537 ! trans-synaptic signaling [Term] id: GO:0099187 name: presynaptic cytoskeleton organization namespace: biological_process def: "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of cytoskeletal structures and their associated proteins in the presynaptic cytoskeleton." [GOC:dos] is_a: GO:0007010 ! cytoskeleton organization intersection_of: GO:0009987 ! cellular process intersection_of: results_in_organization_of GO:0099569 ! presynaptic cytoskeleton relationship: part_of GO:0099172 ! presynapse organization relationship: results_in_organization_of GO:0099569 ! presynaptic cytoskeleton created_by: dos creation_date: 2017-12-20T15:05:34Z [Term] id: GO:0099188 name: postsynaptic cytoskeleton organization namespace: biological_process def: "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of cytoskeletal structures comprising cytoskeletal filaments and their associated proteins in the postsynaptic cytoskeleton." [GOC:dos] subset: goslim_synapse is_a: GO:0007010 ! cytoskeleton organization intersection_of: GO:0016043 ! cellular component organization intersection_of: results_in_organization_of GO:0099571 ! postsynaptic cytoskeleton relationship: part_of GO:0099173 ! postsynapse organization relationship: results_in_organization_of GO:0099571 ! postsynaptic cytoskeleton created_by: dos creation_date: 2017-12-20T15:06:57Z [Term] id: GO:0099500 name: vesicle fusion to plasma membrane namespace: biological_process def: "Fusion of the membrane of a vesicle with the plasma membrane, thereby releasing its contents into the extracellular space." [GOC:aruk, GOC:bc, ISBN:0071120009, PMID:18618940] is_a: GO:0006906 ! vesicle fusion is_a: GO:0140029 ! exocytic process intersection_of: GO:0061025 ! membrane fusion intersection_of: part_of GO:0006887 ! exocytosis intersection_of: results_in_fusion_of GO:0012506 ! vesicle membrane intersection_of: results_in_fusion_of GO:0098590 ! plasma membrane region relationship: results_in_fusion_of GO:0098590 ! plasma membrane region [Term] id: GO:0099501 name: exocytic vesicle membrane namespace: cellular_component def: "The lipid bilayer surrounding an exocytic vesicle." [GOC:dos] synonym: "secretory vesicle membrane" BROAD [] is_a: GO:0030658 ! transport vesicle membrane intersection_of: GO:0016020 ! membrane intersection_of: bounding_layer_of GO:0070382 ! exocytic vesicle relationship: bounding_layer_of GO:0070382 ! exocytic vesicle [Term] id: GO:0099503 name: secretory vesicle namespace: cellular_component def: "A cytoplasmic, membrane bound vesicle that is capable of fusing to the plasma membrane to release its contents into the extracellular space." [GOC:dos] subset: goslim_drosophila is_a: GO:0031410 ! cytoplasmic vesicle intersection_of: GO:0031982 ! vesicle intersection_of: capable_of GO:0099500 ! vesicle fusion to plasma membrane relationship: capable_of GO:0099500 ! vesicle fusion to plasma membrane [Term] id: GO:0099512 name: supramolecular fiber namespace: cellular_component alt_id: GO:0043205 def: "A polymer consisting of an indefinite number of protein or protein complex subunits that have polymerised to form a fiber-shaped structure." [GOC:dos] synonym: "fibril" RELATED [] is_a: GO:0099081 ! supramolecular polymer intersection_of: GO:0099080 ! supramolecular complex intersection_of: bearer_of PATO:0002309 ! fiber shaped intersection_of: bearer_of PATO:0015006 ! polymeric relationship: bearer_of PATO:0002309 ! fiber shaped [Term] id: GO:0099513 name: polymeric cytoskeletal fiber namespace: cellular_component def: "A component of the cytoskeleton consisting of a homo or heteropolymeric fiber constructed from an indeterminate number of protein subunits." [GOC:dos] is_a: GO:0099512 ! supramolecular fiber intersection_of: GO:0099512 ! supramolecular fiber intersection_of: bearer_of PATO:0015006 ! polymeric intersection_of: part_of GO:0005856 ! cytoskeleton relationship: part_of GO:0005856 ! cytoskeleton [Term] id: GO:0099518 name: vesicle cytoskeletal trafficking namespace: biological_process def: "The directed movement of a vesicle along a cytoskeletal fiber such as a microtubule or and actin filament, mediated by motor proteins." [GOC:ecd, GOC:rl] synonym: "cytoskeletal fiber-based vesicle localization" EXACT [GOC:rl] synonym: "vesicle cytoskeletal transport" EXACT [] is_a: GO:0030705 ! cytoskeleton-dependent intracellular transport is_a: GO:0051650 ! establishment of vesicle localization intersection_of: GO:0046907 ! intracellular transport intersection_of: results_in_transport_along GO:0099513 ! polymeric cytoskeletal fiber intersection_of: transports_or_maintains_localization_of GO:0031982 ! vesicle [Term] id: GO:0099531 name: presynaptic process involved in chemical synaptic transmission namespace: biological_process def: "The pathway leading to secretion of a neurotransmitter from the presynapse as part of synaptic transmission." [GOC:dos] subset: gocheck_do_not_annotate subset: goslim_synapse is_a: GO:0050877 ! nervous system process intersection_of: GO:0050877 ! nervous system process intersection_of: occurs_in GO:0098793 ! presynapse intersection_of: part_of GO:0007268 ! chemical synaptic transmission relationship: occurs_in GO:0098793 ! presynapse relationship: part_of GO:0007268 ! chemical synaptic transmission [Term] id: GO:0099536 name: synaptic signaling namespace: biological_process def: "Cell-cell signaling to, from or within a synapse." [GOC:dos] subset: goslim_drosophila subset: goslim_synapse is_a: GO:0007267 ! cell-cell signaling intersection_of: GO:0007267 ! cell-cell signaling intersection_of: occurs_in GO:0045202 ! synapse relationship: occurs_in GO:0045202 ! synapse property_value: RO:0002161 NCBITaxon:4895 [Term] id: GO:0099537 name: trans-synaptic signaling namespace: biological_process def: "Cell-cell signaling in either direction across the synaptic cleft." [GOC:dos] subset: goslim_synapse is_a: GO:0099536 ! synaptic signaling [Term] id: GO:0099538 name: synaptic signaling via neuropeptide namespace: biological_process def: "Cell-cell signaling to or from a synapse, mediated by a peptide." [GOC:dos] subset: goslim_synapse is_a: GO:0099536 ! synaptic signaling intersection_of: GO:0099536 ! synaptic signaling intersection_of: process_has_causal_agent CHEBI:16670 ! peptide relationship: process_has_causal_agent CHEBI:16670 ! peptide [Term] id: GO:0099540 name: trans-synaptic signaling by neuropeptide namespace: biological_process def: "Cell-cell signaling between presynapse and postsynapse mediated by a peptide ligand crossing the synaptic cleft." [GOC:dos] subset: goslim_synapse is_a: GO:0099537 ! trans-synaptic signaling is_a: GO:0099538 ! synaptic signaling via neuropeptide intersection_of: GO:0099537 ! trans-synaptic signaling intersection_of: process_has_causal_agent CHEBI:16670 ! peptide [Term] id: GO:0099541 name: trans-synaptic signaling by lipid namespace: biological_process def: "Cell-cell signaling from post to pre-synapse, across the synaptic cleft, mediated by a lipid." [GOC:dos] subset: goslim_synapse is_a: GO:0099537 ! trans-synaptic signaling intersection_of: GO:0099537 ! trans-synaptic signaling intersection_of: process_has_causal_agent CHEBI:18059 ! lipid relationship: process_has_causal_agent CHEBI:18059 ! lipid [Term] id: GO:0099547 name: regulation of translation at synapse, modulating synaptic transmission namespace: biological_process def: "Any process that modulates synaptic transmission by regulating translation occurring at the synapse." [GOC:dos] comment: Note that this term was created for the SynGO project, and will be obsoleted when the SynGO annotations are made in Noctua. subset: goslim_synapse is_a: GO:0050804 ! modulation of chemical synaptic transmission is_a: GO:0140243 ! regulation of translation at synapse intersection_of: GO:0065007 ! biological regulation intersection_of: occurs_in GO:0045202 ! synapse intersection_of: regulates GO:0006412 ! translation intersection_of: regulates GO:0007268 ! chemical synaptic transmission relationship: in_taxon NCBITaxon:33208 ! Metazoa [Term] id: GO:0099550 name: trans-synaptic signaling, modulating synaptic transmission namespace: biological_process def: "Cell-cell signaling between presynapse and postsynapse, across the synaptic cleft, that modulates the synaptic transmission properties of the synapse." [GOC:dos] comment: Note that this term was created for the SynGO project, and will be obsoleted when the SynGO annotations are made in Noctua. subset: goslim_synapse is_a: GO:0099537 ! trans-synaptic signaling intersection_of: GO:0099537 ! trans-synaptic signaling intersection_of: regulates GO:0007268 ! chemical synaptic transmission relationship: regulates GO:0007268 ! chemical synaptic transmission [Term] id: GO:0099551 name: trans-synaptic signaling by neuropeptide, modulating synaptic transmission namespace: biological_process def: "Cell-cell signaling between presynapse and postsynapse, via the vesicular release and reception of neuropeptide molecules, that modulates the synaptic transmission properties of the synapse." [GOC:dos] comment: Note that this term was created for the SynGO project, and will be obsoleted when the SynGO annotations are made in Noctua. subset: goslim_synapse is_a: GO:0099540 ! trans-synaptic signaling by neuropeptide is_a: GO:0099550 ! trans-synaptic signaling, modulating synaptic transmission intersection_of: GO:0099537 ! trans-synaptic signaling intersection_of: process_has_causal_agent CHEBI:16670 ! peptide intersection_of: regulates GO:0007268 ! chemical synaptic transmission [Term] id: GO:0099552 name: trans-synaptic signaling by lipid, modulating synaptic transmission namespace: biological_process def: "Cell-cell signaling between presynapse and postsynapse, via the release and reception of lipid molecules, that modulates the synaptic transmission properties of the synapse." [GOC:dos, PMID:21531987] comment: Note that this term was created for the SynGO project, and will be obsoleted when the SynGO annotations are made in Noctua. subset: goslim_synapse is_a: GO:0099541 ! trans-synaptic signaling by lipid is_a: GO:0099550 ! trans-synaptic signaling, modulating synaptic transmission intersection_of: GO:0099537 ! trans-synaptic signaling intersection_of: process_has_causal_agent CHEBI:18059 ! lipid intersection_of: regulates GO:0007268 ! chemical synaptic transmission [Term] id: GO:0099568 name: cytoplasmic region namespace: cellular_component def: "Any (proper) part of the cytoplasm of a single cell of sufficient size to still be considered cytoplasm." [GOC:dos] subset: gocheck_do_not_annotate is_a: GO:0005737 ! cytoplasm intersection_of: GO:0005737 ! cytoplasm intersection_of: part_of GO:0005737 ! cytoplasm relationship: part_of GO:0005737 ! cytoplasm [Term] id: GO:0099569 name: presynaptic cytoskeleton namespace: cellular_component def: "The portion of the cytoskeleton contained within the presynapse." [GOC:dos] subset: goslim_synapse is_a: CARO:0000000 ! anatomical entity is_a: GO:0005856 ! cytoskeleton intersection_of: GO:0005856 ! cytoskeleton intersection_of: part_of GO:0098793 ! presynapse relationship: part_of GO:0098793 ! presynapse [Term] id: GO:0099571 name: postsynaptic cytoskeleton namespace: cellular_component def: "The portion of the cytoskeleton contained within the postsynapse." [GOC:dos, PMID:19889835] subset: goslim_synapse is_a: GO:0005856 ! cytoskeleton intersection_of: GO:0005856 ! cytoskeleton intersection_of: part_of GO:0098794 ! postsynapse relationship: part_of GO:0098794 ! postsynapse [Term] id: GO:0099577 name: regulation of translation at presynapse, modulating synaptic transmission namespace: biological_process def: "Any process that modulates synaptic transmission by regulating translation occurring at the presynapse." [GOC:dos] comment: Note that this term was created for the SynGO project, and will be obsoleted when the SynGO annotations are made in Noctua. subset: goslim_synapse is_a: GO:0099171 ! presynaptic modulation of chemical synaptic transmission is_a: GO:0099547 ! regulation of translation at synapse, modulating synaptic transmission is_a: GO:0140244 ! regulation of translation at presynapse intersection_of: GO:0065007 ! biological regulation intersection_of: occurs_in GO:0098793 ! presynapse intersection_of: regulates GO:0006412 ! translation intersection_of: regulates GO:0007268 ! chemical synaptic transmission [Term] id: GO:0099578 name: regulation of translation at postsynapse, modulating synaptic transmission namespace: biological_process def: "Any process that modulates synaptic transmission by regulating translation occurring at the postsynapse." [GOC:dos] comment: Note that this term was created for the SynGO project, and will be obsoleted when the SynGO annotations are made in Noctua. subset: goslim_synapse is_a: GO:0099170 ! postsynaptic modulation of chemical synaptic transmission is_a: GO:0099547 ! regulation of translation at synapse, modulating synaptic transmission is_a: GO:0140245 ! regulation of translation at postsynapse intersection_of: GO:0065007 ! biological regulation intersection_of: occurs_in GO:0098794 ! postsynapse intersection_of: regulates GO:0006412 ! translation intersection_of: regulates GO:0007268 ! chemical synaptic transmission [Term] id: GO:0099632 name: protein transport within plasma membrane namespace: biological_process def: "A process in which protein is transported from one region of the plasma membrane to another." [GOC:dos] is_a: GO:0032594 ! protein transport within lipid bilayer intersection_of: GO:0006810 ! transport intersection_of: occurs_in GO:0005886 ! plasma membrane intersection_of: transports_or_maintains_localization_of PR:000000001 ! protein relationship: occurs_in GO:0005886 ! plasma membrane [Term] id: GO:0099640 name: axo-dendritic protein transport namespace: biological_process def: "The directed movement of proteins along microtubules in neuron projections." [ISBN:0815316194] subset: goslim_synapse synonym: "axonal protein transport" NARROW [] is_a: GO:0008088 ! axo-dendritic transport is_a: GO:0098840 ! protein transport along microtubule intersection_of: GO:0046907 ! intracellular transport intersection_of: occurs_in GO:0043005 ! neuron projection intersection_of: results_in_transport_along GO:0005874 ! microtubule intersection_of: transports_or_maintains_localization_of PR:000000001 ! protein [Term] id: GO:0099643 name: signal release from synapse namespace: biological_process def: "Any signal release from a synapse." [GOC:dos] subset: goslim_synapse is_a: GO:0023061 ! signal release intersection_of: GO:0023061 ! signal release intersection_of: occurs_in GO:0045202 ! synapse relationship: in_taxon NCBITaxon:33208 ! Metazoa relationship: occurs_in GO:0045202 ! synapse relationship: only_in_taxon NCBITaxon:33208 ! Metazoa relationship: part_of GO:0099536 ! synaptic signaling [Term] id: GO:0099738 name: cell cortex region namespace: cellular_component def: "The complete extent of cell cortex that underlies some some region of the plasma membrane." [GOC:dos] subset: gocheck_do_not_annotate synonym: "perimembrane region" EXACT [] is_a: GO:0005938 ! cell cortex is_a: GO:0099568 ! cytoplasmic region intersection_of: GO:0005938 ! cell cortex intersection_of: part_of GO:0005938 ! cell cortex relationship: part_of GO:0005938 ! cell cortex [Term] id: GO:0100001 name: regulation of skeletal muscle contraction by action potential namespace: biological_process def: "Any action potential process that regulates skeletal muscle contraction." [GOC:cjm, GOC:obol] is_a: GO:0001508 ! action potential is_a: GO:0014819 ! regulation of skeletal muscle contraction intersection_of: GO:0001508 ! action potential intersection_of: regulates GO:0003009 ! skeletal muscle contraction created_by: cjm creation_date: 2015-04-02T04:13:19Z [Term] id: GO:0101023 name: vascular endothelial cell proliferation namespace: biological_process def: "The multiplication or reproduction of blood vessel endothelial cells, resulting in the expansion of a cell population." [GOC:BHF, GOC:BHF_telomere, GOC:nc, PMID:23201774] is_a: GO:0001935 ! endothelial cell proliferation intersection_of: GO:0008283 ! cell population proliferation intersection_of: acts_on_population_of CL:0000071 ! blood vessel endothelial cell relationship: acts_on_population_of CL:0000071 ! blood vessel endothelial cell [Term] id: GO:0101024 name: mitotic nuclear membrane organization namespace: biological_process def: "A mitotic cell cycle process which results in the assembly, arrangement, or disassembly of the nuclear inner or outer membrane during mitosis." [GOC:vw, PMID:15147872] comment: This process only occurs in organisms which undergo 'closed mitosis' without nuclear breakdown. synonym: "nuclear membrane organization involved in mitotic nuclear division" EXACT [] is_a: GO:0071763 ! nuclear membrane organization is_a: GO:1903047 ! mitotic cell cycle process intersection_of: GO:0071763 ! nuclear membrane organization intersection_of: part_of GO:0140014 ! mitotic nuclear division relationship: in_taxon NCBITaxon:2759 ! Eukaryota relationship: only_in_taxon NCBITaxon:2759 ! Eukaryota relationship: part_of GO:0140014 ! mitotic nuclear division property_value: IAO:0000233 https://github.com/geneontology/go-ontology/issues/19949 xsd:anyURI [Term] id: GO:0101025 name: nuclear membrane biogenesis namespace: biological_process def: "The process in which a nuclear membrane is synthesized, aggregates, and bonds together." [GOC:vw] is_a: GO:0044091 ! membrane biogenesis intersection_of: GO:0044085 ! cellular component biogenesis intersection_of: has_output GO:0031965 ! nuclear membrane relationship: has_output GO:0031965 ! nuclear membrane relationship: part_of GO:0071763 ! nuclear membrane organization [Term] id: GO:0106027 name: neuron projection organization namespace: biological_process def: "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of a prolongation or process extending from a neuron, e.g. an axon, or a dendrite." [GOC:aruk, GOC:bc, PMID:11585923] is_a: GO:0120036 ! plasma membrane bounded cell projection organization intersection_of: GO:0016043 ! cellular component organization intersection_of: results_in_organization_of GO:0043005 ! neuron projection relationship: results_in_organization_of GO:0043005 ! neuron projection created_by: hjd creation_date: 2017-06-23T18:30:18Z [Term] id: GO:0106214 name: regulation of vesicle fusion with Golgi apparatus namespace: biological_process def: "Any process that modulates the frequency, rate or extent of vesicle fusion with Golgi apparatus." [GOC:se, PMID:26195667] is_a: GO:0031338 ! regulation of vesicle fusion is_a: GO:1903358 ! regulation of Golgi organization intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0048280 ! vesicle fusion with Golgi apparatus relationship: regulates GO:0048280 ! vesicle fusion with Golgi apparatus created_by: hjd creation_date: 2019-06-27T15:12:22Z [Term] id: GO:0106215 name: negative regulation of vesicle fusion with Golgi apparatus namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of vesicle fustion with Golgi apparatus." [GOC:se, PMID:26195667] is_a: GO:0031339 ! negative regulation of vesicle fusion is_a: GO:0106214 ! regulation of vesicle fusion with Golgi apparatus intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0048280 ! vesicle fusion with Golgi apparatus relationship: negatively_regulates GO:0048280 ! vesicle fusion with Golgi apparatus created_by: hjd creation_date: 2019-06-27T15:17:17Z [Term] id: GO:0106216 name: positive regulation of vesicle fusion with Golgi apparatus namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of vesicle fusion with Golgi apparatus." [GOC:se, PMID:26195667] is_a: GO:0031340 ! positive regulation of vesicle fusion is_a: GO:0106214 ! regulation of vesicle fusion with Golgi apparatus intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0048280 ! vesicle fusion with Golgi apparatus relationship: positively_regulates GO:0048280 ! vesicle fusion with Golgi apparatus created_by: hjd creation_date: 2019-06-27T15:20:59Z [Term] id: GO:0110011 name: regulation of basement membrane organization namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the assembly, disassembly or arrangement of constituent parts of the basement membrane." [GOC:ha, PMID:27404358] is_a: GO:1903053 ! regulation of extracellular matrix organization intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0071711 ! basement membrane organization relationship: regulates GO:0071711 ! basement membrane organization created_by: kmv [Term] id: GO:0110020 name: regulation of actomyosin structure organization namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the assembly, arrangement of constituent parts, or disassembly of cytoskeletal structures containing both actin and myosin or paramyosin." [GOC:lf, PMID:22790195] is_a: GO:0032956 ! regulation of actin cytoskeleton organization intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0031032 ! actomyosin structure organization relationship: regulates GO:0031032 ! actomyosin structure organization created_by: kmv creation_date: 2017-06-20T19:28:58Z [Term] id: GO:0110021 name: cardiac muscle myoblast proliferation namespace: biological_process def: "The multiplication or reproduction of cardiac muscle myoblasts, resulting in the expansion of a cardiac muscle myoblast cell population. A cardiac myoblast is a precursor cell that has been committed to a cardiac muscle cell fate but retains the ability to divide and proliferate throughout life." [GOC:BHF, GOC:BHF_miRNA, GOC:rph, PMID:26512644] is_a: GO:0051450 ! myoblast proliferation intersection_of: GO:0008283 ! cell population proliferation intersection_of: acts_on_population_of CL:0000513 ! cardiac muscle myoblast relationship: acts_on_population_of CL:0000513 ! cardiac muscle myoblast created_by: kmv creation_date: 2017-06-29T14:35:24Z [Term] id: GO:0110022 name: regulation of cardiac muscle myoblast proliferation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of cardiac muscle myoblast proliferation." [GOC:BHF, GOC:BHF_miRNA, GOC:rph, PMID:26512644] is_a: GO:2000291 ! regulation of myoblast proliferation intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0110021 ! cardiac muscle myoblast proliferation relationship: regulates GO:0110021 ! cardiac muscle myoblast proliferation created_by: kmv creation_date: 2017-06-29T15:11:47Z [Term] id: GO:0110023 name: negative regulation of cardiac muscle myoblast proliferation namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of cardiac muscle myoblast proliferation." [GOC:BHF, GOC:BHF_miRNA, GOC:rph, PMID:26512644] is_a: GO:0110022 ! regulation of cardiac muscle myoblast proliferation is_a: GO:2000818 ! negative regulation of myoblast proliferation intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0110021 ! cardiac muscle myoblast proliferation relationship: negatively_regulates GO:0110021 ! cardiac muscle myoblast proliferation created_by: kmv creation_date: 2017-06-29T15:18:30Z [Term] id: GO:0110024 name: positive regulation of cardiac muscle myoblast proliferation namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of cardiac muscle myoblast proliferation." [GOC:BHF, GOC:BHF_miRNA, GOC:rph, PMID:26512644] is_a: GO:0110022 ! regulation of cardiac muscle myoblast proliferation is_a: GO:2000288 ! positive regulation of myoblast proliferation intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0110021 ! cardiac muscle myoblast proliferation relationship: positively_regulates GO:0110021 ! cardiac muscle myoblast proliferation created_by: kmv creation_date: 2017-06-29T15:24:16Z [Term] id: GO:0110040 name: pharynx morphogenesis namespace: biological_process def: "The process in which the anatomical structures of the pharynx are generated and organized." [GOC:rz, PMID:20805556] is_a: GO:0009653 ! anatomical structure morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0006562 ! pharynx relationship: results_in_morphogenesis_of UBERON:0006562 ! pharynx created_by: kmv creation_date: 2017-07-24T20:51:28Z [Term] id: GO:0110041 name: regulation of pharynx morphogenesis namespace: biological_process def: "Any process that modulates the frequency, rate or extent of pharynx morphogenesis, the process in which the anatomical structure of the pharynx is generated and organized." [GOC:rz, PMID:20805556] is_a: GO:0022603 ! regulation of anatomical structure morphogenesis intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0110040 ! pharynx morphogenesis relationship: regulates GO:0110040 ! pharynx morphogenesis created_by: kmv creation_date: 2017-07-24T21:00:20Z [Term] id: GO:0110042 name: negative regulation of pharynx morphogenesis namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of pharynx morphogenesis." [GOC:rz, PMID:20805556] is_a: GO:0051093 ! negative regulation of developmental process is_a: GO:0110041 ! regulation of pharynx morphogenesis intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0110040 ! pharynx morphogenesis relationship: negatively_regulates GO:0110040 ! pharynx morphogenesis created_by: kmv creation_date: 2017-07-24T21:05:08Z [Term] id: GO:0110043 name: positive regulation of pharynx morphogenesis namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of pharynx morphogenesis." [GOC:rz, PMID:20805556] is_a: GO:0051094 ! positive regulation of developmental process is_a: GO:0110041 ! regulation of pharynx morphogenesis intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0110040 ! pharynx morphogenesis relationship: positively_regulates GO:0110040 ! pharynx morphogenesis created_by: kmv creation_date: 2017-07-24T21:09:48Z [Term] id: GO:0110057 name: regulation of blood vessel endothelial cell differentiation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of blood vessel endothelial cell differentiation." [GOC:BHF, GOC:BHF_miRNA, GOC:rph, PMID:23072816] is_a: GO:0045601 ! regulation of endothelial cell differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0060837 ! blood vessel endothelial cell differentiation relationship: regulates GO:0060837 ! blood vessel endothelial cell differentiation created_by: kmv creation_date: 2017-10-23T14:32:09Z [Term] id: GO:0110058 name: positive regulation of blood vessel endothelial cell differentiation namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of blood vessel endothelial cell differentiation." [GOC:BHF, GOC:BHF_miRNA, GOC:rph, PMID:23072816] is_a: GO:0045603 ! positive regulation of endothelial cell differentiation is_a: GO:0110057 ! regulation of blood vessel endothelial cell differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0060837 ! blood vessel endothelial cell differentiation relationship: positively_regulates GO:0060837 ! blood vessel endothelial cell differentiation created_by: kmv creation_date: 2017-10-23T14:38:19Z [Term] id: GO:0110059 name: negative regulation of blood vessel endothelial cell differentiation namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of blood vessel endothelial cell differentiation." [GOC:BHF, GOC:BHF_miRNA, GOC:rph, PMID:23072816] is_a: GO:0045602 ! negative regulation of endothelial cell differentiation is_a: GO:0110057 ! regulation of blood vessel endothelial cell differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0060837 ! blood vessel endothelial cell differentiation relationship: negatively_regulates GO:0060837 ! blood vessel endothelial cell differentiation created_by: kmv creation_date: 2017-10-23T14:47:29Z [Term] id: GO:0110110 name: positive regulation of animal organ morphogenesis namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of animal organ morphogenesis." [GOC:kmv] is_a: GO:0051094 ! positive regulation of developmental process is_a: GO:0051240 ! positive regulation of multicellular organismal process is_a: GO:2000027 ! regulation of animal organ morphogenesis intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0009887 ! animal organ morphogenesis relationship: positively_regulates GO:0009887 ! animal organ morphogenesis created_by: kmv creation_date: 2018-07-05T14:10:14Z [Term] id: GO:0110111 name: negative regulation of animal organ morphogenesis namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of animal organ morphogenesis." [GOC:kmv] is_a: GO:0051093 ! negative regulation of developmental process is_a: GO:0051241 ! negative regulation of multicellular organismal process is_a: GO:2000027 ! regulation of animal organ morphogenesis intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0009887 ! animal organ morphogenesis relationship: negatively_regulates GO:0009887 ! animal organ morphogenesis created_by: kmv creation_date: 2018-07-05T14:25:21Z [Term] id: GO:0110116 name: regulation of compound eye photoreceptor cell differentiation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of compound eye photoreceptor cell differentiation." [GOC:ha, PMID:16377567] is_a: GO:0046532 ! regulation of photoreceptor cell differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0001751 ! compound eye photoreceptor cell differentiation relationship: regulates GO:0001751 ! compound eye photoreceptor cell differentiation created_by: kmv creation_date: 2018-07-16T18:08:49Z [Term] id: GO:0110117 name: positive regulation of compound eye photoreceptor cell differentiation namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of compound eye photoreceptor cell differentiation." [GOC:ha, PMID:16377567] is_a: GO:0046534 ! positive regulation of photoreceptor cell differentiation is_a: GO:0110116 ! regulation of compound eye photoreceptor cell differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0001751 ! compound eye photoreceptor cell differentiation relationship: positively_regulates GO:0001751 ! compound eye photoreceptor cell differentiation created_by: kmv creation_date: 2018-07-16T18:13:28Z [Term] id: GO:0110118 name: negative regulation of compound eye photoreceptor cell differentiation namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of compound eye photoreceptor cell differentiation." [GOC:ha, PMID:16377567] is_a: GO:0046533 ! negative regulation of photoreceptor cell differentiation is_a: GO:0110116 ! regulation of compound eye photoreceptor cell differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0001751 ! compound eye photoreceptor cell differentiation relationship: negatively_regulates GO:0001751 ! compound eye photoreceptor cell differentiation created_by: kmv creation_date: 2018-07-16T18:15:52Z [Term] id: GO:0110165 name: cellular anatomical entity namespace: cellular_component def: "A part of a cellular organism that is either an immaterial entity or a material entity with granularity above the level of a protein complex but below that of an anatomical system. Or, a substance produced by a cellular organism with granularity above the level of a protein complex." [GOC:kmv] is_a: GO:0005575 ! cellular_component created_by: kmv creation_date: 2019-08-12T18:01:37Z [Term] id: GO:0120023 name: somatostatin binding namespace: molecular_function def: "Binding to somatostatin, a polypeptide hormone involved in regulating pancreatic alpha and pancreatic beta cells and controlling growth hormone secretion as well as many other functions. Somatostatin is produced by several cell types including pancreatic delta cells. There are several different mature forms of somatostatin." [GOC:cvs, PMID:20472043] is_a: GO:0017046 ! peptide hormone binding intersection_of: GO:0005488 ! binding intersection_of: has_input CHEBI:64628 ! somatostatin relationship: has_input CHEBI:64628 ! somatostatin property_value: IAO:0000233 https://github.com/geneontology/go-ontology/issues/13143 xsd:anyURI created_by: krc creation_date: 2017-03-17T14:54:21Z [Term] id: GO:0120025 name: plasma membrane bounded cell projection namespace: cellular_component def: "A prolongation or process extending from a cell and that is bounded by plasma membrane, e.g. a cilium, lamellipodium, or axon." [GOC:krc] is_a: GO:0042995 ! cell projection intersection_of: GO:0042995 ! cell projection intersection_of: has_part GO:0098590 ! plasma membrane region relationship: has_part GO:0098590 ! plasma membrane region property_value: IAO:0000233 https://github.com/geneontology/go-ontology/issues/13193 xsd:anyURI created_by: krc creation_date: 2017-03-21T17:26:07Z [Term] id: GO:0120031 name: plasma membrane bounded cell projection assembly namespace: biological_process def: "Formation of a prolongation or process extending and that is bounded by plasma membrane, e.g. a cilium, lamellipodium, or axon." [GOC:krc] synonym: "eupodium" NARROW [GOC:krc, GOC:rjd, PMID:10328951, PMID:9096956] is_a: GO:0030031 ! cell projection assembly is_a: GO:0120036 ! plasma membrane bounded cell projection organization intersection_of: GO:0022607 ! cellular component assembly intersection_of: results_in_assembly_of GO:0120025 ! plasma membrane bounded cell projection relationship: results_in_assembly_of GO:0120025 ! plasma membrane bounded cell projection property_value: IAO:0000233 https://github.com/geneontology/go-ontology/issues/13298 xsd:anyURI created_by: krc creation_date: 2017-04-24T23:56:08Z [Term] id: GO:0120032 name: regulation of plasma membrane bounded cell projection assembly namespace: biological_process def: "Any process that modulates the rate, frequency, or extent of plasma membrane bounded cell projection assembly." [GOC:krc] is_a: GO:0060491 ! regulation of cell projection assembly is_a: GO:0120035 ! regulation of plasma membrane bounded cell projection organization intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0120031 ! plasma membrane bounded cell projection assembly relationship: regulates GO:0120031 ! plasma membrane bounded cell projection assembly property_value: IAO:0000233 https://github.com/geneontology/go-ontology/issues/13298 xsd:anyURI created_by: krc creation_date: 2017-04-26T04:27:04Z [Term] id: GO:0120033 name: negative regulation of plasma membrane bounded cell projection assembly namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of plasma membrane bounded cell projection assembly." [GOC:krc] is_a: GO:0031345 ! negative regulation of cell projection organization is_a: GO:0120032 ! regulation of plasma membrane bounded cell projection assembly intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0120031 ! plasma membrane bounded cell projection assembly relationship: negatively_regulates GO:0120031 ! plasma membrane bounded cell projection assembly property_value: IAO:0000233 https://github.com/geneontology/go-ontology/issues/13298 xsd:anyURI created_by: krc creation_date: 2017-04-26T04:34:31Z [Term] id: GO:0120034 name: positive regulation of plasma membrane bounded cell projection assembly namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of plasma membrane bounded cell projection assembly." [GOC:krc] is_a: GO:0031346 ! positive regulation of cell projection organization is_a: GO:0044089 ! positive regulation of cellular component biogenesis is_a: GO:0120032 ! regulation of plasma membrane bounded cell projection assembly intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0120031 ! plasma membrane bounded cell projection assembly relationship: positively_regulates GO:0120031 ! plasma membrane bounded cell projection assembly property_value: IAO:0000233 https://github.com/geneontology/go-ontology/issues/13298 xsd:anyURI created_by: krc creation_date: 2017-04-26T04:34:45Z [Term] id: GO:0120035 name: regulation of plasma membrane bounded cell projection organization namespace: biological_process def: "Any process that modulates the frequency, rate or extent of a process involved in the formation, arrangement of constituent parts, or disassembly of plasma membrane bounded cell projections." [GOC:krc] is_a: GO:0031344 ! regulation of cell projection organization intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0120036 ! plasma membrane bounded cell projection organization relationship: regulates GO:0120036 ! plasma membrane bounded cell projection organization property_value: IAO:0000233 https://github.com/geneontology/go-ontology/issues/13298 xsd:anyURI created_by: krc creation_date: 2017-04-26T16:02:06Z [Term] id: GO:0120036 name: plasma membrane bounded cell projection organization namespace: biological_process def: "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of a plasma membrane bounded prolongation or process extending from a cell, e.g. a cilium or axon." [GOC:krc] is_a: GO:0030030 ! cell projection organization intersection_of: GO:0016043 ! cellular component organization intersection_of: results_in_organization_of GO:0120025 ! plasma membrane bounded cell projection relationship: results_in_organization_of GO:0120025 ! plasma membrane bounded cell projection property_value: IAO:0000233 https://github.com/geneontology/go-ontology/issues/13298 xsd:anyURI created_by: krc creation_date: 2017-04-26T16:07:02Z [Term] id: GO:0120039 name: plasma membrane bounded cell projection morphogenesis namespace: biological_process def: "The process in which the anatomical structures of a plasma membrane bounded cell projection are generated and organized." [GOC:krc] is_a: GO:0048858 ! cell projection morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of GO:0120025 ! plasma membrane bounded cell projection relationship: results_in_morphogenesis_of GO:0120025 ! plasma membrane bounded cell projection property_value: IAO:0000233 https://github.com/geneontology/go-ontology/issues/13298 xsd:anyURI created_by: krc creation_date: 2017-04-28T23:39:37Z [Term] id: GO:0120111 name: neuron projection cytoplasm namespace: cellular_component def: "All of the contents of a plasma membrane bounded neuron projection, excluding the plasma membrane surrounding the projection." [GOC:ha] is_a: CARO:0000000 ! anatomical entity is_a: GO:0032838 ! plasma membrane bounded cell projection cytoplasm intersection_of: GO:0005737 ! cytoplasm intersection_of: part_of GO:0043005 ! neuron projection relationship: part_of GO:0043005 ! neuron projection created_by: krc creation_date: 2017-11-01T18:58:12Z [Term] id: GO:0120186 name: negative regulation of protein localization to chromatin namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of protein localization to chromatin." [PMID:20889714, PMID:29899453] synonym: "negative regulation of protein localisation to chromatin" EXACT [GOC:krc] is_a: GO:0048523 ! negative regulation of cellular process is_a: GO:1903828 ! negative regulation of protein localization is_a: GO:1905634 ! regulation of protein localization to chromatin intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0071168 ! protein localization to chromatin relationship: negatively_regulates GO:0071168 ! protein localization to chromatin created_by: krc creation_date: 2018-07-14T00:19:32Z [Term] id: GO:0120187 name: positive regulation of protein localization to chromatin namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of protein localization to chromatin." [PMID:20889714, PMID:29899453] synonym: "positive regulation of protein localisation to chromatin" EXACT [GOC:krc] is_a: GO:0048522 ! positive regulation of cellular process is_a: GO:1903829 ! positive regulation of protein localization is_a: GO:1905634 ! regulation of protein localization to chromatin intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0071168 ! protein localization to chromatin relationship: positively_regulates GO:0071168 ! protein localization to chromatin created_by: krc creation_date: 2018-07-14T00:21:28Z [Term] id: GO:0120261 name: regulation of heterochromatin organization namespace: biological_process def: "Any process that modulates the frequency, rate, extent or location of heterochromatin organization." [GOC:krc] is_a: GO:1902275 ! regulation of chromatin organization intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0070828 ! heterochromatin organization relationship: regulates GO:0070828 ! heterochromatin organization property_value: IAO:0000233 https://github.com/geneontology/go-ontology/issues/20020 xsd:anyURI created_by: krc creation_date: 2020-09-29T20:00:04Z [Term] id: GO:0120262 name: negative regulation of heterochromatin organization namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of heterochromatin organization." [GOC:krc] synonym: "down regulation of heterochromatin organization" EXACT [] synonym: "down-regulation of heterochromatin organization" EXACT [] synonym: "downregulation of heterochromatin organization" EXACT [] synonym: "inhibition of heterochromatin organization" NARROW [] is_a: GO:0120261 ! regulation of heterochromatin organization is_a: GO:1905268 ! negative regulation of chromatin organization intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0070828 ! heterochromatin organization relationship: negatively_regulates GO:0070828 ! heterochromatin organization property_value: IAO:0000233 https://github.com/geneontology/go-ontology/issues/20020 xsd:anyURI created_by: krc creation_date: 2020-09-29T20:12:30Z [Term] id: GO:0120263 name: positive regulation of heterochromatin organization namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of heterochromatin organization." [GOC:krc] synonym: "activation of heterochromatin organization" NARROW [] synonym: "stimulation of heterochromatin organization" NARROW [] synonym: "up regulation of heterochromatin organization" EXACT [] synonym: "up-regulation of heterochromatin organization" EXACT [] synonym: "upregulation of heterochromatin organization" EXACT [] is_a: GO:0120261 ! regulation of heterochromatin organization is_a: GO:1905269 ! positive regulation of chromatin organization intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0070828 ! heterochromatin organization relationship: positively_regulates GO:0070828 ! heterochromatin organization property_value: IAO:0000233 https://github.com/geneontology/go-ontology/issues/20020 xsd:anyURI created_by: krc creation_date: 2020-09-29T20:19:19Z [Term] id: GO:0120305 name: regulation of pigmentation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the deposition or modulates the distribution of coloring matter in an organism." [GOC:krc] is_a: GO:0050789 ! regulation of biological process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0043473 ! pigmentation relationship: regulates GO:0043473 ! pigmentation property_value: IAO:0000233 https://github.com/geneontology/go-ontology/issues/20524 xsd:anyURI created_by: krc creation_date: 2021-02-09T19:37:35Z [Term] id: GO:0140014 name: mitotic nuclear division namespace: biological_process def: "A mitotic cell cycle process comprising the steps by which the nucleus of a eukaryotic cell divides; the process involves condensation of chromosomal DNA into a highly compacted form. Canonically, mitosis produces two daughter nuclei whose chromosome complement is identical to that of the mother cell." [ISBN:0198547684] subset: goslim_chembl subset: goslim_generic synonym: "mitosis" EXACT [] is_a: GO:0000280 ! nuclear division is_a: GO:1903047 ! mitotic cell cycle process intersection_of: GO:0000280 ! nuclear division intersection_of: part_of GO:0000278 ! mitotic cell cycle property_value: IAO:0000233 https://github.com/geneontology/go-ontology/issues/19910 xsd:anyURI created_by: pg creation_date: 2017-03-23T14:44:23Z [Term] id: GO:0140029 name: exocytic process namespace: biological_process def: "The cellular processes that contribute to exocytosis." [Wikipedia:Exocytosis] subset: gocheck_do_not_annotate is_a: GO:0009987 ! cellular process intersection_of: GO:0009987 ! cellular process intersection_of: part_of GO:0006887 ! exocytosis relationship: part_of GO:0006887 ! exocytosis created_by: pg creation_date: 2017-05-15T13:20:45Z [Term] id: GO:0140056 name: organelle localization by membrane tethering namespace: biological_process def: "The process by which an organelle membrane interacts with another membrane via molecular tethers that physically bridge the two membranes and attach them to each other." [PMID:27875684] subset: goslim_pombe is_a: GO:0022406 ! membrane docking is_a: GO:0051640 ! organelle localization created_by: pg creation_date: 2017-06-27T09:58:51Z [Term] id: GO:0140096 name: catalytic activity, acting on a protein namespace: molecular_function def: "Catalytic activity that acts to modify a protein." [GOC:molecular_function_refactoring, GOC:pdt] subset: goslim_generic is_a: GO:0003824 ! catalytic activity intersection_of: GO:0003824 ! catalytic activity intersection_of: has_input PR:000000001 ! protein relationship: has_input PR:000000001 ! protein property_value: IAO:0000233 https://github.com/geneontology/go-ontology/issues/14225 xsd:anyURI created_by: pg creation_date: 2017-09-14T10:32:59Z [Term] id: GO:0140097 name: catalytic activity, acting on DNA namespace: molecular_function def: "Catalytic activity that acts to modify DNA." [GOC:molecular_function_refactoring, GOC:pdt] subset: goslim_generic is_a: GO:0140640 ! catalytic activity, acting on a nucleic acid intersection_of: GO:0003824 ! catalytic activity intersection_of: has_input CHEBI:16991 ! deoxyribonucleic acid relationship: has_input CHEBI:16991 ! deoxyribonucleic acid property_value: IAO:0000233 https://github.com/geneontology/go-ontology/issues/14225 xsd:anyURI created_by: pg creation_date: 2017-09-14T12:03:51Z [Term] id: GO:0140098 name: catalytic activity, acting on RNA namespace: molecular_function def: "Catalytic activity that acts to modify RNA, driven by ATP hydrolysis." [GOC:molecular_function_refactoring, GOC:pdt] subset: goslim_generic is_a: GO:0140640 ! catalytic activity, acting on a nucleic acid intersection_of: GO:0003824 ! catalytic activity intersection_of: has_input CHEBI:33697 ! ribonucleic acid relationship: has_input CHEBI:33697 ! ribonucleic acid property_value: IAO:0000233 https://github.com/geneontology/go-ontology/issues/14225 xsd:anyURI property_value: IAO:0000233 https://github.com/geneontology/go-ontology/issues/21612 xsd:anyURI created_by: pg creation_date: 2017-09-14T12:05:21Z [Term] id: GO:0140103 name: catalytic activity, acting on a glycoprotein namespace: molecular_function def: "Catalysis of a biochemical reaction at physiological temperatures in which one of the substrates is a glycoprotein." [GOC:molecular_function_refactoring, GOC:pdt] is_a: GO:0140096 ! catalytic activity, acting on a protein intersection_of: GO:0003824 ! catalytic activity intersection_of: has_input CHEBI:17089 ! glycoprotein relationship: has_input CHEBI:17089 ! glycoprotein property_value: IAO:0000233 https://github.com/geneontology/go-ontology/issues/14225 xsd:anyURI created_by: pg creation_date: 2017-09-15T19:27:54Z [Term] id: GO:0140112 name: extracellular vesicle biogenesis namespace: biological_process def: "The assembly and secretion a set of components to form an extracellular vesicule, a membrane-bounded vesicle that is released into the extracellular region. Extracellular vesicles include exosomes, microvesicles and apoptotic bodies, based on the mechanism by which they are released from cells and differentiated based on their size and content." [PMID:28736435] synonym: "extracellular vesicle assembly" EXACT [] is_a: GO:0044085 ! cellular component biogenesis property_value: IAO:0000233 https://github.com/geneontology/go-ontology/issues/14256 xsd:anyURI created_by: pg creation_date: 2017-10-23T11:53:42Z [Term] id: GO:0140236 name: translation at presynapse namespace: biological_process def: "Translation that occurs at the presynapse." [PMID:27321671] comment: Note that this term was created for the SynGO project, and will be obsoleted when the SynGO annotations are made in Noctua. subset: goslim_synapse is_a: GO:0140241 ! translation at synapse intersection_of: GO:0006412 ! translation intersection_of: occurs_in GO:0098793 ! presynapse relationship: occurs_in GO:0098793 ! presynapse property_value: IAO:0000233 https://github.com/geneontology/synapse/issues/216 xsd:anyURI created_by: pg creation_date: 2018-07-13T13:00:33Z [Term] id: GO:0140237 name: translation at presynapse, modulating chemical synaptic transmission namespace: biological_process def: "Translation that occurs at the presynapse, and that modulates chemical synaptic transmission." [PMID:27321671] comment: Note that this term was created for the SynGO project, and will be obsoleted when the SynGO annotations are made in Noctua. subset: goslim_synapse is_a: GO:0140236 ! translation at presynapse intersection_of: GO:0006412 ! translation intersection_of: occurs_in GO:0098793 ! presynapse intersection_of: regulates GO:0007268 ! chemical synaptic transmission relationship: regulates GO:0007268 ! chemical synaptic transmission property_value: IAO:0000233 https://github.com/geneontology/synapse/issues/216 xsd:anyURI created_by: pg creation_date: 2018-07-13T13:07:23Z [Term] id: GO:0140241 name: translation at synapse namespace: biological_process def: "Translation that occurs at the synapse." [PMID:23083742] comment: Note that this term was created for the SynGO project, and will be obsoleted when the SynGO annotations are made in Noctua. subset: goslim_synapse is_a: GO:0006412 ! translation intersection_of: GO:0006412 ! translation intersection_of: occurs_in GO:0045202 ! synapse relationship: in_taxon NCBITaxon:33208 ! Metazoa relationship: occurs_in GO:0045202 ! synapse relationship: only_in_taxon NCBITaxon:33208 ! Metazoa property_value: IAO:0000233 https://github.com/geneontology/synapse/issues/210 xsd:anyURI created_by: pg creation_date: 2018-07-15T09:23:12Z [Term] id: GO:0140242 name: translation at postsynapse namespace: biological_process def: "Translation that occurs at the postsynapse." [PMID:20427644] comment: Note that this term was created for the SynGO project, and will be obsoleted when the SynGO annotations are made in Noctua. subset: goslim_synapse is_a: GO:0140241 ! translation at synapse intersection_of: GO:0006412 ! translation intersection_of: occurs_in GO:0098794 ! postsynapse relationship: occurs_in GO:0098794 ! postsynapse property_value: IAO:0000233 https://github.com/geneontology/synapse/issues/210 xsd:anyURI created_by: pg creation_date: 2018-07-15T09:26:27Z [Term] id: GO:0140243 name: regulation of translation at synapse namespace: biological_process def: "Any process that regulates translation occurring at the synapse." [PMID:20427644] comment: Note that this term was created for the SynGO project, and will be obsoleted when the SynGO annotations are made in Noctua. subset: goslim_synapse is_a: GO:0006417 ! regulation of translation intersection_of: GO:0065007 ! biological regulation intersection_of: occurs_in GO:0045202 ! synapse intersection_of: regulates GO:0006412 ! translation relationship: in_taxon NCBITaxon:33208 ! Metazoa relationship: occurs_in GO:0045202 ! synapse relationship: only_in_taxon NCBITaxon:33208 ! Metazoa property_value: IAO:0000233 https://github.com/geneontology/synapse/issues/210 xsd:anyURI created_by: pg creation_date: 2018-07-15T09:38:26Z [Term] id: GO:0140244 name: regulation of translation at presynapse namespace: biological_process def: "Any process that regulates translation occurring at the presynapse." [PMID:20427644] comment: Note that this term was created for the SynGO project, and will be obsoleted when the SynGO annotations are made in Noctua. subset: goslim_synapse is_a: GO:0140243 ! regulation of translation at synapse intersection_of: GO:0065007 ! biological regulation intersection_of: occurs_in GO:0098793 ! presynapse intersection_of: regulates GO:0006412 ! translation relationship: occurs_in GO:0098793 ! presynapse property_value: IAO:0000233 https://github.com/geneontology/synapse/issues/210 xsd:anyURI created_by: pg creation_date: 2018-07-15T09:38:33Z [Term] id: GO:0140245 name: regulation of translation at postsynapse namespace: biological_process def: "Any process that regulates translation occurring at the postsynapse." [PMID:20427644] comment: Note that this term was created for the SynGO project, and will be obsoleted when the SynGO annotations are made in Noctua. subset: goslim_synapse is_a: GO:0140243 ! regulation of translation at synapse intersection_of: GO:0065007 ! biological regulation intersection_of: occurs_in GO:0098794 ! postsynapse intersection_of: regulates GO:0006412 ! translation relationship: occurs_in GO:0098794 ! postsynapse property_value: IAO:0000233 https://github.com/geneontology/synapse/issues/210 xsd:anyURI created_by: pg creation_date: 2018-07-15T09:38:54Z [Term] id: GO:0140253 name: cell-cell fusion namespace: biological_process def: "A cellular process in which two or more cells combine together, their plasma membrane fusing, producing a single cell. In some cases, nuclei fuse, producing a polyploid cell, while in other cases, nuclei remain separate, producing a syncytium." [Wikipedia:Cell_fusion] synonym: "cell cell fusion" EXACT [] synonym: "cell fusion" BROAD [] is_a: GO:0009987 ! cellular process relationship: has_part GO:0045026 ! plasma membrane fusion property_value: IAO:0000233 https://github.com/geneontology/go-ontology/issues/15939 xsd:anyURI created_by: pg creation_date: 2018-08-13T18:38:18Z [Term] id: GO:0140352 name: export from cell namespace: biological_process def: "The directed movement of some substance from a cell, into the extracellular region. This may occur via transport across the plasma membrane or via exocytosis." [GOC:pg] synonym: "efflux" BROAD [] is_a: GO:0006810 ! transport is_a: GO:0009987 ! cellular process intersection_of: GO:0006810 ! transport intersection_of: has_target_end_location GO:0005576 ! extracellular region intersection_of: has_target_start_location GO:0005622 ! intracellular anatomical structure relationship: has_target_end_location GO:0005576 ! extracellular region relationship: has_target_start_location GO:0005622 ! intracellular anatomical structure created_by: pg creation_date: 2019-05-22T11:20:45Z [Term] id: GO:0140353 name: lipid export from cell namespace: biological_process def: "The directed movement of a lipid from a cell, into the extracellular region." [GOC:pg] synonym: "lipid efflux" BROAD [] is_a: GO:0006869 ! lipid transport is_a: GO:0140352 ! export from cell intersection_of: GO:0006810 ! transport intersection_of: has_target_end_location GO:0005576 ! extracellular region intersection_of: has_target_start_location GO:0005622 ! intracellular anatomical structure intersection_of: transports_or_maintains_localization_of CHEBI:18059 ! lipid created_by: pg creation_date: 2019-05-22T11:33:07Z [Term] id: GO:0140354 name: lipid import into cell namespace: biological_process def: "The directed movement of a lipid from outside of a cell into a cell. This may occur via transport across the plasma membrane or via endocytosis." [GOC:pg] synonym: "lipid uptake" BROAD [] is_a: GO:0006869 ! lipid transport is_a: GO:0098657 ! import into cell intersection_of: GO:0006810 ! transport intersection_of: has_target_end_location GO:0005622 ! intracellular anatomical structure intersection_of: has_target_start_location GO:0005576 ! extracellular region intersection_of: transports_or_maintains_localization_of CHEBI:18059 ! lipid created_by: pg creation_date: 2019-05-22T11:38:15Z [Term] id: GO:0140513 name: nuclear protein-containing complex namespace: cellular_component def: "A stable assembly of two or more macromolecules, i.e. proteins, nucleic acids, carbohydrates or lipids, in which at least one component is a protein and the constituent parts function together in the nucleus." [GOC:pg] subset: gocheck_do_not_annotate synonym: "nuclear complex" EXACT [] is_a: GO:0032991 ! protein-containing complex intersection_of: GO:0032991 ! protein-containing complex intersection_of: part_of GO:0005634 ! nucleus relationship: part_of GO:0005634 ! nucleus created_by: pg creation_date: 2020-09-09T05:12:38Z [Term] id: GO:0140572 name: vacuole fission namespace: biological_process def: "The division of a vacuole within a cell to form two or more separate vacuoles." [PMID:19643199] is_a: GO:0048285 ! organelle fission intersection_of: GO:0048285 ! organelle fission intersection_of: results_in_fission_of GO:0005773 ! vacuole relationship: results_in_fission_of GO:0005773 ! vacuole property_value: IAO:0000233 https://github.com/geneontology/go-ontology/issues/20639 xsd:anyURI created_by: pg creation_date: 2021-01-04T10:17:58Z [Term] id: GO:0140640 name: catalytic activity, acting on a nucleic acid namespace: molecular_function def: "Catalytic activity that acts to modify a nucleic acid." [GOC:pg] is_a: GO:0003824 ! catalytic activity intersection_of: GO:0003824 ! catalytic activity intersection_of: has_input CHEBI:33696 ! nucleic acid relationship: has_input CHEBI:33696 ! nucleic acid property_value: IAO:0000233 https://github.com/geneontology/go-ontology/issues/21402 xsd:anyURI created_by: pg creation_date: 2021-05-11T06:31:07Z [Term] id: GO:0140694 name: non-membrane-bounded organelle assembly namespace: biological_process def: "The aggregation, arrangement and bonding together of a set of components to form a non-membrane-bounded organelle." [PMID:28225081] synonym: "non-membrane-bounded organelle formation" EXACT [] synonym: "non-membrane-enclosed organelle assembly" EXACT [] synonym: "non-membrane-enclosed organelle formation" EXACT [] is_a: GO:0070925 ! organelle assembly intersection_of: GO:0022607 ! cellular component assembly intersection_of: results_in_assembly_of GO:0043228 ! non-membrane-bounded organelle relationship: results_in_assembly_of GO:0043228 ! non-membrane-bounded organelle property_value: IAO:0000233 https://github.com/geneontology/go-ontology/issues/21939 xsd:anyURI created_by: pg creation_date: 2021-08-09T15:30:06Z [Term] id: GO:0150052 name: regulation of postsynapse assembly namespace: biological_process def: "Any process that modulates the frequency, rate or extent of postsynapse assembly, the aggregation, arrangement and bonding together of a set of components to form a postsynapse." [GOC:aruk, GOC:bc, PMID:16394100, PMID:16672654, PMID:28185854] subset: goslim_synapse is_a: GO:0051963 ! regulation of synapse assembly is_a: GO:0099175 ! regulation of postsynapse organization intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0099068 ! postsynapse assembly relationship: regulates GO:0099068 ! postsynapse assembly created_by: bc creation_date: 2018-05-08T16:38:55Z [Term] id: GO:0150063 name: visual system development namespace: biological_process def: "The process whose specific outcome is the progression of the visual system over time, from its formation to the mature structure, including the eye, parts of the central nervous system (CNS) involved in processing of visual inputs, and connecting nerve pathways." [GOC:aruk, GOC:bc, GOC:krc, PMID:15004427, PMID:20647017, PMID:22632727] synonym: "optic pathway development" RELATED [] synonym: "visual pathway development" RELATED [] is_a: GO:0048880 ! sensory system development created_by: bc creation_date: 2018-07-23T10:31:58Z [Term] id: GO:0150098 name: glial cell-neuron signaling namespace: biological_process def: "Cell-cell signaling that mediates the transfer of information from a glial cell to a neuron. This signaling has been shown to be mediated by various molecules, depending on which glial cells release them, and in which tissues the signalling occurs, e.g. microglial cell-derived nerve growth factor (NGF) in the retina, or microglial cell-derived superoxide ions in the cerebellum." [GOC:aruk, GOC:bc, PMID:14980203, PMID:16144764, PMID:16547515, PMID:18685038, PMID:27788368, PMID:9459440] synonym: "glia-neuron signaling" EXACT [] synonym: "glia-neuron signalling" EXACT [] synonym: "glia-neurone signaling" EXACT [] synonym: "glia-neurone signalling" EXACT [] synonym: "glial cell- neuron signalling" EXACT [] synonym: "glial cell-neurone signalling" EXACT [] synonym: "glial cell-neurone singaling" EXACT [] is_a: GO:0007267 ! cell-cell signaling intersection_of: GO:0007267 ! cell-cell signaling intersection_of: has_end_location CL:0000540 ! neuron intersection_of: has_start_location CL:0000125 ! glial cell relationship: has_end_location CL:0000540 ! neuron relationship: has_start_location CL:0000125 ! glial cell created_by: bc creation_date: 2018-12-17T12:28:09Z [Term] id: GO:0150099 name: neuron-glial cell signaling namespace: biological_process def: "Cell-cell signaling that mediates the transfer of information from a neuron to a glial cell. This signalling has been shown to be mediated by various molecules released by different types of neurons, e.g. glutamate, gamma-amino butyric acid (GABA), noradrenaline, acetylcholine, dopamine and adenosine." [GOC:aruk, GOC:bc, PMID:10195197, PMID:10196584, PMID:10377338, PMID:10493741, PMID:11356870, PMID:11399439, PMID:15252819, PMID:27788368] synonym: "neuron-glia signaling" EXACT [] synonym: "neuron-glia signalling" EXACT [] synonym: "neuron-glial cell signalling" EXACT [] synonym: "neurone-glia signaling" EXACT [] synonym: "neurone-glia signalling" EXACT [] synonym: "neurone-glial cell signaling" EXACT [] synonym: "neurone-glial cell signalling" EXACT [] is_a: GO:0007267 ! cell-cell signaling intersection_of: GO:0007267 ! cell-cell signaling intersection_of: has_end_location CL:0000125 ! glial cell intersection_of: has_start_location CL:0000540 ! neuron relationship: has_end_location CL:0000125 ! glial cell relationship: has_start_location CL:0000540 ! neuron created_by: bc creation_date: 2018-12-17T12:30:12Z [Term] id: GO:0150105 name: protein localization to cell-cell junction namespace: biological_process def: "A process in which a protein is transported to, or maintained, in a location within a cell-cell junction." [GOC:aruk, GOC:bc, PMID:26706435] is_a: GO:1902414 ! protein localization to cell junction intersection_of: GO:0008104 ! protein localization intersection_of: has_target_end_location GO:0005911 ! cell-cell junction relationship: has_target_end_location GO:0005911 ! cell-cell junction created_by: bc creation_date: 2019-06-11T11:00:18Z [Term] id: GO:0150106 name: regulation of protein localization to cell-cell junction namespace: biological_process def: "Any process that modulates the frequency, rate or extent of protein localization to cell-cell junction." [GOC:aruk, GOC:bc, PMID:26706435] is_a: GO:0032880 ! regulation of protein localization intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0150105 ! protein localization to cell-cell junction relationship: regulates GO:0150105 ! protein localization to cell-cell junction created_by: bc creation_date: 2019-06-11T11:17:15Z [Term] id: GO:0150107 name: positive regulation of protein localization to cell-cell junction namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of protein localization to cell-cell junction." [GOC:aruk, GOC:bc, PMID:26706435] is_a: GO:0150106 ! regulation of protein localization to cell-cell junction is_a: GO:1903829 ! positive regulation of protein localization intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0150105 ! protein localization to cell-cell junction relationship: positively_regulates GO:0150105 ! protein localization to cell-cell junction created_by: bc creation_date: 2019-06-11T11:23:58Z [Term] id: GO:0150119 name: negative regulation of protein localization to cell-cell junction namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of protein localization to cell-cell junction." [GOC:aruk, GOC:bc] synonym: "negative regulation of protein localisation to cell-cell junction" EXACT [] is_a: GO:0150106 ! regulation of protein localization to cell-cell junction is_a: GO:1903828 ! negative regulation of protein localization intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0150105 ! protein localization to cell-cell junction relationship: negatively_regulates GO:0150105 ! protein localization to cell-cell junction created_by: bc creation_date: 2019-11-21T13:53:34Z [Term] id: GO:0150146 name: cell junction disassembly namespace: biological_process def: "The disaggregation of a cell junction into its constituent components." [GOC:aruk, PMID:25490267] is_a: GO:0022411 ! cellular component disassembly is_a: GO:0034330 ! cell junction organization intersection_of: GO:0022411 ! cellular component disassembly intersection_of: results_in_disassembly_of GO:0030054 ! cell junction relationship: results_in_disassembly_of GO:0030054 ! cell junction created_by: bc creation_date: 2019-12-08T11:12:13Z [Term] id: GO:0150147 name: cell-cell junction disassembly namespace: biological_process def: "The disaggregation of a cell-cell junction into its constituent components." [GOC:aruk, PMID:25490267] is_a: GO:0045216 ! cell-cell junction organization is_a: GO:0150146 ! cell junction disassembly intersection_of: GO:0150146 ! cell junction disassembly intersection_of: results_in_disassembly_of GO:0005911 ! cell-cell junction relationship: results_in_disassembly_of GO:0005911 ! cell-cell junction created_by: bc creation_date: 2019-12-08T11:16:14Z [Term] id: GO:1900115 name: extracellular regulation of signal transduction namespace: biological_process def: "Any regulation of signal transduction that takes place in the extracellular region." [GOC:signaling, GOC:TermGenie] synonym: "regulation of signaling pathway in extracellular region" EXACT [GOC:TermGenie] synonym: "regulation of signalling pathway in extracellular region" EXACT [GOC:TermGenie] is_a: GO:0009966 ! regulation of signal transduction intersection_of: GO:0009966 ! regulation of signal transduction intersection_of: occurs_in GO:0005576 ! extracellular region relationship: occurs_in GO:0005576 ! extracellular region created_by: bf creation_date: 2012-02-22T10:21:48Z [Term] id: GO:1900116 name: extracellular negative regulation of signal transduction namespace: biological_process def: "Any negative regulation of signal transduction that takes place in extracellular region." [GOC:signaling, GOC:TermGenie] synonym: "down regulation of signal transduction in extracellular region" EXACT [GOC:TermGenie] synonym: "down-regulation of signal transduction in extracellular region" EXACT [GOC:TermGenie] synonym: "downregulation of signal transduction in extracellular region" EXACT [GOC:TermGenie] synonym: "extracellular inhibition of signaling pathway" NARROW [GOC:bf] synonym: "inhibition of signal transduction in extracellular region" NARROW [GOC:TermGenie] synonym: "negative regulation of signaling pathway in extracellular region" EXACT [GOC:TermGenie] synonym: "negative regulation of signalling pathway in extracellular region" EXACT [GOC:TermGenie] is_a: GO:0009968 ! negative regulation of signal transduction is_a: GO:1900115 ! extracellular regulation of signal transduction intersection_of: GO:0009968 ! negative regulation of signal transduction intersection_of: occurs_in GO:0005576 ! extracellular region created_by: bf creation_date: 2012-02-22T10:27:56Z [Term] id: GO:1900117 name: regulation of execution phase of apoptosis namespace: biological_process def: "Any process that modulates the frequency, rate or extent of execution phase of apoptosis." [GOC:mtg_apoptosis, GOC:TermGenie] is_a: GO:0050794 ! regulation of cellular process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0097194 ! execution phase of apoptosis relationship: regulates GO:0097194 ! execution phase of apoptosis created_by: pr creation_date: 2012-02-22T11:26:20Z [Term] id: GO:1900118 name: negative regulation of execution phase of apoptosis namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of execution phase of apoptosis." [GOC:mtg_apoptosis, GOC:TermGenie] synonym: "down regulation of execution phase of apoptosis" EXACT [GOC:TermGenie] synonym: "down-regulation of execution phase of apoptosis" EXACT [GOC:TermGenie] synonym: "downregulation of execution phase of apoptosis" EXACT [GOC:TermGenie] synonym: "inhibition of execution phase of apoptosis" NARROW [GOC:TermGenie] is_a: GO:0043066 ! negative regulation of apoptotic process is_a: GO:1900117 ! regulation of execution phase of apoptosis intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0097194 ! execution phase of apoptosis relationship: negatively_regulates GO:0097194 ! execution phase of apoptosis created_by: pr creation_date: 2012-02-22T11:26:24Z [Term] id: GO:1900119 name: positive regulation of execution phase of apoptosis namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of execution phase of apoptosis." [GOC:mtg_apoptosis, GOC:TermGenie] synonym: "activation of execution phase of apoptosis" NARROW [GOC:TermGenie] synonym: "up regulation of execution phase of apoptosis" EXACT [GOC:TermGenie] synonym: "up-regulation of execution phase of apoptosis" EXACT [GOC:TermGenie] synonym: "upregulation of execution phase of apoptosis" EXACT [GOC:TermGenie] is_a: GO:0043065 ! positive regulation of apoptotic process is_a: GO:1900117 ! regulation of execution phase of apoptosis intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0097194 ! execution phase of apoptosis relationship: positively_regulates GO:0097194 ! execution phase of apoptosis created_by: pr creation_date: 2012-02-22T11:26:27Z [Term] id: GO:1900120 name: regulation of receptor binding namespace: biological_process def: "Any process that modulates the frequency, rate or extent of a protein or other molecule binding to a receptor." [GOC:signaling, GOC:TermGenie] synonym: "regulation of receptor ligand" NARROW [GOC:TermGenie] is_a: GO:0043393 ! regulation of protein binding intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0005102 ! signaling receptor binding relationship: regulates GO:0005102 ! signaling receptor binding created_by: bf creation_date: 2012-02-22T11:40:53Z [Term] id: GO:1900121 name: negative regulation of receptor binding namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of a protein or other molecule binding to a receptor." [GOC:signaling, GOC:TermGenie] synonym: "down regulation of receptor binding" EXACT [GOC:TermGenie] synonym: "down regulation of receptor-associated protein activity" RELATED [GOC:TermGenie] synonym: "down-regulation of receptor binding" EXACT [GOC:TermGenie] synonym: "downregulation of receptor binding" EXACT [GOC:TermGenie] synonym: "inhibition of receptor binding" NARROW [GOC:TermGenie] synonym: "inhibition of receptor ligand" NARROW [GOC:TermGenie] is_a: GO:0032091 ! negative regulation of protein binding is_a: GO:1900120 ! regulation of receptor binding intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0005102 ! signaling receptor binding relationship: negatively_regulates GO:0005102 ! signaling receptor binding created_by: bf creation_date: 2012-02-22T11:40:57Z [Term] id: GO:1900122 name: positive regulation of receptor binding namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of a protein or other molecule binding to a receptor." [GOC:signaling, GOC:TermGenie] synonym: "activation of receptor binding" NARROW [GOC:TermGenie] synonym: "up regulation of receptor binding" EXACT [GOC:TermGenie] synonym: "upregulation of receptor binding" EXACT [GOC:TermGenie] is_a: GO:0032092 ! positive regulation of protein binding is_a: GO:1900120 ! regulation of receptor binding intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0005102 ! signaling receptor binding relationship: positively_regulates GO:0005102 ! signaling receptor binding created_by: bf creation_date: 2012-02-22T11:41:00Z [Term] id: GO:1900125 name: regulation of hyaluronan biosynthetic process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of hyaluronan biosynthetic process." [GOC:TermGenie, GOC:yaf] synonym: "regulation of hyaluronan anabolism" EXACT [GOC:TermGenie] synonym: "regulation of hyaluronan biosynthesis" EXACT [GOC:TermGenie] synonym: "regulation of hyaluronan formation" EXACT [GOC:TermGenie] synonym: "regulation of hyaluronan synthesis" EXACT [GOC:TermGenie] is_a: GO:0032885 ! regulation of polysaccharide biosynthetic process is_a: GO:0051171 ! regulation of nitrogen compound metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0030213 ! hyaluronan biosynthetic process relationship: regulates GO:0030213 ! hyaluronan biosynthetic process created_by: yaf creation_date: 2012-02-23T01:09:21Z [Term] id: GO:1900126 name: negative regulation of hyaluronan biosynthetic process namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of hyaluronan biosynthetic process." [GOC:TermGenie, GOC:yaf] synonym: "down regulation of hyaluronan anabolism" EXACT [GOC:TermGenie] synonym: "down regulation of hyaluronan biosynthesis" EXACT [GOC:TermGenie] synonym: "down regulation of hyaluronan biosynthetic process" EXACT [GOC:TermGenie] synonym: "down regulation of hyaluronan formation" EXACT [GOC:TermGenie] synonym: "down regulation of hyaluronan synthesis" EXACT [GOC:TermGenie] synonym: "down-regulation of hyaluronan anabolism" EXACT [GOC:TermGenie] synonym: "down-regulation of hyaluronan biosynthesis" EXACT [GOC:TermGenie] synonym: "down-regulation of hyaluronan biosynthetic process" EXACT [GOC:TermGenie] synonym: "down-regulation of hyaluronan formation" EXACT [GOC:TermGenie] synonym: "down-regulation of hyaluronan synthesis" EXACT [GOC:TermGenie] synonym: "downregulation of hyaluronan anabolism" EXACT [GOC:TermGenie] synonym: "downregulation of hyaluronan biosynthesis" EXACT [GOC:TermGenie] synonym: "downregulation of hyaluronan biosynthetic process" EXACT [GOC:TermGenie] synonym: "downregulation of hyaluronan formation" EXACT [GOC:TermGenie] synonym: "downregulation of hyaluronan synthesis" EXACT [GOC:TermGenie] synonym: "inhibition of hyaluronan anabolism" EXACT [GOC:TermGenie] synonym: "inhibition of hyaluronan biosynthesis" EXACT [GOC:TermGenie] synonym: "inhibition of hyaluronan biosynthetic process" NARROW [GOC:TermGenie] synonym: "inhibition of hyaluronan formation" EXACT [GOC:TermGenie] synonym: "inhibition of hyaluronan synthesis" EXACT [GOC:TermGenie] synonym: "negative regulation of hyaluronan anabolism" EXACT [GOC:TermGenie] synonym: "negative regulation of hyaluronan biosynthesis" EXACT [GOC:TermGenie] synonym: "negative regulation of hyaluronan formation" EXACT [GOC:TermGenie] synonym: "negative regulation of hyaluronan synthesis" EXACT [GOC:TermGenie] is_a: GO:0010558 ! negative regulation of macromolecule biosynthetic process is_a: GO:0045912 ! negative regulation of carbohydrate metabolic process is_a: GO:0051172 ! negative regulation of nitrogen compound metabolic process is_a: GO:1900125 ! regulation of hyaluronan biosynthetic process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0030213 ! hyaluronan biosynthetic process relationship: negatively_regulates GO:0030213 ! hyaluronan biosynthetic process created_by: yaf creation_date: 2012-02-23T01:09:29Z [Term] id: GO:1900127 name: positive regulation of hyaluronan biosynthetic process namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of hyaluronan biosynthetic process." [GOC:TermGenie, GOC:yaf] synonym: "activation of hyaluronan anabolism" EXACT [GOC:TermGenie] synonym: "activation of hyaluronan biosynthesis" EXACT [GOC:TermGenie] synonym: "activation of hyaluronan biosynthetic process" NARROW [GOC:TermGenie] synonym: "activation of hyaluronan formation" EXACT [GOC:TermGenie] synonym: "activation of hyaluronan synthesis" EXACT [GOC:TermGenie] synonym: "positive regulation of hyaluronan anabolism" EXACT [GOC:TermGenie] synonym: "positive regulation of hyaluronan biosynthesis" EXACT [GOC:TermGenie] synonym: "positive regulation of hyaluronan formation" EXACT [GOC:TermGenie] synonym: "positive regulation of hyaluronan synthesis" EXACT [GOC:TermGenie] synonym: "up regulation of hyaluronan anabolism" EXACT [GOC:TermGenie] synonym: "up regulation of hyaluronan biosynthesis" EXACT [GOC:TermGenie] synonym: "up regulation of hyaluronan biosynthetic process" EXACT [GOC:TermGenie] synonym: "up regulation of hyaluronan formation" EXACT [GOC:TermGenie] synonym: "up regulation of hyaluronan synthesis" EXACT [GOC:TermGenie] synonym: "up-regulation of hyaluronan anabolism" EXACT [GOC:TermGenie] synonym: "up-regulation of hyaluronan biosynthesis" EXACT [GOC:TermGenie] synonym: "up-regulation of hyaluronan biosynthetic process" EXACT [GOC:TermGenie] synonym: "up-regulation of hyaluronan formation" EXACT [GOC:TermGenie] synonym: "up-regulation of hyaluronan synthesis" EXACT [GOC:TermGenie] synonym: "upregulation of hyaluronan anabolism" EXACT [GOC:TermGenie] synonym: "upregulation of hyaluronan biosynthesis" EXACT [GOC:TermGenie] synonym: "upregulation of hyaluronan biosynthetic process" EXACT [GOC:TermGenie] synonym: "upregulation of hyaluronan formation" EXACT [GOC:TermGenie] synonym: "upregulation of hyaluronan synthesis" EXACT [GOC:TermGenie] is_a: GO:0010557 ! positive regulation of macromolecule biosynthetic process is_a: GO:0045913 ! positive regulation of carbohydrate metabolic process is_a: GO:0051173 ! positive regulation of nitrogen compound metabolic process is_a: GO:1900125 ! regulation of hyaluronan biosynthetic process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0030213 ! hyaluronan biosynthetic process relationship: positively_regulates GO:0030213 ! hyaluronan biosynthetic process created_by: yaf creation_date: 2012-02-23T01:09:33Z [Term] id: GO:1900130 name: regulation of lipid binding namespace: biological_process def: "Any process that modulates the frequency, rate or extent of lipid binding." [GOC:pm, GOC:TermGenie] is_a: GO:0051098 ! regulation of binding intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0008289 ! lipid binding relationship: regulates GO:0008289 ! lipid binding created_by: pm creation_date: 2012-02-23T04:05:03Z [Term] id: GO:1900131 name: negative regulation of lipid binding namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of lipid binding." [GOC:pm, GOC:TermGenie] synonym: "down regulation of lipid binding" EXACT [GOC:TermGenie] synonym: "down-regulation of lipid binding" EXACT [GOC:TermGenie] synonym: "downregulation of lipid binding" EXACT [GOC:TermGenie] synonym: "inhibition of lipid binding" NARROW [GOC:TermGenie] is_a: GO:0051100 ! negative regulation of binding is_a: GO:1900130 ! regulation of lipid binding intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0008289 ! lipid binding relationship: negatively_regulates GO:0008289 ! lipid binding created_by: pm creation_date: 2012-02-23T04:05:07Z [Term] id: GO:1900132 name: positive regulation of lipid binding namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of lipid binding." [GOC:pm, GOC:TermGenie] synonym: "activation of lipid binding" NARROW [GOC:TermGenie] synonym: "up regulation of lipid binding" EXACT [GOC:TermGenie] synonym: "up-regulation of lipid binding" EXACT [GOC:TermGenie] synonym: "upregulation of lipid binding" EXACT [GOC:TermGenie] is_a: GO:0051099 ! positive regulation of binding is_a: GO:1900130 ! regulation of lipid binding intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0008289 ! lipid binding relationship: positively_regulates GO:0008289 ! lipid binding created_by: pm creation_date: 2012-02-23T04:05:11Z [Term] id: GO:1900180 name: regulation of protein localization to nucleus namespace: biological_process def: "Any process that modulates the frequency, rate or extent of protein localization to nucleus." [GOC:TermGenie] synonym: "regulation of protein localisation to nucleus" EXACT [GOC:TermGenie] synonym: "regulation of protein localization in cell nucleus" EXACT [GOC:TermGenie] synonym: "regulation of protein localization in nucleus" EXACT [GOC:TermGenie] is_a: GO:0032880 ! regulation of protein localization is_a: GO:0060341 ! regulation of cellular localization intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0034504 ! protein localization to nucleus relationship: regulates GO:0034504 ! protein localization to nucleus created_by: bf creation_date: 2012-03-12T01:23:44Z [Term] id: GO:1900181 name: negative regulation of protein localization to nucleus namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of protein localization to nucleus." [GOC:TermGenie] synonym: "down regulation of protein localisation to nucleus" EXACT [GOC:TermGenie] synonym: "down regulation of protein localization in cell nucleus" EXACT [GOC:TermGenie] synonym: "down regulation of protein localization in nucleus" EXACT [GOC:TermGenie] synonym: "down regulation of protein localization to nucleus" EXACT [GOC:TermGenie] synonym: "down-regulation of protein localisation to nucleus" EXACT [GOC:TermGenie] synonym: "down-regulation of protein localization in cell nucleus" EXACT [GOC:TermGenie] synonym: "down-regulation of protein localization in nucleus" EXACT [GOC:TermGenie] synonym: "down-regulation of protein localization to nucleus" EXACT [GOC:TermGenie] synonym: "downregulation of protein localisation to nucleus" EXACT [GOC:TermGenie] synonym: "downregulation of protein localization in cell nucleus" EXACT [GOC:TermGenie] synonym: "downregulation of protein localization in nucleus" EXACT [GOC:TermGenie] synonym: "downregulation of protein localization to nucleus" EXACT [GOC:TermGenie] synonym: "inhibition of protein localisation to nucleus" NARROW [GOC:TermGenie] synonym: "inhibition of protein localization in cell nucleus" NARROW [GOC:TermGenie] synonym: "inhibition of protein localization in nucleus" NARROW [GOC:TermGenie] synonym: "inhibition of protein localization to nucleus" NARROW [GOC:TermGenie] synonym: "negative regulation of protein localisation to nucleus" EXACT [GOC:TermGenie] synonym: "negative regulation of protein localization in cell nucleus" EXACT [GOC:TermGenie] synonym: "negative regulation of protein localization in nucleus" EXACT [GOC:TermGenie] is_a: GO:0048523 ! negative regulation of cellular process is_a: GO:1900180 ! regulation of protein localization to nucleus is_a: GO:1903828 ! negative regulation of protein localization intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0034504 ! protein localization to nucleus relationship: negatively_regulates GO:0034504 ! protein localization to nucleus created_by: bf creation_date: 2012-03-12T01:23:48Z [Term] id: GO:1900182 name: positive regulation of protein localization to nucleus namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of protein localization to nucleus." [GOC:TermGenie] synonym: "activation of protein localisation to nucleus" NARROW [GOC:TermGenie] synonym: "activation of protein localization in cell nucleus" NARROW [GOC:TermGenie] synonym: "activation of protein localization in nucleus" EXACT [GOC:TermGenie] synonym: "activation of protein localization to nucleus" NARROW [GOC:TermGenie] synonym: "positive regulation of protein localisation to nucleus" EXACT [GOC:TermGenie] synonym: "positive regulation of protein localization in cell nucleus" EXACT [GOC:TermGenie] synonym: "positive regulation of protein localization in nucleus" EXACT [GOC:TermGenie] synonym: "up regulation of protein localisation to nucleus" EXACT [GOC:TermGenie] synonym: "up regulation of protein localization in cell nucleus" EXACT [GOC:TermGenie] synonym: "up regulation of protein localization in nucleus" EXACT [GOC:TermGenie] synonym: "up regulation of protein localization to nucleus" EXACT [GOC:TermGenie] synonym: "up-regulation of protein localisation to nucleus" EXACT [GOC:TermGenie] synonym: "up-regulation of protein localization in cell nucleus" EXACT [GOC:TermGenie] synonym: "up-regulation of protein localization in nucleus" EXACT [GOC:TermGenie] synonym: "up-regulation of protein localization to nucleus" EXACT [GOC:TermGenie] synonym: "upregulation of protein localisation to nucleus" EXACT [GOC:TermGenie] synonym: "upregulation of protein localization in cell nucleus" EXACT [GOC:TermGenie] synonym: "upregulation of protein localization in nucleus" EXACT [GOC:TermGenie] synonym: "upregulation of protein localization to nucleus" EXACT [GOC:TermGenie] is_a: GO:0048522 ! positive regulation of cellular process is_a: GO:1900180 ! regulation of protein localization to nucleus is_a: GO:1903829 ! positive regulation of protein localization intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0034504 ! protein localization to nucleus relationship: positively_regulates GO:0034504 ! protein localization to nucleus created_by: bf creation_date: 2012-03-12T01:23:52Z [Term] id: GO:1901135 name: carbohydrate derivative metabolic process namespace: biological_process def: "The chemical reactions and pathways involving carbohydrate derivative." [GOC:TermGenie] subset: goslim_agr subset: goslim_generic subset: goslim_mouse synonym: "carbohydrate derivative metabolism" EXACT [GOC:TermGenie] is_a: GO:0071704 ! organic substance metabolic process intersection_of: GO:0008152 ! metabolic process intersection_of: has_primary_input_or_output CHEBI:63299 ! carbohydrate derivative relationship: has_primary_input_or_output CHEBI:63299 ! carbohydrate derivative created_by: bf creation_date: 2012-07-12T04:05:09Z [Term] id: GO:1901137 name: carbohydrate derivative biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of carbohydrate derivative." [GOC:TermGenie] synonym: "carbohydrate derivative anabolism" EXACT [GOC:TermGenie] synonym: "carbohydrate derivative biosynthesis" EXACT [GOC:TermGenie] synonym: "carbohydrate derivative formation" EXACT [GOC:TermGenie] synonym: "carbohydrate derivative synthesis" EXACT [GOC:TermGenie] is_a: GO:1901135 ! carbohydrate derivative metabolic process is_a: GO:1901576 ! organic substance biosynthetic process intersection_of: GO:0009058 ! biosynthetic process intersection_of: has_primary_output CHEBI:63299 ! carbohydrate derivative relationship: has_primary_output CHEBI:63299 ! carbohydrate derivative created_by: bf creation_date: 2012-07-12T04:05:39Z [Term] id: GO:1901148 name: gene expression involved in extracellular matrix organization namespace: biological_process def: "Any gene expression that is involved in extracellular matrix organization. Gene expression includes both transcription to produce an RNA transcript, and the translation of that mRNA into protein. Protein maturation is included in gene expression when required to form an active form of a product from an inactive precursor form." [GOC:pg, GOC:TermGenie, PMID:18668558] synonym: "expression of extracellular matrix proteins" EXACT [GOC:bf] synonym: "extracellular matrix protein production" RELATED [GOC:pg] is_a: GO:0010467 ! gene expression intersection_of: GO:0010467 ! gene expression intersection_of: part_of GO:0030198 ! extracellular matrix organization relationship: part_of GO:0030198 ! extracellular matrix organization created_by: bf creation_date: 2012-07-16T03:29:30Z [Term] id: GO:1901160 name: primary amino compound metabolic process namespace: biological_process def: "The chemical reactions and pathways involving primary amino compound." [GOC:TermGenie] synonym: "primary amino compound metabolism" EXACT [GOC:TermGenie] is_a: GO:1901564 ! organonitrogen compound metabolic process intersection_of: GO:0008152 ! metabolic process intersection_of: has_primary_input_or_output CHEBI:50994 ! primary amino compound relationship: has_primary_input_or_output CHEBI:50994 ! primary amino compound created_by: bf creation_date: 2012-07-18T04:44:39Z [Term] id: GO:1901162 name: primary amino compound biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of primary amino compound." [GOC:TermGenie] synonym: "primary amino compound anabolism" EXACT [GOC:TermGenie] synonym: "primary amino compound biosynthesis" EXACT [GOC:TermGenie] synonym: "primary amino compound formation" EXACT [GOC:TermGenie] synonym: "primary amino compound synthesis" EXACT [GOC:TermGenie] is_a: GO:1901160 ! primary amino compound metabolic process is_a: GO:1901566 ! organonitrogen compound biosynthetic process intersection_of: GO:0009058 ! biosynthetic process intersection_of: has_primary_output CHEBI:50994 ! primary amino compound relationship: has_primary_output CHEBI:50994 ! primary amino compound created_by: bf creation_date: 2012-07-18T04:45:14Z [Term] id: GO:1901190 name: regulation of formation of translation initiation ternary complex namespace: biological_process def: "Any process that modulates the frequency, rate or extent of formation of translation initiation ternary complex." [GOC:TermGenie] synonym: "regulation of translation initiation ternary complex assembly" EXACT [GOC:TermGenie] is_a: GO:0043254 ! regulation of protein-containing complex assembly intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0001677 ! formation of translation initiation ternary complex relationship: regulates GO:0001677 ! formation of translation initiation ternary complex created_by: ss creation_date: 2012-07-25T02:26:58Z [Term] id: GO:1901191 name: negative regulation of formation of translation initiation ternary complex namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of formation of translation initiation ternary complex." [GOC:TermGenie] synonym: "down regulation of formation of translation initiation ternary complex" EXACT [GOC:TermGenie] synonym: "down regulation of translation initiation ternary complex assembly" EXACT [GOC:TermGenie] synonym: "down-regulation of formation of translation initiation ternary complex" EXACT [GOC:TermGenie] synonym: "down-regulation of translation initiation ternary complex assembly" EXACT [GOC:TermGenie] synonym: "downregulation of formation of translation initiation ternary complex" EXACT [GOC:TermGenie] synonym: "downregulation of translation initiation ternary complex assembly" EXACT [GOC:TermGenie] synonym: "inhibition of formation of translation initiation ternary complex" NARROW [GOC:TermGenie] synonym: "inhibition of translation initiation ternary complex assembly" EXACT [GOC:TermGenie] synonym: "negative regulation of translation initiation ternary complex assembly" EXACT [GOC:TermGenie] is_a: GO:0031333 ! negative regulation of protein-containing complex assembly is_a: GO:0045947 ! negative regulation of translational initiation is_a: GO:1901190 ! regulation of formation of translation initiation ternary complex intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0001677 ! formation of translation initiation ternary complex relationship: negatively_regulates GO:0001677 ! formation of translation initiation ternary complex created_by: ss creation_date: 2012-07-25T02:27:21Z [Term] id: GO:1901192 name: positive regulation of formation of translation initiation ternary complex namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of formation of translation initiation ternary complex." [GOC:TermGenie] synonym: "activation of formation of translation initiation ternary complex" NARROW [GOC:TermGenie] synonym: "activation of translation initiation ternary complex assembly" EXACT [GOC:TermGenie] synonym: "positive regulation of translation initiation ternary complex assembly" EXACT [GOC:TermGenie] synonym: "up regulation of formation of translation initiation ternary complex" EXACT [GOC:TermGenie] synonym: "up regulation of translation initiation ternary complex assembly" EXACT [GOC:TermGenie] synonym: "up-regulation of formation of translation initiation ternary complex" EXACT [GOC:TermGenie] synonym: "up-regulation of translation initiation ternary complex assembly" EXACT [GOC:TermGenie] synonym: "upregulation of formation of translation initiation ternary complex" EXACT [GOC:TermGenie] synonym: "upregulation of translation initiation ternary complex assembly" EXACT [GOC:TermGenie] is_a: GO:0031334 ! positive regulation of protein-containing complex assembly is_a: GO:1901190 ! regulation of formation of translation initiation ternary complex intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0001677 ! formation of translation initiation ternary complex relationship: positively_regulates GO:0001677 ! formation of translation initiation ternary complex created_by: ss creation_date: 2012-07-25T02:27:29Z [Term] id: GO:1901201 name: regulation of extracellular matrix assembly namespace: biological_process def: "Any process that modulates the frequency, rate or extent of extracellular matrix assembly." [GOC:BHF, GOC:TermGenie] is_a: GO:0044087 ! regulation of cellular component biogenesis is_a: GO:1903053 ! regulation of extracellular matrix organization intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0085029 ! extracellular matrix assembly relationship: regulates GO:0085029 ! extracellular matrix assembly created_by: rl creation_date: 2012-07-27T04:04:00Z [Term] id: GO:1901202 name: negative regulation of extracellular matrix assembly namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of extracellular matrix assembly." [GOC:BHF, GOC:TermGenie] synonym: "down regulation of extracellular matrix assembly" EXACT [GOC:TermGenie] synonym: "down-regulation of extracellular matrix assembly" EXACT [GOC:TermGenie] synonym: "downregulation of extracellular matrix assembly" EXACT [GOC:TermGenie] synonym: "inhibition of extracellular matrix assembly" NARROW [GOC:TermGenie] is_a: GO:1901201 ! regulation of extracellular matrix assembly is_a: GO:1903054 ! negative regulation of extracellular matrix organization intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0085029 ! extracellular matrix assembly relationship: negatively_regulates GO:0085029 ! extracellular matrix assembly created_by: rl creation_date: 2012-07-27T04:04:24Z [Term] id: GO:1901203 name: positive regulation of extracellular matrix assembly namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of extracellular matrix assembly." [GOC:BHF, GOC:TermGenie] synonym: "activation of extracellular matrix assembly" NARROW [GOC:TermGenie] synonym: "up regulation of extracellular matrix assembly" EXACT [GOC:TermGenie] synonym: "up-regulation of extracellular matrix assembly" EXACT [GOC:TermGenie] synonym: "upregulation of extracellular matrix assembly" EXACT [GOC:TermGenie] is_a: GO:0044089 ! positive regulation of cellular component biogenesis is_a: GO:1901201 ! regulation of extracellular matrix assembly is_a: GO:1903055 ! positive regulation of extracellular matrix organization intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0085029 ! extracellular matrix assembly relationship: positively_regulates GO:0085029 ! extracellular matrix assembly created_by: rl creation_date: 2012-07-27T04:04:32Z [Term] id: GO:1901210 name: regulation of cardiac chamber formation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of cardiac chamber formation." [GOC:BHF, GOC:TermGenie] synonym: "regulation of heart chamber formation" EXACT [GOC:TermGenie] is_a: GO:0050793 ! regulation of developmental process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0003207 ! cardiac chamber formation relationship: regulates GO:0003207 ! cardiac chamber formation created_by: rl creation_date: 2012-07-31T07:18:35Z [Term] id: GO:1901211 name: negative regulation of cardiac chamber formation namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of cardiac chamber formation." [GOC:BHF, GOC:TermGenie] synonym: "down regulation of cardiac chamber formation" EXACT [GOC:TermGenie] synonym: "down regulation of heart chamber formation" EXACT [GOC:TermGenie] synonym: "down-regulation of cardiac chamber formation" EXACT [GOC:TermGenie] synonym: "down-regulation of heart chamber formation" EXACT [GOC:TermGenie] synonym: "downregulation of cardiac chamber formation" EXACT [GOC:TermGenie] synonym: "downregulation of heart chamber formation" EXACT [GOC:TermGenie] synonym: "inhibition of cardiac chamber formation" NARROW [GOC:TermGenie] synonym: "inhibition of heart chamber formation" EXACT [GOC:TermGenie] synonym: "negative regulation of heart chamber formation" EXACT [GOC:TermGenie] is_a: GO:0051093 ! negative regulation of developmental process is_a: GO:1901210 ! regulation of cardiac chamber formation intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0003207 ! cardiac chamber formation relationship: negatively_regulates GO:0003207 ! cardiac chamber formation created_by: rl creation_date: 2012-07-31T07:18:57Z [Term] id: GO:1901212 name: positive regulation of cardiac chamber formation namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of cardiac chamber formation." [GOC:BHF, GOC:TermGenie] synonym: "activation of cardiac chamber formation" NARROW [GOC:TermGenie] synonym: "activation of heart chamber formation" EXACT [GOC:TermGenie] synonym: "positive regulation of heart chamber formation" EXACT [GOC:TermGenie] synonym: "up regulation of cardiac chamber formation" EXACT [GOC:TermGenie] synonym: "up regulation of heart chamber formation" EXACT [GOC:TermGenie] synonym: "up-regulation of cardiac chamber formation" EXACT [GOC:TermGenie] synonym: "up-regulation of heart chamber formation" EXACT [GOC:TermGenie] synonym: "upregulation of cardiac chamber formation" EXACT [GOC:TermGenie] synonym: "upregulation of heart chamber formation" EXACT [GOC:TermGenie] is_a: GO:1901210 ! regulation of cardiac chamber formation is_a: GO:1901221 ! positive regulation of cardiac chamber morphogenesis intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0003207 ! cardiac chamber formation relationship: positively_regulates GO:0003207 ! cardiac chamber formation created_by: rl creation_date: 2012-07-31T07:19:05Z [Term] id: GO:1901214 name: regulation of neuron death namespace: biological_process def: "Any process that modulates the frequency, rate or extent of neuron death." [GOC:rph, GOC:TermGenie] synonym: "regulation of neuron cell death" EXACT [GOC:TermGenie] synonym: "regulation of neuronal cell death" EXACT [GOC:TermGenie] is_a: GO:0010941 ! regulation of cell death intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0070997 ! neuron death relationship: in_taxon NCBITaxon:33208 ! Metazoa relationship: only_in_taxon NCBITaxon:33208 ! Metazoa relationship: regulates GO:0070997 ! neuron death created_by: rph creation_date: 2012-08-02T09:57:41Z [Term] id: GO:1901215 name: negative regulation of neuron death namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of neuron death." [GOC:rph, GOC:TermGenie] synonym: "down regulation of neuron cell death" EXACT [GOC:TermGenie] synonym: "down regulation of neuron death" EXACT [GOC:TermGenie] synonym: "down regulation of neuronal cell death" EXACT [GOC:TermGenie] synonym: "down-regulation of neuron cell death" EXACT [GOC:TermGenie] synonym: "down-regulation of neuron death" EXACT [GOC:TermGenie] synonym: "down-regulation of neuronal cell death" EXACT [GOC:TermGenie] synonym: "downregulation of neuron cell death" EXACT [GOC:TermGenie] synonym: "downregulation of neuron death" EXACT [GOC:TermGenie] synonym: "downregulation of neuronal cell death" EXACT [GOC:TermGenie] synonym: "inhibition of neuron cell death" NARROW [GOC:TermGenie] synonym: "inhibition of neuron death" NARROW [GOC:TermGenie] synonym: "inhibition of neuronal cell death" NARROW [GOC:TermGenie] synonym: "negative regulation of neuron cell death" EXACT [GOC:TermGenie] synonym: "negative regulation of neuronal cell death" EXACT [GOC:TermGenie] is_a: GO:0060548 ! negative regulation of cell death is_a: GO:1901214 ! regulation of neuron death intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0070997 ! neuron death relationship: negatively_regulates GO:0070997 ! neuron death created_by: rph creation_date: 2012-08-02T09:58:07Z [Term] id: GO:1901216 name: positive regulation of neuron death namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of neuron death." [GOC:rph, GOC:TermGenie] synonym: "activation of neuron cell death" NARROW [GOC:TermGenie] synonym: "activation of neuron death" NARROW [GOC:TermGenie] synonym: "activation of neuronal cell death" NARROW [GOC:TermGenie] synonym: "positive regulation of neuron cell death" EXACT [GOC:TermGenie] synonym: "positive regulation of neuronal cell death" EXACT [GOC:TermGenie] synonym: "up regulation of neuron cell death" EXACT [GOC:TermGenie] synonym: "up regulation of neuron death" EXACT [GOC:TermGenie] synonym: "up regulation of neuronal cell death" EXACT [GOC:TermGenie] synonym: "up-regulation of neuron cell death" EXACT [GOC:TermGenie] synonym: "up-regulation of neuron death" EXACT [GOC:TermGenie] synonym: "up-regulation of neuronal cell death" EXACT [GOC:TermGenie] synonym: "upregulation of neuron cell death" EXACT [GOC:TermGenie] synonym: "upregulation of neuron death" EXACT [GOC:TermGenie] synonym: "upregulation of neuronal cell death" EXACT [GOC:TermGenie] is_a: GO:0010942 ! positive regulation of cell death is_a: GO:1901214 ! regulation of neuron death intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0070997 ! neuron death relationship: positively_regulates GO:0070997 ! neuron death created_by: rph creation_date: 2012-08-02T09:58:15Z [Term] id: GO:1901219 name: regulation of cardiac chamber morphogenesis namespace: biological_process def: "Any process that modulates the frequency, rate or extent of cardiac chamber morphogenesis." [GOC:BHF, GOC:TermGenie] synonym: "regulation of heart chamber morphogenesis" EXACT [GOC:TermGenie] is_a: GO:2000826 ! regulation of heart morphogenesis intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0003206 ! cardiac chamber morphogenesis relationship: regulates GO:0003206 ! cardiac chamber morphogenesis created_by: rl creation_date: 2012-08-06T17:59:11Z [Term] id: GO:1901220 name: negative regulation of cardiac chamber morphogenesis namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of cardiac chamber morphogenesis." [GOC:BHF, GOC:TermGenie] synonym: "down regulation of cardiac chamber morphogenesis" EXACT [GOC:TermGenie] synonym: "down regulation of heart chamber morphogenesis" EXACT [GOC:TermGenie] synonym: "down-regulation of cardiac chamber morphogenesis" EXACT [GOC:TermGenie] synonym: "down-regulation of heart chamber morphogenesis" EXACT [GOC:TermGenie] synonym: "downregulation of cardiac chamber morphogenesis" EXACT [GOC:TermGenie] synonym: "downregulation of heart chamber morphogenesis" EXACT [GOC:TermGenie] synonym: "inhibition of cardiac chamber morphogenesis" NARROW [GOC:TermGenie] synonym: "inhibition of heart chamber morphogenesis" NARROW [GOC:TermGenie] synonym: "negative regulation of heart chamber morphogenesis" EXACT [GOC:TermGenie] is_a: GO:0051093 ! negative regulation of developmental process is_a: GO:1901219 ! regulation of cardiac chamber morphogenesis intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0003206 ! cardiac chamber morphogenesis relationship: negatively_regulates GO:0003206 ! cardiac chamber morphogenesis created_by: rl creation_date: 2012-08-06T17:59:34Z [Term] id: GO:1901221 name: positive regulation of cardiac chamber morphogenesis namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of cardiac chamber morphogenesis." [GOC:BHF, GOC:TermGenie] synonym: "activation of cardiac chamber morphogenesis" NARROW [GOC:TermGenie] synonym: "activation of heart chamber morphogenesis" NARROW [GOC:TermGenie] synonym: "positive regulation of heart chamber morphogenesis" EXACT [GOC:TermGenie] synonym: "up regulation of cardiac chamber morphogenesis" EXACT [GOC:TermGenie] synonym: "up regulation of heart chamber morphogenesis" EXACT [GOC:TermGenie] synonym: "up-regulation of cardiac chamber morphogenesis" EXACT [GOC:TermGenie] synonym: "up-regulation of heart chamber morphogenesis" EXACT [GOC:TermGenie] synonym: "upregulation of cardiac chamber morphogenesis" EXACT [GOC:TermGenie] synonym: "upregulation of heart chamber morphogenesis" EXACT [GOC:TermGenie] is_a: GO:0051094 ! positive regulation of developmental process is_a: GO:1901219 ! regulation of cardiac chamber morphogenesis intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0003206 ! cardiac chamber morphogenesis relationship: positively_regulates GO:0003206 ! cardiac chamber morphogenesis created_by: rl creation_date: 2012-08-06T17:59:42Z [Term] id: GO:1901246 name: regulation of lung ciliated cell differentiation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of lung ciliated cell differentiation." [GOC:BHF, GOC:TermGenie] is_a: GO:0030856 ! regulation of epithelial cell differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0061141 ! lung ciliated cell differentiation relationship: regulates GO:0061141 ! lung ciliated cell differentiation created_by: vk creation_date: 2012-08-08T08:58:34Z [Term] id: GO:1901247 name: negative regulation of lung ciliated cell differentiation namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of lung ciliated cell differentiation." [GOC:BHF, GOC:TermGenie] synonym: "down regulation of lung ciliated cell differentiation" EXACT [GOC:TermGenie] synonym: "down-regulation of lung ciliated cell differentiation" EXACT [GOC:TermGenie] synonym: "downregulation of lung ciliated cell differentiation" EXACT [GOC:TermGenie] synonym: "inhibition of lung ciliated cell differentiation" NARROW [GOC:TermGenie] is_a: GO:0030857 ! negative regulation of epithelial cell differentiation is_a: GO:0051241 ! negative regulation of multicellular organismal process is_a: GO:1901246 ! regulation of lung ciliated cell differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0061141 ! lung ciliated cell differentiation relationship: negatively_regulates GO:0061141 ! lung ciliated cell differentiation created_by: vk creation_date: 2012-08-08T08:58:58Z [Term] id: GO:1901248 name: positive regulation of lung ciliated cell differentiation namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of lung ciliated cell differentiation." [GOC:BHF, GOC:TermGenie] synonym: "activation of lung ciliated cell differentiation" NARROW [GOC:TermGenie] synonym: "up regulation of lung ciliated cell differentiation" EXACT [GOC:TermGenie] synonym: "up-regulation of lung ciliated cell differentiation" EXACT [GOC:TermGenie] synonym: "upregulation of lung ciliated cell differentiation" EXACT [GOC:TermGenie] is_a: GO:0030858 ! positive regulation of epithelial cell differentiation is_a: GO:0051240 ! positive regulation of multicellular organismal process is_a: GO:1901246 ! regulation of lung ciliated cell differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0061141 ! lung ciliated cell differentiation relationship: positively_regulates GO:0061141 ! lung ciliated cell differentiation created_by: vk creation_date: 2012-08-08T08:59:05Z [Term] id: GO:1901264 name: carbohydrate derivative transport namespace: biological_process def: "The directed movement of a carbohydrate derivative into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." [GOC:bf, GOC:jl, GOC:TermGenie] is_a: GO:0071702 ! organic substance transport intersection_of: GO:0006810 ! transport intersection_of: transports_or_maintains_localization_of CHEBI:63299 ! carbohydrate derivative relationship: transports_or_maintains_localization_of CHEBI:63299 ! carbohydrate derivative created_by: bf creation_date: 2012-08-16T14:51:22Z [Term] id: GO:1901338 name: catecholamine binding namespace: molecular_function def: "Binding to catecholamine." [GOC:TermGenie] is_a: GO:0097159 ! organic cyclic compound binding intersection_of: GO:0005488 ! binding intersection_of: has_input CHEBI:33567 ! catecholamine relationship: has_input CHEBI:33567 ! catecholamine created_by: bf creation_date: 2012-09-03T14:08:44Z [Term] id: GO:1901342 name: regulation of vasculature development namespace: biological_process def: "Any process that modulates the frequency, rate or extent of vasculature development." [GOC:TermGenie] synonym: "regulation of vascular system development" RELATED [GOC:TermGenie] is_a: GO:2000026 ! regulation of multicellular organismal development intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0001944 ! vasculature development relationship: regulates GO:0001944 ! vasculature development created_by: bf creation_date: 2012-09-06T09:16:15Z [Term] id: GO:1901343 name: negative regulation of vasculature development namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of vasculature development." [GOC:TermGenie] synonym: "down regulation of vascular system development" RELATED [GOC:TermGenie] synonym: "down regulation of vasculature development" EXACT [GOC:TermGenie] synonym: "down-regulation of vascular system development" RELATED [GOC:TermGenie] synonym: "down-regulation of vasculature development" EXACT [GOC:TermGenie] synonym: "downregulation of vascular system development" RELATED [GOC:TermGenie] synonym: "downregulation of vasculature development" EXACT [GOC:TermGenie] synonym: "inhibition of vascular system development" RELATED [GOC:TermGenie] synonym: "inhibition of vasculature development" NARROW [GOC:TermGenie] synonym: "negative regulation of vascular system development" RELATED [GOC:TermGenie] is_a: GO:0051093 ! negative regulation of developmental process is_a: GO:0051241 ! negative regulation of multicellular organismal process is_a: GO:1901342 ! regulation of vasculature development intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0001944 ! vasculature development relationship: negatively_regulates GO:0001944 ! vasculature development created_by: bf creation_date: 2012-09-06T09:17:24Z [Term] id: GO:1901360 name: organic cyclic compound metabolic process namespace: biological_process def: "The chemical reactions and pathways involving organic cyclic compound." [GOC:TermGenie] synonym: "organic cyclic compound metabolism" EXACT [GOC:TermGenie] is_a: GO:0071704 ! organic substance metabolic process intersection_of: GO:0008152 ! metabolic process intersection_of: has_primary_input_or_output CHEBI:33832 ! organic cyclic compound relationship: has_primary_input_or_output CHEBI:33832 ! organic cyclic compound created_by: bf creation_date: 2012-09-14T09:03:51Z [Term] id: GO:1901362 name: organic cyclic compound biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of organic cyclic compound." [GOC:TermGenie] synonym: "organic cyclic compound anabolism" EXACT [GOC:TermGenie] synonym: "organic cyclic compound biosynthesis" EXACT [GOC:TermGenie] synonym: "organic cyclic compound formation" EXACT [GOC:TermGenie] synonym: "organic cyclic compound synthesis" EXACT [GOC:TermGenie] is_a: GO:1901360 ! organic cyclic compound metabolic process is_a: GO:1901576 ! organic substance biosynthetic process intersection_of: GO:0009058 ! biosynthetic process intersection_of: has_primary_output CHEBI:33832 ! organic cyclic compound relationship: has_primary_output CHEBI:33832 ! organic cyclic compound created_by: bf creation_date: 2012-09-14T09:05:22Z [Term] id: GO:1901363 name: heterocyclic compound binding namespace: molecular_function def: "Binding to heterocyclic compound." [GOC:TermGenie] is_a: GO:0005488 ! binding intersection_of: GO:0005488 ! binding intersection_of: has_input CHEBI:5686 ! heterocyclic compound relationship: has_input CHEBI:5686 ! heterocyclic compound created_by: bf creation_date: 2012-09-14T13:53:50Z [Term] id: GO:1901509 name: regulation of endothelial tube morphogenesis namespace: biological_process def: "Any process that modulates the frequency, rate or extent of endothelial tube morphogenesis." [GOC:dph, GOC:TermGenie] is_a: GO:1905330 ! regulation of morphogenesis of an epithelium intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0061154 ! endothelial tube morphogenesis relationship: regulates GO:0061154 ! endothelial tube morphogenesis created_by: dph creation_date: 2012-10-17T14:30:40Z [Term] id: GO:1901532 name: regulation of hematopoietic progenitor cell differentiation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of hematopoietic progenitor cell differentiation." [GOC:BHF, GOC:rl, GOC:TermGenie] synonym: "regulation of haematopoietic progenitor cell differentiation" EXACT [GOC:TermGenie] synonym: "regulation of haemopoietic progenitor cell differentiation" EXACT [GOC:TermGenie] synonym: "regulation of hemopoietic progenitor cell differentiation" EXACT [] is_a: GO:0045595 ! regulation of cell differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0002244 ! hematopoietic progenitor cell differentiation relationship: regulates GO:0002244 ! hematopoietic progenitor cell differentiation created_by: vk creation_date: 2012-10-24T11:23:01Z [Term] id: GO:1901533 name: negative regulation of hematopoietic progenitor cell differentiation namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of hematopoietic progenitor cell differentiation." [GOC:BHF, GOC:rl, GOC:TermGenie] synonym: "down regulation of haematopoietic progenitor cell differentiation" EXACT [GOC:TermGenie] synonym: "down regulation of haemopoietic progenitor cell differentiation" EXACT [GOC:TermGenie] synonym: "down regulation of hematopoietic progenitor cell differentiation" RELATED [GOC:TermGenie] synonym: "down regulation of hemopoietic progenitor cell differentiation" EXACT [GOC:TermGenie] synonym: "down-regulation of haematopoietic progenitor cell differentiation" EXACT [GOC:TermGenie] synonym: "down-regulation of haemopoietic progenitor cell differentiation" EXACT [GOC:TermGenie] synonym: "down-regulation of hematopoietic progenitor cell differentiation" RELATED [GOC:TermGenie] synonym: "down-regulation of hemopoietic progenitor cell differentiation" EXACT [GOC:TermGenie] synonym: "downregulation of haematopoietic progenitor cell differentiation" EXACT [GOC:TermGenie] synonym: "downregulation of haemopoietic progenitor cell differentiation" EXACT [GOC:TermGenie] synonym: "downregulation of hematopoietic progenitor cell differentiation" RELATED [GOC:TermGenie] synonym: "downregulation of hemopoietic progenitor cell differentiation" EXACT [GOC:TermGenie] synonym: "inhibition of haematopoietic progenitor cell differentiation" EXACT [GOC:TermGenie] synonym: "inhibition of haemopoietic progenitor cell differentiation" EXACT [GOC:TermGenie] synonym: "inhibition of hematopoietic progenitor cell differentiation" RELATED [GOC:TermGenie] synonym: "inhibition of hemopoietic progenitor cell differentiation" NARROW [GOC:TermGenie] synonym: "negative regulation of haematopoietic progenitor cell differentiation" EXACT [GOC:TermGenie] synonym: "negative regulation of haemopoietic progenitor cell differentiation" EXACT [GOC:TermGenie] synonym: "negative regulation of hemopoietic progenitor cell differentiation" EXACT [] is_a: GO:0045596 ! negative regulation of cell differentiation is_a: GO:1901532 ! regulation of hematopoietic progenitor cell differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0002244 ! hematopoietic progenitor cell differentiation relationship: negatively_regulates GO:0002244 ! hematopoietic progenitor cell differentiation created_by: vk creation_date: 2012-10-24T11:23:06Z [Term] id: GO:1901534 name: positive regulation of hematopoietic progenitor cell differentiation namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of hematopoietic progenitor cell differentiation." [GOC:BHF, GOC:rl, GOC:TermGenie] synonym: "activation of haematopoietic progenitor cell differentiation" EXACT [GOC:TermGenie] synonym: "activation of haemopoietic progenitor cell differentiation" EXACT [GOC:TermGenie] synonym: "activation of hematopoietic progenitor cell differentiation" RELATED [GOC:TermGenie] synonym: "activation of hemopoietic progenitor cell differentiation" NARROW [GOC:TermGenie] synonym: "positive regulation of haematopoietic progenitor cell differentiation" EXACT [GOC:TermGenie] synonym: "positive regulation of haemopoietic progenitor cell differentiation" EXACT [GOC:TermGenie] synonym: "positive regulation of hemopoietic progenitor cell differentiation" EXACT [] synonym: "up regulation of haematopoietic progenitor cell differentiation" EXACT [GOC:TermGenie] synonym: "up regulation of haemopoietic progenitor cell differentiation" EXACT [GOC:TermGenie] synonym: "up regulation of hematopoietic progenitor cell differentiation" RELATED [GOC:TermGenie] synonym: "up regulation of hemopoietic progenitor cell differentiation" EXACT [GOC:TermGenie] synonym: "up-regulation of haematopoietic progenitor cell differentiation" EXACT [GOC:TermGenie] synonym: "up-regulation of haemopoietic progenitor cell differentiation" EXACT [GOC:TermGenie] synonym: "up-regulation of hematopoietic progenitor cell differentiation" RELATED [GOC:TermGenie] synonym: "up-regulation of hemopoietic progenitor cell differentiation" EXACT [GOC:TermGenie] synonym: "upregulation of haematopoietic progenitor cell differentiation" EXACT [GOC:TermGenie] synonym: "upregulation of haemopoietic progenitor cell differentiation" EXACT [GOC:TermGenie] synonym: "upregulation of hematopoietic progenitor cell differentiation" RELATED [GOC:TermGenie] synonym: "upregulation of hemopoietic progenitor cell differentiation" EXACT [GOC:TermGenie] is_a: GO:0045597 ! positive regulation of cell differentiation is_a: GO:1901532 ! regulation of hematopoietic progenitor cell differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0002244 ! hematopoietic progenitor cell differentiation relationship: positively_regulates GO:0002244 ! hematopoietic progenitor cell differentiation created_by: vk creation_date: 2012-10-24T11:23:14Z [Term] id: GO:1901550 name: regulation of endothelial cell development namespace: biological_process def: "Any process that modulates the frequency, rate or extent of endothelial cell development." [GOC:pr, GOC:TermGenie, PMID:19470579] is_a: GO:0045601 ! regulation of endothelial cell differentiation is_a: GO:0060284 ! regulation of cell development intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0001885 ! endothelial cell development relationship: regulates GO:0001885 ! endothelial cell development created_by: pr creation_date: 2012-10-30T12:59:50Z [Term] id: GO:1901551 name: negative regulation of endothelial cell development namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of endothelial cell development." [GOC:pr, GOC:TermGenie, PMID:19470579] synonym: "down regulation of endothelial cell development" EXACT [GOC:TermGenie] synonym: "down-regulation of endothelial cell development" EXACT [GOC:TermGenie] synonym: "downregulation of endothelial cell development" EXACT [GOC:TermGenie] synonym: "inhibition of endothelial cell development" NARROW [GOC:TermGenie] is_a: GO:0010721 ! negative regulation of cell development is_a: GO:0045602 ! negative regulation of endothelial cell differentiation is_a: GO:1901550 ! regulation of endothelial cell development intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0001885 ! endothelial cell development relationship: negatively_regulates GO:0001885 ! endothelial cell development created_by: pr creation_date: 2012-10-30T12:59:54Z [Term] id: GO:1901552 name: positive regulation of endothelial cell development namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of endothelial cell development." [GOC:pr, GOC:TermGenie, PMID:19470579] synonym: "activation of endothelial cell development" NARROW [GOC:TermGenie] synonym: "up regulation of endothelial cell development" EXACT [GOC:TermGenie] synonym: "up-regulation of endothelial cell development" EXACT [GOC:TermGenie] synonym: "upregulation of endothelial cell development" EXACT [GOC:TermGenie] is_a: GO:0010720 ! positive regulation of cell development is_a: GO:1901550 ! regulation of endothelial cell development intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0001885 ! endothelial cell development relationship: positively_regulates GO:0001885 ! endothelial cell development created_by: pr creation_date: 2012-10-30T12:59:58Z [Term] id: GO:1901564 name: organonitrogen compound metabolic process namespace: biological_process def: "The chemical reactions and pathways involving organonitrogen compound." [GOC:pr, GOC:TermGenie] synonym: "organonitrogen compound metabolism" EXACT [GOC:TermGenie] is_a: GO:0006807 ! nitrogen compound metabolic process is_a: GO:0071704 ! organic substance metabolic process intersection_of: GO:0008152 ! metabolic process intersection_of: has_primary_input_or_output CHEBI:35352 ! organonitrogen compound relationship: has_primary_input_or_output CHEBI:35352 ! organonitrogen compound created_by: pr creation_date: 2012-11-04T15:17:52Z [Term] id: GO:1901566 name: organonitrogen compound biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of organonitrogen compound." [GOC:pr, GOC:TermGenie] synonym: "organonitrogen compound anabolism" EXACT [GOC:TermGenie] synonym: "organonitrogen compound biosynthesis" EXACT [GOC:TermGenie] synonym: "organonitrogen compound formation" EXACT [GOC:TermGenie] synonym: "organonitrogen compound synthesis" EXACT [GOC:TermGenie] is_a: GO:1901564 ! organonitrogen compound metabolic process is_a: GO:1901576 ! organic substance biosynthetic process intersection_of: GO:0009058 ! biosynthetic process intersection_of: has_primary_output CHEBI:35352 ! organonitrogen compound relationship: has_primary_output CHEBI:35352 ! organonitrogen compound created_by: pr creation_date: 2012-11-04T15:18:00Z [Term] id: GO:1901576 name: organic substance biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of an organic substance, any molecular entity containing carbon." [GOC:pr, GOC:TermGenie] synonym: "organic molecular entity anabolism" EXACT [GOC:TermGenie] synonym: "organic molecular entity biosynthesis" EXACT [GOC:TermGenie] synonym: "organic molecular entity biosynthetic process" EXACT [] synonym: "organic molecular entity formation" EXACT [GOC:TermGenie] synonym: "organic molecular entity synthesis" EXACT [GOC:TermGenie] synonym: "organic substance anabolism" EXACT [] synonym: "organic substance biosynthesis" EXACT [] synonym: "organic substance formation" EXACT [] synonym: "organic substance synthesis" EXACT [] is_a: GO:0009058 ! biosynthetic process is_a: GO:0071704 ! organic substance metabolic process intersection_of: GO:0009058 ! biosynthetic process intersection_of: has_primary_output CHEBI:50860 ! organic molecular entity relationship: has_primary_output CHEBI:50860 ! organic molecular entity created_by: pr creation_date: 2012-11-05T11:04:40Z [Term] id: GO:1901605 name: alpha-amino acid metabolic process namespace: biological_process def: "The chemical reactions and pathways involving an alpha-amino acid." [GOC:TermGenie] synonym: "alpha-amino acid metabolism" EXACT [GOC:TermGenie] is_a: GO:0006520 ! cellular amino acid metabolic process intersection_of: GO:0008152 ! metabolic process intersection_of: has_primary_input_or_output CHEBI:33704 ! alpha-amino acid relationship: has_primary_input_or_output CHEBI:33704 ! alpha-amino acid created_by: tb creation_date: 2012-11-08T17:39:50Z [Term] id: GO:1901607 name: alpha-amino acid biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of an alpha-amino acid." [GOC:TermGenie] synonym: "alpha-amino acid anabolism" EXACT [GOC:TermGenie] synonym: "alpha-amino acid biosynthesis" EXACT [GOC:TermGenie] synonym: "alpha-amino acid formation" EXACT [GOC:TermGenie] synonym: "alpha-amino acid synthesis" EXACT [GOC:TermGenie] is_a: GO:0008652 ! cellular amino acid biosynthetic process is_a: GO:1901605 ! alpha-amino acid metabolic process intersection_of: GO:0009058 ! biosynthetic process intersection_of: has_primary_output CHEBI:33704 ! alpha-amino acid relationship: has_primary_output CHEBI:33704 ! alpha-amino acid created_by: tb creation_date: 2012-11-08T17:39:58Z [Term] id: GO:1901608 name: regulation of vesicle transport along microtubule namespace: biological_process def: "Any process that modulates the frequency, rate or extent of vesicle transport along microtubule." [GOC:TermGenie] synonym: "regulation of microtubule-based vesicle localization" EXACT [GOC:TermGenie] is_a: GO:1902513 ! regulation of organelle transport along microtubule intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0047496 ! vesicle transport along microtubule relationship: regulates GO:0047496 ! vesicle transport along microtubule created_by: hjd creation_date: 2012-11-08T21:49:44Z [Term] id: GO:1901609 name: negative regulation of vesicle transport along microtubule namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of vesicle transport along microtubule." [GOC:TermGenie] synonym: "down regulation of microtubule-based vesicle localization" EXACT [GOC:TermGenie] synonym: "down regulation of vesicle transport along microtubule" EXACT [GOC:TermGenie] synonym: "down-regulation of microtubule-based vesicle localization" EXACT [GOC:TermGenie] synonym: "down-regulation of vesicle transport along microtubule" EXACT [GOC:TermGenie] synonym: "downregulation of microtubule-based vesicle localization" EXACT [GOC:TermGenie] synonym: "downregulation of vesicle transport along microtubule" EXACT [GOC:TermGenie] synonym: "inhibition of microtubule-based vesicle localization" EXACT [GOC:TermGenie] synonym: "inhibition of vesicle transport along microtubule" NARROW [GOC:TermGenie] synonym: "negative regulation of microtubule-based vesicle localization" EXACT [GOC:TermGenie] is_a: GO:0032387 ! negative regulation of intracellular transport is_a: GO:0051271 ! negative regulation of cellular component movement is_a: GO:1901608 ! regulation of vesicle transport along microtubule intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0047496 ! vesicle transport along microtubule relationship: negatively_regulates GO:0047496 ! vesicle transport along microtubule created_by: hjd creation_date: 2012-11-08T21:49:48Z [Term] id: GO:1901610 name: positive regulation of vesicle transport along microtubule namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of vesicle transport along microtubule." [GOC:TermGenie] synonym: "activation of microtubule-based vesicle localization" EXACT [GOC:TermGenie] synonym: "activation of vesicle transport along microtubule" NARROW [GOC:TermGenie] synonym: "positive regulation of microtubule-based vesicle localization" EXACT [GOC:TermGenie] synonym: "up regulation of microtubule-based vesicle localization" EXACT [GOC:TermGenie] synonym: "up regulation of vesicle transport along microtubule" EXACT [GOC:TermGenie] synonym: "up-regulation of microtubule-based vesicle localization" EXACT [GOC:TermGenie] synonym: "up-regulation of vesicle transport along microtubule" EXACT [GOC:TermGenie] synonym: "upregulation of microtubule-based vesicle localization" EXACT [GOC:TermGenie] synonym: "upregulation of vesicle transport along microtubule" EXACT [GOC:TermGenie] is_a: GO:0032388 ! positive regulation of intracellular transport is_a: GO:0051272 ! positive regulation of cellular component movement is_a: GO:1901608 ! regulation of vesicle transport along microtubule intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0047496 ! vesicle transport along microtubule relationship: positively_regulates GO:0047496 ! vesicle transport along microtubule created_by: hjd creation_date: 2012-11-08T21:49:53Z [Term] id: GO:1901615 name: organic hydroxy compound metabolic process namespace: biological_process def: "The chemical reactions and pathways involving organic hydroxy compound." [GOC:pr, GOC:TermGenie] synonym: "organic hydroxy compound metabolism" EXACT [GOC:TermGenie] is_a: GO:0071704 ! organic substance metabolic process intersection_of: GO:0008152 ! metabolic process intersection_of: has_primary_input_or_output CHEBI:33822 ! organic hydroxy compound relationship: has_primary_input_or_output CHEBI:33822 ! organic hydroxy compound created_by: pr creation_date: 2012-11-13T12:54:27Z [Term] id: GO:1901617 name: organic hydroxy compound biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of organic hydroxy compound." [GOC:pr, GOC:TermGenie] synonym: "organic hydroxy compound anabolism" EXACT [GOC:TermGenie] synonym: "organic hydroxy compound biosynthesis" EXACT [GOC:TermGenie] synonym: "organic hydroxy compound formation" EXACT [GOC:TermGenie] synonym: "organic hydroxy compound synthesis" EXACT [GOC:TermGenie] is_a: GO:1901576 ! organic substance biosynthetic process is_a: GO:1901615 ! organic hydroxy compound metabolic process intersection_of: GO:0009058 ! biosynthetic process intersection_of: has_primary_output CHEBI:33822 ! organic hydroxy compound relationship: has_primary_output CHEBI:33822 ! organic hydroxy compound created_by: pr creation_date: 2012-11-13T12:54:36Z [Term] id: GO:1901652 name: response to peptide namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a peptide stimulus." [GOC:pr, GOC:TermGenie] is_a: GO:0010243 ! response to organonitrogen compound is_a: GO:1901700 ! response to oxygen-containing compound intersection_of: GO:0050896 ! response to stimulus intersection_of: has_input CHEBI:16670 ! peptide relationship: has_input CHEBI:16670 ! peptide created_by: pr creation_date: 2012-11-20T09:45:15Z [Term] id: GO:1901654 name: response to ketone namespace: biological_process alt_id: GO:1990369 def: "A response that results in a state of tolerance to ketone." [GOC:mengo_curators, PMID:23356676] synonym: "process resulting in tolerance to ketone" NARROW [] is_a: GO:0010033 ! response to organic substance is_a: GO:1901700 ! response to oxygen-containing compound intersection_of: GO:0050896 ! response to stimulus intersection_of: has_input CHEBI:17087 ! ketone relationship: has_input CHEBI:17087 ! ketone created_by: pr creation_date: 2012-11-20T10:55:47Z [Term] id: GO:1901681 name: sulfur compound binding namespace: molecular_function def: "Binding to a sulfur compound." [GOC:pr, GOC:TermGenie] synonym: "sulfur molecular entity binding" EXACT [] is_a: GO:0005488 ! binding intersection_of: GO:0005488 ! binding intersection_of: has_input CHEBI:26835 ! sulfur molecular entity relationship: has_input CHEBI:26835 ! sulfur molecular entity created_by: pr creation_date: 2012-11-26T20:45:23Z [Term] id: GO:1901692 name: regulation of compound eye retinal cell apoptotic process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of compound eye retinal cell apoptotic process." [GOC:mtg_apoptosis, GOC:TermGenie, PMID:12021768] is_a: GO:0042981 ! regulation of apoptotic process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:1990010 ! compound eye retinal cell apoptotic process relationship: regulates GO:1990010 ! compound eye retinal cell apoptotic process created_by: pr creation_date: 2012-12-12T10:28:35Z [Term] id: GO:1901693 name: negative regulation of compound eye retinal cell apoptotic process namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of compound eye retinal cell apoptotic process." [GOC:mtg_apoptosis, GOC:TermGenie, PMID:12021768] synonym: "down regulation of compound eye retinal cell apoptotic process" EXACT [GOC:TermGenie] synonym: "down-regulation of compound eye retinal cell apoptotic process" EXACT [GOC:TermGenie] synonym: "downregulation of compound eye retinal cell apoptotic process" EXACT [GOC:TermGenie] synonym: "inhibition of compound eye retinal cell apoptotic process" NARROW [GOC:TermGenie] is_a: GO:0043066 ! negative regulation of apoptotic process is_a: GO:1901692 ! regulation of compound eye retinal cell apoptotic process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:1990010 ! compound eye retinal cell apoptotic process relationship: negatively_regulates GO:1990010 ! compound eye retinal cell apoptotic process created_by: pr creation_date: 2012-12-12T10:28:40Z [Term] id: GO:1901694 name: positive regulation of compound eye retinal cell apoptotic process namespace: biological_process alt_id: GO:0046675 def: "Any process that activates or increases the frequency, rate or extent of compound eye retinal cell apoptotic process." [GOC:mtg_apoptosis, GOC:TermGenie, PMID:12021768] synonym: "activation of compound eye retinal cell apoptotic process" NARROW [GOC:TermGenie] synonym: "induction of compound eye retinal cell programmed cell death" RELATED [] synonym: "up regulation of compound eye retinal cell apoptotic process" EXACT [GOC:TermGenie] synonym: "up-regulation of compound eye retinal cell apoptotic process" EXACT [GOC:TermGenie] synonym: "upregulation of compound eye retinal cell apoptotic process" EXACT [GOC:TermGenie] is_a: GO:0043065 ! positive regulation of apoptotic process is_a: GO:0046672 ! positive regulation of compound eye retinal cell programmed cell death is_a: GO:1901692 ! regulation of compound eye retinal cell apoptotic process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:1990010 ! compound eye retinal cell apoptotic process relationship: positively_regulates GO:1990010 ! compound eye retinal cell apoptotic process created_by: pr creation_date: 2012-12-12T10:28:45Z [Term] id: GO:1901698 name: response to nitrogen compound namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a nitrogen compound stimulus." [GOC:pr, GOC:TermGenie] synonym: "response to nitrogen molecular entity" EXACT [] is_a: GO:0042221 ! response to chemical intersection_of: GO:0050896 ! response to stimulus intersection_of: has_input CHEBI:51143 ! nitrogen molecular entity relationship: has_input CHEBI:51143 ! nitrogen molecular entity created_by: pr creation_date: 2012-12-13T15:06:08Z [Term] id: GO:1901700 name: response to oxygen-containing compound namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an oxygen-containing compound stimulus." [GOC:pr, GOC:TermGenie] synonym: "response to oxygen molecular entity" EXACT [] is_a: GO:0042221 ! response to chemical intersection_of: GO:0050896 ! response to stimulus intersection_of: has_input CHEBI:25806 ! oxygen molecular entity relationship: has_input CHEBI:25806 ! oxygen molecular entity created_by: pr creation_date: 2012-12-13T15:11:37Z [Term] id: GO:1901706 name: mesenchymal cell differentiation involved in bone development namespace: biological_process def: "The process in which relatively unspecialized cells acquire specialized structural and/or functional features that characterize the mesenchymal cells of bone as it progresses from its formation to the mature state." [GOC:hjd, GOC:TermGenie, PMID:21571217] is_a: GO:0048762 ! mesenchymal cell differentiation intersection_of: GO:0048762 ! mesenchymal cell differentiation intersection_of: part_of GO:0060348 ! bone development relationship: part_of GO:0060348 ! bone development created_by: hjd creation_date: 2012-12-14T16:04:16Z [Term] id: GO:1901861 name: regulation of muscle tissue development namespace: biological_process def: "Any process that modulates the frequency, rate or extent of muscle tissue development." [GOC:TermGenie, GOC:yaf, PMID:23150719] is_a: GO:0050793 ! regulation of developmental process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0060537 ! muscle tissue development relationship: regulates GO:0060537 ! muscle tissue development created_by: yaf creation_date: 2013-02-01T10:30:47Z [Term] id: GO:1901862 name: negative regulation of muscle tissue development namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of muscle tissue development." [GOC:TermGenie, GOC:yaf, PMID:23150719] synonym: "down regulation of muscle tissue development" EXACT [GOC:TermGenie] synonym: "down-regulation of muscle tissue development" EXACT [GOC:TermGenie] synonym: "downregulation of muscle tissue development" EXACT [GOC:TermGenie] synonym: "inhibition of muscle tissue development" NARROW [GOC:TermGenie] is_a: GO:0051093 ! negative regulation of developmental process is_a: GO:1901861 ! regulation of muscle tissue development intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0060537 ! muscle tissue development relationship: negatively_regulates GO:0060537 ! muscle tissue development created_by: yaf creation_date: 2013-02-01T10:30:52Z [Term] id: GO:1901863 name: positive regulation of muscle tissue development namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of muscle tissue development." [GOC:TermGenie, GOC:yaf, PMID:23150719] synonym: "activation of muscle tissue development" NARROW [GOC:TermGenie] synonym: "up regulation of muscle tissue development" EXACT [GOC:TermGenie] synonym: "up-regulation of muscle tissue development" EXACT [GOC:TermGenie] synonym: "upregulation of muscle tissue development" EXACT [GOC:TermGenie] is_a: GO:0051094 ! positive regulation of developmental process is_a: GO:1901861 ! regulation of muscle tissue development intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0060537 ! muscle tissue development relationship: positively_regulates GO:0060537 ! muscle tissue development created_by: yaf creation_date: 2013-02-01T10:30:57Z [Term] id: GO:1901879 name: regulation of protein depolymerization namespace: biological_process def: "Any process that modulates the frequency, rate or extent of protein depolymerization." [GOC:BHF, GOC:rl, GOC:TermGenie, PMID:12032137] synonym: "regulation of protein polymer breakdown" EXACT [GOC:TermGenie] synonym: "regulation of protein polymer catabolic process" EXACT [GOC:TermGenie] synonym: "regulation of protein polymer catabolism" EXACT [GOC:TermGenie] synonym: "regulation of protein polymer degradation" EXACT [GOC:TermGenie] is_a: GO:0043244 ! regulation of protein-containing complex disassembly intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0051261 ! protein depolymerization relationship: regulates GO:0051261 ! protein depolymerization created_by: rl creation_date: 2013-02-06T13:57:23Z [Term] id: GO:1901880 name: negative regulation of protein depolymerization namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of protein depolymerization." [GOC:BHF, GOC:rl, GOC:TermGenie, PMID:12032137] synonym: "down regulation of protein depolymerization" EXACT [GOC:TermGenie] synonym: "down regulation of protein polymer breakdown" EXACT [GOC:TermGenie] synonym: "down regulation of protein polymer catabolic process" EXACT [GOC:TermGenie] synonym: "down regulation of protein polymer catabolism" EXACT [GOC:TermGenie] synonym: "down regulation of protein polymer degradation" EXACT [GOC:TermGenie] synonym: "down-regulation of protein depolymerization" EXACT [GOC:TermGenie] synonym: "down-regulation of protein polymer breakdown" EXACT [GOC:TermGenie] synonym: "down-regulation of protein polymer catabolic process" EXACT [GOC:TermGenie] synonym: "down-regulation of protein polymer catabolism" EXACT [GOC:TermGenie] synonym: "down-regulation of protein polymer degradation" EXACT [GOC:TermGenie] synonym: "downregulation of protein depolymerization" EXACT [GOC:TermGenie] synonym: "downregulation of protein polymer breakdown" EXACT [GOC:TermGenie] synonym: "downregulation of protein polymer catabolic process" EXACT [GOC:TermGenie] synonym: "downregulation of protein polymer catabolism" EXACT [GOC:TermGenie] synonym: "downregulation of protein polymer degradation" EXACT [GOC:TermGenie] synonym: "inhibition of protein depolymerization" NARROW [GOC:TermGenie] synonym: "inhibition of protein polymer breakdown" EXACT [GOC:TermGenie] synonym: "inhibition of protein polymer catabolic process" EXACT [GOC:TermGenie] synonym: "inhibition of protein polymer catabolism" EXACT [GOC:TermGenie] synonym: "inhibition of protein polymer degradation" EXACT [GOC:TermGenie] synonym: "negative regulation of protein polymer breakdown" EXACT [GOC:TermGenie] synonym: "negative regulation of protein polymer catabolic process" EXACT [GOC:TermGenie] synonym: "negative regulation of protein polymer catabolism" EXACT [GOC:TermGenie] synonym: "negative regulation of protein polymer degradation" EXACT [GOC:TermGenie] is_a: GO:0043242 ! negative regulation of protein-containing complex disassembly is_a: GO:1901879 ! regulation of protein depolymerization intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0051261 ! protein depolymerization relationship: negatively_regulates GO:0051261 ! protein depolymerization created_by: rl creation_date: 2013-02-06T13:57:28Z [Term] id: GO:1901881 name: positive regulation of protein depolymerization namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of protein depolymerization." [GOC:BHF, GOC:rl, GOC:TermGenie, PMID:12032137] synonym: "activation of protein depolymerization" NARROW [GOC:TermGenie] synonym: "activation of protein polymer breakdown" EXACT [GOC:TermGenie] synonym: "activation of protein polymer catabolic process" EXACT [GOC:TermGenie] synonym: "activation of protein polymer catabolism" EXACT [GOC:TermGenie] synonym: "activation of protein polymer degradation" EXACT [GOC:TermGenie] synonym: "positive regulation of protein polymer breakdown" EXACT [GOC:TermGenie] synonym: "positive regulation of protein polymer catabolic process" EXACT [GOC:TermGenie] synonym: "positive regulation of protein polymer catabolism" EXACT [GOC:TermGenie] synonym: "positive regulation of protein polymer degradation" EXACT [GOC:TermGenie] synonym: "up regulation of protein depolymerization" EXACT [GOC:TermGenie] synonym: "up regulation of protein polymer breakdown" EXACT [GOC:TermGenie] synonym: "up regulation of protein polymer catabolic process" EXACT [GOC:TermGenie] synonym: "up regulation of protein polymer catabolism" EXACT [GOC:TermGenie] synonym: "up regulation of protein polymer degradation" EXACT [GOC:TermGenie] synonym: "up-regulation of protein depolymerization" EXACT [GOC:TermGenie] synonym: "up-regulation of protein polymer breakdown" EXACT [GOC:TermGenie] synonym: "up-regulation of protein polymer catabolic process" EXACT [GOC:TermGenie] synonym: "up-regulation of protein polymer catabolism" EXACT [GOC:TermGenie] synonym: "up-regulation of protein polymer degradation" EXACT [GOC:TermGenie] synonym: "upregulation of protein depolymerization" EXACT [GOC:TermGenie] synonym: "upregulation of protein polymer breakdown" EXACT [GOC:TermGenie] synonym: "upregulation of protein polymer catabolic process" EXACT [GOC:TermGenie] synonym: "upregulation of protein polymer catabolism" EXACT [GOC:TermGenie] synonym: "upregulation of protein polymer degradation" EXACT [GOC:TermGenie] is_a: GO:0043243 ! positive regulation of protein-containing complex disassembly is_a: GO:1901879 ! regulation of protein depolymerization intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0051261 ! protein depolymerization relationship: positively_regulates GO:0051261 ! protein depolymerization created_by: rl creation_date: 2013-02-06T13:57:32Z [Term] id: GO:1901888 name: regulation of cell junction assembly namespace: biological_process def: "Any process that modulates the frequency, rate or extent of cell junction assembly." [GOC:TermGenie] is_a: GO:0044087 ! regulation of cellular component biogenesis is_a: GO:0051128 ! regulation of cellular component organization intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0034329 ! cell junction assembly relationship: regulates GO:0034329 ! cell junction assembly created_by: tb creation_date: 2013-02-06T19:40:32Z [Term] id: GO:1901889 name: negative regulation of cell junction assembly namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of cell junction assembly." [GOC:TermGenie] synonym: "down regulation of cell junction assembly" EXACT [GOC:TermGenie] synonym: "down-regulation of cell junction assembly" EXACT [GOC:TermGenie] synonym: "downregulation of cell junction assembly" EXACT [GOC:TermGenie] synonym: "inhibition of cell junction assembly" NARROW [GOC:TermGenie] is_a: GO:0051129 ! negative regulation of cellular component organization is_a: GO:1901888 ! regulation of cell junction assembly intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0034329 ! cell junction assembly relationship: negatively_regulates GO:0034329 ! cell junction assembly created_by: tb creation_date: 2013-02-06T19:40:41Z [Term] id: GO:1901890 name: positive regulation of cell junction assembly namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of cell junction assembly." [GOC:TermGenie] synonym: "activation of cell junction assembly" NARROW [GOC:TermGenie] synonym: "up regulation of cell junction assembly" EXACT [GOC:TermGenie] synonym: "up-regulation of cell junction assembly" EXACT [GOC:TermGenie] synonym: "upregulation of cell junction assembly" EXACT [GOC:TermGenie] is_a: GO:0044089 ! positive regulation of cellular component biogenesis is_a: GO:0051130 ! positive regulation of cellular component organization is_a: GO:1901888 ! regulation of cell junction assembly intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0034329 ! cell junction assembly relationship: positively_regulates GO:0034329 ! cell junction assembly created_by: tb creation_date: 2013-02-06T19:40:46Z [Term] id: GO:1901963 name: regulation of cell proliferation involved in outflow tract morphogenesis namespace: biological_process def: "Any process that modulates the frequency, rate or extent of cell proliferation involved in outflow tract morphogenesis." [GOC:dph, GOC:mtg_heart, GOC:TermGenie, PMID:21419760] is_a: GO:2000136 ! regulation of cell proliferation involved in heart morphogenesis intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0061325 ! cell proliferation involved in outflow tract morphogenesis relationship: regulates GO:0061325 ! cell proliferation involved in outflow tract morphogenesis created_by: dph creation_date: 2013-02-20T20:30:26Z [Term] id: GO:1901964 name: positive regulation of cell proliferation involved in outflow tract morphogenesis namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of cell proliferation involved in outflow tract morphogenesis." [GOC:dph, GOC:mtg_heart, GOC:TermGenie, PMID:21419760] synonym: "activation of cell proliferation involved in outflow tract morphogenesis" NARROW [GOC:TermGenie] synonym: "up regulation of cell proliferation involved in outflow tract morphogenesis" EXACT [GOC:TermGenie] synonym: "up-regulation of cell proliferation involved in outflow tract morphogenesis" EXACT [GOC:TermGenie] synonym: "upregulation of cell proliferation involved in outflow tract morphogenesis" EXACT [GOC:TermGenie] is_a: GO:1901963 ! regulation of cell proliferation involved in outflow tract morphogenesis is_a: GO:2000138 ! positive regulation of cell proliferation involved in heart morphogenesis intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0061325 ! cell proliferation involved in outflow tract morphogenesis relationship: positively_regulates GO:0061325 ! cell proliferation involved in outflow tract morphogenesis created_by: dph creation_date: 2013-02-20T20:30:31Z [Term] id: GO:1902017 name: regulation of cilium assembly namespace: biological_process def: "Any process that modulates the frequency, rate or extent of cilium assembly." [GOC:cilia, GOC:dph, GOC:TermGenie, PMID:17719545] synonym: "regulation of ciliogenesis" EXACT [GOC:TermGenie] synonym: "regulation of cilium biogenesis" RELATED [GOC:TermGenie] is_a: GO:0120032 ! regulation of plasma membrane bounded cell projection assembly is_a: GO:1902115 ! regulation of organelle assembly intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0060271 ! cilium assembly relationship: regulates GO:0060271 ! cilium assembly created_by: dph creation_date: 2013-03-26T18:10:51Z [Term] id: GO:1902018 name: negative regulation of cilium assembly namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of cilium assembly." [GOC:cilia, GOC:dph, GOC:TermGenie, PMID:17719545] synonym: "down regulation of ciliogenesis" EXACT [GOC:TermGenie] synonym: "down regulation of cilium assembly" EXACT [GOC:TermGenie] synonym: "down regulation of cilium biogenesis" RELATED [GOC:TermGenie] synonym: "down-regulation of ciliogenesis" EXACT [GOC:TermGenie] synonym: "down-regulation of cilium assembly" EXACT [GOC:TermGenie] synonym: "down-regulation of cilium biogenesis" RELATED [GOC:TermGenie] synonym: "downregulation of ciliogenesis" EXACT [GOC:TermGenie] synonym: "downregulation of cilium assembly" EXACT [GOC:TermGenie] synonym: "downregulation of cilium biogenesis" RELATED [GOC:TermGenie] synonym: "inhibition of ciliogenesis" EXACT [GOC:TermGenie] synonym: "inhibition of cilium assembly" NARROW [GOC:TermGenie] synonym: "inhibition of cilium biogenesis" RELATED [GOC:TermGenie] synonym: "negative regulation of ciliogenesis" EXACT [GOC:TermGenie] synonym: "negative regulation of cilium biogenesis" RELATED [GOC:TermGenie] is_a: GO:0120033 ! negative regulation of plasma membrane bounded cell projection assembly is_a: GO:1902017 ! regulation of cilium assembly is_a: GO:1902116 ! negative regulation of organelle assembly intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0060271 ! cilium assembly relationship: negatively_regulates GO:0060271 ! cilium assembly created_by: dph creation_date: 2013-03-26T18:10:56Z [Term] id: GO:1902033 name: regulation of hematopoietic stem cell proliferation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of hematopoietic stem cell proliferation." [GOC:TermGenie, PMID:23403623] synonym: "regulation of hemopoietic stem cell proliferation" EXACT [GOC:TermGenie] is_a: GO:0072091 ! regulation of stem cell proliferation intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0071425 ! hematopoietic stem cell proliferation relationship: regulates GO:0071425 ! hematopoietic stem cell proliferation created_by: ss creation_date: 2013-04-02T05:13:19Z [Term] id: GO:1902034 name: negative regulation of hematopoietic stem cell proliferation namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of hematopoietic stem cell proliferation." [GOC:TermGenie, PMID:23403623] synonym: "down regulation of hematopoietic stem cell proliferation" EXACT [GOC:TermGenie] synonym: "down regulation of hemopoietic stem cell proliferation" EXACT [GOC:TermGenie] synonym: "down-regulation of hematopoietic stem cell proliferation" EXACT [GOC:TermGenie] synonym: "down-regulation of hemopoietic stem cell proliferation" EXACT [GOC:TermGenie] synonym: "downregulation of hematopoietic stem cell proliferation" EXACT [GOC:TermGenie] synonym: "downregulation of hemopoietic stem cell proliferation" EXACT [GOC:TermGenie] synonym: "inhibition of hematopoietic stem cell proliferation" NARROW [GOC:TermGenie] synonym: "inhibition of hemopoietic stem cell proliferation" NARROW [GOC:TermGenie] synonym: "negative regulation of hemopoietic stem cell proliferation" EXACT [GOC:TermGenie] is_a: GO:1902033 ! regulation of hematopoietic stem cell proliferation is_a: GO:1903707 ! negative regulation of hemopoiesis is_a: GO:2000647 ! negative regulation of stem cell proliferation intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0071425 ! hematopoietic stem cell proliferation relationship: negatively_regulates GO:0071425 ! hematopoietic stem cell proliferation created_by: ss creation_date: 2013-04-02T05:13:24Z [Term] id: GO:1902035 name: positive regulation of hematopoietic stem cell proliferation namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of hematopoietic stem cell proliferation." [GOC:TermGenie, PMID:23403623] synonym: "activation of hematopoietic stem cell proliferation" NARROW [GOC:TermGenie] synonym: "activation of hemopoietic stem cell proliferation" NARROW [GOC:TermGenie] synonym: "positive regulation of hemopoietic stem cell proliferation" EXACT [GOC:TermGenie] synonym: "up regulation of hematopoietic stem cell proliferation" EXACT [GOC:TermGenie] synonym: "up regulation of hemopoietic stem cell proliferation" EXACT [GOC:TermGenie] synonym: "up-regulation of hematopoietic stem cell proliferation" EXACT [GOC:TermGenie] synonym: "up-regulation of hemopoietic stem cell proliferation" EXACT [GOC:TermGenie] synonym: "upregulation of hematopoietic stem cell proliferation" EXACT [GOC:TermGenie] synonym: "upregulation of hemopoietic stem cell proliferation" EXACT [GOC:TermGenie] is_a: GO:1902033 ! regulation of hematopoietic stem cell proliferation is_a: GO:2000648 ! positive regulation of stem cell proliferation intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0071425 ! hematopoietic stem cell proliferation relationship: positively_regulates GO:0071425 ! hematopoietic stem cell proliferation created_by: ss creation_date: 2013-04-02T05:13:31Z [Term] id: GO:1902036 name: regulation of hematopoietic stem cell differentiation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of hematopoietic stem cell differentiation." [GOC:TermGenie, PMID:23403623] synonym: "regulation of haematopoietic stem cell differentiation" EXACT [GOC:TermGenie] synonym: "regulation of haemopoietic stem cell differentiation" EXACT [GOC:TermGenie] synonym: "regulation of hemopoietic stem cell differentiation" EXACT [GOC:TermGenie] is_a: GO:1901532 ! regulation of hematopoietic progenitor cell differentiation is_a: GO:2000736 ! regulation of stem cell differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0060218 ! hematopoietic stem cell differentiation relationship: regulates GO:0060218 ! hematopoietic stem cell differentiation created_by: ss creation_date: 2013-04-02T05:19:09Z [Term] id: GO:1902037 name: negative regulation of hematopoietic stem cell differentiation namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of hematopoietic stem cell differentiation." [GOC:TermGenie, PMID:23403623] synonym: "down regulation of haematopoietic stem cell differentiation" EXACT [GOC:TermGenie] synonym: "down regulation of haemopoietic stem cell differentiation" EXACT [GOC:TermGenie] synonym: "down regulation of hematopoietic stem cell differentiation" EXACT [GOC:TermGenie] synonym: "down regulation of hemopoietic stem cell differentiation" EXACT [GOC:TermGenie] synonym: "down-regulation of haematopoietic stem cell differentiation" EXACT [GOC:TermGenie] synonym: "down-regulation of haemopoietic stem cell differentiation" EXACT [GOC:TermGenie] synonym: "down-regulation of hematopoietic stem cell differentiation" EXACT [GOC:TermGenie] synonym: "down-regulation of hemopoietic stem cell differentiation" EXACT [GOC:TermGenie] synonym: "downregulation of haematopoietic stem cell differentiation" EXACT [GOC:TermGenie] synonym: "downregulation of haemopoietic stem cell differentiation" EXACT [GOC:TermGenie] synonym: "downregulation of hematopoietic stem cell differentiation" EXACT [GOC:TermGenie] synonym: "downregulation of hemopoietic stem cell differentiation" EXACT [GOC:TermGenie] synonym: "inhibition of haematopoietic stem cell differentiation" NARROW [GOC:TermGenie] synonym: "inhibition of haemopoietic stem cell differentiation" NARROW [GOC:TermGenie] synonym: "inhibition of hematopoietic stem cell differentiation" NARROW [GOC:TermGenie] synonym: "inhibition of hemopoietic stem cell differentiation" NARROW [GOC:TermGenie] synonym: "negative regulation of haematopoietic stem cell differentiation" EXACT [GOC:TermGenie] synonym: "negative regulation of haemopoietic stem cell differentiation" EXACT [GOC:TermGenie] synonym: "negative regulation of hemopoietic stem cell differentiation" EXACT [GOC:TermGenie] is_a: GO:1901533 ! negative regulation of hematopoietic progenitor cell differentiation is_a: GO:1902036 ! regulation of hematopoietic stem cell differentiation is_a: GO:2000737 ! negative regulation of stem cell differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0060218 ! hematopoietic stem cell differentiation relationship: negatively_regulates GO:0060218 ! hematopoietic stem cell differentiation created_by: ss creation_date: 2013-04-02T05:19:14Z [Term] id: GO:1902038 name: positive regulation of hematopoietic stem cell differentiation namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of hematopoietic stem cell differentiation." [GOC:TermGenie, PMID:23403623] synonym: "activation of haematopoietic stem cell differentiation" NARROW [GOC:TermGenie] synonym: "activation of haemopoietic stem cell differentiation" NARROW [GOC:TermGenie] synonym: "activation of hematopoietic stem cell differentiation" NARROW [GOC:TermGenie] synonym: "activation of hemopoietic stem cell differentiation" NARROW [GOC:TermGenie] synonym: "positive regulation of haematopoietic stem cell differentiation" EXACT [GOC:TermGenie] synonym: "positive regulation of haemopoietic stem cell differentiation" EXACT [GOC:TermGenie] synonym: "positive regulation of hemopoietic stem cell differentiation" EXACT [GOC:TermGenie] synonym: "up regulation of haematopoietic stem cell differentiation" EXACT [GOC:TermGenie] synonym: "up regulation of haemopoietic stem cell differentiation" EXACT [GOC:TermGenie] synonym: "up regulation of hematopoietic stem cell differentiation" EXACT [GOC:TermGenie] synonym: "up regulation of hemopoietic stem cell differentiation" EXACT [GOC:TermGenie] synonym: "up-regulation of haematopoietic stem cell differentiation" EXACT [GOC:TermGenie] synonym: "up-regulation of haemopoietic stem cell differentiation" EXACT [GOC:TermGenie] synonym: "up-regulation of hematopoietic stem cell differentiation" EXACT [GOC:TermGenie] synonym: "up-regulation of hemopoietic stem cell differentiation" EXACT [GOC:TermGenie] synonym: "upregulation of haematopoietic stem cell differentiation" EXACT [GOC:TermGenie] synonym: "upregulation of haemopoietic stem cell differentiation" EXACT [GOC:TermGenie] synonym: "upregulation of hematopoietic stem cell differentiation" EXACT [GOC:TermGenie] synonym: "upregulation of hemopoietic stem cell differentiation" EXACT [GOC:TermGenie] is_a: GO:1901534 ! positive regulation of hematopoietic progenitor cell differentiation is_a: GO:1902036 ! regulation of hematopoietic stem cell differentiation is_a: GO:2000738 ! positive regulation of stem cell differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0060218 ! hematopoietic stem cell differentiation relationship: positively_regulates GO:0060218 ! hematopoietic stem cell differentiation created_by: ss creation_date: 2013-04-02T05:19:19Z [Term] id: GO:1902105 name: regulation of leukocyte differentiation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of leukocyte differentiation." [GOC:add, GOC:TermGenie] synonym: "regulation of immune cell differentiation" EXACT [GOC:TermGenie] synonym: "regulation of leucocyte differentiation" EXACT [GOC:TermGenie] is_a: GO:0045595 ! regulation of cell differentiation is_a: GO:1903706 ! regulation of hemopoiesis intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0002521 ! leukocyte differentiation relationship: regulates GO:0002521 ! leukocyte differentiation created_by: pr creation_date: 2013-05-02T17:32:42Z [Term] id: GO:1902106 name: negative regulation of leukocyte differentiation namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of leukocyte differentiation." [GOC:add, GOC:TermGenie] synonym: "down regulation of immune cell differentiation" EXACT [GOC:TermGenie] synonym: "down regulation of leucocyte differentiation" EXACT [GOC:TermGenie] synonym: "down regulation of leukocyte differentiation" EXACT [GOC:TermGenie] synonym: "down-regulation of immune cell differentiation" EXACT [GOC:TermGenie] synonym: "down-regulation of leucocyte differentiation" EXACT [GOC:TermGenie] synonym: "down-regulation of leukocyte differentiation" EXACT [GOC:TermGenie] synonym: "downregulation of immune cell differentiation" EXACT [GOC:TermGenie] synonym: "downregulation of leucocyte differentiation" EXACT [GOC:TermGenie] synonym: "downregulation of leukocyte differentiation" EXACT [GOC:TermGenie] synonym: "inhibition of immune cell differentiation" NARROW [GOC:TermGenie] synonym: "inhibition of leucocyte differentiation" NARROW [GOC:TermGenie] synonym: "inhibition of leukocyte differentiation" NARROW [GOC:TermGenie] synonym: "negative regulation of immune cell differentiation" EXACT [GOC:TermGenie] synonym: "negative regulation of leucocyte differentiation" EXACT [GOC:TermGenie] is_a: GO:0045596 ! negative regulation of cell differentiation is_a: GO:1902105 ! regulation of leukocyte differentiation is_a: GO:1903707 ! negative regulation of hemopoiesis intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0002521 ! leukocyte differentiation relationship: negatively_regulates GO:0002521 ! leukocyte differentiation created_by: pr creation_date: 2013-05-02T17:32:47Z [Term] id: GO:1902107 name: positive regulation of leukocyte differentiation namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of leukocyte differentiation." [GOC:add, GOC:TermGenie] synonym: "activation of immune cell differentiation" NARROW [GOC:TermGenie] synonym: "activation of leucocyte differentiation" NARROW [GOC:TermGenie] synonym: "activation of leukocyte differentiation" NARROW [GOC:TermGenie] synonym: "positive regulation of immune cell differentiation" EXACT [GOC:TermGenie] synonym: "positive regulation of leucocyte differentiation" EXACT [GOC:TermGenie] synonym: "up regulation of immune cell differentiation" EXACT [GOC:TermGenie] synonym: "up regulation of leucocyte differentiation" EXACT [GOC:TermGenie] synonym: "up regulation of leukocyte differentiation" EXACT [GOC:TermGenie] synonym: "up-regulation of immune cell differentiation" EXACT [GOC:TermGenie] synonym: "up-regulation of leucocyte differentiation" EXACT [GOC:TermGenie] synonym: "up-regulation of leukocyte differentiation" EXACT [GOC:TermGenie] synonym: "upregulation of immune cell differentiation" EXACT [GOC:TermGenie] synonym: "upregulation of leucocyte differentiation" EXACT [GOC:TermGenie] synonym: "upregulation of leukocyte differentiation" EXACT [GOC:TermGenie] is_a: GO:0045597 ! positive regulation of cell differentiation is_a: GO:1902105 ! regulation of leukocyte differentiation is_a: GO:1903708 ! positive regulation of hemopoiesis intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0002521 ! leukocyte differentiation relationship: positively_regulates GO:0002521 ! leukocyte differentiation created_by: pr creation_date: 2013-05-02T17:32:52Z [Term] id: GO:1902115 name: regulation of organelle assembly namespace: biological_process def: "Any process that modulates the frequency, rate or extent of organelle assembly." [GOC:pr, GOC:TermGenie] is_a: GO:0033043 ! regulation of organelle organization is_a: GO:0044087 ! regulation of cellular component biogenesis intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0070925 ! organelle assembly relationship: regulates GO:0070925 ! organelle assembly created_by: pr creation_date: 2013-05-14T09:43:21Z [Term] id: GO:1902116 name: negative regulation of organelle assembly namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of organelle assembly." [GOC:pr, GOC:TermGenie] synonym: "down regulation of organelle assembly" EXACT [GOC:TermGenie] synonym: "down-regulation of organelle assembly" EXACT [GOC:TermGenie] synonym: "downregulation of organelle assembly" EXACT [GOC:TermGenie] synonym: "inhibition of organelle assembly" NARROW [GOC:TermGenie] is_a: GO:0010639 ! negative regulation of organelle organization is_a: GO:1902115 ! regulation of organelle assembly intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0070925 ! organelle assembly relationship: negatively_regulates GO:0070925 ! organelle assembly created_by: pr creation_date: 2013-05-14T09:43:31Z [Term] id: GO:1902117 name: positive regulation of organelle assembly namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of organelle assembly." [GOC:pr, GOC:TermGenie] synonym: "activation of organelle assembly" NARROW [GOC:TermGenie] synonym: "up regulation of organelle assembly" EXACT [GOC:TermGenie] synonym: "up-regulation of organelle assembly" EXACT [GOC:TermGenie] synonym: "upregulation of organelle assembly" EXACT [GOC:TermGenie] is_a: GO:0010638 ! positive regulation of organelle organization is_a: GO:0044089 ! positive regulation of cellular component biogenesis is_a: GO:1902115 ! regulation of organelle assembly intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0070925 ! organelle assembly relationship: positively_regulates GO:0070925 ! organelle assembly created_by: pr creation_date: 2013-05-14T09:43:36Z [Term] id: GO:1902217 name: erythrocyte apoptotic process namespace: biological_process def: "Any apoptotic process in an erythrocyte." [GOC:BHF, GOC:mtg_apoptosis, GOC:rl, GOC:TermGenie, PMID:14569084] synonym: "erythrocyte apoptosis" NARROW [GOC:TermGenie] synonym: "RBC apoptosis" NARROW [GOC:TermGenie] synonym: "RBC apoptotic process" EXACT [GOC:TermGenie] synonym: "red blood cell apoptosis" NARROW [GOC:TermGenie] synonym: "red blood cell apoptotic process" EXACT [GOC:TermGenie] is_a: GO:0033028 ! myeloid cell apoptotic process intersection_of: GO:0006915 ! apoptotic process intersection_of: occurs_in CL:0000232 ! erythrocyte relationship: occurs_in CL:0000232 ! erythrocyte property_value: RO:0002161 NCBITaxon:4751 created_by: rl creation_date: 2013-06-13T10:02:29Z [Term] id: GO:1902250 name: regulation of erythrocyte apoptotic process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of erythrocyte apoptotic process." [GOC:BHF, GOC:mtg_apoptosis, GOC:rl, GOC:TermGenie, PMID:14569084] synonym: "regulation of erythrocyte apoptosis" NARROW [GOC:TermGenie] synonym: "regulation of RBC apoptosis" NARROW [GOC:TermGenie] synonym: "regulation of RBC apoptotic process" EXACT [GOC:TermGenie] synonym: "regulation of red blood cell apoptosis" NARROW [GOC:TermGenie] synonym: "regulation of red blood cell apoptotic process" EXACT [GOC:TermGenie] is_a: GO:0033032 ! regulation of myeloid cell apoptotic process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:1902217 ! erythrocyte apoptotic process relationship: regulates GO:1902217 ! erythrocyte apoptotic process created_by: rl creation_date: 2013-06-20T19:30:53Z [Term] id: GO:1902251 name: negative regulation of erythrocyte apoptotic process namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of erythrocyte apoptotic process." [GOC:BHF, GOC:mtg_apoptosis, GOC:rl, GOC:TermGenie, PMID:14569084] synonym: "down regulation of erythrocyte apoptosis" NARROW [GOC:TermGenie] synonym: "down regulation of erythrocyte apoptotic process" EXACT [GOC:TermGenie] synonym: "down regulation of RBC apoptosis" NARROW [GOC:TermGenie] synonym: "down regulation of RBC apoptotic process" EXACT [GOC:TermGenie] synonym: "down regulation of red blood cell apoptosis" NARROW [GOC:TermGenie] synonym: "down regulation of red blood cell apoptotic process" EXACT [GOC:TermGenie] synonym: "down-regulation of erythrocyte apoptosis" NARROW [GOC:TermGenie] synonym: "down-regulation of erythrocyte apoptotic process" EXACT [GOC:TermGenie] synonym: "down-regulation of RBC apoptosis" NARROW [GOC:TermGenie] synonym: "down-regulation of RBC apoptotic process" EXACT [GOC:TermGenie] synonym: "down-regulation of red blood cell apoptosis" NARROW [GOC:TermGenie] synonym: "down-regulation of red blood cell apoptotic process" EXACT [GOC:TermGenie] synonym: "downregulation of erythrocyte apoptosis" NARROW [GOC:TermGenie] synonym: "downregulation of erythrocyte apoptotic process" EXACT [GOC:TermGenie] synonym: "downregulation of RBC apoptosis" NARROW [GOC:TermGenie] synonym: "downregulation of RBC apoptotic process" EXACT [GOC:TermGenie] synonym: "downregulation of red blood cell apoptosis" NARROW [GOC:TermGenie] synonym: "downregulation of red blood cell apoptotic process" EXACT [GOC:TermGenie] synonym: "inhibition of erythrocyte apoptosis" NARROW [GOC:TermGenie] synonym: "inhibition of erythrocyte apoptotic process" NARROW [GOC:TermGenie] synonym: "inhibition of RBC apoptosis" NARROW [GOC:TermGenie] synonym: "inhibition of RBC apoptotic process" NARROW [GOC:TermGenie] synonym: "inhibition of red blood cell apoptosis" NARROW [GOC:TermGenie] synonym: "inhibition of red blood cell apoptotic process" NARROW [GOC:TermGenie] synonym: "negative regulation of erythrocyte apoptosis" NARROW [GOC:TermGenie] synonym: "negative regulation of RBC apoptosis" NARROW [GOC:TermGenie] synonym: "negative regulation of RBC apoptotic process" EXACT [GOC:TermGenie] synonym: "negative regulation of red blood cell apoptosis" NARROW [GOC:TermGenie] synonym: "negative regulation of red blood cell apoptotic process" EXACT [GOC:TermGenie] is_a: GO:0033033 ! negative regulation of myeloid cell apoptotic process is_a: GO:1902250 ! regulation of erythrocyte apoptotic process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:1902217 ! erythrocyte apoptotic process relationship: negatively_regulates GO:1902217 ! erythrocyte apoptotic process property_value: RO:0002161 NCBITaxon:4751 created_by: rl creation_date: 2013-06-20T19:30:59Z [Term] id: GO:1902252 name: positive regulation of erythrocyte apoptotic process namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of erythrocyte apoptotic process." [GOC:BHF, GOC:mtg_apoptosis, GOC:rl, GOC:TermGenie, PMID:14569084] synonym: "activation of erythrocyte apoptosis" NARROW [GOC:TermGenie] synonym: "activation of erythrocyte apoptotic process" NARROW [GOC:TermGenie] synonym: "activation of RBC apoptosis" NARROW [GOC:TermGenie] synonym: "activation of RBC apoptotic process" NARROW [GOC:TermGenie] synonym: "activation of red blood cell apoptosis" NARROW [GOC:TermGenie] synonym: "activation of red blood cell apoptotic process" NARROW [GOC:TermGenie] synonym: "positive regulation of erythrocyte apoptosis" NARROW [GOC:TermGenie] synonym: "positive regulation of RBC apoptosis" NARROW [GOC:TermGenie] synonym: "positive regulation of RBC apoptotic process" EXACT [GOC:TermGenie] synonym: "positive regulation of red blood cell apoptosis" NARROW [GOC:TermGenie] synonym: "positive regulation of red blood cell apoptotic process" EXACT [GOC:TermGenie] synonym: "up regulation of erythrocyte apoptosis" NARROW [GOC:TermGenie] synonym: "up regulation of erythrocyte apoptotic process" EXACT [GOC:TermGenie] synonym: "up regulation of RBC apoptosis" NARROW [GOC:TermGenie] synonym: "up regulation of RBC apoptotic process" EXACT [GOC:TermGenie] synonym: "up regulation of red blood cell apoptosis" NARROW [GOC:TermGenie] synonym: "up regulation of red blood cell apoptotic process" EXACT [GOC:TermGenie] synonym: "up-regulation of erythrocyte apoptosis" NARROW [GOC:TermGenie] synonym: "up-regulation of erythrocyte apoptotic process" EXACT [GOC:TermGenie] synonym: "up-regulation of RBC apoptosis" NARROW [GOC:TermGenie] synonym: "up-regulation of RBC apoptotic process" EXACT [GOC:TermGenie] synonym: "up-regulation of red blood cell apoptosis" NARROW [GOC:TermGenie] synonym: "up-regulation of red blood cell apoptotic process" EXACT [GOC:TermGenie] synonym: "upregulation of erythrocyte apoptosis" NARROW [GOC:TermGenie] synonym: "upregulation of erythrocyte apoptotic process" EXACT [GOC:TermGenie] synonym: "upregulation of RBC apoptosis" NARROW [GOC:TermGenie] synonym: "upregulation of RBC apoptotic process" EXACT [GOC:TermGenie] synonym: "upregulation of red blood cell apoptosis" NARROW [GOC:TermGenie] synonym: "upregulation of red blood cell apoptotic process" EXACT [GOC:TermGenie] is_a: GO:0033034 ! positive regulation of myeloid cell apoptotic process is_a: GO:1902250 ! regulation of erythrocyte apoptotic process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:1902217 ! erythrocyte apoptotic process relationship: positively_regulates GO:1902217 ! erythrocyte apoptotic process property_value: RO:0002161 NCBITaxon:4751 created_by: rl creation_date: 2013-06-20T19:31:04Z [Term] id: GO:1902256 name: regulation of apoptotic process involved in outflow tract morphogenesis namespace: biological_process def: "Any process that modulates the frequency, rate or extent of apoptotic process involved in outflow tract morphogenesis." [GOC:dph, GOC:mtg_apoptosis, GOC:TermGenie, PMID:16839542] synonym: "regulation of apoptosis involved in outflow tract morphogenesis" NARROW [GOC:TermGenie] is_a: GO:1902337 ! regulation of apoptotic process involved in morphogenesis intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0003275 ! apoptotic process involved in outflow tract morphogenesis relationship: regulates GO:0003275 ! apoptotic process involved in outflow tract morphogenesis created_by: dph creation_date: 2013-06-24T19:12:24Z [Term] id: GO:1902257 name: negative regulation of apoptotic process involved in outflow tract morphogenesis namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of apoptotic process involved in outflow tract morphogenesis." [GOC:dph, GOC:mtg_apoptosis, GOC:TermGenie, PMID:16839542] synonym: "down regulation of apoptosis involved in outflow tract morphogenesis" NARROW [GOC:TermGenie] synonym: "down regulation of apoptotic process involved in outflow tract morphogenesis" EXACT [GOC:TermGenie] synonym: "down-regulation of apoptosis involved in outflow tract morphogenesis" NARROW [GOC:TermGenie] synonym: "down-regulation of apoptotic process involved in outflow tract morphogenesis" EXACT [GOC:TermGenie] synonym: "downregulation of apoptosis involved in outflow tract morphogenesis" NARROW [GOC:TermGenie] synonym: "downregulation of apoptotic process involved in outflow tract morphogenesis" EXACT [GOC:TermGenie] synonym: "inhibition of apoptosis involved in outflow tract morphogenesis" NARROW [GOC:TermGenie] synonym: "inhibition of apoptotic process involved in outflow tract morphogenesis" NARROW [GOC:TermGenie] synonym: "negative regulation of apoptosis involved in outflow tract morphogenesis" NARROW [GOC:TermGenie] is_a: GO:1902256 ! regulation of apoptotic process involved in outflow tract morphogenesis is_a: GO:1902338 ! negative regulation of apoptotic process involved in morphogenesis intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0003275 ! apoptotic process involved in outflow tract morphogenesis relationship: negatively_regulates GO:0003275 ! apoptotic process involved in outflow tract morphogenesis created_by: dph creation_date: 2013-06-24T19:12:30Z [Term] id: GO:1902258 name: positive regulation of apoptotic process involved in outflow tract morphogenesis namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of apoptotic process involved in outflow tract morphogenesis." [GOC:dph, GOC:mtg_apoptosis, GOC:TermGenie, PMID:16839542] synonym: "activation of apoptosis involved in outflow tract morphogenesis" NARROW [GOC:TermGenie] synonym: "activation of apoptotic process involved in outflow tract morphogenesis" NARROW [GOC:TermGenie] synonym: "positive regulation of apoptosis involved in outflow tract morphogenesis" NARROW [GOC:TermGenie] synonym: "up regulation of apoptosis involved in outflow tract morphogenesis" NARROW [GOC:TermGenie] synonym: "up regulation of apoptotic process involved in outflow tract morphogenesis" EXACT [GOC:TermGenie] synonym: "up-regulation of apoptosis involved in outflow tract morphogenesis" NARROW [GOC:TermGenie] synonym: "up-regulation of apoptotic process involved in outflow tract morphogenesis" EXACT [GOC:TermGenie] synonym: "upregulation of apoptosis involved in outflow tract morphogenesis" NARROW [GOC:TermGenie] synonym: "upregulation of apoptotic process involved in outflow tract morphogenesis" EXACT [GOC:TermGenie] is_a: GO:1902256 ! regulation of apoptotic process involved in outflow tract morphogenesis is_a: GO:1902339 ! positive regulation of apoptotic process involved in morphogenesis intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0003275 ! apoptotic process involved in outflow tract morphogenesis relationship: positively_regulates GO:0003275 ! apoptotic process involved in outflow tract morphogenesis created_by: dph creation_date: 2013-06-24T19:12:42Z [Term] id: GO:1902262 name: apoptotic process involved in blood vessel morphogenesis namespace: biological_process def: "Any apoptotic process that is involved in blood vessel morphogenesis." [GOC:dph, GOC:mtg_apoptosis, GOC:TermGenie, PMID:16163358] synonym: "apoptosis involved in patterning of blood vessels" NARROW [GOC:TermGenie] synonym: "apoptotic cell death involved in patterning of blood vessels" EXACT [GOC:TermGenie] synonym: "apoptotic program involved in patterning of blood vessels" NARROW [GOC:TermGenie] synonym: "apoptotic programmed cell death involved in patterning of blood vessels" EXACT [GOC:TermGenie] synonym: "programmed cell death by apoptosis involved in patterning of blood vessels" EXACT [GOC:TermGenie] synonym: "signaling (initiator) caspase activity involved in patterning of blood vessels" RELATED [GOC:TermGenie] synonym: "type I programmed cell death involved in patterning of blood vessels" NARROW [GOC:TermGenie] is_a: GO:0060561 ! apoptotic process involved in morphogenesis intersection_of: GO:0006915 ! apoptotic process intersection_of: part_of GO:0048514 ! blood vessel morphogenesis relationship: part_of GO:0048514 ! blood vessel morphogenesis created_by: dph creation_date: 2013-06-25T16:16:00Z [Term] id: GO:1902275 name: regulation of chromatin organization namespace: biological_process alt_id: GO:1903308 def: "Any process that modulates the frequency, rate or extent of chromatin organization." [GO_REF:0000058, GOC:bf, GOC:TermGenie, GOC:vw, PMID:18314879] synonym: "regulation of chromatin modification" RELATED [] synonym: "regulation of chromatin organisation" EXACT [GOC:TermGenie] synonym: "regulation of establishment or maintenance of chromatin architecture" EXACT [GOC:TermGenie] is_a: GO:0051128 ! regulation of cellular component organization intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0006325 ! chromatin organization relationship: regulates GO:0006325 ! chromatin organization created_by: bf creation_date: 2013-07-01T13:21:52Z [Term] id: GO:1902337 name: regulation of apoptotic process involved in morphogenesis namespace: biological_process def: "Any process that modulates the frequency, rate or extent of apoptotic process involved in morphogenesis." [GOC:sart, GOC:TermGenie, PMID:12202035] synonym: "regulation of apoptosis involved in development" RELATED [GOC:TermGenie] synonym: "regulation of apoptosis involved in morphogenesis" NARROW [GOC:TermGenie] synonym: "regulation of morphogenetic apoptosis" RELATED [GOC:TermGenie] is_a: GO:1904748 ! regulation of apoptotic process involved in development intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0060561 ! apoptotic process involved in morphogenesis relationship: regulates GO:0060561 ! apoptotic process involved in morphogenesis created_by: sart creation_date: 2013-07-29T15:03:16Z [Term] id: GO:1902338 name: negative regulation of apoptotic process involved in morphogenesis namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of apoptotic process involved in morphogenesis." [GOC:sart, GOC:TermGenie, PMID:12202035] synonym: "down regulation of apoptosis involved in development" RELATED [GOC:TermGenie] synonym: "down regulation of apoptosis involved in morphogenesis" NARROW [GOC:TermGenie] synonym: "down regulation of apoptotic process involved in morphogenesis" EXACT [GOC:TermGenie] synonym: "down regulation of morphogenetic apoptosis" RELATED [GOC:TermGenie] synonym: "down-regulation of apoptosis involved in development" RELATED [GOC:TermGenie] synonym: "down-regulation of apoptosis involved in morphogenesis" NARROW [GOC:TermGenie] synonym: "down-regulation of apoptotic process involved in morphogenesis" EXACT [GOC:TermGenie] synonym: "down-regulation of morphogenetic apoptosis" RELATED [GOC:TermGenie] synonym: "downregulation of apoptosis involved in development" RELATED [GOC:TermGenie] synonym: "downregulation of apoptosis involved in morphogenesis" NARROW [GOC:TermGenie] synonym: "downregulation of apoptotic process involved in morphogenesis" EXACT [GOC:TermGenie] synonym: "downregulation of morphogenetic apoptosis" RELATED [GOC:TermGenie] synonym: "inhibition of apoptosis involved in development" RELATED [GOC:TermGenie] synonym: "inhibition of apoptosis involved in morphogenesis" NARROW [GOC:TermGenie] synonym: "inhibition of apoptotic process involved in morphogenesis" NARROW [GOC:TermGenie] synonym: "inhibition of morphogenetic apoptosis" RELATED [GOC:TermGenie] synonym: "negative regulation of apoptosis involved in development" RELATED [GOC:TermGenie] synonym: "negative regulation of apoptosis involved in morphogenesis" NARROW [GOC:TermGenie] synonym: "negative regulation of morphogenetic apoptosis" RELATED [GOC:TermGenie] is_a: GO:1902337 ! regulation of apoptotic process involved in morphogenesis is_a: GO:1904746 ! negative regulation of apoptotic process involved in development intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0060561 ! apoptotic process involved in morphogenesis relationship: negatively_regulates GO:0060561 ! apoptotic process involved in morphogenesis created_by: sart creation_date: 2013-07-29T15:03:25Z [Term] id: GO:1902339 name: positive regulation of apoptotic process involved in morphogenesis namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of apoptotic process involved in morphogenesis." [GOC:sart, GOC:TermGenie, PMID:12202035] synonym: "activation of apoptosis involved in development" RELATED [GOC:TermGenie] synonym: "activation of apoptosis involved in morphogenesis" NARROW [GOC:TermGenie] synonym: "activation of apoptotic process involved in morphogenesis" NARROW [GOC:TermGenie] synonym: "activation of morphogenetic apoptosis" RELATED [GOC:TermGenie] synonym: "positive regulation of apoptosis involved in development" RELATED [GOC:TermGenie] synonym: "positive regulation of apoptosis involved in morphogenesis" NARROW [GOC:TermGenie] synonym: "positive regulation of morphogenetic apoptosis" RELATED [GOC:TermGenie] synonym: "up regulation of apoptosis involved in development" RELATED [GOC:TermGenie] synonym: "up regulation of apoptosis involved in morphogenesis" NARROW [GOC:TermGenie] synonym: "up regulation of apoptotic process involved in morphogenesis" EXACT [GOC:TermGenie] synonym: "up regulation of morphogenetic apoptosis" RELATED [GOC:TermGenie] synonym: "up-regulation of apoptosis involved in development" RELATED [GOC:TermGenie] synonym: "up-regulation of apoptosis involved in morphogenesis" NARROW [GOC:TermGenie] synonym: "up-regulation of apoptotic process involved in morphogenesis" EXACT [GOC:TermGenie] synonym: "up-regulation of morphogenetic apoptosis" RELATED [GOC:TermGenie] synonym: "upregulation of apoptosis involved in development" RELATED [GOC:TermGenie] synonym: "upregulation of apoptosis involved in morphogenesis" NARROW [GOC:TermGenie] synonym: "upregulation of apoptotic process involved in morphogenesis" EXACT [GOC:TermGenie] synonym: "upregulation of morphogenetic apoptosis" RELATED [GOC:TermGenie] is_a: GO:1902337 ! regulation of apoptotic process involved in morphogenesis is_a: GO:1904747 ! positive regulation of apoptotic process involved in development intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0060561 ! apoptotic process involved in morphogenesis relationship: positively_regulates GO:0060561 ! apoptotic process involved in morphogenesis created_by: sart creation_date: 2013-07-29T15:03:33Z [Term] id: GO:1902340 name: negative regulation of chromosome condensation namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of chromosome condensation." [GOC:TermGenie, PMID:23219725] synonym: "down regulation of chromosome condensation" EXACT [GOC:TermGenie] synonym: "down regulation of eukaryotic chromosome condensation" EXACT [GOC:TermGenie] synonym: "down regulation of nuclear chromosome condensation" EXACT [GOC:TermGenie] synonym: "down-regulation of chromosome condensation" EXACT [GOC:TermGenie] synonym: "down-regulation of eukaryotic chromosome condensation" EXACT [GOC:TermGenie] synonym: "down-regulation of nuclear chromosome condensation" EXACT [GOC:TermGenie] synonym: "downregulation of chromosome condensation" EXACT [GOC:TermGenie] synonym: "downregulation of eukaryotic chromosome condensation" EXACT [GOC:TermGenie] synonym: "downregulation of nuclear chromosome condensation" EXACT [GOC:TermGenie] synonym: "inhibition of chromosome condensation" NARROW [GOC:TermGenie] synonym: "inhibition of eukaryotic chromosome condensation" NARROW [GOC:TermGenie] synonym: "inhibition of nuclear chromosome condensation" NARROW [GOC:TermGenie] synonym: "negative regulation of eukaryotic chromosome condensation" EXACT [GOC:TermGenie] synonym: "negative regulation of nuclear chromosome condensation" EXACT [GOC:TermGenie] is_a: GO:0060623 ! regulation of chromosome condensation is_a: GO:2001251 ! negative regulation of chromosome organization intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0030261 ! chromosome condensation relationship: negatively_regulates GO:0030261 ! chromosome condensation created_by: dgf creation_date: 2013-07-29T20:54:14Z [Term] id: GO:1902414 name: protein localization to cell junction namespace: biological_process def: "A process in which a protein is transported to, or maintained in, a location within a cell junction." [GOC:TermGenie, PMID:18332111] synonym: "protein localisation in cell junction" EXACT [GOC:TermGenie] synonym: "protein localisation to cell junction" EXACT [GOC:TermGenie] synonym: "protein localization in cell junction" EXACT [GOC:TermGenie] is_a: GO:0008104 ! protein localization intersection_of: GO:0008104 ! protein localization intersection_of: has_target_end_location GO:0030054 ! cell junction relationship: has_target_end_location GO:0030054 ! cell junction created_by: tb creation_date: 2013-09-13T16:55:57Z [Term] id: GO:1902463 name: protein localization to cell leading edge namespace: biological_process def: "A process in which a protein is transported to, or maintained in, a location within a cell leading edge." [GOC:lb, GOC:TermGenie, PMID:21543326] synonym: "protein localisation in cell leading edge" EXACT [GOC:TermGenie] synonym: "protein localisation to cell leading edge" EXACT [GOC:TermGenie] synonym: "protein localization in cell leading edge" EXACT [GOC:TermGenie] is_a: GO:0034613 ! cellular protein localization intersection_of: GO:0008104 ! protein localization intersection_of: has_target_end_location GO:0031252 ! cell leading edge relationship: has_target_end_location GO:0031252 ! cell leading edge created_by: jl creation_date: 2013-10-22T12:36:07Z [Term] id: GO:1902473 name: regulation of protein localization to synapse namespace: biological_process def: "Any process that modulates the frequency, rate or extent of protein localization to synapse." [GOC:kmv, GOC:TermGenie, PMID:22588719] synonym: "regulation of protein localisation to synapse" EXACT [GOC:TermGenie] is_a: GO:0032880 ! regulation of protein localization intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0035418 ! protein localization to synapse relationship: regulates GO:0035418 ! protein localization to synapse created_by: kmv creation_date: 2013-10-25T15:09:09Z [Term] id: GO:1902474 name: positive regulation of protein localization to synapse namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of protein localization to synapse." [GOC:kmv, GOC:TermGenie, PMID:22588719] synonym: "activation of protein localisation to synapse" NARROW [GOC:TermGenie] synonym: "activation of protein localization to synapse" NARROW [GOC:TermGenie] synonym: "positive regulation of protein localisation to synapse" EXACT [GOC:TermGenie] synonym: "up regulation of protein localisation to synapse" EXACT [GOC:TermGenie] synonym: "up regulation of protein localization to synapse" EXACT [GOC:TermGenie] synonym: "up-regulation of protein localisation to synapse" EXACT [GOC:TermGenie] synonym: "up-regulation of protein localization to synapse" EXACT [GOC:TermGenie] synonym: "upregulation of protein localisation to synapse" EXACT [GOC:TermGenie] synonym: "upregulation of protein localization to synapse" EXACT [GOC:TermGenie] is_a: GO:1902473 ! regulation of protein localization to synapse is_a: GO:1903829 ! positive regulation of protein localization intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0035418 ! protein localization to synapse relationship: positively_regulates GO:0035418 ! protein localization to synapse created_by: kmv creation_date: 2013-10-25T15:09:18Z [Term] id: GO:1902494 name: catalytic complex namespace: cellular_component def: "A protein complex which is capable of catalytic activity." [GOC:bhm, GOC:TermGenie, PMID:8077207] subset: goslim_metagenomics synonym: "enzyme complex" EXACT [GOC:bhm, GOC:jl] is_a: GO:0032991 ! protein-containing complex intersection_of: GO:0032991 ! protein-containing complex intersection_of: capable_of GO:0003824 ! catalytic activity relationship: capable_of GO:0003824 ! catalytic activity created_by: bhm creation_date: 2013-11-13T16:18:47Z [Term] id: GO:1902513 name: regulation of organelle transport along microtubule namespace: biological_process def: "Any process that modulates the frequency, rate or extent of organelle transport along microtubule." [GOC:dph, GOC:TermGenie, PMID:21147087] synonym: "regulation of microtubule-based organelle localization" EXACT [GOC:TermGenie] is_a: GO:0032386 ! regulation of intracellular transport is_a: GO:0060632 ! regulation of microtubule-based movement intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0072384 ! organelle transport along microtubule relationship: regulates GO:0072384 ! organelle transport along microtubule created_by: dph creation_date: 2013-11-15T20:15:17Z [Term] id: GO:1902531 name: regulation of intracellular signal transduction namespace: biological_process alt_id: GO:0010627 def: "Any process that modulates the frequency, rate or extent of intracellular signal transduction." [GOC:dph, GOC:signaling, GOC:tb, GOC:TermGenie] synonym: "regulation of intracellular protein kinase cascade" NARROW [] synonym: "regulation of intracellular signal transduction pathway" NARROW [GOC:TermGenie] synonym: "regulation of intracellular signaling cascade" EXACT [GOC:TermGenie] synonym: "regulation of intracellular signaling chain" EXACT [GOC:TermGenie] synonym: "regulation of intracellular signaling pathway" RELATED [GOC:TermGenie] synonym: "regulation of signal transduction via intracellular signaling cascade" RELATED [GOC:TermGenie] synonym: "regulation of signal transmission via intracellular cascade" NARROW [GOC:TermGenie] is_a: GO:0009966 ! regulation of signal transduction intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0035556 ! intracellular signal transduction relationship: regulates GO:0035556 ! intracellular signal transduction created_by: bf creation_date: 2013-12-02T11:32:52Z [Term] id: GO:1902532 name: negative regulation of intracellular signal transduction namespace: biological_process alt_id: GO:0010741 def: "Any process that stops, prevents or reduces the frequency, rate or extent of intracellular signal transduction." [GOC:dph, GOC:signaling, GOC:tb, GOC:TermGenie] synonym: "down regulation of intracellular signal transduction" EXACT [GOC:TermGenie] synonym: "down regulation of intracellular signal transduction pathway" NARROW [GOC:TermGenie] synonym: "down regulation of intracellular signaling cascade" NARROW [GOC:TermGenie] synonym: "down regulation of intracellular signaling chain" EXACT [GOC:TermGenie] synonym: "down regulation of intracellular signaling pathway" RELATED [GOC:TermGenie] synonym: "down regulation of signal transduction via intracellular signaling cascade" RELATED [GOC:TermGenie] synonym: "down regulation of signal transmission via intracellular cascade" NARROW [GOC:TermGenie] synonym: "down-regulation of intracellular signal transduction" EXACT [GOC:TermGenie] synonym: "down-regulation of intracellular signal transduction pathway" NARROW [GOC:TermGenie] synonym: "down-regulation of intracellular signaling cascade" RELATED [GOC:TermGenie] synonym: "down-regulation of intracellular signaling chain" EXACT [GOC:TermGenie] synonym: "down-regulation of intracellular signaling pathway" RELATED [GOC:TermGenie] synonym: "down-regulation of signal transduction via intracellular signaling cascade" RELATED [GOC:TermGenie] synonym: "down-regulation of signal transmission via intracellular cascade" RELATED [GOC:TermGenie] synonym: "downregulation of intracellular signal transduction" EXACT [GOC:TermGenie] synonym: "downregulation of intracellular signal transduction pathway" NARROW [GOC:TermGenie] synonym: "downregulation of intracellular signaling cascade" NARROW [GOC:TermGenie] synonym: "downregulation of intracellular signaling chain" EXACT [GOC:TermGenie] synonym: "downregulation of intracellular signaling pathway" RELATED [GOC:TermGenie] synonym: "downregulation of signal transduction via intracellular signaling cascade" RELATED [GOC:TermGenie] synonym: "downregulation of signal transmission via intracellular cascade" NARROW [GOC:TermGenie] synonym: "inhibition of intracellular signal transduction" NARROW [GOC:TermGenie] synonym: "inhibition of intracellular signal transduction pathway" NARROW [GOC:TermGenie] synonym: "inhibition of intracellular signaling cascade" NARROW [GOC:TermGenie] synonym: "inhibition of intracellular signaling chain" NARROW [GOC:TermGenie] synonym: "inhibition of intracellular signaling pathway" RELATED [GOC:TermGenie] synonym: "inhibition of signal transduction via intracellular signaling cascade" RELATED [GOC:TermGenie] synonym: "inhibition of signal transmission via intracellular cascade" NARROW [GOC:TermGenie] synonym: "negative regulation of intracellular protein kinase cascade" EXACT [] synonym: "negative regulation of intracellular signal transduction pathway" NARROW [GOC:TermGenie] synonym: "negative regulation of intracellular signaling cascade" EXACT [GOC:TermGenie] synonym: "negative regulation of intracellular signaling chain" EXACT [GOC:TermGenie] synonym: "negative regulation of intracellular signaling pathway" RELATED [GOC:TermGenie] synonym: "negative regulation of signal transduction via intracellular signaling cascade" RELATED [GOC:TermGenie] synonym: "negative regulation of signal transmission via intracellular cascade" NARROW [GOC:TermGenie] is_a: GO:0009968 ! negative regulation of signal transduction is_a: GO:1902531 ! regulation of intracellular signal transduction intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0035556 ! intracellular signal transduction relationship: negatively_regulates GO:0035556 ! intracellular signal transduction created_by: bf creation_date: 2013-12-02T11:33:01Z [Term] id: GO:1902533 name: positive regulation of intracellular signal transduction namespace: biological_process alt_id: GO:0010740 def: "Any process that activates or increases the frequency, rate or extent of intracellular signal transduction." [GOC:BHF, GOC:dph, GOC:signaling, GOC:tb, GOC:TermGenie] synonym: "activation of intracellular signal transduction" NARROW [GOC:TermGenie] synonym: "activation of intracellular signal transduction pathway" NARROW [GOC:TermGenie] synonym: "activation of intracellular signaling cascade" NARROW [GOC:TermGenie] synonym: "activation of intracellular signaling chain" NARROW [GOC:TermGenie] synonym: "activation of intracellular signaling pathway" RELATED [GOC:TermGenie] synonym: "activation of signal transduction via intracellular signaling cascade" RELATED [GOC:TermGenie] synonym: "activation of signal transmission via intracellular cascade" NARROW [GOC:TermGenie] synonym: "positive regulation of intracellular protein kinase cascade" NARROW [] synonym: "positive regulation of intracellular signal transduction pathway" NARROW [GOC:TermGenie] synonym: "positive regulation of intracellular signaling cascade" RELATED [GOC:TermGenie] synonym: "positive regulation of intracellular signaling chain" EXACT [GOC:TermGenie] synonym: "positive regulation of intracellular signaling pathway" RELATED [GOC:TermGenie] synonym: "positive regulation of signal transduction via intracellular signaling cascade" RELATED [GOC:TermGenie] synonym: "positive regulation of signal transmission via intracellular cascade" NARROW [GOC:TermGenie] synonym: "up regulation of intracellular signal transduction" EXACT [GOC:TermGenie] synonym: "up regulation of intracellular signal transduction pathway" NARROW [GOC:TermGenie] synonym: "up regulation of intracellular signaling cascade" RELATED [GOC:TermGenie] synonym: "up regulation of intracellular signaling chain" EXACT [GOC:TermGenie] synonym: "up regulation of intracellular signaling pathway" RELATED [GOC:TermGenie] synonym: "up regulation of signal transduction via intracellular signaling cascade" RELATED [GOC:TermGenie] synonym: "up regulation of signal transmission via intracellular cascade" NARROW [GOC:TermGenie] synonym: "up-regulation of intracellular signal transduction" EXACT [GOC:TermGenie] synonym: "up-regulation of intracellular signal transduction pathway" NARROW [GOC:TermGenie] synonym: "up-regulation of intracellular signaling cascade" RELATED [GOC:TermGenie] synonym: "up-regulation of intracellular signaling chain" EXACT [GOC:TermGenie] synonym: "up-regulation of intracellular signaling pathway" RELATED [GOC:TermGenie] synonym: "up-regulation of signal transduction via intracellular signaling cascade" RELATED [GOC:TermGenie] synonym: "up-regulation of signal transmission via intracellular cascade" NARROW [GOC:TermGenie] synonym: "upregulation of intracellular signal transduction" EXACT [GOC:TermGenie] synonym: "upregulation of intracellular signal transduction pathway" NARROW [GOC:TermGenie] synonym: "upregulation of intracellular signaling cascade" RELATED [GOC:TermGenie] synonym: "upregulation of intracellular signaling chain" EXACT [GOC:TermGenie] synonym: "upregulation of intracellular signaling pathway" RELATED [GOC:TermGenie] synonym: "upregulation of signal transduction via intracellular signaling cascade" RELATED [GOC:TermGenie] synonym: "upregulation of signal transmission via intracellular cascade" NARROW [GOC:TermGenie] is_a: GO:0009967 ! positive regulation of signal transduction is_a: GO:1902531 ! regulation of intracellular signal transduction intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0035556 ! intracellular signal transduction relationship: positively_regulates GO:0035556 ! intracellular signal transduction created_by: bf creation_date: 2013-12-02T11:33:10Z [Term] id: GO:1902570 name: protein localization to nucleolus namespace: biological_process def: "A process in which a protein is transported to, or maintained in, a location within a nucleolus." [GOC:TermGenie, PMID:22809626] synonym: "protein localisation in nucleolus" EXACT [GOC:TermGenie] synonym: "protein localisation to nucleolus" EXACT [GOC:TermGenie] synonym: "protein localization in nucleolus" EXACT [GOC:TermGenie] is_a: GO:0034504 ! protein localization to nucleus intersection_of: GO:0008104 ! protein localization intersection_of: has_target_end_location GO:0005730 ! nucleolus relationship: has_target_end_location GO:0005730 ! nucleolus created_by: mah creation_date: 2013-12-10T16:25:28Z [Term] id: GO:1902679 name: negative regulation of RNA biosynthetic process namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of RNA biosynthetic process." [GO:jl, GO_REF:0000058, GOC:TermGenie] synonym: "down regulation of RNA anabolism" EXACT [GOC:TermGenie] synonym: "down regulation of RNA biosynthesis" EXACT [GOC:TermGenie] synonym: "down regulation of RNA biosynthetic process" EXACT [GOC:TermGenie] synonym: "down regulation of RNA formation" EXACT [GOC:TermGenie] synonym: "down regulation of RNA synthesis" EXACT [GOC:TermGenie] synonym: "down-regulation of RNA anabolism" EXACT [GOC:TermGenie] synonym: "down-regulation of RNA biosynthesis" EXACT [GOC:TermGenie] synonym: "down-regulation of RNA biosynthetic process" EXACT [GOC:TermGenie] synonym: "down-regulation of RNA formation" EXACT [GOC:TermGenie] synonym: "down-regulation of RNA synthesis" EXACT [GOC:TermGenie] synonym: "downregulation of RNA anabolism" EXACT [GOC:TermGenie] synonym: "downregulation of RNA biosynthesis" EXACT [GOC:TermGenie] synonym: "downregulation of RNA biosynthetic process" EXACT [GOC:TermGenie] synonym: "downregulation of RNA formation" EXACT [GOC:TermGenie] synonym: "downregulation of RNA synthesis" EXACT [GOC:TermGenie] synonym: "inhibition of RNA anabolism" NARROW [GOC:TermGenie] synonym: "inhibition of RNA biosynthesis" NARROW [GOC:TermGenie] synonym: "inhibition of RNA biosynthetic process" NARROW [GOC:TermGenie] synonym: "inhibition of RNA formation" NARROW [GOC:TermGenie] synonym: "inhibition of RNA synthesis" NARROW [GOC:TermGenie] synonym: "negative regulation of RNA anabolism" EXACT [GOC:TermGenie] synonym: "negative regulation of RNA biosynthesis" EXACT [GOC:TermGenie] synonym: "negative regulation of RNA formation" EXACT [GOC:TermGenie] synonym: "negative regulation of RNA synthesis" EXACT [GOC:TermGenie] is_a: GO:0010558 ! negative regulation of macromolecule biosynthetic process is_a: GO:0031327 ! negative regulation of cellular biosynthetic process is_a: GO:0051253 ! negative regulation of RNA metabolic process is_a: GO:2001141 ! regulation of RNA biosynthetic process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0032774 ! RNA biosynthetic process relationship: negatively_regulates GO:0032774 ! RNA biosynthetic process created_by: jl creation_date: 2014-02-05T16:32:01Z [Term] id: GO:1902680 name: positive regulation of RNA biosynthetic process namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of RNA biosynthetic process." [GO:jl, GO_REF:0000058, GOC:TermGenie] synonym: "activation of RNA anabolism" NARROW [GOC:TermGenie] synonym: "activation of RNA biosynthesis" NARROW [GOC:TermGenie] synonym: "activation of RNA biosynthetic process" NARROW [GOC:TermGenie] synonym: "activation of RNA formation" NARROW [GOC:TermGenie] synonym: "activation of RNA synthesis" NARROW [GOC:TermGenie] synonym: "positive regulation of RNA anabolism" EXACT [GOC:TermGenie] synonym: "positive regulation of RNA biosynthesis" EXACT [GOC:TermGenie] synonym: "positive regulation of RNA formation" EXACT [GOC:TermGenie] synonym: "positive regulation of RNA synthesis" EXACT [GOC:TermGenie] synonym: "up regulation of RNA anabolism" EXACT [GOC:TermGenie] synonym: "up regulation of RNA biosynthesis" EXACT [GOC:TermGenie] synonym: "up regulation of RNA biosynthetic process" EXACT [GOC:TermGenie] synonym: "up regulation of RNA formation" EXACT [GOC:TermGenie] synonym: "up regulation of RNA synthesis" EXACT [GOC:TermGenie] synonym: "up-regulation of RNA anabolism" EXACT [GOC:TermGenie] synonym: "up-regulation of RNA biosynthesis" EXACT [GOC:TermGenie] synonym: "up-regulation of RNA biosynthetic process" EXACT [GOC:TermGenie] synonym: "up-regulation of RNA formation" EXACT [GOC:TermGenie] synonym: "up-regulation of RNA synthesis" EXACT [GOC:TermGenie] synonym: "upregulation of RNA anabolism" EXACT [GOC:TermGenie] synonym: "upregulation of RNA biosynthesis" EXACT [GOC:TermGenie] synonym: "upregulation of RNA biosynthetic process" EXACT [GOC:TermGenie] synonym: "upregulation of RNA formation" EXACT [GOC:TermGenie] synonym: "upregulation of RNA synthesis" EXACT [GOC:TermGenie] is_a: GO:0010557 ! positive regulation of macromolecule biosynthetic process is_a: GO:0031328 ! positive regulation of cellular biosynthetic process is_a: GO:0051254 ! positive regulation of RNA metabolic process is_a: GO:2001141 ! regulation of RNA biosynthetic process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0032774 ! RNA biosynthetic process relationship: positively_regulates GO:0032774 ! RNA biosynthetic process created_by: jl creation_date: 2014-02-05T16:32:10Z [Term] id: GO:1902692 name: regulation of neuroblast proliferation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of neuroblast proliferation." [GO_REF:0000058, GOC:PARL, GOC:rl, GOC:TermGenie, PMID:21168496] is_a: GO:2000177 ! regulation of neural precursor cell proliferation intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0007405 ! neuroblast proliferation relationship: regulates GO:0007405 ! neuroblast proliferation created_by: rl creation_date: 2014-02-18T10:03:31Z [Term] id: GO:1902738 name: regulation of chondrocyte differentiation involved in endochondral bone morphogenesis namespace: biological_process def: "Any process that modulates the rate, frequency, or extent of the process in which a chondroblast acquires specialized structural and/or functional features of a chondrocyte that will contribute to the development of a bone. A chondrocyte is a polymorphic cell that forms cartilage." [GO_REF:0000058, GOC:TermGenie, PMID:8662546] is_a: GO:0032330 ! regulation of chondrocyte differentiation is_a: GO:1903010 ! regulation of bone development is_a: GO:2000027 ! regulation of animal organ morphogenesis intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0003413 ! chondrocyte differentiation involved in endochondral bone morphogenesis relationship: regulates GO:0003413 ! chondrocyte differentiation involved in endochondral bone morphogenesis created_by: mr creation_date: 2014-02-26T15:36:15Z [Term] id: GO:1902742 name: apoptotic process involved in development namespace: biological_process def: "Any apoptotic process that is involved in anatomical structure development." [GO_REF:0000060, GOC:mtg_apoptosis, GOC:pg, GOC:TermGenie] synonym: "activation of apoptosis involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "activation of apoptosis involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "apoptosis activator activity involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "apoptosis activator activity involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "apoptosis involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "apoptosis involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "apoptosis signaling involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "apoptosis signaling involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "apoptotic cell death involved in anatomical structure development" EXACT [GOC:TermGenie] synonym: "apoptotic cell death involved in development of an anatomical structure" EXACT [GOC:TermGenie] synonym: "apoptotic process involved in anatomical structure development" EXACT [] synonym: "apoptotic process involved in development of an anatomical structure" EXACT [GOC:TermGenie] synonym: "apoptotic program involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "apoptotic program involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "apoptotic programmed cell death involved in anatomical structure development" EXACT [GOC:TermGenie] synonym: "apoptotic programmed cell death involved in development of an anatomical structure" EXACT [GOC:TermGenie] synonym: "commitment to apoptosis involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "commitment to apoptosis involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "induction of apoptosis by p53 involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "induction of apoptosis by p53 involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "induction of apoptosis involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "induction of apoptosis involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "programmed cell death by apoptosis involved in anatomical structure development" EXACT [GOC:TermGenie] synonym: "programmed cell death by apoptosis involved in development of an anatomical structure" EXACT [GOC:TermGenie] synonym: "signaling (initiator) caspase activity involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "signaling (initiator) caspase activity involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "type I programmed cell death involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "type I programmed cell death involved in development of an anatomical structure" NARROW [GOC:TermGenie] is_a: GO:0006915 ! apoptotic process intersection_of: GO:0006915 ! apoptotic process intersection_of: part_of GO:0048856 ! anatomical structure development relationship: part_of GO:0048856 ! anatomical structure development created_by: pr creation_date: 2014-02-28T13:09:43Z [Term] id: GO:1902761 name: positive regulation of chondrocyte development namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of chondrocyte development." [GO_REF:0000058, GOC:mr, GOC:TermGenie, PMID:16575901] synonym: "activation of chondrocyte development" NARROW [GOC:TermGenie] synonym: "up regulation of chondrocyte development" EXACT [GOC:TermGenie] synonym: "up-regulation of chondrocyte development" EXACT [GOC:TermGenie] synonym: "upregulation of chondrocyte development" EXACT [GOC:TermGenie] is_a: GO:0010720 ! positive regulation of cell development is_a: GO:0032332 ! positive regulation of chondrocyte differentiation is_a: GO:0061181 ! regulation of chondrocyte development intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0002063 ! chondrocyte development relationship: positively_regulates GO:0002063 ! chondrocyte development created_by: mr creation_date: 2014-03-07T17:45:55Z [Term] id: GO:1902809 name: regulation of skeletal muscle fiber differentiation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of skeletal muscle fiber differentiation." [GO_REF:0000058, GOC:mr, GOC:TermGenie, PMID:17879321] is_a: GO:0010830 ! regulation of myotube differentiation is_a: GO:2001014 ! regulation of skeletal muscle cell differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0098528 ! skeletal muscle fiber differentiation relationship: regulates GO:0098528 ! skeletal muscle fiber differentiation created_by: mr creation_date: 2014-03-26T21:18:26Z [Term] id: GO:1902810 name: negative regulation of skeletal muscle fiber differentiation namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of skeletal muscle fiber differentiation." [GO_REF:0000058, GOC:mr, GOC:TermGenie, PMID:17879321] synonym: "down regulation of skeletal muscle fiber differentiation" EXACT [GOC:TermGenie] synonym: "down-regulation of skeletal muscle fiber differentiation" EXACT [GOC:TermGenie] synonym: "downregulation of skeletal muscle fiber differentiation" EXACT [GOC:TermGenie] synonym: "inhibition of skeletal muscle fiber differentiation" NARROW [GOC:TermGenie] is_a: GO:0010832 ! negative regulation of myotube differentiation is_a: GO:1902809 ! regulation of skeletal muscle fiber differentiation is_a: GO:2001015 ! negative regulation of skeletal muscle cell differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0098528 ! skeletal muscle fiber differentiation relationship: negatively_regulates GO:0098528 ! skeletal muscle fiber differentiation created_by: mr creation_date: 2014-03-26T21:18:32Z [Term] id: GO:1902811 name: positive regulation of skeletal muscle fiber differentiation namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of skeletal muscle fiber differentiation." [GO_REF:0000058, GOC:mr, GOC:TermGenie, PMID:17879321] synonym: "activation of skeletal muscle fiber differentiation" NARROW [GOC:TermGenie] synonym: "up regulation of skeletal muscle fiber differentiation" EXACT [GOC:TermGenie] synonym: "up-regulation of skeletal muscle fiber differentiation" EXACT [GOC:TermGenie] synonym: "upregulation of skeletal muscle fiber differentiation" EXACT [GOC:TermGenie] is_a: GO:0010831 ! positive regulation of myotube differentiation is_a: GO:1902809 ! regulation of skeletal muscle fiber differentiation is_a: GO:2001016 ! positive regulation of skeletal muscle cell differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0098528 ! skeletal muscle fiber differentiation relationship: positively_regulates GO:0098528 ! skeletal muscle fiber differentiation created_by: mr creation_date: 2014-03-26T21:18:38Z [Term] id: GO:1902816 name: regulation of protein localization to microtubule namespace: biological_process def: "Any process that modulates the frequency, rate or extent of protein localization to microtubule." [GO_REF:0000058, GOC:TermGenie, GOC:vw, PMID:23087209] synonym: "regulation of protein localisation to microtubule" EXACT [GOC:TermGenie] is_a: GO:0032880 ! regulation of protein localization is_a: GO:0060341 ! regulation of cellular localization intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0035372 ! protein localization to microtubule relationship: regulates GO:0035372 ! protein localization to microtubule created_by: tb creation_date: 2014-03-27T22:07:12Z [Term] id: GO:1902817 name: negative regulation of protein localization to microtubule namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of protein localization to microtubule." [GO_REF:0000058, GOC:TermGenie, GOC:vw, PMID:23087209] synonym: "down regulation of protein localisation to microtubule" EXACT [GOC:TermGenie] synonym: "down regulation of protein localization to microtubule" EXACT [GOC:TermGenie] synonym: "down-regulation of protein localisation to microtubule" EXACT [GOC:TermGenie] synonym: "down-regulation of protein localization to microtubule" EXACT [GOC:TermGenie] synonym: "downregulation of protein localisation to microtubule" EXACT [GOC:TermGenie] synonym: "downregulation of protein localization to microtubule" EXACT [GOC:TermGenie] synonym: "inhibition of protein localisation to microtubule" NARROW [GOC:TermGenie] synonym: "inhibition of protein localization to microtubule" NARROW [GOC:TermGenie] synonym: "negative regulation of protein localisation to microtubule" EXACT [GOC:TermGenie] is_a: GO:0048523 ! negative regulation of cellular process is_a: GO:1902816 ! regulation of protein localization to microtubule is_a: GO:1903828 ! negative regulation of protein localization intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0035372 ! protein localization to microtubule relationship: negatively_regulates GO:0035372 ! protein localization to microtubule created_by: tb creation_date: 2014-03-27T22:07:18Z [Term] id: GO:1902838 name: regulation of nuclear migration along microtubule namespace: biological_process def: "Any process that modulates the frequency, rate or extent of nuclear migration along microtubule." [GO_REF:0000058, GOC:TermGenie, PMID:23087209] synonym: "regulation of microtubule cytoskeleton-dependent nuclear positioning" EXACT [GOC:TermGenie] synonym: "regulation of microtubule cytoskeleton-dependent nucleus positioning" EXACT [GOC:TermGenie] synonym: "regulation of microtubule-dependent nuclear positioning" EXACT [GOC:TermGenie] synonym: "regulation of microtubule-dependent nucleus positioning" EXACT [GOC:TermGenie] synonym: "regulation of microtubule-mediated nuclear migration" EXACT [GOC:TermGenie] synonym: "regulation of nuclear migration, microtubule-mediated" EXACT [GOC:TermGenie] synonym: "regulation of nuclear movement, microtubule-mediated" BROAD [GOC:TermGenie] synonym: "regulation of nucleus migration" BROAD [GOC:TermGenie] synonym: "regulation of transport of nucleus by microtubules" EXACT [GOC:TermGenie] synonym: "regulation of transport of nucleus, microtubule-mediated" EXACT [GOC:TermGenie] is_a: GO:1902513 ! regulation of organelle transport along microtubule intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0030473 ! nuclear migration along microtubule relationship: regulates GO:0030473 ! nuclear migration along microtubule created_by: vw creation_date: 2014-04-01T13:50:23Z [Term] id: GO:1902839 name: negative regulation of nuclear migration along microtubule namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of nuclear migration along microtubule." [GO_REF:0000058, GOC:TermGenie, PMID:23087209] synonym: "down regulation of microtubule cytoskeleton-dependent nuclear positioning" EXACT [GOC:TermGenie] synonym: "down regulation of microtubule cytoskeleton-dependent nucleus positioning" EXACT [GOC:TermGenie] synonym: "down regulation of microtubule-dependent nuclear positioning" EXACT [GOC:TermGenie] synonym: "down regulation of microtubule-dependent nucleus positioning" EXACT [GOC:TermGenie] synonym: "down regulation of microtubule-mediated nuclear migration" EXACT [GOC:TermGenie] synonym: "down regulation of nuclear migration along microtubule" EXACT [GOC:TermGenie] synonym: "down regulation of nuclear migration, microtubule-mediated" EXACT [GOC:TermGenie] synonym: "down regulation of transport of nucleus by microtubules" EXACT [GOC:TermGenie] synonym: "down regulation of transport of nucleus, microtubule-mediated" EXACT [GOC:TermGenie] synonym: "down-regulation of microtubule cytoskeleton-dependent nuclear positioning" EXACT [GOC:TermGenie] synonym: "down-regulation of microtubule cytoskeleton-dependent nucleus positioning" EXACT [GOC:TermGenie] synonym: "down-regulation of microtubule-dependent nuclear positioning" EXACT [GOC:TermGenie] synonym: "down-regulation of microtubule-dependent nucleus positioning" EXACT [GOC:TermGenie] synonym: "down-regulation of microtubule-mediated nuclear migration" EXACT [GOC:TermGenie] synonym: "down-regulation of nuclear migration along microtubule" EXACT [GOC:TermGenie] synonym: "down-regulation of nuclear migration, microtubule-mediated" EXACT [GOC:TermGenie] synonym: "down-regulation of transport of nucleus by microtubules" EXACT [GOC:TermGenie] synonym: "down-regulation of transport of nucleus, microtubule-mediated" EXACT [GOC:TermGenie] synonym: "downregulation of microtubule cytoskeleton-dependent nuclear positioning" EXACT [GOC:TermGenie] synonym: "downregulation of microtubule cytoskeleton-dependent nucleus positioning" EXACT [GOC:TermGenie] synonym: "downregulation of microtubule-dependent nuclear positioning" EXACT [GOC:TermGenie] synonym: "downregulation of microtubule-dependent nucleus positioning" EXACT [GOC:TermGenie] synonym: "downregulation of microtubule-mediated nuclear migration" EXACT [GOC:TermGenie] synonym: "downregulation of nuclear migration along microtubule" EXACT [GOC:TermGenie] synonym: "downregulation of nuclear migration, microtubule-mediated" EXACT [GOC:TermGenie] synonym: "downregulation of transport of nucleus by microtubules" EXACT [GOC:TermGenie] synonym: "downregulation of transport of nucleus, microtubule-mediated" EXACT [GOC:TermGenie] synonym: "inhibition of microtubule cytoskeleton-dependent nuclear positioning" NARROW [GOC:TermGenie] synonym: "inhibition of microtubule cytoskeleton-dependent nucleus positioning" NARROW [GOC:TermGenie] synonym: "inhibition of microtubule-dependent nuclear positioning" NARROW [GOC:TermGenie] synonym: "inhibition of microtubule-dependent nucleus positioning" NARROW [GOC:TermGenie] synonym: "inhibition of microtubule-mediated nuclear migration" NARROW [GOC:TermGenie] synonym: "inhibition of nuclear migration along microtubule" NARROW [GOC:TermGenie] synonym: "inhibition of nuclear migration, microtubule-mediated" NARROW [GOC:TermGenie] synonym: "inhibition of transport of nucleus by microtubules" NARROW [GOC:TermGenie] synonym: "inhibition of transport of nucleus, microtubule-mediated" NARROW [GOC:TermGenie] synonym: "negative regulation of microtubule cytoskeleton-dependent nuclear positioning" EXACT [GOC:TermGenie] synonym: "negative regulation of microtubule cytoskeleton-dependent nucleus positioning" EXACT [GOC:TermGenie] synonym: "negative regulation of microtubule-dependent nuclear positioning" EXACT [GOC:TermGenie] synonym: "negative regulation of microtubule-dependent nucleus positioning" EXACT [GOC:TermGenie] synonym: "negative regulation of microtubule-mediated nuclear migration" EXACT [GOC:TermGenie] synonym: "negative regulation of nuclear migration, microtubule-mediated" EXACT [GOC:TermGenie] synonym: "negative regulation of transport of nucleus by microtubules" EXACT [GOC:TermGenie] synonym: "negative regulation of transport of nucleus, microtubule-mediated" EXACT [GOC:TermGenie] is_a: GO:0032387 ! negative regulation of intracellular transport is_a: GO:0051271 ! negative regulation of cellular component movement is_a: GO:1902838 ! regulation of nuclear migration along microtubule intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0030473 ! nuclear migration along microtubule relationship: negatively_regulates GO:0030473 ! nuclear migration along microtubule created_by: vw creation_date: 2014-04-01T13:50:29Z [Term] id: GO:1902840 name: positive regulation of nuclear migration along microtubule namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of nuclear migration along microtubule." [GO_REF:0000058, GOC:TermGenie, PMID:23087209] synonym: "activation of microtubule cytoskeleton-dependent nuclear positioning" NARROW [GOC:TermGenie] synonym: "activation of microtubule cytoskeleton-dependent nucleus positioning" NARROW [GOC:TermGenie] synonym: "activation of microtubule-dependent nuclear positioning" NARROW [GOC:TermGenie] synonym: "activation of microtubule-dependent nucleus positioning" NARROW [GOC:TermGenie] synonym: "activation of microtubule-mediated nuclear migration" NARROW [GOC:TermGenie] synonym: "activation of nuclear migration along microtubule" NARROW [GOC:TermGenie] synonym: "activation of nuclear migration, microtubule-mediated" NARROW [GOC:TermGenie] synonym: "activation of transport of nucleus by microtubules" NARROW [GOC:TermGenie] synonym: "activation of transport of nucleus, microtubule-mediated" NARROW [GOC:TermGenie] synonym: "positive regulation of microtubule cytoskeleton-dependent nuclear positioning" EXACT [GOC:TermGenie] synonym: "positive regulation of microtubule cytoskeleton-dependent nucleus positioning" EXACT [GOC:TermGenie] synonym: "positive regulation of microtubule-dependent nuclear positioning" EXACT [GOC:TermGenie] synonym: "positive regulation of microtubule-dependent nucleus positioning" EXACT [GOC:TermGenie] synonym: "positive regulation of microtubule-mediated nuclear migration" EXACT [GOC:TermGenie] synonym: "positive regulation of nuclear migration, microtubule-mediated" EXACT [GOC:TermGenie] synonym: "positive regulation of transport of nucleus by microtubules" EXACT [GOC:TermGenie] synonym: "positive regulation of transport of nucleus, microtubule-mediated" EXACT [GOC:TermGenie] synonym: "up regulation of microtubule cytoskeleton-dependent nuclear positioning" EXACT [GOC:TermGenie] synonym: "up regulation of microtubule cytoskeleton-dependent nucleus positioning" EXACT [GOC:TermGenie] synonym: "up regulation of microtubule-dependent nuclear positioning" EXACT [GOC:TermGenie] synonym: "up regulation of microtubule-dependent nucleus positioning" EXACT [GOC:TermGenie] synonym: "up regulation of microtubule-mediated nuclear migration" EXACT [GOC:TermGenie] synonym: "up regulation of nuclear migration along microtubule" EXACT [GOC:TermGenie] synonym: "up regulation of nuclear migration, microtubule-mediated" EXACT [GOC:TermGenie] synonym: "up regulation of transport of nucleus by microtubules" EXACT [GOC:TermGenie] synonym: "up regulation of transport of nucleus, microtubule-mediated" EXACT [GOC:TermGenie] synonym: "up-regulation of microtubule cytoskeleton-dependent nuclear positioning" EXACT [GOC:TermGenie] synonym: "up-regulation of microtubule cytoskeleton-dependent nucleus positioning" EXACT [GOC:TermGenie] synonym: "up-regulation of microtubule-dependent nuclear positioning" EXACT [GOC:TermGenie] synonym: "up-regulation of microtubule-dependent nucleus positioning" EXACT [GOC:TermGenie] synonym: "up-regulation of microtubule-mediated nuclear migration" EXACT [GOC:TermGenie] synonym: "up-regulation of nuclear migration along microtubule" EXACT [GOC:TermGenie] synonym: "up-regulation of nuclear migration, microtubule-mediated" EXACT [GOC:TermGenie] synonym: "up-regulation of transport of nucleus by microtubules" EXACT [GOC:TermGenie] synonym: "up-regulation of transport of nucleus, microtubule-mediated" EXACT [GOC:TermGenie] synonym: "upregulation of microtubule cytoskeleton-dependent nuclear positioning" EXACT [GOC:TermGenie] synonym: "upregulation of microtubule cytoskeleton-dependent nucleus positioning" EXACT [GOC:TermGenie] synonym: "upregulation of microtubule-dependent nuclear positioning" EXACT [GOC:TermGenie] synonym: "upregulation of microtubule-dependent nucleus positioning" EXACT [GOC:TermGenie] synonym: "upregulation of microtubule-mediated nuclear migration" EXACT [GOC:TermGenie] synonym: "upregulation of nuclear migration along microtubule" EXACT [GOC:TermGenie] synonym: "upregulation of nuclear migration, microtubule-mediated" EXACT [GOC:TermGenie] synonym: "upregulation of transport of nucleus by microtubules" EXACT [GOC:TermGenie] synonym: "upregulation of transport of nucleus, microtubule-mediated" EXACT [GOC:TermGenie] is_a: GO:0032388 ! positive regulation of intracellular transport is_a: GO:0051272 ! positive regulation of cellular component movement is_a: GO:1902838 ! regulation of nuclear migration along microtubule intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0030473 ! nuclear migration along microtubule relationship: positively_regulates GO:0030473 ! nuclear migration along microtubule created_by: vw creation_date: 2014-04-01T13:50:35Z [Term] id: GO:1902850 name: microtubule cytoskeleton organization involved in mitosis namespace: biological_process def: "Any microtubule cytoskeleton organization that is involved in mitosis." [GO_REF:0000060, GOC:TermGenie, PMID:18799626] synonym: "microtubule cytoskeleton organisation involved in mitosis" EXACT [GOC:TermGenie] synonym: "microtubule cytoskeleton organization and biogenesis involved in mitosis" RELATED [GOC:TermGenie] synonym: "microtubule dynamics involved in mitosis" EXACT [GOC:TermGenie] is_a: GO:0000226 ! microtubule cytoskeleton organization is_a: GO:1903047 ! mitotic cell cycle process intersection_of: GO:0000226 ! microtubule cytoskeleton organization intersection_of: part_of GO:0000278 ! mitotic cell cycle created_by: vw creation_date: 2014-04-02T14:19:38Z [Term] id: GO:1902863 name: regulation of embryonic camera-type eye development namespace: biological_process def: "Any process that modulates the frequency, rate or extent of embryonic camera-type eye development." [GO_REF:0000058, GOC:mr, GOC:TermGenie, PMID:16872597] synonym: "regulation of embryonic eye development" EXACT [GOC:TermGenie] is_a: GO:0050793 ! regulation of developmental process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0031076 ! embryonic camera-type eye development relationship: regulates GO:0031076 ! embryonic camera-type eye development created_by: mr creation_date: 2014-04-03T15:24:00Z [Term] id: GO:1902864 name: negative regulation of embryonic camera-type eye development namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of embryonic camera-type eye development." [GO_REF:0000058, GOC:mr, GOC:TermGenie, PMID:16872597] synonym: "down regulation of embryonic camera-type eye development" EXACT [GOC:TermGenie] synonym: "down regulation of embryonic eye development" EXACT [GOC:TermGenie] synonym: "down-regulation of embryonic camera-type eye development" EXACT [GOC:TermGenie] synonym: "down-regulation of embryonic eye development" EXACT [GOC:TermGenie] synonym: "downregulation of embryonic camera-type eye development" EXACT [GOC:TermGenie] synonym: "downregulation of embryonic eye development" EXACT [GOC:TermGenie] synonym: "inhibition of embryonic camera-type eye development" NARROW [GOC:TermGenie] synonym: "inhibition of embryonic eye development" NARROW [GOC:TermGenie] synonym: "negative regulation of embryonic eye development" EXACT [GOC:TermGenie] is_a: GO:0051093 ! negative regulation of developmental process is_a: GO:1902863 ! regulation of embryonic camera-type eye development intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0031076 ! embryonic camera-type eye development relationship: negatively_regulates GO:0031076 ! embryonic camera-type eye development created_by: mr creation_date: 2014-04-03T15:24:06Z [Term] id: GO:1902865 name: positive regulation of embryonic camera-type eye development namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of embryonic camera-type eye development." [GO_REF:0000058, GOC:mr, GOC:TermGenie, PMID:16872597] synonym: "activation of embryonic camera-type eye development" NARROW [GOC:TermGenie] synonym: "activation of embryonic eye development" NARROW [GOC:TermGenie] synonym: "positive regulation of embryonic eye development" EXACT [GOC:TermGenie] synonym: "up regulation of embryonic camera-type eye development" EXACT [GOC:TermGenie] synonym: "up regulation of embryonic eye development" EXACT [GOC:TermGenie] synonym: "up-regulation of embryonic camera-type eye development" EXACT [GOC:TermGenie] synonym: "up-regulation of embryonic eye development" EXACT [GOC:TermGenie] synonym: "upregulation of embryonic camera-type eye development" EXACT [GOC:TermGenie] synonym: "upregulation of embryonic eye development" EXACT [GOC:TermGenie] is_a: GO:0051094 ! positive regulation of developmental process is_a: GO:1902863 ! regulation of embryonic camera-type eye development intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0031076 ! embryonic camera-type eye development relationship: positively_regulates GO:0031076 ! embryonic camera-type eye development created_by: mr creation_date: 2014-04-03T15:24:12Z [Term] id: GO:1902866 name: regulation of retina development in camera-type eye namespace: biological_process def: "Any process that modulates the frequency, rate or extent of retina development in camera-type eye." [GO_REF:0000058, GOC:mr, GOC:TermGenie, PMID:16872597] synonym: "regulation of retina development in camera-style eye" EXACT [GOC:TermGenie] synonym: "regulation of retinal development" RELATED [GOC:TermGenie] is_a: GO:0050793 ! regulation of developmental process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0060041 ! retina development in camera-type eye relationship: regulates GO:0060041 ! retina development in camera-type eye created_by: mr creation_date: 2014-04-03T15:24:17Z [Term] id: GO:1902867 name: negative regulation of retina development in camera-type eye namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of retina development in camera-type eye." [GO_REF:0000058, GOC:mr, GOC:TermGenie, PMID:16872597] synonym: "down regulation of retina development in camera-style eye" EXACT [GOC:TermGenie] synonym: "down regulation of retina development in camera-type eye" EXACT [GOC:TermGenie] synonym: "down regulation of retinal development" RELATED [GOC:TermGenie] synonym: "down-regulation of retina development in camera-style eye" EXACT [GOC:TermGenie] synonym: "down-regulation of retina development in camera-type eye" EXACT [GOC:TermGenie] synonym: "down-regulation of retinal development" RELATED [GOC:TermGenie] synonym: "downregulation of retina development in camera-style eye" EXACT [GOC:TermGenie] synonym: "downregulation of retina development in camera-type eye" EXACT [GOC:TermGenie] synonym: "downregulation of retinal development" RELATED [GOC:TermGenie] synonym: "inhibition of retina development in camera-style eye" NARROW [GOC:TermGenie] synonym: "inhibition of retina development in camera-type eye" NARROW [GOC:TermGenie] synonym: "inhibition of retinal development" RELATED [GOC:TermGenie] synonym: "negative regulation of retina development in camera-style eye" EXACT [GOC:TermGenie] synonym: "negative regulation of retinal development" RELATED [GOC:TermGenie] is_a: GO:0051093 ! negative regulation of developmental process is_a: GO:0051241 ! negative regulation of multicellular organismal process is_a: GO:1902866 ! regulation of retina development in camera-type eye intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0060041 ! retina development in camera-type eye relationship: negatively_regulates GO:0060041 ! retina development in camera-type eye created_by: mr creation_date: 2014-04-03T15:24:23Z [Term] id: GO:1902868 name: positive regulation of retina development in camera-type eye namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of retina development in camera-type eye." [GO_REF:0000058, GOC:mr, GOC:TermGenie, PMID:16872597] synonym: "activation of retina development in camera-style eye" NARROW [GOC:TermGenie] synonym: "activation of retina development in camera-type eye" NARROW [GOC:TermGenie] synonym: "activation of retinal development" RELATED [GOC:TermGenie] synonym: "positive regulation of retina development in camera-style eye" EXACT [GOC:TermGenie] synonym: "positive regulation of retinal development" RELATED [GOC:TermGenie] synonym: "up regulation of retina development in camera-style eye" EXACT [GOC:TermGenie] synonym: "up regulation of retina development in camera-type eye" EXACT [GOC:TermGenie] synonym: "up regulation of retinal development" RELATED [GOC:TermGenie] synonym: "up-regulation of retina development in camera-style eye" EXACT [GOC:TermGenie] synonym: "up-regulation of retina development in camera-type eye" EXACT [GOC:TermGenie] synonym: "up-regulation of retinal development" RELATED [GOC:TermGenie] synonym: "upregulation of retina development in camera-style eye" EXACT [GOC:TermGenie] synonym: "upregulation of retina development in camera-type eye" EXACT [GOC:TermGenie] synonym: "upregulation of retinal development" RELATED [GOC:TermGenie] is_a: GO:0051094 ! positive regulation of developmental process is_a: GO:0051240 ! positive regulation of multicellular organismal process is_a: GO:1902866 ! regulation of retina development in camera-type eye intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0060041 ! retina development in camera-type eye relationship: positively_regulates GO:0060041 ! retina development in camera-type eye created_by: mr creation_date: 2014-04-03T15:24:29Z [Term] id: GO:1902903 name: regulation of supramolecular fiber organization namespace: biological_process def: "Any process that modulates the frequency, rate or extent of supramolecular fiber organization." [GO_REF:0000058, GOC:PARL, GOC:rl, GOC:TermGenie, PMID:23921388] comment: HSPA8, human, P11142 in PMID:23921388 inferred from direct assay to negatively regulate fibrillation of alpha-Syn in vitro synonym: "regulation of fibril organisation" RELATED [GOC:TermGenie] is_a: GO:0051128 ! regulation of cellular component organization intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0097435 ! supramolecular fiber organization relationship: regulates GO:0097435 ! supramolecular fiber organization created_by: rl creation_date: 2014-04-15T16:46:36Z [Term] id: GO:1902904 name: negative regulation of supramolecular fiber organization namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of fibril organization." [GO_REF:0000058, GOC:PARL, GOC:rl, GOC:TermGenie, PMID:23921388] comment: HSPA8, human, P11142 in PMID:23921388 inferred from direct assay to negatively regulate fibrillation of alpha-Syn in vitro synonym: "down regulation of fibril organisation" RELATED [GOC:TermGenie] synonym: "down regulation of fibril organization" RELATED [GOC:TermGenie] synonym: "down-regulation of fibril organisation" RELATED [GOC:TermGenie] synonym: "down-regulation of fibril organization" RELATED [GOC:TermGenie] synonym: "downregulation of fibril organisation" RELATED [GOC:TermGenie] synonym: "downregulation of fibril organization" RELATED [GOC:TermGenie] synonym: "inhibition of fibril organisation" NARROW [GOC:TermGenie] synonym: "inhibition of fibril organization" NARROW [GOC:TermGenie] synonym: "negative regulation of fibril organisation" RELATED [GOC:TermGenie] is_a: GO:0051129 ! negative regulation of cellular component organization is_a: GO:1902903 ! regulation of supramolecular fiber organization intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0097435 ! supramolecular fiber organization relationship: negatively_regulates GO:0097435 ! supramolecular fiber organization created_by: rl creation_date: 2014-04-15T16:46:42Z [Term] id: GO:1902905 name: positive regulation of supramolecular fiber organization namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of supramolecular fiber organization." [GO_REF:0000058, GOC:PARL, GOC:rl, GOC:TermGenie, PMID:23921388] comment: HSPA8, human, P11142 in PMID:23921388 inferred from direct assay to negatively regulate fibrillation of alpha-Syn in vitro synonym: "activation of fibril organisation" NARROW [GOC:TermGenie] synonym: "activation of fibril organization" NARROW [GOC:TermGenie] synonym: "positive regulation of fibril organisation" RELATED [GOC:TermGenie] synonym: "up regulation of fibril organisation" RELATED [GOC:TermGenie] synonym: "up regulation of fibril organization" RELATED [GOC:TermGenie] synonym: "up-regulation of fibril organisation" RELATED [GOC:TermGenie] synonym: "up-regulation of fibril organization" RELATED [GOC:TermGenie] synonym: "upregulation of fibril organisation" RELATED [GOC:TermGenie] synonym: "upregulation of fibril organization" RELATED [GOC:TermGenie] is_a: GO:0051130 ! positive regulation of cellular component organization is_a: GO:1902903 ! regulation of supramolecular fiber organization intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0097435 ! supramolecular fiber organization relationship: positively_regulates GO:0097435 ! supramolecular fiber organization created_by: rl creation_date: 2014-04-15T16:46:48Z [Term] id: GO:1902913 name: positive regulation of neuroepithelial cell differentiation namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of neuroepithelial cell differentiation." [GO_REF:0000058, GOC:mr, GOC:TermGenie, PMID:16916506] synonym: "activation of neuroepithelial cell differentiation" NARROW [GOC:TermGenie] synonym: "up regulation of neuroepithelial cell differentiation" EXACT [GOC:TermGenie] synonym: "up-regulation of neuroepithelial cell differentiation" EXACT [GOC:TermGenie] synonym: "upregulation of neuroepithelial cell differentiation" EXACT [GOC:TermGenie] is_a: GO:0030858 ! positive regulation of epithelial cell differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0060563 ! neuroepithelial cell differentiation relationship: positively_regulates GO:0060563 ! neuroepithelial cell differentiation created_by: mr creation_date: 2014-04-18T21:06:42Z [Term] id: GO:1903008 name: organelle disassembly namespace: biological_process def: "The disaggregation of an organelle into its constituent components." [GO_REF:0000079, GOC:TermGenie] synonym: "organelle degradation" EXACT [] is_a: GO:0006996 ! organelle organization is_a: GO:0022411 ! cellular component disassembly intersection_of: GO:0022411 ! cellular component disassembly intersection_of: results_in_disassembly_of GO:0043226 ! organelle relationship: results_in_disassembly_of GO:0043226 ! organelle created_by: jl creation_date: 2014-05-13T12:36:03Z [Term] id: GO:1903010 name: regulation of bone development namespace: biological_process def: "Any process that modulates the frequency, rate or extent of bone development." [GO_REF:0000058, GOC:mr, GOC:TermGenie, PMID:22510437] is_a: GO:2000026 ! regulation of multicellular organismal development intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0060348 ! bone development relationship: regulates GO:0060348 ! bone development created_by: mr creation_date: 2014-05-13T22:41:53Z [Term] id: GO:1903011 name: negative regulation of bone development namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of bone development." [GO_REF:0000058, GOC:mr, GOC:TermGenie, PMID:22510437] synonym: "down regulation of bone development" EXACT [GOC:TermGenie] synonym: "down-regulation of bone development" EXACT [GOC:TermGenie] synonym: "downregulation of bone development" EXACT [GOC:TermGenie] synonym: "inhibition of bone development" NARROW [GOC:TermGenie] is_a: GO:0051093 ! negative regulation of developmental process is_a: GO:0051241 ! negative regulation of multicellular organismal process is_a: GO:1903010 ! regulation of bone development intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0060348 ! bone development relationship: negatively_regulates GO:0060348 ! bone development created_by: mr creation_date: 2014-05-13T22:42:00Z [Term] id: GO:1903012 name: positive regulation of bone development namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of bone development." [GO_REF:0000058, GOC:mr, GOC:TermGenie, PMID:22510437] synonym: "activation of bone development" NARROW [GOC:TermGenie] synonym: "up regulation of bone development" EXACT [GOC:TermGenie] synonym: "up-regulation of bone development" EXACT [GOC:TermGenie] synonym: "upregulation of bone development" EXACT [GOC:TermGenie] is_a: GO:0051094 ! positive regulation of developmental process is_a: GO:0051240 ! positive regulation of multicellular organismal process is_a: GO:1903010 ! regulation of bone development intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0060348 ! bone development relationship: positively_regulates GO:0060348 ! bone development created_by: mr creation_date: 2014-05-13T22:42:06Z [Term] id: GO:1903018 name: regulation of glycoprotein metabolic process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of glycoprotein metabolic process." [GO_REF:0000058, GOC:BHF, GOC:rl, GOC:TermGenie, PMID:23544079] comment: human serum amyloid P component (SAP) P02743 inhibits viral neuraminidase, NA (exo-alpha-sialidase activity) and thus the metabolism of glycoproteins, demonstrated in Figure 4A PMID:23544079, (IDA), the negative regulation term would be applied to this protein synonym: "regulation of glycoprotein metabolism" EXACT [GOC:TermGenie] is_a: GO:0031323 ! regulation of cellular metabolic process is_a: GO:0051246 ! regulation of protein metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0009100 ! glycoprotein metabolic process relationship: regulates GO:0009100 ! glycoprotein metabolic process created_by: rl creation_date: 2014-05-14T18:44:19Z [Term] id: GO:1903019 name: negative regulation of glycoprotein metabolic process namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of glycoprotein metabolic process." [GO_REF:0000058, GOC:BHF, GOC:rl, GOC:TermGenie, PMID:23544079] comment: human serum amyloid P component (SAP) P02743 inhibits viral neuraminidase, NA (exo-alpha-sialidase activity) and thus the metabolism of glycoproteins, demonstrated in Figure 4A PMID:23544079, (IDA), the negative regulation term would be applied to this protein synonym: "down regulation of glycoprotein metabolic process" EXACT [GOC:TermGenie] synonym: "down regulation of glycoprotein metabolism" EXACT [GOC:TermGenie] synonym: "down-regulation of glycoprotein metabolic process" EXACT [GOC:TermGenie] synonym: "down-regulation of glycoprotein metabolism" EXACT [GOC:TermGenie] synonym: "downregulation of glycoprotein metabolic process" EXACT [GOC:TermGenie] synonym: "downregulation of glycoprotein metabolism" EXACT [GOC:TermGenie] synonym: "inhibition of glycoprotein metabolic process" NARROW [GOC:TermGenie] synonym: "inhibition of glycoprotein metabolism" NARROW [GOC:TermGenie] synonym: "negative regulation of glycoprotein metabolism" EXACT [GOC:TermGenie] is_a: GO:0031324 ! negative regulation of cellular metabolic process is_a: GO:0051248 ! negative regulation of protein metabolic process is_a: GO:1903018 ! regulation of glycoprotein metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0009100 ! glycoprotein metabolic process relationship: negatively_regulates GO:0009100 ! glycoprotein metabolic process created_by: rl creation_date: 2014-05-14T18:44:25Z [Term] id: GO:1903020 name: positive regulation of glycoprotein metabolic process namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of glycoprotein metabolic process." [GO_REF:0000058, GOC:BHF, GOC:rl, GOC:TermGenie, PMID:23544079] comment: human serum amyloid P component (SAP) P02743 inhibits viral neuraminidase, NA (exo-alpha-sialidase activity) and thus the metabolism of glycoproteins, demonstrated in Figure 4A PMID:23544079, (IDA), the negative regulation term would be applied to this protein synonym: "activation of glycoprotein metabolic process" NARROW [GOC:TermGenie] synonym: "activation of glycoprotein metabolism" NARROW [GOC:TermGenie] synonym: "positive regulation of glycoprotein metabolism" EXACT [GOC:TermGenie] synonym: "up regulation of glycoprotein metabolic process" EXACT [GOC:TermGenie] synonym: "up regulation of glycoprotein metabolism" EXACT [GOC:TermGenie] synonym: "up-regulation of glycoprotein metabolic process" EXACT [GOC:TermGenie] synonym: "up-regulation of glycoprotein metabolism" EXACT [GOC:TermGenie] synonym: "upregulation of glycoprotein metabolic process" EXACT [GOC:TermGenie] synonym: "upregulation of glycoprotein metabolism" EXACT [GOC:TermGenie] is_a: GO:0031325 ! positive regulation of cellular metabolic process is_a: GO:0051247 ! positive regulation of protein metabolic process is_a: GO:1903018 ! regulation of glycoprotein metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0009100 ! glycoprotein metabolic process relationship: positively_regulates GO:0009100 ! glycoprotein metabolic process created_by: rl creation_date: 2014-05-14T18:44:31Z [Term] id: GO:1903047 name: mitotic cell cycle process namespace: biological_process def: "A process that is part of the mitotic cell cycle." [GO_REF:0000060, GOC:mtg_cell_cycle, GOC:TermGenie] subset: gocheck_do_not_annotate is_a: GO:0022402 ! cell cycle process intersection_of: GO:0009987 ! cellular process intersection_of: part_of GO:0000278 ! mitotic cell cycle relationship: part_of GO:0000278 ! mitotic cell cycle created_by: jl creation_date: 2014-05-22T14:22:34Z [Term] id: GO:1903053 name: regulation of extracellular matrix organization namespace: biological_process def: "Any process that modulates the frequency, rate or extent of extracellular matrix organization." [GO_REF:0000058, GOC:BHF, GOC:rl, GOC:TermGenie, PMID:22357537] synonym: "regulation of extracellular matrix organisation" EXACT [GOC:TermGenie] synonym: "regulation of extracellular matrix organization and biogenesis" RELATED [GOC:TermGenie] is_a: GO:0051128 ! regulation of cellular component organization intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0030198 ! extracellular matrix organization relationship: regulates GO:0030198 ! extracellular matrix organization created_by: rl creation_date: 2014-05-23T17:15:41Z [Term] id: GO:1903054 name: negative regulation of extracellular matrix organization namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of extracellular matrix organization." [GO_REF:0000058, GOC:BHF, GOC:rl, GOC:TermGenie, PMID:22357537] synonym: "down regulation of extracellular matrix organisation" EXACT [GOC:TermGenie] synonym: "down regulation of extracellular matrix organization" EXACT [GOC:TermGenie] synonym: "down regulation of extracellular matrix organization and biogenesis" RELATED [GOC:TermGenie] synonym: "down-regulation of extracellular matrix organisation" EXACT [GOC:TermGenie] synonym: "down-regulation of extracellular matrix organization" EXACT [GOC:TermGenie] synonym: "down-regulation of extracellular matrix organization and biogenesis" RELATED [GOC:TermGenie] synonym: "downregulation of extracellular matrix organisation" EXACT [GOC:TermGenie] synonym: "downregulation of extracellular matrix organization" EXACT [GOC:TermGenie] synonym: "downregulation of extracellular matrix organization and biogenesis" RELATED [GOC:TermGenie] synonym: "inhibition of extracellular matrix organisation" NARROW [GOC:TermGenie] synonym: "inhibition of extracellular matrix organization" NARROW [GOC:TermGenie] synonym: "inhibition of extracellular matrix organization and biogenesis" RELATED [GOC:TermGenie] synonym: "negative regulation of extracellular matrix organisation" EXACT [GOC:TermGenie] synonym: "negative regulation of extracellular matrix organization and biogenesis" RELATED [GOC:TermGenie] is_a: GO:0051129 ! negative regulation of cellular component organization is_a: GO:1903053 ! regulation of extracellular matrix organization intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0030198 ! extracellular matrix organization relationship: negatively_regulates GO:0030198 ! extracellular matrix organization created_by: rl creation_date: 2014-05-23T17:15:47Z [Term] id: GO:1903055 name: positive regulation of extracellular matrix organization namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of extracellular matrix organization." [GO_REF:0000058, GOC:BHF, GOC:rl, GOC:TermGenie, PMID:22357537] synonym: "activation of extracellular matrix organisation" NARROW [GOC:TermGenie] synonym: "activation of extracellular matrix organization" NARROW [GOC:TermGenie] synonym: "activation of extracellular matrix organization and biogenesis" RELATED [GOC:TermGenie] synonym: "positive regulation of extracellular matrix organisation" EXACT [GOC:TermGenie] synonym: "positive regulation of extracellular matrix organization and biogenesis" RELATED [GOC:TermGenie] synonym: "up regulation of extracellular matrix organisation" EXACT [GOC:TermGenie] synonym: "up regulation of extracellular matrix organization" EXACT [GOC:TermGenie] synonym: "up regulation of extracellular matrix organization and biogenesis" RELATED [GOC:TermGenie] synonym: "up-regulation of extracellular matrix organisation" EXACT [GOC:TermGenie] synonym: "up-regulation of extracellular matrix organization" EXACT [GOC:TermGenie] synonym: "up-regulation of extracellular matrix organization and biogenesis" RELATED [GOC:TermGenie] synonym: "upregulation of extracellular matrix organisation" EXACT [GOC:TermGenie] synonym: "upregulation of extracellular matrix organization" EXACT [GOC:TermGenie] synonym: "upregulation of extracellular matrix organization and biogenesis" RELATED [GOC:TermGenie] is_a: GO:0051130 ! positive regulation of cellular component organization is_a: GO:1903053 ! regulation of extracellular matrix organization intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0030198 ! extracellular matrix organization relationship: positively_regulates GO:0030198 ! extracellular matrix organization created_by: rl creation_date: 2014-05-23T17:15:53Z [Term] id: GO:1903076 name: regulation of protein localization to plasma membrane namespace: biological_process alt_id: GO:0090003 alt_id: GO:1905963 def: "Any process that modulates the frequency, rate or extent of protein localization to plasma membrane." [GO_REF:0000058, GOC:BHF, GOC:rl, GOC:TermGenie, PMID:11602640] synonym: "regulation of establishment of protein localisation in plasma membrane" RELATED [GOC:mah] synonym: "regulation of establishment of protein localization in plasma membrane" RELATED [] synonym: "regulation of establishment of protein localization to plasma membrane" RELATED [] synonym: "regulation of protein localisation in plasma membrane" RELATED [GOC:TermGenie] synonym: "regulation of protein localization in plasma membrane" EXACT [GOC:TermGenie] synonym: "regulation of protein targeting to plasma membrane" RELATED [] synonym: "regulation of protein-plasma membrane targeting" RELATED [GOC:TermGenie] is_a: GO:1904375 ! regulation of protein localization to cell periphery is_a: GO:1905475 ! regulation of protein localization to membrane intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0072659 ! protein localization to plasma membrane relationship: regulates GO:0072659 ! protein localization to plasma membrane created_by: tb creation_date: 2009-07-10T10:32:44Z [Term] id: GO:1903077 name: negative regulation of protein localization to plasma membrane namespace: biological_process alt_id: GO:0090005 alt_id: GO:1905964 def: "Any process that stops, prevents or reduces the frequency, rate or extent of protein localization to plasma membrane." [GO_REF:0000058, GOC:BHF, GOC:rl, GOC:TermGenie, PMID:11602640] synonym: "down regulation of protein localisation in plasma membrane" EXACT [GOC:TermGenie] synonym: "down regulation of protein localization in plasma membrane" EXACT [GOC:TermGenie] synonym: "down regulation of protein localization to plasma membrane" EXACT [GOC:TermGenie] synonym: "down regulation of protein targeting to plasma membrane" RELATED [GOC:TermGenie] synonym: "down regulation of protein-plasma membrane targeting" RELATED [GOC:TermGenie] synonym: "down-regulation of protein localisation in plasma membrane" EXACT [GOC:TermGenie] synonym: "down-regulation of protein localization in plasma membrane" EXACT [GOC:TermGenie] synonym: "down-regulation of protein localization to plasma membrane" EXACT [GOC:TermGenie] synonym: "down-regulation of protein targeting to plasma membrane" RELATED [GOC:TermGenie] synonym: "down-regulation of protein-plasma membrane targeting" RELATED [GOC:TermGenie] synonym: "downregulation of protein localisation in plasma membrane" EXACT [GOC:TermGenie] synonym: "downregulation of protein localization in plasma membrane" EXACT [GOC:TermGenie] synonym: "downregulation of protein localization to plasma membrane" EXACT [GOC:TermGenie] synonym: "downregulation of protein targeting to plasma membrane" RELATED [GOC:TermGenie] synonym: "downregulation of protein-plasma membrane targeting" RELATED [GOC:TermGenie] synonym: "inhibition of protein localisation in plasma membrane" NARROW [GOC:TermGenie] synonym: "inhibition of protein localization in plasma membrane" NARROW [GOC:TermGenie] synonym: "inhibition of protein localization to plasma membrane" NARROW [GOC:TermGenie] synonym: "inhibition of protein targeting to plasma membrane" NARROW [GOC:TermGenie] synonym: "inhibition of protein-plasma membrane targeting" NARROW [GOC:TermGenie] synonym: "negative regulation of establishment of protein localisation in plasma membrane" RELATED [GOC:mah] synonym: "negative regulation of establishment of protein localization in plasma membrane" RELATED [] synonym: "negative regulation of establishment of protein localization to plasma membrane" RELATED [] synonym: "negative regulation of protein localisation in plasma membrane" RELATED [GOC:TermGenie] synonym: "negative regulation of protein localization in plasma membrane" EXACT [GOC:TermGenie] synonym: "negative regulation of protein targeting to plasma membrane" RELATED [] synonym: "negative regulation of protein-plasma membrane targeting" RELATED [GOC:TermGenie] is_a: GO:1903076 ! regulation of protein localization to plasma membrane is_a: GO:1904376 ! negative regulation of protein localization to cell periphery is_a: GO:1905476 ! negative regulation of protein localization to membrane intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0072659 ! protein localization to plasma membrane relationship: negatively_regulates GO:0072659 ! protein localization to plasma membrane created_by: tb creation_date: 2014-05-29T17:10:16Z [Term] id: GO:1903078 name: positive regulation of protein localization to plasma membrane namespace: biological_process alt_id: GO:0090004 alt_id: GO:1905965 def: "Any process that activates or increases the frequency, rate or extent of protein localization to plasma membrane." [GO_REF:0000058, GOC:BHF, GOC:rl, GOC:TermGenie, PMID:11602640] synonym: "activation of protein localisation in plasma membrane" NARROW [GOC:TermGenie] synonym: "activation of protein localization in plasma membrane" NARROW [GOC:TermGenie] synonym: "activation of protein localization to plasma membrane" NARROW [GOC:TermGenie] synonym: "activation of protein targeting to plasma membrane" NARROW [GOC:TermGenie] synonym: "activation of protein-plasma membrane targeting" NARROW [GOC:TermGenie] synonym: "positive regulation of establishment of protein localisation in plasma membrane" RELATED [GOC:mah] synonym: "positive regulation of establishment of protein localization to plasma membrane" RELATED [] synonym: "positive regulation of protein localisation in plasma membrane" EXACT [GOC:TermGenie] synonym: "positive regulation of protein localization in plasma membrane" EXACT [GOC:TermGenie] synonym: "positive regulation of protein targeting to plasma membrane" RELATED [] synonym: "positive regulation of protein-plasma membrane targeting" RELATED [GOC:TermGenie] synonym: "up regulation of protein localisation in plasma membrane" EXACT [GOC:TermGenie] synonym: "up regulation of protein localization in plasma membrane" EXACT [GOC:TermGenie] synonym: "up regulation of protein localization to plasma membrane" EXACT [GOC:TermGenie] synonym: "up regulation of protein targeting to plasma membrane" RELATED [GOC:TermGenie] synonym: "up regulation of protein-plasma membrane targeting" RELATED [GOC:TermGenie] synonym: "up-regulation of protein localisation in plasma membrane" EXACT [GOC:TermGenie] synonym: "up-regulation of protein localization in plasma membrane" EXACT [GOC:TermGenie] synonym: "up-regulation of protein localization to plasma membrane" EXACT [GOC:TermGenie] synonym: "up-regulation of protein targeting to plasma membrane" RELATED [GOC:TermGenie] synonym: "up-regulation of protein-plasma membrane targeting" RELATED [GOC:TermGenie] synonym: "upregulation of protein localisation in plasma membrane" EXACT [GOC:TermGenie] synonym: "upregulation of protein localization in plasma membrane" EXACT [GOC:TermGenie] synonym: "upregulation of protein localization to plasma membrane" EXACT [GOC:TermGenie] synonym: "upregulation of protein targeting to plasma membrane" RELATED [GOC:TermGenie] synonym: "upregulation of protein-plasma membrane targeting" RELATED [GOC:TermGenie] is_a: GO:1903076 ! regulation of protein localization to plasma membrane is_a: GO:1904377 ! positive regulation of protein localization to cell periphery is_a: GO:1905477 ! positive regulation of protein localization to membrane intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0072659 ! protein localization to plasma membrane relationship: positively_regulates GO:0072659 ! protein localization to plasma membrane created_by: tb creation_date: 2009-07-10T10:34:17Z [Term] id: GO:1903119 name: protein localization to actin cytoskeleton namespace: biological_process def: "A process in which a protein is transported to, or maintained in, the location of an actin cytoskeleton." [GO_REF:0000087, GOC:TermGenie, PMID:24798735] synonym: "protein localisation in actin cytoskeleton" EXACT [GOC:TermGenie] synonym: "protein localisation to actin cytoskeleton" EXACT [GOC:TermGenie] synonym: "protein localization in actin cytoskeleton" EXACT [GOC:TermGenie] is_a: GO:0044380 ! protein localization to cytoskeleton intersection_of: GO:0008104 ! protein localization intersection_of: has_target_end_location GO:0015629 ! actin cytoskeleton relationship: has_target_end_location GO:0015629 ! actin cytoskeleton created_by: mah creation_date: 2014-06-16T11:27:09Z [Term] id: GO:1903131 name: mononuclear cell differentiation namespace: biological_process def: "The process in which a relatively unspecialized cell acquires the specialized features of a mononuclear cell." [CL:0000842, GO_REF:0000086, GOC:TermGenie, PMID:24759906] is_a: GO:0002521 ! leukocyte differentiation intersection_of: GO:0030154 ! cell differentiation intersection_of: results_in_acquisition_of_features_of CL:0000842 ! mononuclear cell relationship: results_in_acquisition_of_features_of CL:0000842 ! mononuclear cell created_by: cls creation_date: 2014-06-25T15:47:09Z [Term] id: GO:1903132 name: regulation of tube lumen cavitation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of tube lumen cavitation." [GO_REF:0000058, GOC:dph, GOC:TermGenie, PMID:22898778] is_a: GO:0050793 ! regulation of developmental process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0060605 ! tube lumen cavitation relationship: regulates GO:0060605 ! tube lumen cavitation created_by: dph creation_date: 2014-06-25T20:18:58Z [Term] id: GO:1903133 name: negative regulation of tube lumen cavitation namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of tube lumen cavitation." [GO_REF:0000058, GOC:dph, GOC:TermGenie, PMID:22898778] synonym: "inhibition of tube lumen cavitation" NARROW [GOC:TermGenie] is_a: GO:0051093 ! negative regulation of developmental process is_a: GO:0051241 ! negative regulation of multicellular organismal process is_a: GO:1903132 ! regulation of tube lumen cavitation intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0060605 ! tube lumen cavitation relationship: negatively_regulates GO:0060605 ! tube lumen cavitation created_by: dph creation_date: 2014-06-25T20:19:04Z [Term] id: GO:1903224 name: regulation of endodermal cell differentiation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of endodermal cell differentiation." [GO_REF:0000058, GOC:als, GOC:TermGenie, PMID:23154389] synonym: "regulation of endoderm cell differentiation" EXACT [GOC:TermGenie] is_a: GO:0045595 ! regulation of cell differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0035987 ! endodermal cell differentiation relationship: regulates GO:0035987 ! endodermal cell differentiation created_by: als creation_date: 2014-07-29T13:22:35Z [Term] id: GO:1903225 name: negative regulation of endodermal cell differentiation namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of endodermal cell differentiation." [GO_REF:0000058, GOC:als, GOC:TermGenie, PMID:23154389] synonym: "down regulation of endoderm cell differentiation" EXACT [GOC:TermGenie] synonym: "down regulation of endodermal cell differentiation" EXACT [GOC:TermGenie] synonym: "down-regulation of endoderm cell differentiation" EXACT [GOC:TermGenie] synonym: "down-regulation of endodermal cell differentiation" EXACT [GOC:TermGenie] synonym: "downregulation of endoderm cell differentiation" EXACT [GOC:TermGenie] synonym: "downregulation of endodermal cell differentiation" EXACT [GOC:TermGenie] synonym: "inhibition of endoderm cell differentiation" NARROW [GOC:TermGenie] synonym: "inhibition of endodermal cell differentiation" NARROW [GOC:TermGenie] synonym: "negative regulation of endoderm cell differentiation" EXACT [GOC:TermGenie] is_a: GO:0045596 ! negative regulation of cell differentiation is_a: GO:1903224 ! regulation of endodermal cell differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0035987 ! endodermal cell differentiation relationship: negatively_regulates GO:0035987 ! endodermal cell differentiation created_by: als creation_date: 2014-07-29T13:22:41Z [Term] id: GO:1903226 name: positive regulation of endodermal cell differentiation namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of endodermal cell differentiation." [GO_REF:0000058, GOC:als, GOC:TermGenie, PMID:23154389] synonym: "activation of endoderm cell differentiation" NARROW [GOC:TermGenie] synonym: "activation of endodermal cell differentiation" NARROW [GOC:TermGenie] synonym: "positive regulation of endoderm cell differentiation" EXACT [GOC:TermGenie] synonym: "up regulation of endoderm cell differentiation" EXACT [GOC:TermGenie] synonym: "up regulation of endodermal cell differentiation" EXACT [GOC:TermGenie] synonym: "up-regulation of endoderm cell differentiation" EXACT [GOC:TermGenie] synonym: "up-regulation of endodermal cell differentiation" EXACT [GOC:TermGenie] synonym: "upregulation of endoderm cell differentiation" EXACT [GOC:TermGenie] synonym: "upregulation of endodermal cell differentiation" EXACT [GOC:TermGenie] is_a: GO:0045597 ! positive regulation of cell differentiation is_a: GO:1903224 ! regulation of endodermal cell differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0035987 ! endodermal cell differentiation relationship: positively_regulates GO:0035987 ! endodermal cell differentiation created_by: als creation_date: 2014-07-29T13:22:47Z [Term] id: GO:1903292 name: protein localization to Golgi membrane namespace: biological_process def: "A process in which a protein is transported to, or maintained in, a location within a Golgi membrane." [GO_REF:0000087, GOC:TermGenie, PMID:11378902] synonym: "protein localisation in Golgi membrane" EXACT [GOC:TermGenie] synonym: "protein localisation to Golgi membrane" EXACT [GOC:TermGenie] synonym: "protein localization in Golgi membrane" EXACT [GOC:TermGenie] is_a: GO:0034067 ! protein localization to Golgi apparatus is_a: GO:0072657 ! protein localization to membrane intersection_of: GO:0008104 ! protein localization intersection_of: has_target_end_location GO:0000139 ! Golgi membrane relationship: has_target_end_location GO:0000139 ! Golgi membrane created_by: mah creation_date: 2014-08-12T14:22:31Z [Term] id: GO:1903335 name: regulation of vacuolar transport namespace: biological_process def: "Any process that modulates the frequency, rate or extent of vacuolar transport." [GO_REF:0000058, GOC:TermGenie, GOC:vw] is_a: GO:0032386 ! regulation of intracellular transport intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0007034 ! vacuolar transport relationship: regulates GO:0007034 ! vacuolar transport created_by: vw creation_date: 2014-08-18T13:16:04Z [Term] id: GO:1903336 name: negative regulation of vacuolar transport namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of vacuolar transport." [GO_REF:0000058, GOC:TermGenie, GOC:vw] synonym: "down regulation of vacuolar transport" EXACT [GOC:TermGenie] synonym: "down-regulation of vacuolar transport" EXACT [GOC:TermGenie] synonym: "downregulation of vacuolar transport" EXACT [GOC:TermGenie] synonym: "inhibition of vacuolar transport" NARROW [GOC:TermGenie] is_a: GO:0032387 ! negative regulation of intracellular transport is_a: GO:1903335 ! regulation of vacuolar transport intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0007034 ! vacuolar transport relationship: negatively_regulates GO:0007034 ! vacuolar transport created_by: vw creation_date: 2014-08-18T13:16:11Z [Term] id: GO:1903337 name: positive regulation of vacuolar transport namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of vacuolar transport." [GO_REF:0000058, GOC:TermGenie, GOC:vw] synonym: "activation of vacuolar transport" NARROW [GOC:TermGenie] synonym: "up regulation of vacuolar transport" EXACT [GOC:TermGenie] synonym: "up-regulation of vacuolar transport" EXACT [GOC:TermGenie] synonym: "upregulation of vacuolar transport" EXACT [GOC:TermGenie] is_a: GO:0032388 ! positive regulation of intracellular transport is_a: GO:1903335 ! regulation of vacuolar transport intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0007034 ! vacuolar transport relationship: positively_regulates GO:0007034 ! vacuolar transport created_by: vw creation_date: 2014-08-18T13:16:19Z [Term] id: GO:1903353 name: regulation of nucleus organization namespace: biological_process def: "Any process that modulates the frequency, rate or extent of nucleus organization." [GO_REF:0000058, GOC:TermGenie, PMID:16943282] synonym: "regulation of nuclear morphology" RELATED [GOC:TermGenie] synonym: "regulation of nuclear organisation" EXACT [GOC:TermGenie] synonym: "regulation of nuclear organization" EXACT [GOC:TermGenie] synonym: "regulation of nuclear organization and biogenesis" RELATED [GOC:TermGenie] synonym: "regulation of nucleus organization and biogenesis" RELATED [GOC:TermGenie] is_a: GO:0033043 ! regulation of organelle organization intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0006997 ! nucleus organization relationship: regulates GO:0006997 ! nucleus organization created_by: hjd creation_date: 2014-08-20T19:36:16Z [Term] id: GO:1903358 name: regulation of Golgi organization namespace: biological_process def: "Any process that modulates the frequency, rate or extent of Golgi organization." [GO_REF:0000058, GOC:als, GOC:TermGenie, PMID:17562788] synonym: "regulation of Golgi organisation" EXACT [GOC:TermGenie] synonym: "regulation of Golgi organization and biogenesis" RELATED [GOC:TermGenie] is_a: GO:0033043 ! regulation of organelle organization intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0007030 ! Golgi organization relationship: regulates GO:0007030 ! Golgi organization created_by: als creation_date: 2014-08-21T10:22:22Z [Term] id: GO:1903379 name: regulation of mitotic chromosome condensation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of mitotic chromosome condensation." [GO_REF:0000058, GOC:TermGenie, PMID:9490640] is_a: GO:0010564 ! regulation of cell cycle process is_a: GO:0060623 ! regulation of chromosome condensation intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0007076 ! mitotic chromosome condensation relationship: regulates GO:0007076 ! mitotic chromosome condensation created_by: al creation_date: 2014-08-26T13:57:13Z [Term] id: GO:1903380 name: positive regulation of mitotic chromosome condensation namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of mitotic chromosome condensation." [GO_REF:0000058, GOC:TermGenie, PMID:9490640] synonym: "activation of mitotic chromosome condensation" NARROW [GOC:TermGenie] synonym: "up regulation of mitotic chromosome condensation" EXACT [GOC:TermGenie] synonym: "up-regulation of mitotic chromosome condensation" EXACT [GOC:TermGenie] synonym: "upregulation of mitotic chromosome condensation" EXACT [GOC:TermGenie] is_a: GO:0090068 ! positive regulation of cell cycle process is_a: GO:1903379 ! regulation of mitotic chromosome condensation is_a: GO:1905821 ! positive regulation of chromosome condensation intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0007076 ! mitotic chromosome condensation relationship: positively_regulates GO:0007076 ! mitotic chromosome condensation created_by: al creation_date: 2014-08-26T13:57:29Z [Term] id: GO:1903441 name: protein localization to ciliary membrane namespace: biological_process def: "A process in which a protein is transported to, or maintained in, a location within a ciliary membrane." [GO_REF:0000087, GOC:cilia, GOC:krc, GOC:TermGenie, PMID:22139371] synonym: "protein localisation in ciliary membrane" EXACT [GOC:TermGenie] synonym: "protein localisation to ciliary membrane" EXACT [GOC:TermGenie] synonym: "protein localization in ciliary membrane" EXACT [GOC:TermGenie] is_a: GO:0061512 ! protein localization to cilium is_a: GO:0072657 ! protein localization to membrane is_a: GO:1990778 ! protein localization to cell periphery intersection_of: GO:0008104 ! protein localization intersection_of: has_target_end_location GO:0060170 ! ciliary membrane relationship: has_target_end_location GO:0060170 ! ciliary membrane created_by: pr creation_date: 2014-09-16T15:15:39Z [Term] id: GO:1903510 name: mucopolysaccharide metabolic process namespace: biological_process def: "The chemical reactions and pathways involving mucopolysaccharide." [GO_REF:0000068, GOC:dph, GOC:TermGenie, PMID:4236091] synonym: "mucopolysaccharide metabolism" EXACT [GOC:TermGenie] is_a: GO:0030203 ! glycosaminoglycan metabolic process intersection_of: GO:0008152 ! metabolic process intersection_of: has_primary_input_or_output CHEBI:37395 ! mucopolysaccharide relationship: has_primary_input_or_output CHEBI:37395 ! mucopolysaccharide created_by: dph creation_date: 2014-10-01T21:55:47Z [Term] id: GO:1903522 name: regulation of blood circulation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of blood circulation." [GO_REF:0000058, GOC:mr, GOC:TermGenie, PMID:10659969] synonym: "regulation of hemolymph circulation" RELATED [GOC:TermGenie] is_a: GO:0044057 ! regulation of system process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0008015 ! blood circulation relationship: regulates GO:0008015 ! blood circulation created_by: mr creation_date: 2014-10-06T18:38:56Z [Term] id: GO:1903523 name: negative regulation of blood circulation namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of blood circulation." [GO_REF:0000058, GOC:mr, GOC:TermGenie, PMID:10659969] synonym: "down regulation of blood circulation" EXACT [GOC:TermGenie] synonym: "down regulation of hemolymph circulation" RELATED [GOC:TermGenie] synonym: "down-regulation of blood circulation" EXACT [GOC:TermGenie] synonym: "down-regulation of hemolymph circulation" RELATED [GOC:TermGenie] synonym: "downregulation of blood circulation" EXACT [GOC:TermGenie] synonym: "downregulation of hemolymph circulation" RELATED [GOC:TermGenie] synonym: "inhibition of blood circulation" NARROW [GOC:TermGenie] synonym: "inhibition of hemolymph circulation" RELATED [GOC:TermGenie] synonym: "negative regulation of hemolymph circulation" RELATED [GOC:TermGenie] is_a: GO:0051241 ! negative regulation of multicellular organismal process is_a: GO:1903522 ! regulation of blood circulation intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0008015 ! blood circulation relationship: negatively_regulates GO:0008015 ! blood circulation created_by: mr creation_date: 2014-10-06T18:39:05Z [Term] id: GO:1903524 name: positive regulation of blood circulation namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of blood circulation." [GO_REF:0000058, GOC:mr, GOC:TermGenie, PMID:10659969] synonym: "activation of blood circulation" NARROW [GOC:TermGenie] synonym: "activation of hemolymph circulation" RELATED [GOC:TermGenie] synonym: "positive regulation of hemolymph circulation" RELATED [GOC:TermGenie] synonym: "up regulation of blood circulation" EXACT [GOC:TermGenie] synonym: "up regulation of hemolymph circulation" RELATED [GOC:TermGenie] synonym: "up-regulation of blood circulation" EXACT [GOC:TermGenie] synonym: "up-regulation of hemolymph circulation" RELATED [GOC:TermGenie] synonym: "upregulation of blood circulation" EXACT [GOC:TermGenie] synonym: "upregulation of hemolymph circulation" RELATED [GOC:TermGenie] is_a: GO:0051240 ! positive regulation of multicellular organismal process is_a: GO:1903522 ! regulation of blood circulation intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0008015 ! blood circulation relationship: positively_regulates GO:0008015 ! blood circulation created_by: mr creation_date: 2014-10-06T18:39:13Z [Term] id: GO:1903530 name: regulation of secretion by cell namespace: biological_process def: "Any process that modulates the frequency, rate or extent of secretion by cell." [GO_REF:0000058, GOC:pm, GOC:TermGenie, PMID:12130530] synonym: "regulation of cellular secretion" EXACT [GOC:TermGenie] is_a: GO:0050794 ! regulation of cellular process is_a: GO:0051046 ! regulation of secretion intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0032940 ! secretion by cell relationship: regulates GO:0032940 ! secretion by cell created_by: pm creation_date: 2014-10-08T13:24:59Z [Term] id: GO:1903531 name: negative regulation of secretion by cell namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of secretion by cell." [GO_REF:0000058, GOC:pm, GOC:TermGenie, PMID:12130530] synonym: "down regulation of cellular secretion" EXACT [GOC:TermGenie] synonym: "down regulation of secretion by cell" EXACT [GOC:TermGenie] synonym: "down-regulation of cellular secretion" EXACT [GOC:TermGenie] synonym: "down-regulation of secretion by cell" EXACT [GOC:TermGenie] synonym: "downregulation of cellular secretion" EXACT [GOC:TermGenie] synonym: "downregulation of secretion by cell" EXACT [GOC:TermGenie] synonym: "inhibition of cellular secretion" NARROW [GOC:TermGenie] synonym: "inhibition of secretion by cell" NARROW [GOC:TermGenie] synonym: "negative regulation of cellular secretion" EXACT [GOC:TermGenie] is_a: GO:0048523 ! negative regulation of cellular process is_a: GO:0051048 ! negative regulation of secretion is_a: GO:1903530 ! regulation of secretion by cell intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0032940 ! secretion by cell relationship: negatively_regulates GO:0032940 ! secretion by cell created_by: pm creation_date: 2014-10-08T13:25:08Z [Term] id: GO:1903532 name: positive regulation of secretion by cell namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of secretion by cell." [GO_REF:0000058, GOC:pm, GOC:TermGenie, PMID:12130530] synonym: "activation of cellular secretion" NARROW [GOC:TermGenie] synonym: "activation of secretion by cell" NARROW [GOC:TermGenie] synonym: "positive regulation of cellular secretion" EXACT [GOC:TermGenie] synonym: "up regulation of cellular secretion" EXACT [GOC:TermGenie] synonym: "up regulation of secretion by cell" EXACT [GOC:TermGenie] synonym: "up-regulation of cellular secretion" EXACT [GOC:TermGenie] synonym: "up-regulation of secretion by cell" EXACT [GOC:TermGenie] synonym: "upregulation of cellular secretion" EXACT [GOC:TermGenie] synonym: "upregulation of secretion by cell" EXACT [GOC:TermGenie] is_a: GO:0048522 ! positive regulation of cellular process is_a: GO:0051047 ! positive regulation of secretion is_a: GO:1903530 ! regulation of secretion by cell intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0032940 ! secretion by cell relationship: positively_regulates GO:0032940 ! secretion by cell created_by: pm creation_date: 2014-10-08T13:25:17Z [Term] id: GO:1903541 name: regulation of exosomal secretion namespace: biological_process def: "Any process that modulates the frequency, rate or extent of exosomal secretion." [GO_REF:0000058, GOC:TermGenie, PMID:24105262] synonym: "regulation of exosomal protein secretion" NARROW [GOC:TermGenie] synonym: "regulation of exosomal secretory pathway" EXACT [GOC:TermGenie] synonym: "regulation of extracellular vesicular exosome secretion" EXACT [GOC:TermGenie] synonym: "regulation of secretion of exosome" EXACT [GOC:TermGenie] is_a: GO:0017157 ! regulation of exocytosis is_a: GO:0060341 ! regulation of cellular localization intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:1990182 ! exosomal secretion relationship: regulates GO:1990182 ! exosomal secretion created_by: pga creation_date: 2014-10-14T11:38:52Z [Term] id: GO:1903542 name: negative regulation of exosomal secretion namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of exosomal secretion." [GO_REF:0000058, GOC:TermGenie, PMID:24105262] synonym: "down regulation of exosomal protein secretion" NARROW [GOC:TermGenie] synonym: "down regulation of exosomal secretion" EXACT [GOC:TermGenie] synonym: "down regulation of exosomal secretory pathway" EXACT [GOC:TermGenie] synonym: "down regulation of extracellular vesicular exosome secretion" EXACT [GOC:TermGenie] synonym: "down regulation of secretion of exosome" EXACT [GOC:TermGenie] synonym: "down-regulation of exosomal protein secretion" NARROW [GOC:TermGenie] synonym: "down-regulation of exosomal secretion" EXACT [GOC:TermGenie] synonym: "down-regulation of exosomal secretory pathway" EXACT [GOC:TermGenie] synonym: "down-regulation of extracellular vesicular exosome secretion" EXACT [GOC:TermGenie] synonym: "down-regulation of secretion of exosome" EXACT [GOC:TermGenie] synonym: "downregulation of exosomal protein secretion" NARROW [GOC:TermGenie] synonym: "downregulation of exosomal secretion" EXACT [GOC:TermGenie] synonym: "downregulation of exosomal secretory pathway" EXACT [GOC:TermGenie] synonym: "downregulation of extracellular vesicular exosome secretion" EXACT [GOC:TermGenie] synonym: "downregulation of secretion of exosome" EXACT [GOC:TermGenie] synonym: "inhibition of exosomal protein secretion" NARROW [GOC:TermGenie] synonym: "inhibition of exosomal secretion" NARROW [GOC:TermGenie] synonym: "inhibition of exosomal secretory pathway" NARROW [GOC:TermGenie] synonym: "inhibition of extracellular vesicular exosome secretion" NARROW [GOC:TermGenie] synonym: "inhibition of secretion of exosome" NARROW [GOC:TermGenie] synonym: "negative regulation of exosomal protein secretion" NARROW [GOC:TermGenie] synonym: "negative regulation of exosomal secretory pathway" EXACT [GOC:TermGenie] synonym: "negative regulation of extracellular vesicular exosome secretion" EXACT [GOC:TermGenie] synonym: "negative regulation of secretion of exosome" EXACT [GOC:TermGenie] is_a: GO:0045920 ! negative regulation of exocytosis is_a: GO:1903541 ! regulation of exosomal secretion intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:1990182 ! exosomal secretion relationship: negatively_regulates GO:1990182 ! exosomal secretion created_by: pga creation_date: 2014-10-14T11:39:02Z [Term] id: GO:1903543 name: positive regulation of exosomal secretion namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of exosomal secretion." [GO_REF:0000058, GOC:TermGenie, PMID:24105262] synonym: "activation of exosomal protein secretion" NARROW [GOC:TermGenie] synonym: "activation of exosomal secretion" NARROW [GOC:TermGenie] synonym: "activation of exosomal secretory pathway" NARROW [GOC:TermGenie] synonym: "activation of extracellular vesicular exosome secretion" NARROW [GOC:TermGenie] synonym: "activation of secretion of exosome" NARROW [GOC:TermGenie] synonym: "positive regulation of exosomal protein secretion" NARROW [GOC:TermGenie] synonym: "positive regulation of exosomal secretory pathway" EXACT [GOC:TermGenie] synonym: "positive regulation of extracellular vesicular exosome secretion" EXACT [GOC:TermGenie] synonym: "positive regulation of secretion of exosome" EXACT [GOC:TermGenie] synonym: "up regulation of exosomal protein secretion" NARROW [GOC:TermGenie] synonym: "up regulation of exosomal secretion" EXACT [GOC:TermGenie] synonym: "up regulation of exosomal secretory pathway" EXACT [GOC:TermGenie] synonym: "up regulation of extracellular vesicular exosome secretion" EXACT [GOC:TermGenie] synonym: "up regulation of secretion of exosome" EXACT [GOC:TermGenie] synonym: "up-regulation of exosomal protein secretion" NARROW [GOC:TermGenie] synonym: "up-regulation of exosomal secretion" EXACT [GOC:TermGenie] synonym: "up-regulation of exosomal secretory pathway" EXACT [GOC:TermGenie] synonym: "up-regulation of extracellular vesicular exosome secretion" EXACT [GOC:TermGenie] synonym: "up-regulation of secretion of exosome" EXACT [GOC:TermGenie] synonym: "upregulation of exosomal protein secretion" NARROW [GOC:TermGenie] synonym: "upregulation of exosomal secretion" EXACT [GOC:TermGenie] synonym: "upregulation of exosomal secretory pathway" EXACT [GOC:TermGenie] synonym: "upregulation of extracellular vesicular exosome secretion" EXACT [GOC:TermGenie] synonym: "upregulation of secretion of exosome" EXACT [GOC:TermGenie] is_a: GO:0044089 ! positive regulation of cellular component biogenesis is_a: GO:0045921 ! positive regulation of exocytosis is_a: GO:1903541 ! regulation of exosomal secretion intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:1990182 ! exosomal secretion relationship: positively_regulates GO:1990182 ! exosomal secretion created_by: pga creation_date: 2014-10-14T11:39:10Z [Term] id: GO:1903551 name: regulation of extracellular exosome assembly namespace: biological_process def: "Any process that modulates the frequency, rate or extent of extracellular vesicular exosome assembly." [GO_REF:0000058, GOC:TermGenie, PMID:24105262] synonym: "regulation of extracellular vesicular exosome assembly" EXACT [GOC:vesicles] is_a: GO:1902115 ! regulation of organelle assembly intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0071971 ! extracellular exosome assembly relationship: regulates GO:0071971 ! extracellular exosome assembly created_by: pga creation_date: 2014-10-20T15:37:25Z [Term] id: GO:1903552 name: negative regulation of extracellular exosome assembly namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of extracellular vesicular exosome assembly." [GO_REF:0000058, GOC:TermGenie, PMID:24105262] synonym: "down regulation of extracellular vesicular exosome assembly" EXACT [GOC:TermGenie] synonym: "down-regulation of extracellular vesicular exosome assembly" EXACT [GOC:TermGenie] synonym: "downregulation of extracellular vesicular exosome assembly" EXACT [GOC:TermGenie] synonym: "inhibition of extracellular vesicular exosome assembly" NARROW [GOC:TermGenie] synonym: "negative regulation of extracellular vesicular exosome assembly" EXACT [GOC:vesicles] is_a: GO:1902116 ! negative regulation of organelle assembly is_a: GO:1903551 ! regulation of extracellular exosome assembly intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0071971 ! extracellular exosome assembly relationship: negatively_regulates GO:0071971 ! extracellular exosome assembly created_by: pga creation_date: 2014-10-20T15:37:33Z [Term] id: GO:1903553 name: positive regulation of extracellular exosome assembly namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of extracellular vesicular exosome assembly." [GO_REF:0000058, GOC:TermGenie, PMID:24105262] synonym: "activation of extracellular vesicular exosome assembly" NARROW [GOC:TermGenie] synonym: "positive regulation of extracellular vesicular exosome assembly" RELATED [GOC:vesicles] synonym: "up regulation of extracellular vesicular exosome assembly" EXACT [GOC:TermGenie] synonym: "up-regulation of extracellular vesicular exosome assembly" EXACT [GOC:TermGenie] synonym: "upregulation of extracellular vesicular exosome assembly" EXACT [GOC:TermGenie] is_a: GO:1902117 ! positive regulation of organelle assembly is_a: GO:1903551 ! regulation of extracellular exosome assembly intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0071971 ! extracellular exosome assembly relationship: positively_regulates GO:0071971 ! extracellular exosome assembly created_by: pga creation_date: 2014-10-20T15:37:42Z [Term] id: GO:1903561 name: extracellular vesicle namespace: cellular_component def: "Any vesicle that is part of the extracellular region." [GO_REF:0000064, GOC:pm, GOC:TermGenie, PMID:24769233] synonym: "microparticle" RELATED [GOC:vesicles] is_a: GO:0031982 ! vesicle is_a: GO:0065010 ! extracellular membrane-bounded organelle intersection_of: GO:0031982 ! vesicle intersection_of: part_of GO:0005576 ! extracellular region created_by: jl creation_date: 2014-10-22T14:26:11Z [Term] id: GO:1903564 name: regulation of protein localization to cilium namespace: biological_process def: "Any process that modulates the frequency, rate or extent of protein localization to cilium." [GO_REF:0000058, GOC:cilia, GOC:krc, GOC:TermGenie, PMID:22072986] is_a: GO:0032880 ! regulation of protein localization is_a: GO:0060341 ! regulation of cellular localization intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0061512 ! protein localization to cilium relationship: regulates GO:0061512 ! protein localization to cilium created_by: krc creation_date: 2014-10-24T20:58:11Z [Term] id: GO:1903565 name: negative regulation of protein localization to cilium namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of protein localization to cilium." [GO_REF:0000058, GOC:cilia, GOC:krc, GOC:TermGenie, PMID:22072986] synonym: "down regulation of protein localization to cilium" EXACT [GOC:TermGenie] synonym: "down-regulation of protein localization to cilium" EXACT [GOC:TermGenie] synonym: "downregulation of protein localization to cilium" EXACT [GOC:TermGenie] synonym: "inhibition of protein localization to cilium" NARROW [GOC:TermGenie] is_a: GO:0048523 ! negative regulation of cellular process is_a: GO:1903564 ! regulation of protein localization to cilium is_a: GO:1903828 ! negative regulation of protein localization intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0061512 ! protein localization to cilium relationship: negatively_regulates GO:0061512 ! protein localization to cilium created_by: krc creation_date: 2014-10-24T20:58:20Z [Term] id: GO:1903566 name: positive regulation of protein localization to cilium namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of protein localization to cilium." [GO_REF:0000058, GOC:cilia, GOC:krc, GOC:TermGenie, PMID:22072986] synonym: "activation of protein localization to cilium" NARROW [GOC:TermGenie] synonym: "up regulation of protein localization to cilium" EXACT [GOC:TermGenie] synonym: "up-regulation of protein localization to cilium" EXACT [GOC:TermGenie] synonym: "upregulation of protein localization to cilium" EXACT [GOC:TermGenie] is_a: GO:0048522 ! positive regulation of cellular process is_a: GO:1903564 ! regulation of protein localization to cilium is_a: GO:1903829 ! positive regulation of protein localization intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0061512 ! protein localization to cilium relationship: positively_regulates GO:0061512 ! protein localization to cilium created_by: krc creation_date: 2014-10-24T20:58:28Z [Term] id: GO:1903567 name: regulation of protein localization to ciliary membrane namespace: biological_process def: "Any process that modulates the frequency, rate or extent of protein localization to ciliary membrane." [GO_REF:0000058, GOC:cilia, GOC:krc, GOC:TermGenie, PMID:22072986] synonym: "regulation of protein localisation in ciliary membrane" EXACT [GOC:TermGenie] synonym: "regulation of protein localisation to ciliary membrane" EXACT [GOC:TermGenie] synonym: "regulation of protein localization in ciliary membrane" EXACT [GOC:TermGenie] is_a: GO:1903564 ! regulation of protein localization to cilium is_a: GO:1904375 ! regulation of protein localization to cell periphery is_a: GO:1905475 ! regulation of protein localization to membrane intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:1903441 ! protein localization to ciliary membrane relationship: regulates GO:1903441 ! protein localization to ciliary membrane created_by: krc creation_date: 2014-10-24T21:32:51Z [Term] id: GO:1903568 name: negative regulation of protein localization to ciliary membrane namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of protein localization to ciliary membrane." [GO_REF:0000058, GOC:cilia, GOC:krc, GOC:TermGenie, PMID:22072986] synonym: "down regulation of protein localisation in ciliary membrane" EXACT [GOC:TermGenie] synonym: "down regulation of protein localisation to ciliary membrane" EXACT [GOC:TermGenie] synonym: "down regulation of protein localization in ciliary membrane" EXACT [GOC:TermGenie] synonym: "down regulation of protein localization to ciliary membrane" EXACT [GOC:TermGenie] synonym: "down-regulation of protein localisation in ciliary membrane" EXACT [GOC:TermGenie] synonym: "down-regulation of protein localisation to ciliary membrane" EXACT [GOC:TermGenie] synonym: "down-regulation of protein localization in ciliary membrane" EXACT [GOC:TermGenie] synonym: "down-regulation of protein localization to ciliary membrane" EXACT [GOC:TermGenie] synonym: "downregulation of protein localisation in ciliary membrane" EXACT [GOC:TermGenie] synonym: "downregulation of protein localisation to ciliary membrane" EXACT [GOC:TermGenie] synonym: "downregulation of protein localization in ciliary membrane" EXACT [GOC:TermGenie] synonym: "downregulation of protein localization to ciliary membrane" EXACT [GOC:TermGenie] synonym: "inhibition of protein localisation in ciliary membrane" NARROW [GOC:TermGenie] synonym: "inhibition of protein localisation to ciliary membrane" NARROW [GOC:TermGenie] synonym: "inhibition of protein localization in ciliary membrane" NARROW [GOC:TermGenie] synonym: "inhibition of protein localization to ciliary membrane" NARROW [GOC:TermGenie] synonym: "negative regulation of protein localisation in ciliary membrane" EXACT [GOC:TermGenie] synonym: "negative regulation of protein localisation to ciliary membrane" EXACT [GOC:TermGenie] synonym: "negative regulation of protein localization in ciliary membrane" EXACT [GOC:TermGenie] is_a: GO:1903565 ! negative regulation of protein localization to cilium is_a: GO:1903567 ! regulation of protein localization to ciliary membrane is_a: GO:1904376 ! negative regulation of protein localization to cell periphery is_a: GO:1905476 ! negative regulation of protein localization to membrane intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:1903441 ! protein localization to ciliary membrane relationship: negatively_regulates GO:1903441 ! protein localization to ciliary membrane created_by: krc creation_date: 2014-10-24T21:32:59Z [Term] id: GO:1903569 name: positive regulation of protein localization to ciliary membrane namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of protein localization to ciliary membrane." [GO_REF:0000058, GOC:cilia, GOC:krc, GOC:TermGenie, PMID:22072986] synonym: "activation of protein localisation in ciliary membrane" NARROW [GOC:TermGenie] synonym: "activation of protein localisation to ciliary membrane" NARROW [GOC:TermGenie] synonym: "activation of protein localization in ciliary membrane" NARROW [GOC:TermGenie] synonym: "activation of protein localization to ciliary membrane" NARROW [GOC:TermGenie] synonym: "positive regulation of protein localisation in ciliary membrane" EXACT [GOC:TermGenie] synonym: "positive regulation of protein localisation to ciliary membrane" EXACT [GOC:TermGenie] synonym: "positive regulation of protein localization in ciliary membrane" EXACT [GOC:TermGenie] synonym: "up regulation of protein localisation in ciliary membrane" EXACT [GOC:TermGenie] synonym: "up regulation of protein localisation to ciliary membrane" EXACT [GOC:TermGenie] synonym: "up regulation of protein localization in ciliary membrane" EXACT [GOC:TermGenie] synonym: "up regulation of protein localization to ciliary membrane" EXACT [GOC:TermGenie] synonym: "up-regulation of protein localisation in ciliary membrane" EXACT [GOC:TermGenie] synonym: "up-regulation of protein localisation to ciliary membrane" EXACT [GOC:TermGenie] synonym: "up-regulation of protein localization in ciliary membrane" EXACT [GOC:TermGenie] synonym: "up-regulation of protein localization to ciliary membrane" EXACT [GOC:TermGenie] synonym: "upregulation of protein localisation in ciliary membrane" EXACT [GOC:TermGenie] synonym: "upregulation of protein localisation to ciliary membrane" EXACT [GOC:TermGenie] synonym: "upregulation of protein localization in ciliary membrane" EXACT [GOC:TermGenie] synonym: "upregulation of protein localization to ciliary membrane" EXACT [GOC:TermGenie] is_a: GO:1903566 ! positive regulation of protein localization to cilium is_a: GO:1903567 ! regulation of protein localization to ciliary membrane is_a: GO:1904377 ! positive regulation of protein localization to cell periphery is_a: GO:1905477 ! positive regulation of protein localization to membrane intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:1903441 ! protein localization to ciliary membrane relationship: positively_regulates GO:1903441 ! protein localization to ciliary membrane created_by: krc creation_date: 2014-10-24T21:33:08Z [Term] id: GO:1903701 name: substantia propria of cornea development namespace: biological_process def: "The process whose specific outcome is the progression of a substantia propria of cornea over time, from its formation to the mature structure." [GO_REF:0000094, GOC:TermGenie, PMID:12556382] synonym: "corneal stroma development" EXACT [GOC:TermGenie] synonym: "stroma of cornea development" EXACT [GOC:TermGenie] synonym: "substantia propria development" RELATED [GOC:TermGenie] is_a: GO:0048856 ! anatomical structure development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0001777 ! substantia propria of cornea relationship: results_in_development_of UBERON:0001777 ! substantia propria of cornea created_by: cls creation_date: 2014-12-03T13:12:09Z [Term] id: GO:1903702 name: esophagus development namespace: biological_process def: "The process whose specific outcome is the progression of an esophagus over time, from its formation to the mature structure." [GO_REF:0000094, GOC:TermGenie, ISBN:0-683-40008-8] synonym: "esophageal development" EXACT [MGI:csmith] synonym: "gullet development" EXACT [GOC:TermGenie] synonym: "oesophagus development" EXACT [GOC:TermGenie] is_a: GO:0048513 ! animal organ development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0001043 ! esophagus relationship: results_in_development_of UBERON:0001043 ! esophagus created_by: cls creation_date: 2014-12-03T14:41:30Z [Term] id: GO:1903706 name: regulation of hemopoiesis namespace: biological_process def: "Any process that modulates the frequency, rate or extent of hemopoiesis." [GO_REF:0000058, GOC:pad, GOC:PARL, GOC:TermGenie, PMID:20080761] comment: An example of this is Atg7 in mouse (UniProt symbol, Q9D906) in PMID:20080761, inferred from mutant phenotype. synonym: "regulation of blood cell biosynthesis" EXACT [GOC:TermGenie] synonym: "regulation of blood cell formation" EXACT [GOC:TermGenie] synonym: "regulation of haemopoiesis" EXACT [GOC:TermGenie] synonym: "regulation of hematopoiesis" EXACT [GOC:TermGenie] is_a: GO:0002682 ! regulation of immune system process is_a: GO:2000026 ! regulation of multicellular organismal development intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0030097 ! hemopoiesis relationship: regulates GO:0030097 ! hemopoiesis created_by: pad creation_date: 2014-12-04T15:34:13Z [Term] id: GO:1903707 name: negative regulation of hemopoiesis namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of hemopoiesis." [GO_REF:0000058, GOC:pad, GOC:PARL, GOC:TermGenie, PMID:20080761] comment: An example of this is Atg7 in mouse (UniProt symbol, Q9D906) in PMID:20080761, inferred from mutant phenotype. synonym: "down regulation of blood cell biosynthesis" EXACT [GOC:TermGenie] synonym: "down regulation of blood cell formation" EXACT [GOC:TermGenie] synonym: "down regulation of haemopoiesis" EXACT [GOC:TermGenie] synonym: "down regulation of hematopoiesis" EXACT [GOC:TermGenie] synonym: "down regulation of hemopoiesis" EXACT [GOC:TermGenie] synonym: "down-regulation of blood cell biosynthesis" EXACT [GOC:TermGenie] synonym: "down-regulation of blood cell formation" EXACT [GOC:TermGenie] synonym: "down-regulation of haemopoiesis" EXACT [GOC:TermGenie] synonym: "down-regulation of hematopoiesis" EXACT [GOC:TermGenie] synonym: "down-regulation of hemopoiesis" EXACT [GOC:TermGenie] synonym: "downregulation of blood cell biosynthesis" EXACT [GOC:TermGenie] synonym: "downregulation of blood cell formation" EXACT [GOC:TermGenie] synonym: "downregulation of haemopoiesis" EXACT [GOC:TermGenie] synonym: "downregulation of hematopoiesis" EXACT [GOC:TermGenie] synonym: "downregulation of hemopoiesis" EXACT [GOC:TermGenie] synonym: "inhibition of blood cell biosynthesis" NARROW [GOC:TermGenie] synonym: "inhibition of blood cell formation" NARROW [GOC:TermGenie] synonym: "inhibition of haemopoiesis" NARROW [GOC:TermGenie] synonym: "inhibition of hematopoiesis" NARROW [GOC:TermGenie] synonym: "inhibition of hemopoiesis" NARROW [GOC:TermGenie] synonym: "negative regulation of blood cell biosynthesis" EXACT [GOC:TermGenie] synonym: "negative regulation of blood cell formation" EXACT [GOC:TermGenie] synonym: "negative regulation of haemopoiesis" EXACT [GOC:TermGenie] synonym: "negative regulation of hematopoiesis" EXACT [GOC:TermGenie] is_a: GO:0002683 ! negative regulation of immune system process is_a: GO:0051093 ! negative regulation of developmental process is_a: GO:0051241 ! negative regulation of multicellular organismal process is_a: GO:1903706 ! regulation of hemopoiesis intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0030097 ! hemopoiesis relationship: negatively_regulates GO:0030097 ! hemopoiesis created_by: pad creation_date: 2014-12-04T15:34:21Z [Term] id: GO:1903708 name: positive regulation of hemopoiesis namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of hemopoiesis." [GO_REF:0000058, GOC:pad, GOC:PARL, GOC:TermGenie, PMID:20080761] comment: An example of this is Atg7 in mouse (UniProt symbol, Q9D906) in PMID:20080761, inferred from mutant phenotype. synonym: "activation of blood cell biosynthesis" NARROW [GOC:TermGenie] synonym: "activation of blood cell formation" NARROW [GOC:TermGenie] synonym: "activation of haemopoiesis" NARROW [GOC:TermGenie] synonym: "activation of hematopoiesis" NARROW [GOC:TermGenie] synonym: "activation of hemopoiesis" NARROW [GOC:TermGenie] synonym: "positive regulation of blood cell biosynthesis" EXACT [GOC:TermGenie] synonym: "positive regulation of blood cell formation" EXACT [GOC:TermGenie] synonym: "positive regulation of haemopoiesis" EXACT [GOC:TermGenie] synonym: "positive regulation of hematopoiesis" EXACT [GOC:TermGenie] synonym: "up regulation of blood cell biosynthesis" EXACT [GOC:TermGenie] synonym: "up regulation of blood cell formation" EXACT [GOC:TermGenie] synonym: "up regulation of haemopoiesis" EXACT [GOC:TermGenie] synonym: "up regulation of hematopoiesis" EXACT [GOC:TermGenie] synonym: "up regulation of hemopoiesis" EXACT [GOC:TermGenie] synonym: "up-regulation of blood cell biosynthesis" EXACT [GOC:TermGenie] synonym: "up-regulation of blood cell formation" EXACT [GOC:TermGenie] synonym: "up-regulation of haemopoiesis" EXACT [GOC:TermGenie] synonym: "up-regulation of hematopoiesis" EXACT [GOC:TermGenie] synonym: "up-regulation of hemopoiesis" EXACT [GOC:TermGenie] synonym: "upregulation of blood cell biosynthesis" EXACT [GOC:TermGenie] synonym: "upregulation of blood cell formation" EXACT [GOC:TermGenie] synonym: "upregulation of haemopoiesis" EXACT [GOC:TermGenie] synonym: "upregulation of hematopoiesis" EXACT [GOC:TermGenie] synonym: "upregulation of hemopoiesis" EXACT [GOC:TermGenie] is_a: GO:0002684 ! positive regulation of immune system process is_a: GO:0051094 ! positive regulation of developmental process is_a: GO:0051240 ! positive regulation of multicellular organismal process is_a: GO:1903706 ! regulation of hemopoiesis intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0030097 ! hemopoiesis relationship: positively_regulates GO:0030097 ! hemopoiesis created_by: pad creation_date: 2014-12-04T15:34:30Z [Term] id: GO:1903729 name: regulation of plasma membrane organization namespace: biological_process def: "Any process that modulates the frequency, rate or extent of plasma membrane organization." [GO_REF:0000058, GOC:TermGenie, PMID:24514900] synonym: "regulation of plasma membrane organisation" EXACT [GOC:TermGenie] synonym: "regulation of plasma membrane organization and biogenesis" RELATED [GOC:TermGenie] is_a: GO:0051128 ! regulation of cellular component organization intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0007009 ! plasma membrane organization relationship: regulates GO:0007009 ! plasma membrane organization created_by: al creation_date: 2014-12-10T18:59:44Z [Term] id: GO:1903778 name: protein localization to vacuolar membrane namespace: biological_process def: "A process in which a protein is transported to, or maintained in, a location within a vacuolar membrane." [GO_REF:0000087, GOC:TermGenie, PMID:25378562] synonym: "protein localisation in vacuolar membrane" EXACT [GOC:TermGenie] synonym: "protein localisation to vacuolar membrane" EXACT [GOC:TermGenie] synonym: "protein localization in vacuolar membrane" EXACT [GOC:TermGenie] is_a: GO:0072657 ! protein localization to membrane is_a: GO:0072665 ! protein localization to vacuole intersection_of: GO:0008104 ! protein localization intersection_of: has_target_end_location GO:0005774 ! vacuolar membrane relationship: has_target_end_location GO:0005774 ! vacuolar membrane created_by: mah creation_date: 2015-01-07T13:15:54Z [Term] id: GO:1903779 name: regulation of cardiac conduction namespace: biological_process def: "Any process that modulates the frequency, rate or extent of cardiac conduction." [GO_REF:0000058, GOC:BHF, GOC:mtg_cardiac_conduct_nov11, GOC:rph, GOC:TermGenie, PMID:12967627] is_a: GO:0008016 ! regulation of heart contraction is_a: GO:0023051 ! regulation of signaling intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0061337 ! cardiac conduction relationship: regulates GO:0061337 ! cardiac conduction created_by: rph creation_date: 2015-01-07T13:20:11Z [Term] id: GO:1903780 name: negative regulation of cardiac conduction namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of cardiac conduction." [GO_REF:0000058, GOC:BHF, GOC:mtg_cardiac_conduct_nov11, GOC:rph, GOC:TermGenie, PMID:12967627] synonym: "down regulation of cardiac conduction" EXACT [GOC:TermGenie] synonym: "down-regulation of cardiac conduction" EXACT [GOC:TermGenie] synonym: "downregulation of cardiac conduction" EXACT [GOC:TermGenie] synonym: "inhibition of cardiac conduction" NARROW [GOC:TermGenie] is_a: GO:0023057 ! negative regulation of signaling is_a: GO:0051241 ! negative regulation of multicellular organismal process is_a: GO:1903779 ! regulation of cardiac conduction intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0061337 ! cardiac conduction relationship: negatively_regulates GO:0061337 ! cardiac conduction created_by: rph creation_date: 2015-01-07T13:20:20Z [Term] id: GO:1903781 name: positive regulation of cardiac conduction namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of cardiac conduction." [GO_REF:0000058, GOC:BHF, GOC:mtg_cardiac_conduct_nov11, GOC:rph, GOC:TermGenie, PMID:12967627] synonym: "activation of cardiac conduction" NARROW [GOC:TermGenie] synonym: "up regulation of cardiac conduction" EXACT [GOC:TermGenie] synonym: "up-regulation of cardiac conduction" EXACT [GOC:TermGenie] synonym: "upregulation of cardiac conduction" EXACT [GOC:TermGenie] is_a: GO:0023056 ! positive regulation of signaling is_a: GO:0051240 ! positive regulation of multicellular organismal process is_a: GO:1903779 ! regulation of cardiac conduction intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0061337 ! cardiac conduction relationship: positively_regulates GO:0061337 ! cardiac conduction created_by: rph creation_date: 2015-01-07T13:20:28Z [Term] id: GO:1903792 name: negative regulation of anion transport namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of anion transport." [GO_REF:0000058, GOC:TermGenie, PMID:11336802] synonym: "down regulation of anion transport" EXACT [GOC:TermGenie] synonym: "down-regulation of anion transport" EXACT [GOC:TermGenie] synonym: "downregulation of anion transport" EXACT [GOC:TermGenie] synonym: "inhibition of anion transport" NARROW [GOC:TermGenie] is_a: GO:0043271 ! negative regulation of ion transport is_a: GO:0044070 ! regulation of anion transport intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0006820 ! anion transport relationship: negatively_regulates GO:0006820 ! anion transport created_by: sl creation_date: 2015-01-12T21:50:20Z [Term] id: GO:1903793 name: positive regulation of anion transport namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of anion transport." [GO_REF:0000058, GOC:TermGenie, PMID:11336802] synonym: "activation of anion transport" NARROW [GOC:TermGenie] synonym: "up regulation of anion transport" EXACT [GOC:TermGenie] synonym: "up-regulation of anion transport" EXACT [GOC:TermGenie] synonym: "upregulation of anion transport" EXACT [GOC:TermGenie] is_a: GO:0043270 ! positive regulation of ion transport is_a: GO:0044070 ! regulation of anion transport intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0006820 ! anion transport relationship: positively_regulates GO:0006820 ! anion transport created_by: sl creation_date: 2015-01-12T21:50:30Z [Term] id: GO:1903828 name: negative regulation of protein localization namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of a protein localization." [GO_REF:0000058, GOC:TermGenie, GOC:vw] synonym: "down regulation of cellular protein localisation" EXACT [GOC:TermGenie] synonym: "down regulation of cellular protein localization" EXACT [GOC:TermGenie] synonym: "down-regulation of cellular protein localisation" EXACT [GOC:TermGenie] synonym: "down-regulation of cellular protein localization" EXACT [GOC:TermGenie] synonym: "downregulation of cellular protein localisation" EXACT [GOC:TermGenie] synonym: "downregulation of cellular protein localization" EXACT [GOC:TermGenie] synonym: "inhibition of cellular protein localisation" NARROW [GOC:TermGenie] synonym: "inhibition of cellular protein localization" NARROW [GOC:TermGenie] synonym: "negative regulation of cellular protein localisation" EXACT [GOC:TermGenie] synonym: "negative regulation of cellular protein localization" EXACT [] is_a: GO:0032880 ! regulation of protein localization is_a: GO:0048519 ! negative regulation of biological process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0008104 ! protein localization relationship: negatively_regulates GO:0008104 ! protein localization property_value: IAO:0000233 https://github.com/geneontology/go-ontology/issues/22021 xsd:anyURI created_by: jl creation_date: 2015-01-20T14:32:24Z [Term] id: GO:1903829 name: positive regulation of protein localization namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of a protein localization." [GO_REF:0000058, GOC:TermGenie, GOC:vw] synonym: "positive regulation of cellular protein localisation" EXACT [GOC:TermGenie] synonym: "positive regulation of cellular protein localization" EXACT [] synonym: "up regulation of cellular protein localisation" EXACT [GOC:TermGenie] synonym: "up regulation of cellular protein localization" EXACT [GOC:TermGenie] synonym: "up-regulation of cellular protein localisation" EXACT [GOC:TermGenie] synonym: "up-regulation of cellular protein localization" EXACT [GOC:TermGenie] synonym: "upregulation of cellular protein localisation" EXACT [GOC:TermGenie] synonym: "upregulation of cellular protein localization" EXACT [GOC:TermGenie] is_a: GO:0032880 ! regulation of protein localization is_a: GO:0048518 ! positive regulation of biological process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0008104 ! protein localization relationship: positively_regulates GO:0008104 ! protein localization property_value: IAO:0000233 https://github.com/geneontology/go-ontology/issues/22021 xsd:anyURI created_by: jl creation_date: 2015-01-20T14:32:33Z [Term] id: GO:1903847 name: regulation of aorta morphogenesis namespace: biological_process def: "Any process that modulates the frequency, rate or extent of aorta morphogenesis." [GO_REF:0000058, GOC:BHF, GOC:BHF_miRNA, GOC:rph, GOC:TermGenie, PMID:22269326] is_a: GO:1905651 ! regulation of artery morphogenesis intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0035909 ! aorta morphogenesis relationship: regulates GO:0035909 ! aorta morphogenesis created_by: rph creation_date: 2015-01-23T14:00:51Z [Term] id: GO:1903848 name: negative regulation of aorta morphogenesis namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of aorta morphogenesis." [GO_REF:0000058, GOC:BHF, GOC:BHF_miRNA, GOC:rph, GOC:TermGenie, PMID:22269326] synonym: "down regulation of aorta morphogenesis" EXACT [GOC:TermGenie] synonym: "down-regulation of aorta morphogenesis" EXACT [GOC:TermGenie] synonym: "downregulation of aorta morphogenesis" EXACT [GOC:TermGenie] synonym: "inhibition of aorta morphogenesis" NARROW [GOC:TermGenie] is_a: GO:1903847 ! regulation of aorta morphogenesis is_a: GO:1905652 ! negative regulation of artery morphogenesis intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0035909 ! aorta morphogenesis relationship: negatively_regulates GO:0035909 ! aorta morphogenesis created_by: rph creation_date: 2015-01-23T14:01:01Z [Term] id: GO:1903849 name: positive regulation of aorta morphogenesis namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of aorta morphogenesis." [GO_REF:0000058, GOC:BHF, GOC:BHF_miRNA, GOC:rph, GOC:TermGenie, PMID:22269326] synonym: "activation of aorta morphogenesis" NARROW [GOC:TermGenie] synonym: "up regulation of aorta morphogenesis" EXACT [GOC:TermGenie] synonym: "up-regulation of aorta morphogenesis" EXACT [GOC:TermGenie] synonym: "upregulation of aorta morphogenesis" EXACT [GOC:TermGenie] is_a: GO:1903847 ! regulation of aorta morphogenesis is_a: GO:1905653 ! positive regulation of artery morphogenesis intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0035909 ! aorta morphogenesis relationship: positively_regulates GO:0035909 ! aorta morphogenesis created_by: rph creation_date: 2015-01-23T14:01:09Z [Term] id: GO:1903941 name: negative regulation of respiratory gaseous exchange namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of respiratory gaseous exchange." [GO_REF:0000058, GOC:TermGenie, PMID:22819705] synonym: "down regulation of respiratory gaseous exchange" EXACT [GOC:TermGenie] synonym: "down-regulation of respiratory gaseous exchange" EXACT [GOC:TermGenie] synonym: "downregulation of respiratory gaseous exchange" EXACT [GOC:TermGenie] synonym: "inhibition of respiratory gaseous exchange" NARROW [GOC:TermGenie] is_a: GO:0043576 ! regulation of respiratory gaseous exchange is_a: GO:0051241 ! negative regulation of multicellular organismal process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0007585 ! respiratory gaseous exchange by respiratory system relationship: negatively_regulates GO:0007585 ! respiratory gaseous exchange by respiratory system created_by: sl creation_date: 2015-02-17T20:26:24Z [Term] id: GO:1903942 name: positive regulation of respiratory gaseous exchange namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of respiratory gaseous exchange." [GO_REF:0000058, GOC:TermGenie, PMID:22819705] synonym: "activation of respiratory gaseous exchange" NARROW [GOC:TermGenie] synonym: "up regulation of respiratory gaseous exchange" EXACT [GOC:TermGenie] synonym: "up-regulation of respiratory gaseous exchange" EXACT [GOC:TermGenie] synonym: "upregulation of respiratory gaseous exchange" EXACT [GOC:TermGenie] is_a: GO:0043576 ! regulation of respiratory gaseous exchange is_a: GO:0051240 ! positive regulation of multicellular organismal process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0007585 ! respiratory gaseous exchange by respiratory system relationship: positively_regulates GO:0007585 ! respiratory gaseous exchange by respiratory system created_by: sl creation_date: 2015-02-17T20:26:35Z [Term] id: GO:1903950 name: negative regulation of AV node cell action potential namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of AV node cell action potential." [GO_REF:0000058, GOC:BHF, GOC:mtg_cardiac_conduct_nov11, GOC:nc, GOC:TermGenie, PMID:25281747] synonym: "down regulation of atrioventricular node cardiac muscle cell action potential" EXACT [GOC:TermGenie] synonym: "down regulation of AV node cardiac muscle cell action potential" EXACT [GOC:TermGenie] synonym: "down regulation of AV node cell action potential" EXACT [GOC:TermGenie] synonym: "down-regulation of atrioventricular node cardiac muscle cell action potential" EXACT [GOC:TermGenie] synonym: "down-regulation of AV node cardiac muscle cell action potential" EXACT [GOC:TermGenie] synonym: "down-regulation of AV node cell action potential" EXACT [GOC:TermGenie] synonym: "downregulation of atrioventricular node cardiac muscle cell action potential" EXACT [GOC:TermGenie] synonym: "downregulation of AV node cardiac muscle cell action potential" EXACT [GOC:TermGenie] synonym: "downregulation of AV node cell action potential" EXACT [GOC:TermGenie] synonym: "inhibition of atrioventricular node cardiac muscle cell action potential" NARROW [GOC:TermGenie] synonym: "inhibition of AV node cardiac muscle cell action potential" NARROW [GOC:TermGenie] synonym: "inhibition of AV node cell action potential" NARROW [GOC:TermGenie] synonym: "negative regulation of atrioventricular node cardiac muscle cell action potential" EXACT [GOC:TermGenie] synonym: "negative regulation of AV node cardiac muscle cell action potential" EXACT [GOC:TermGenie] is_a: GO:0045759 ! negative regulation of action potential is_a: GO:0098904 ! regulation of AV node cell action potential intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0086016 ! AV node cell action potential relationship: negatively_regulates GO:0086016 ! AV node cell action potential created_by: nc creation_date: 2015-02-20T14:59:41Z [Term] id: GO:1903951 name: positive regulation of AV node cell action potential namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of AV node cell action potential." [GO_REF:0000058, GOC:BHF, GOC:mtg_cardiac_conduct_nov11, GOC:nc, GOC:TermGenie, PMID:25281747] synonym: "activation of atrioventricular node cardiac muscle cell action potential" NARROW [GOC:TermGenie] synonym: "activation of AV node cardiac muscle cell action potential" NARROW [GOC:TermGenie] synonym: "activation of AV node cell action potential" NARROW [GOC:TermGenie] synonym: "positive regulation of atrioventricular node cardiac muscle cell action potential" EXACT [GOC:TermGenie] synonym: "positive regulation of AV node cardiac muscle cell action potential" EXACT [GOC:TermGenie] synonym: "up regulation of atrioventricular node cardiac muscle cell action potential" EXACT [GOC:TermGenie] synonym: "up regulation of AV node cardiac muscle cell action potential" EXACT [GOC:TermGenie] synonym: "up regulation of AV node cell action potential" EXACT [GOC:TermGenie] synonym: "up-regulation of atrioventricular node cardiac muscle cell action potential" EXACT [GOC:TermGenie] synonym: "up-regulation of AV node cardiac muscle cell action potential" EXACT [GOC:TermGenie] synonym: "up-regulation of AV node cell action potential" EXACT [GOC:TermGenie] synonym: "upregulation of atrioventricular node cardiac muscle cell action potential" EXACT [GOC:TermGenie] synonym: "upregulation of AV node cardiac muscle cell action potential" EXACT [GOC:TermGenie] synonym: "upregulation of AV node cell action potential" EXACT [GOC:TermGenie] is_a: GO:0045760 ! positive regulation of action potential is_a: GO:0098904 ! regulation of AV node cell action potential intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0086016 ! AV node cell action potential relationship: positively_regulates GO:0086016 ! AV node cell action potential created_by: nc creation_date: 2015-02-20T14:59:50Z [Term] id: GO:1904014 name: response to serotonin namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a serotonin stimulus." [GO_REF:0000071, GOC:TermGenie, PMID:1505525] is_a: GO:1901698 ! response to nitrogen compound intersection_of: GO:0050896 ! response to stimulus intersection_of: has_input CHEBI:350546 ! serotonin(1+) relationship: has_input CHEBI:350546 ! serotonin(1+) created_by: sl creation_date: 2015-03-06T19:33:54Z [Term] id: GO:1904018 name: positive regulation of vasculature development namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of vasculature development." [GO_REF:0000058, GOC:TermGenie, PMID:21472453] synonym: "activation of vascular system development" RELATED [GOC:TermGenie] synonym: "activation of vasculature development" NARROW [GOC:TermGenie] synonym: "positive regulation of vascular system development" RELATED [GOC:TermGenie] synonym: "up regulation of vascular system development" RELATED [GOC:TermGenie] synonym: "up regulation of vasculature development" EXACT [GOC:TermGenie] synonym: "up-regulation of vascular system development" RELATED [GOC:TermGenie] synonym: "up-regulation of vasculature development" EXACT [GOC:TermGenie] synonym: "upregulation of vascular system development" RELATED [GOC:TermGenie] synonym: "upregulation of vasculature development" EXACT [GOC:TermGenie] is_a: GO:0051094 ! positive regulation of developmental process is_a: GO:0051240 ! positive regulation of multicellular organismal process is_a: GO:1901342 ! regulation of vasculature development intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0001944 ! vasculature development relationship: positively_regulates GO:0001944 ! vasculature development created_by: sl creation_date: 2015-03-06T22:17:04Z [Term] id: GO:1904019 name: epithelial cell apoptotic process namespace: biological_process def: "Any apoptotic process in an epithelial cell." [GO_REF:0000085, GOC:TermGenie, PMID:19137015] synonym: "epithelial cell apoptosis" NARROW [GOC:TermGenie] synonym: "epitheliocyte apoptosis" NARROW [GOC:TermGenie] synonym: "epitheliocyte apoptotic process" EXACT [GOC:TermGenie] is_a: GO:0006915 ! apoptotic process intersection_of: GO:0006915 ! apoptotic process intersection_of: occurs_in CL:0000066 ! epithelial cell relationship: occurs_in CL:0000066 ! epithelial cell property_value: RO:0002161 NCBITaxon:33090 created_by: sl creation_date: 2015-03-06T22:27:17Z [Term] id: GO:1904026 name: regulation of collagen fibril organization namespace: biological_process def: "Any process that modulates the frequency, rate or extent of collagen fibril organization." [GO_REF:0000058, GOC:TermGenie, PMID:25451920] synonym: "regulation of collagen fibril organisation" EXACT [GOC:TermGenie] synonym: "regulation of collagen fibrillogenesis" RELATED [] synonym: "regulation of fibrillar collagen organization" EXACT [GOC:TermGenie] is_a: GO:1902903 ! regulation of supramolecular fiber organization is_a: GO:1903053 ! regulation of extracellular matrix organization intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0030199 ! collagen fibril organization relationship: regulates GO:0030199 ! collagen fibril organization created_by: ae creation_date: 2015-03-12T12:36:52Z [Term] id: GO:1904027 name: negative regulation of collagen fibril organization namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of collagen fibril organization." [GO_REF:0000058, GOC:TermGenie, PMID:25451920] synonym: "down regulation of collagen fibril organisation" EXACT [GOC:TermGenie] synonym: "down regulation of collagen fibril organization" EXACT [GOC:TermGenie] synonym: "down regulation of fibrillar collagen organization" EXACT [GOC:TermGenie] synonym: "down-regulation of collagen fibril organisation" EXACT [GOC:TermGenie] synonym: "down-regulation of collagen fibril organization" EXACT [GOC:TermGenie] synonym: "down-regulation of fibrillar collagen organization" EXACT [GOC:TermGenie] synonym: "downregulation of collagen fibril organisation" EXACT [GOC:TermGenie] synonym: "downregulation of collagen fibril organization" EXACT [GOC:TermGenie] synonym: "downregulation of fibrillar collagen organization" EXACT [GOC:TermGenie] synonym: "inhibition of collagen fibril organisation" NARROW [GOC:TermGenie] synonym: "inhibition of collagen fibril organization" NARROW [GOC:TermGenie] synonym: "inhibition of fibrillar collagen organization" NARROW [GOC:TermGenie] synonym: "negative regulation of collagen fibril organisation" EXACT [GOC:TermGenie] synonym: "negative regulation of fibrillar collagen organization" EXACT [GOC:TermGenie] is_a: GO:1902904 ! negative regulation of supramolecular fiber organization is_a: GO:1903054 ! negative regulation of extracellular matrix organization is_a: GO:1904026 ! regulation of collagen fibril organization intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0030199 ! collagen fibril organization relationship: negatively_regulates GO:0030199 ! collagen fibril organization created_by: ae creation_date: 2015-03-12T12:36:59Z [Term] id: GO:1904028 name: positive regulation of collagen fibril organization namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of collagen fibril organization." [GO_REF:0000058, GOC:TermGenie, PMID:25451920] synonym: "activation of collagen fibril organisation" NARROW [GOC:TermGenie] synonym: "activation of collagen fibril organization" NARROW [GOC:TermGenie] synonym: "activation of fibrillar collagen organization" NARROW [GOC:TermGenie] synonym: "positive regulation of collagen fibril organisation" EXACT [GOC:TermGenie] synonym: "positive regulation of fibrillar collagen organization" EXACT [GOC:TermGenie] synonym: "up regulation of collagen fibril organisation" EXACT [GOC:TermGenie] synonym: "up regulation of collagen fibril organization" EXACT [GOC:TermGenie] synonym: "up regulation of fibrillar collagen organization" EXACT [GOC:TermGenie] synonym: "up-regulation of collagen fibril organisation" EXACT [GOC:TermGenie] synonym: "up-regulation of collagen fibril organization" EXACT [GOC:TermGenie] synonym: "up-regulation of fibrillar collagen organization" EXACT [GOC:TermGenie] synonym: "upregulation of collagen fibril organisation" EXACT [GOC:TermGenie] synonym: "upregulation of collagen fibril organization" EXACT [GOC:TermGenie] synonym: "upregulation of fibrillar collagen organization" EXACT [GOC:TermGenie] is_a: GO:1902905 ! positive regulation of supramolecular fiber organization is_a: GO:1903055 ! positive regulation of extracellular matrix organization is_a: GO:1904026 ! regulation of collagen fibril organization intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0030199 ! collagen fibril organization relationship: positively_regulates GO:0030199 ! collagen fibril organization created_by: ae creation_date: 2015-03-12T12:37:06Z [Term] id: GO:1904035 name: regulation of epithelial cell apoptotic process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of epithelial cell apoptotic process." [GO_REF:0000058, GOC:TermGenie, PMID:19137015] synonym: "regulation of epithelial cell apoptosis" NARROW [GOC:TermGenie] synonym: "regulation of epitheliocyte apoptosis" NARROW [GOC:TermGenie] synonym: "regulation of epitheliocyte apoptotic process" EXACT [GOC:TermGenie] is_a: GO:0042981 ! regulation of apoptotic process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:1904019 ! epithelial cell apoptotic process relationship: regulates GO:1904019 ! epithelial cell apoptotic process created_by: sl creation_date: 2015-03-13T22:05:41Z [Term] id: GO:1904036 name: negative regulation of epithelial cell apoptotic process namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of epithelial cell apoptotic process." [GO_REF:0000058, GOC:TermGenie, PMID:19137015] synonym: "down regulation of epithelial cell apoptosis" NARROW [GOC:TermGenie] synonym: "down regulation of epithelial cell apoptotic process" EXACT [GOC:TermGenie] synonym: "down regulation of epitheliocyte apoptosis" NARROW [GOC:TermGenie] synonym: "down regulation of epitheliocyte apoptotic process" EXACT [GOC:TermGenie] synonym: "down-regulation of epithelial cell apoptosis" NARROW [GOC:TermGenie] synonym: "down-regulation of epithelial cell apoptotic process" EXACT [GOC:TermGenie] synonym: "down-regulation of epitheliocyte apoptosis" NARROW [GOC:TermGenie] synonym: "down-regulation of epitheliocyte apoptotic process" EXACT [GOC:TermGenie] synonym: "downregulation of epithelial cell apoptosis" NARROW [GOC:TermGenie] synonym: "downregulation of epithelial cell apoptotic process" EXACT [GOC:TermGenie] synonym: "downregulation of epitheliocyte apoptosis" NARROW [GOC:TermGenie] synonym: "downregulation of epitheliocyte apoptotic process" EXACT [GOC:TermGenie] synonym: "inhibition of epithelial cell apoptosis" NARROW [GOC:TermGenie] synonym: "inhibition of epithelial cell apoptotic process" NARROW [GOC:TermGenie] synonym: "inhibition of epitheliocyte apoptosis" NARROW [GOC:TermGenie] synonym: "inhibition of epitheliocyte apoptotic process" NARROW [GOC:TermGenie] synonym: "negative regulation of epithelial cell apoptosis" NARROW [GOC:TermGenie] synonym: "negative regulation of epitheliocyte apoptosis" NARROW [GOC:TermGenie] synonym: "negative regulation of epitheliocyte apoptotic process" EXACT [GOC:TermGenie] is_a: GO:0043066 ! negative regulation of apoptotic process is_a: GO:1904035 ! regulation of epithelial cell apoptotic process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:1904019 ! epithelial cell apoptotic process relationship: negatively_regulates GO:1904019 ! epithelial cell apoptotic process created_by: sl creation_date: 2015-03-13T22:05:47Z [Term] id: GO:1904037 name: positive regulation of epithelial cell apoptotic process namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of epithelial cell apoptotic process." [GO_REF:0000058, GOC:TermGenie, PMID:19137015] synonym: "activation of epithelial cell apoptosis" NARROW [GOC:TermGenie] synonym: "activation of epithelial cell apoptotic process" NARROW [GOC:TermGenie] synonym: "activation of epitheliocyte apoptosis" NARROW [GOC:TermGenie] synonym: "activation of epitheliocyte apoptotic process" NARROW [GOC:TermGenie] synonym: "positive regulation of epithelial cell apoptosis" NARROW [GOC:TermGenie] synonym: "positive regulation of epitheliocyte apoptosis" NARROW [GOC:TermGenie] synonym: "positive regulation of epitheliocyte apoptotic process" EXACT [GOC:TermGenie] synonym: "up regulation of epithelial cell apoptosis" NARROW [GOC:TermGenie] synonym: "up regulation of epithelial cell apoptotic process" EXACT [GOC:TermGenie] synonym: "up regulation of epitheliocyte apoptosis" NARROW [GOC:TermGenie] synonym: "up regulation of epitheliocyte apoptotic process" EXACT [GOC:TermGenie] synonym: "up-regulation of epithelial cell apoptosis" NARROW [GOC:TermGenie] synonym: "up-regulation of epithelial cell apoptotic process" EXACT [GOC:TermGenie] synonym: "up-regulation of epitheliocyte apoptosis" NARROW [GOC:TermGenie] synonym: "up-regulation of epitheliocyte apoptotic process" EXACT [GOC:TermGenie] synonym: "upregulation of epithelial cell apoptosis" NARROW [GOC:TermGenie] synonym: "upregulation of epithelial cell apoptotic process" EXACT [GOC:TermGenie] synonym: "upregulation of epitheliocyte apoptosis" NARROW [GOC:TermGenie] synonym: "upregulation of epitheliocyte apoptotic process" EXACT [GOC:TermGenie] is_a: GO:0043065 ! positive regulation of apoptotic process is_a: GO:1904035 ! regulation of epithelial cell apoptotic process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:1904019 ! epithelial cell apoptotic process relationship: positively_regulates GO:1904019 ! epithelial cell apoptotic process created_by: sl creation_date: 2015-03-13T22:05:53Z [Term] id: GO:1904170 name: regulation of bleb assembly namespace: biological_process def: "Any process that modulates the frequency, rate or extent of bleb assembly." [GO_REF:0000058, GOC:als, GOC:TermGenie, PMID:25651887] synonym: "regulation of cell blebbing" EXACT [GOC:TermGenie] is_a: GO:0120032 ! regulation of plasma membrane bounded cell projection assembly intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0032060 ! bleb assembly relationship: regulates GO:0032060 ! bleb assembly created_by: als creation_date: 2015-04-23T09:32:19Z [Term] id: GO:1904171 name: negative regulation of bleb assembly namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of bleb assembly." [GO_REF:0000058, GOC:als, GOC:TermGenie, PMID:25651887] synonym: "down regulation of bleb assembly" EXACT [GOC:TermGenie] synonym: "down regulation of cell blebbing" EXACT [GOC:TermGenie] synonym: "down-regulation of bleb assembly" EXACT [GOC:TermGenie] synonym: "down-regulation of cell blebbing" EXACT [GOC:TermGenie] synonym: "downregulation of bleb assembly" EXACT [GOC:TermGenie] synonym: "downregulation of cell blebbing" EXACT [GOC:TermGenie] synonym: "inhibition of bleb assembly" NARROW [GOC:TermGenie] synonym: "inhibition of cell blebbing" NARROW [GOC:TermGenie] synonym: "negative regulation of cell blebbing" EXACT [GOC:TermGenie] is_a: GO:0120033 ! negative regulation of plasma membrane bounded cell projection assembly is_a: GO:1904170 ! regulation of bleb assembly intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0032060 ! bleb assembly relationship: negatively_regulates GO:0032060 ! bleb assembly created_by: als creation_date: 2015-04-23T09:32:25Z [Term] id: GO:1904172 name: positive regulation of bleb assembly namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of bleb assembly." [GO_REF:0000058, GOC:als, GOC:TermGenie, PMID:25651887] synonym: "activation of bleb assembly" NARROW [GOC:TermGenie] synonym: "activation of cell blebbing" NARROW [GOC:TermGenie] synonym: "positive regulation of cell blebbing" EXACT [GOC:TermGenie] synonym: "up regulation of bleb assembly" EXACT [GOC:TermGenie] synonym: "up regulation of cell blebbing" EXACT [GOC:TermGenie] synonym: "up-regulation of bleb assembly" EXACT [GOC:TermGenie] synonym: "up-regulation of cell blebbing" EXACT [GOC:TermGenie] synonym: "upregulation of bleb assembly" EXACT [GOC:TermGenie] synonym: "upregulation of cell blebbing" EXACT [GOC:TermGenie] is_a: GO:0120034 ! positive regulation of plasma membrane bounded cell projection assembly is_a: GO:1904170 ! regulation of bleb assembly intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0032060 ! bleb assembly relationship: positively_regulates GO:0032060 ! bleb assembly created_by: als creation_date: 2015-04-23T09:32:31Z [Term] id: GO:1904177 name: regulation of adipose tissue development namespace: biological_process def: "Any process that modulates the frequency, rate or extent of adipose tissue development." [GO_REF:0000058, GOC:TermGenie, PMID:23081848] synonym: "regulation of adipogenesis" RELATED [GOC:TermGenie] is_a: GO:0050793 ! regulation of developmental process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0060612 ! adipose tissue development relationship: regulates GO:0060612 ! adipose tissue development created_by: sl creation_date: 2015-04-29T20:01:01Z [Term] id: GO:1904178 name: negative regulation of adipose tissue development namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of adipose tissue development." [GO_REF:0000058, GOC:TermGenie, PMID:23081848] synonym: "down regulation of adipogenesis" RELATED [GOC:TermGenie] synonym: "down regulation of adipose tissue development" EXACT [GOC:TermGenie] synonym: "down-regulation of adipogenesis" RELATED [GOC:TermGenie] synonym: "down-regulation of adipose tissue development" EXACT [GOC:TermGenie] synonym: "downregulation of adipogenesis" RELATED [GOC:TermGenie] synonym: "downregulation of adipose tissue development" EXACT [GOC:TermGenie] synonym: "inhibition of adipogenesis" RELATED [GOC:TermGenie] synonym: "inhibition of adipose tissue development" NARROW [GOC:TermGenie] synonym: "negative regulation of adipogenesis" RELATED [GOC:TermGenie] is_a: GO:0051093 ! negative regulation of developmental process is_a: GO:0051241 ! negative regulation of multicellular organismal process is_a: GO:1904177 ! regulation of adipose tissue development intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0060612 ! adipose tissue development relationship: negatively_regulates GO:0060612 ! adipose tissue development created_by: sl creation_date: 2015-04-29T20:01:07Z [Term] id: GO:1904179 name: positive regulation of adipose tissue development namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of adipose tissue development." [GO_REF:0000058, GOC:TermGenie, PMID:23081848] synonym: "activation of adipogenesis" RELATED [GOC:TermGenie] synonym: "activation of adipose tissue development" NARROW [GOC:TermGenie] synonym: "positive regulation of adipogenesis" RELATED [GOC:TermGenie] synonym: "up regulation of adipogenesis" RELATED [GOC:TermGenie] synonym: "up regulation of adipose tissue development" EXACT [GOC:TermGenie] synonym: "up-regulation of adipogenesis" RELATED [GOC:TermGenie] synonym: "up-regulation of adipose tissue development" EXACT [GOC:TermGenie] synonym: "upregulation of adipogenesis" RELATED [GOC:TermGenie] synonym: "upregulation of adipose tissue development" EXACT [GOC:TermGenie] is_a: GO:0051094 ! positive regulation of developmental process is_a: GO:0051240 ! positive regulation of multicellular organismal process is_a: GO:1904177 ! regulation of adipose tissue development intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0060612 ! adipose tissue development relationship: positively_regulates GO:0060612 ! adipose tissue development created_by: sl creation_date: 2015-04-29T20:01:13Z [Term] id: GO:1904204 name: regulation of skeletal muscle hypertrophy namespace: biological_process def: "Any process that modulates the frequency, rate or extent of skeletal muscle hypertrophy." [GO_REF:0000058, GOC:TermGenie, PMID:23470307] is_a: GO:0014733 ! regulation of skeletal muscle adaptation is_a: GO:0014743 ! regulation of muscle hypertrophy intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0014734 ! skeletal muscle hypertrophy relationship: regulates GO:0014734 ! skeletal muscle hypertrophy created_by: sl creation_date: 2015-05-08T17:38:13Z [Term] id: GO:1904205 name: negative regulation of skeletal muscle hypertrophy namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of skeletal muscle hypertrophy." [GO_REF:0000058, GOC:TermGenie, PMID:23470307] synonym: "down regulation of skeletal muscle hypertrophy" EXACT [GOC:TermGenie] synonym: "down-regulation of skeletal muscle hypertrophy" EXACT [GOC:TermGenie] synonym: "downregulation of skeletal muscle hypertrophy" EXACT [GOC:TermGenie] synonym: "inhibition of skeletal muscle hypertrophy" NARROW [GOC:TermGenie] is_a: GO:0014741 ! negative regulation of muscle hypertrophy is_a: GO:0014745 ! negative regulation of muscle adaptation is_a: GO:1904204 ! regulation of skeletal muscle hypertrophy intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0014734 ! skeletal muscle hypertrophy relationship: negatively_regulates GO:0014734 ! skeletal muscle hypertrophy created_by: sl creation_date: 2015-05-08T17:38:19Z [Term] id: GO:1904206 name: positive regulation of skeletal muscle hypertrophy namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of skeletal muscle hypertrophy." [GO_REF:0000058, GOC:TermGenie, PMID:23470307] synonym: "activation of skeletal muscle hypertrophy" NARROW [GOC:TermGenie] synonym: "up regulation of skeletal muscle hypertrophy" EXACT [GOC:TermGenie] synonym: "up-regulation of skeletal muscle hypertrophy" EXACT [GOC:TermGenie] synonym: "upregulation of skeletal muscle hypertrophy" EXACT [GOC:TermGenie] is_a: GO:0014742 ! positive regulation of muscle hypertrophy is_a: GO:0014744 ! positive regulation of muscle adaptation is_a: GO:1904204 ! regulation of skeletal muscle hypertrophy intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0014734 ! skeletal muscle hypertrophy relationship: positively_regulates GO:0014734 ! skeletal muscle hypertrophy created_by: sl creation_date: 2015-05-08T17:38:25Z [Term] id: GO:1904269 name: cell leading edge cell cortex namespace: cellular_component def: "The cell cortex of the leading edge of a cell." [GO_REF:0000064, GOC:kmv, GOC:TermGenie, PMID:25843030] synonym: "cell cortex of cell leading edge" EXACT [GOC:TermGenie] synonym: "cell cortex of front of cell" EXACT [GOC:TermGenie] synonym: "cell cortex of leading edge of cell" EXACT [GOC:TermGenie] synonym: "cell periphery of cell leading edge" RELATED [GOC:TermGenie] synonym: "cell periphery of front of cell" RELATED [GOC:TermGenie] synonym: "cell periphery of leading edge of cell" RELATED [GOC:TermGenie] synonym: "peripheral cytoplasm of cell leading edge" RELATED [GOC:TermGenie] synonym: "peripheral cytoplasm of front of cell" RELATED [GOC:TermGenie] synonym: "peripheral cytoplasm of leading edge of cell" RELATED [GOC:TermGenie] is_a: GO:0099738 ! cell cortex region intersection_of: GO:0099738 ! cell cortex region intersection_of: part_of GO:0031252 ! cell leading edge relationship: part_of GO:0031252 ! cell leading edge created_by: kmv creation_date: 2015-05-28T19:16:03Z [Term] id: GO:1904344 name: regulation of gastric mucosal blood circulation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of gastric mucosal blood circulation." [GO_REF:0000058, GOC:TermGenie, PMID:10807413] synonym: "regulation of stomach mucosal blood circulation" EXACT [GOC:TermGenie] is_a: GO:1903522 ! regulation of blood circulation intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:1990768 ! gastric mucosal blood circulation relationship: regulates GO:1990768 ! gastric mucosal blood circulation created_by: sl creation_date: 2015-06-11T21:20:31Z [Term] id: GO:1904345 name: negative regulation of gastric mucosal blood circulation namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of gastric mucosal blood circulation." [GO_REF:0000058, GOC:TermGenie, PMID:10807413] synonym: "down regulation of gastric mucosal blood circulation" EXACT [GOC:TermGenie] synonym: "down regulation of stomach mucosal blood circulation" EXACT [GOC:TermGenie] synonym: "down-regulation of gastric mucosal blood circulation" EXACT [GOC:TermGenie] synonym: "down-regulation of stomach mucosal blood circulation" EXACT [GOC:TermGenie] synonym: "downregulation of gastric mucosal blood circulation" EXACT [GOC:TermGenie] synonym: "downregulation of stomach mucosal blood circulation" EXACT [GOC:TermGenie] synonym: "inhibition of gastric mucosal blood circulation" NARROW [GOC:TermGenie] synonym: "inhibition of stomach mucosal blood circulation" NARROW [GOC:TermGenie] synonym: "negative regulation of stomach mucosal blood circulation" EXACT [GOC:TermGenie] is_a: GO:1903523 ! negative regulation of blood circulation is_a: GO:1904344 ! regulation of gastric mucosal blood circulation intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:1990768 ! gastric mucosal blood circulation relationship: negatively_regulates GO:1990768 ! gastric mucosal blood circulation created_by: sl creation_date: 2015-06-11T21:20:44Z [Term] id: GO:1904346 name: positive regulation of gastric mucosal blood circulation namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of gastric mucosal blood circulation." [GO_REF:0000058, GOC:TermGenie, PMID:10807413] synonym: "activation of gastric mucosal blood circulation" NARROW [GOC:TermGenie] synonym: "activation of stomach mucosal blood circulation" NARROW [GOC:TermGenie] synonym: "positive regulation of stomach mucosal blood circulation" EXACT [GOC:TermGenie] synonym: "up regulation of gastric mucosal blood circulation" EXACT [GOC:TermGenie] synonym: "up regulation of stomach mucosal blood circulation" EXACT [GOC:TermGenie] synonym: "up-regulation of gastric mucosal blood circulation" EXACT [GOC:TermGenie] synonym: "up-regulation of stomach mucosal blood circulation" EXACT [GOC:TermGenie] synonym: "upregulation of gastric mucosal blood circulation" EXACT [GOC:TermGenie] synonym: "upregulation of stomach mucosal blood circulation" EXACT [GOC:TermGenie] is_a: GO:1903524 ! positive regulation of blood circulation is_a: GO:1904344 ! regulation of gastric mucosal blood circulation intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:1990768 ! gastric mucosal blood circulation relationship: positively_regulates GO:1990768 ! gastric mucosal blood circulation created_by: sl creation_date: 2015-06-11T21:20:50Z [Term] id: GO:1904375 name: regulation of protein localization to cell periphery namespace: biological_process def: "Any process that modulates the frequency, rate or extent of protein localization to cell periphery." [GO_REF:0000058, GOC:TermGenie, PMID:18216290] is_a: GO:0032880 ! regulation of protein localization is_a: GO:0060341 ! regulation of cellular localization intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:1990778 ! protein localization to cell periphery relationship: regulates GO:1990778 ! protein localization to cell periphery created_by: sl creation_date: 2015-06-22T22:09:25Z [Term] id: GO:1904376 name: negative regulation of protein localization to cell periphery namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of protein localization to cell periphery." [GO_REF:0000058, GOC:TermGenie, PMID:18216290] synonym: "down regulation of protein localization to cell periphery" EXACT [GOC:TermGenie] synonym: "down-regulation of protein localization to cell periphery" EXACT [GOC:TermGenie] synonym: "downregulation of protein localization to cell periphery" EXACT [GOC:TermGenie] synonym: "inhibition of protein localization to cell periphery" NARROW [GOC:TermGenie] is_a: GO:0048523 ! negative regulation of cellular process is_a: GO:1903828 ! negative regulation of protein localization is_a: GO:1904375 ! regulation of protein localization to cell periphery intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:1990778 ! protein localization to cell periphery relationship: negatively_regulates GO:1990778 ! protein localization to cell periphery created_by: sl creation_date: 2015-06-22T22:09:32Z [Term] id: GO:1904377 name: positive regulation of protein localization to cell periphery namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of protein localization to cell periphery." [GO_REF:0000058, GOC:TermGenie, PMID:18216290] synonym: "activation of protein localization to cell periphery" NARROW [GOC:TermGenie] synonym: "up regulation of protein localization to cell periphery" EXACT [GOC:TermGenie] synonym: "up-regulation of protein localization to cell periphery" EXACT [GOC:TermGenie] synonym: "upregulation of protein localization to cell periphery" EXACT [GOC:TermGenie] is_a: GO:0048522 ! positive regulation of cellular process is_a: GO:1903829 ! positive regulation of protein localization is_a: GO:1904375 ! regulation of protein localization to cell periphery intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:1990778 ! protein localization to cell periphery relationship: positively_regulates GO:1990778 ! protein localization to cell periphery created_by: sl creation_date: 2015-06-22T22:09:37Z [Term] id: GO:1904396 name: regulation of neuromuscular junction development namespace: biological_process def: "Any process that modulates the frequency, rate or extent of neuromuscular junction development." [GO_REF:0000058, GOC:TermGenie, PMID:7722643] synonym: "regulation of neuromuscular junction organization" EXACT [GOC:TermGenie] synonym: "regulation of neuromuscular junction stability" RELATED [GOC:TermGenie] synonym: "regulation of NMJ stability" RELATED [GOC:TermGenie] is_a: GO:0050807 ! regulation of synapse organization intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0007528 ! neuromuscular junction development relationship: regulates GO:0007528 ! neuromuscular junction development created_by: sl creation_date: 2015-06-23T19:23:42Z [Term] id: GO:1904397 name: negative regulation of neuromuscular junction development namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of neuromuscular junction development." [GO_REF:0000058, GOC:TermGenie, PMID:7722643] synonym: "down regulation of neuromuscular junction development" EXACT [GOC:TermGenie] synonym: "down regulation of neuromuscular junction organization" EXACT [GOC:TermGenie] synonym: "down regulation of neuromuscular junction stability" RELATED [GOC:TermGenie] synonym: "down regulation of NMJ stability" RELATED [GOC:TermGenie] synonym: "down-regulation of neuromuscular junction development" EXACT [GOC:TermGenie] synonym: "down-regulation of neuromuscular junction organization" EXACT [GOC:TermGenie] synonym: "down-regulation of neuromuscular junction stability" RELATED [GOC:TermGenie] synonym: "down-regulation of NMJ stability" RELATED [GOC:TermGenie] synonym: "downregulation of neuromuscular junction development" EXACT [GOC:TermGenie] synonym: "downregulation of neuromuscular junction organization" EXACT [GOC:TermGenie] synonym: "downregulation of neuromuscular junction stability" RELATED [GOC:TermGenie] synonym: "downregulation of NMJ stability" RELATED [GOC:TermGenie] synonym: "inhibition of neuromuscular junction development" NARROW [GOC:TermGenie] synonym: "inhibition of neuromuscular junction organization" NARROW [GOC:TermGenie] synonym: "inhibition of neuromuscular junction stability" RELATED [GOC:TermGenie] synonym: "inhibition of NMJ stability" RELATED [GOC:TermGenie] synonym: "negative regulation of neuromuscular junction organization" EXACT [GOC:TermGenie] synonym: "negative regulation of neuromuscular junction stability" RELATED [GOC:TermGenie] synonym: "negative regulation of NMJ stability" RELATED [GOC:TermGenie] is_a: GO:1904396 ! regulation of neuromuscular junction development is_a: GO:1905809 ! negative regulation of synapse organization intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0007528 ! neuromuscular junction development relationship: negatively_regulates GO:0007528 ! neuromuscular junction development created_by: sl creation_date: 2015-06-23T19:23:48Z [Term] id: GO:1904398 name: positive regulation of neuromuscular junction development namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of neuromuscular junction development." [GO_REF:0000058, GOC:TermGenie, PMID:7722643] synonym: "activation of neuromuscular junction development" NARROW [GOC:TermGenie] synonym: "activation of neuromuscular junction organization" NARROW [GOC:TermGenie] synonym: "activation of neuromuscular junction stability" RELATED [GOC:TermGenie] synonym: "activation of NMJ stability" RELATED [GOC:TermGenie] synonym: "positive regulation of neuromuscular junction organization" EXACT [GOC:TermGenie] synonym: "positive regulation of neuromuscular junction stability" RELATED [GOC:TermGenie] synonym: "positive regulation of NMJ stability" RELATED [GOC:TermGenie] synonym: "up regulation of neuromuscular junction development" EXACT [GOC:TermGenie] synonym: "up regulation of neuromuscular junction organization" EXACT [GOC:TermGenie] synonym: "up regulation of neuromuscular junction stability" RELATED [GOC:TermGenie] synonym: "up regulation of NMJ stability" RELATED [GOC:TermGenie] synonym: "up-regulation of neuromuscular junction development" EXACT [GOC:TermGenie] synonym: "up-regulation of neuromuscular junction organization" EXACT [GOC:TermGenie] synonym: "up-regulation of neuromuscular junction stability" RELATED [GOC:TermGenie] synonym: "up-regulation of NMJ stability" RELATED [GOC:TermGenie] synonym: "upregulation of neuromuscular junction development" EXACT [GOC:TermGenie] synonym: "upregulation of neuromuscular junction organization" EXACT [GOC:TermGenie] synonym: "upregulation of neuromuscular junction stability" RELATED [GOC:TermGenie] synonym: "upregulation of NMJ stability" RELATED [GOC:TermGenie] is_a: GO:0051130 ! positive regulation of cellular component organization is_a: GO:1904396 ! regulation of neuromuscular junction development intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0007528 ! neuromuscular junction development relationship: positively_regulates GO:0007528 ! neuromuscular junction development created_by: sl creation_date: 2015-06-23T19:23:54Z [Term] id: GO:1904412 name: regulation of cardiac ventricle development namespace: biological_process def: "Any process that modulates the frequency, rate or extent of cardiac ventricle development." [GO_REF:0000058, GOC:TermGenie, PMID:19590510] is_a: GO:0050793 ! regulation of developmental process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0003231 ! cardiac ventricle development relationship: regulates GO:0003231 ! cardiac ventricle development created_by: sl creation_date: 2015-06-25T19:52:15Z [Term] id: GO:1904413 name: negative regulation of cardiac ventricle development namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of cardiac ventricle development." [GO_REF:0000058, GOC:TermGenie, PMID:19590510] synonym: "down regulation of cardiac ventricle development" EXACT [GOC:TermGenie] synonym: "down-regulation of cardiac ventricle development" EXACT [GOC:TermGenie] synonym: "downregulation of cardiac ventricle development" EXACT [GOC:TermGenie] synonym: "inhibition of cardiac ventricle development" NARROW [GOC:TermGenie] is_a: GO:0051093 ! negative regulation of developmental process is_a: GO:0051241 ! negative regulation of multicellular organismal process is_a: GO:1904412 ! regulation of cardiac ventricle development intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0003231 ! cardiac ventricle development relationship: negatively_regulates GO:0003231 ! cardiac ventricle development created_by: sl creation_date: 2015-06-25T19:52:21Z [Term] id: GO:1904414 name: positive regulation of cardiac ventricle development namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of cardiac ventricle development." [GO_REF:0000058, GOC:TermGenie, PMID:19590510] synonym: "activation of cardiac ventricle development" NARROW [GOC:TermGenie] synonym: "up regulation of cardiac ventricle development" EXACT [GOC:TermGenie] synonym: "up-regulation of cardiac ventricle development" EXACT [GOC:TermGenie] synonym: "upregulation of cardiac ventricle development" EXACT [GOC:TermGenie] is_a: GO:0051094 ! positive regulation of developmental process is_a: GO:0051240 ! positive regulation of multicellular organismal process is_a: GO:1904412 ! regulation of cardiac ventricle development intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0003231 ! cardiac ventricle development relationship: positively_regulates GO:0003231 ! cardiac ventricle development created_by: sl creation_date: 2015-06-25T19:52:27Z [Term] id: GO:1904456 name: negative regulation of neuronal action potential namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of neuronal action potential." [GO_REF:0000058, GOC:TermGenie, PMID:25126967] synonym: "down regulation of generation of action potential" RELATED [GOC:TermGenie] synonym: "down regulation of neuronal action potential" EXACT [GOC:TermGenie] synonym: "down-regulation of generation of action potential" RELATED [GOC:TermGenie] synonym: "down-regulation of neuronal action potential" EXACT [GOC:TermGenie] synonym: "downregulation of generation of action potential" RELATED [GOC:TermGenie] synonym: "downregulation of neuronal action potential" EXACT [GOC:TermGenie] synonym: "inhibition of generation of action potential" RELATED [GOC:TermGenie] synonym: "inhibition of neuronal action potential" NARROW [GOC:TermGenie] synonym: "negative regulation of generation of action potential" RELATED [GOC:TermGenie] is_a: GO:0045759 ! negative regulation of action potential is_a: GO:0051970 ! negative regulation of transmission of nerve impulse is_a: GO:0098908 ! regulation of neuronal action potential intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0019228 ! neuronal action potential relationship: negatively_regulates GO:0019228 ! neuronal action potential created_by: sl creation_date: 2015-07-09T18:02:40Z [Term] id: GO:1904457 name: positive regulation of neuronal action potential namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of neuronal action potential." [GO_REF:0000058, GOC:TermGenie, PMID:25126967] synonym: "activation of generation of action potential" RELATED [GOC:TermGenie] synonym: "activation of neuronal action potential" NARROW [GOC:TermGenie] synonym: "positive regulation of generation of action potential" RELATED [GOC:TermGenie] synonym: "up regulation of generation of action potential" RELATED [GOC:TermGenie] synonym: "up regulation of neuronal action potential" EXACT [GOC:TermGenie] synonym: "up-regulation of generation of action potential" RELATED [GOC:TermGenie] synonym: "up-regulation of neuronal action potential" EXACT [GOC:TermGenie] synonym: "upregulation of generation of action potential" RELATED [GOC:TermGenie] synonym: "upregulation of neuronal action potential" EXACT [GOC:TermGenie] is_a: GO:0045760 ! positive regulation of action potential is_a: GO:0051971 ! positive regulation of transmission of nerve impulse is_a: GO:0098908 ! regulation of neuronal action potential intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0019228 ! neuronal action potential relationship: positively_regulates GO:0019228 ! neuronal action potential created_by: sl creation_date: 2015-07-09T18:02:46Z [Term] id: GO:1904491 name: protein localization to ciliary transition zone namespace: biological_process def: "A process in which a protein is transported to, or maintained in, a location within a ciliary transition zone." [GO_REF:0000087, GOC:kmv, GOC:TermGenie, PMID:21422230] synonym: "protein localisation in ciliary transition zone" EXACT [GOC:TermGenie] synonym: "protein localisation to ciliary transition zone" EXACT [GOC:TermGenie] synonym: "protein localization in ciliary transition zone" EXACT [GOC:TermGenie] is_a: GO:0061512 ! protein localization to cilium intersection_of: GO:0008104 ! protein localization intersection_of: has_target_end_location GO:0035869 ! ciliary transition zone relationship: has_target_end_location GO:0035869 ! ciliary transition zone created_by: kmv creation_date: 2015-07-17T20:43:21Z [Term] id: GO:1904526 name: regulation of microtubule binding namespace: biological_process def: "Any process that modulates the frequency, rate or extent of microtubule binding." [GO_REF:0000059, GOC:als, GOC:TermGenie, PMID:24520051] synonym: "regulation of microtubule severing activity" RELATED [GOC:TermGenie] synonym: "regulation of microtubule/chromatin interaction" RELATED [GOC:TermGenie] is_a: GO:0043393 ! regulation of protein binding intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0008017 ! microtubule binding relationship: regulates GO:0008017 ! microtubule binding created_by: als creation_date: 2015-07-30T10:32:13Z [Term] id: GO:1904527 name: negative regulation of microtubule binding namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of microtubule binding." [GO_REF:0000059, GOC:als, GOC:TermGenie, PMID:24520051] synonym: "down regulation of microtubule binding" EXACT [GOC:TermGenie] synonym: "down regulation of microtubule severing activity" RELATED [GOC:TermGenie] synonym: "down regulation of microtubule/chromatin interaction" RELATED [GOC:TermGenie] synonym: "down-regulation of microtubule binding" EXACT [GOC:TermGenie] synonym: "down-regulation of microtubule severing activity" RELATED [GOC:TermGenie] synonym: "down-regulation of microtubule/chromatin interaction" RELATED [GOC:TermGenie] synonym: "downregulation of microtubule binding" EXACT [GOC:TermGenie] synonym: "downregulation of microtubule severing activity" RELATED [GOC:TermGenie] synonym: "downregulation of microtubule/chromatin interaction" RELATED [GOC:TermGenie] synonym: "inhibition of microtubule binding" NARROW [GOC:TermGenie] synonym: "inhibition of microtubule severing activity" RELATED [GOC:TermGenie] synonym: "inhibition of microtubule/chromatin interaction" RELATED [GOC:TermGenie] synonym: "negative regulation of microtubule severing activity" RELATED [GOC:TermGenie] synonym: "negative regulation of microtubule/chromatin interaction" RELATED [GOC:TermGenie] is_a: GO:0032091 ! negative regulation of protein binding is_a: GO:1904526 ! regulation of microtubule binding intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0008017 ! microtubule binding relationship: negatively_regulates GO:0008017 ! microtubule binding created_by: als creation_date: 2015-07-30T10:32:29Z [Term] id: GO:1904528 name: positive regulation of microtubule binding namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of microtubule binding." [GO_REF:0000059, GOC:als, GOC:TermGenie, PMID:24520051] synonym: "activation of microtubule binding" NARROW [GOC:TermGenie] synonym: "activation of microtubule severing activity" RELATED [GOC:TermGenie] synonym: "activation of microtubule/chromatin interaction" RELATED [GOC:TermGenie] synonym: "positive regulation of microtubule severing activity" RELATED [GOC:TermGenie] synonym: "positive regulation of microtubule/chromatin interaction" RELATED [GOC:TermGenie] synonym: "up regulation of microtubule binding" EXACT [GOC:TermGenie] synonym: "up regulation of microtubule severing activity" RELATED [GOC:TermGenie] synonym: "up regulation of microtubule/chromatin interaction" RELATED [GOC:TermGenie] synonym: "up-regulation of microtubule binding" EXACT [GOC:TermGenie] synonym: "up-regulation of microtubule severing activity" RELATED [GOC:TermGenie] synonym: "up-regulation of microtubule/chromatin interaction" RELATED [GOC:TermGenie] synonym: "upregulation of microtubule binding" EXACT [GOC:TermGenie] synonym: "upregulation of microtubule severing activity" RELATED [GOC:TermGenie] synonym: "upregulation of microtubule/chromatin interaction" RELATED [GOC:TermGenie] is_a: GO:0032092 ! positive regulation of protein binding is_a: GO:1904526 ! regulation of microtubule binding intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0008017 ! microtubule binding relationship: positively_regulates GO:0008017 ! microtubule binding created_by: als creation_date: 2015-07-30T10:32:36Z [Term] id: GO:1904587 name: response to glycoprotein namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a glycoprotein stimulus." [GO_REF:0000071, GOC:TermGenie, PMID:14597422] synonym: "response to glycoproteins" EXACT [] is_a: GO:0010243 ! response to organonitrogen compound is_a: GO:1901700 ! response to oxygen-containing compound intersection_of: GO:0050896 ! response to stimulus intersection_of: has_input CHEBI:17089 ! glycoprotein relationship: has_input CHEBI:17089 ! glycoprotein created_by: sl creation_date: 2015-08-20T16:46:24Z [Term] id: GO:1904606 name: fat cell apoptotic process namespace: biological_process def: "Any apoptotic process in a fat cell." [GO_REF:0000085, GOC:TermGenie, PMID:17024416] synonym: "adipocyte apoptosis" NARROW [GOC:TermGenie] synonym: "adipocyte apoptotic process" EXACT [GOC:TermGenie] synonym: "adipose cell apoptosis" NARROW [GOC:TermGenie] synonym: "adipose cell apoptotic process" EXACT [GOC:TermGenie] synonym: "fat cell apoptosis" NARROW [GOC:TermGenie] is_a: GO:0006915 ! apoptotic process intersection_of: GO:0006915 ! apoptotic process intersection_of: occurs_in CL:0000136 ! fat cell relationship: occurs_in CL:0000136 ! fat cell created_by: sl creation_date: 2015-08-27T18:13:06Z [Term] id: GO:1904649 name: regulation of fat cell apoptotic process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of fat cell apoptotic process." [GO_REF:0000058, GOC:TermGenie, PMID:17024416] synonym: "regulation of adipocyte apoptosis" NARROW [GOC:TermGenie] synonym: "regulation of adipocyte apoptotic process" EXACT [GOC:TermGenie] synonym: "regulation of adipose cell apoptosis" NARROW [GOC:TermGenie] synonym: "regulation of adipose cell apoptotic process" EXACT [GOC:TermGenie] synonym: "regulation of fat cell apoptosis" NARROW [GOC:TermGenie] is_a: GO:0042981 ! regulation of apoptotic process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:1904606 ! fat cell apoptotic process relationship: regulates GO:1904606 ! fat cell apoptotic process created_by: sl creation_date: 2015-08-31T20:59:28Z [Term] id: GO:1904650 name: negative regulation of fat cell apoptotic process namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of fat cell apoptotic process." [GO_REF:0000058, GOC:TermGenie, PMID:17024416] synonym: "down regulation of adipocyte apoptosis" NARROW [GOC:TermGenie] synonym: "down regulation of adipocyte apoptotic process" EXACT [GOC:TermGenie] synonym: "down regulation of adipose cell apoptosis" NARROW [GOC:TermGenie] synonym: "down regulation of adipose cell apoptotic process" EXACT [GOC:TermGenie] synonym: "down regulation of fat cell apoptosis" NARROW [GOC:TermGenie] synonym: "down regulation of fat cell apoptotic process" EXACT [GOC:TermGenie] synonym: "down-regulation of adipocyte apoptosis" NARROW [GOC:TermGenie] synonym: "down-regulation of adipocyte apoptotic process" EXACT [GOC:TermGenie] synonym: "down-regulation of adipose cell apoptosis" NARROW [GOC:TermGenie] synonym: "down-regulation of adipose cell apoptotic process" EXACT [GOC:TermGenie] synonym: "down-regulation of fat cell apoptosis" NARROW [GOC:TermGenie] synonym: "down-regulation of fat cell apoptotic process" EXACT [GOC:TermGenie] synonym: "downregulation of adipocyte apoptosis" NARROW [GOC:TermGenie] synonym: "downregulation of adipocyte apoptotic process" EXACT [GOC:TermGenie] synonym: "downregulation of adipose cell apoptosis" NARROW [GOC:TermGenie] synonym: "downregulation of adipose cell apoptotic process" EXACT [GOC:TermGenie] synonym: "downregulation of fat cell apoptosis" NARROW [GOC:TermGenie] synonym: "downregulation of fat cell apoptotic process" EXACT [GOC:TermGenie] synonym: "inhibition of adipocyte apoptosis" NARROW [GOC:TermGenie] synonym: "inhibition of adipocyte apoptotic process" NARROW [GOC:TermGenie] synonym: "inhibition of adipose cell apoptosis" NARROW [GOC:TermGenie] synonym: "inhibition of adipose cell apoptotic process" NARROW [GOC:TermGenie] synonym: "inhibition of fat cell apoptosis" NARROW [GOC:TermGenie] synonym: "inhibition of fat cell apoptotic process" NARROW [GOC:TermGenie] synonym: "negative regulation of adipocyte apoptosis" NARROW [GOC:TermGenie] synonym: "negative regulation of adipocyte apoptotic process" EXACT [GOC:TermGenie] synonym: "negative regulation of adipose cell apoptosis" NARROW [GOC:TermGenie] synonym: "negative regulation of adipose cell apoptotic process" EXACT [GOC:TermGenie] synonym: "negative regulation of fat cell apoptosis" NARROW [GOC:TermGenie] is_a: GO:0043066 ! negative regulation of apoptotic process is_a: GO:1904649 ! regulation of fat cell apoptotic process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:1904606 ! fat cell apoptotic process relationship: negatively_regulates GO:1904606 ! fat cell apoptotic process created_by: sl creation_date: 2015-08-31T20:59:34Z [Term] id: GO:1904651 name: positive regulation of fat cell apoptotic process namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of fat cell apoptotic process." [GO_REF:0000058, GOC:TermGenie, PMID:17024416] synonym: "activation of adipocyte apoptosis" NARROW [GOC:TermGenie] synonym: "activation of adipocyte apoptotic process" NARROW [GOC:TermGenie] synonym: "activation of adipose cell apoptosis" NARROW [GOC:TermGenie] synonym: "activation of adipose cell apoptotic process" NARROW [GOC:TermGenie] synonym: "activation of fat cell apoptosis" NARROW [GOC:TermGenie] synonym: "activation of fat cell apoptotic process" NARROW [GOC:TermGenie] synonym: "positive regulation of adipocyte apoptosis" NARROW [GOC:TermGenie] synonym: "positive regulation of adipocyte apoptotic process" EXACT [GOC:TermGenie] synonym: "positive regulation of adipose cell apoptosis" NARROW [GOC:TermGenie] synonym: "positive regulation of adipose cell apoptotic process" EXACT [GOC:TermGenie] synonym: "positive regulation of fat cell apoptosis" NARROW [GOC:TermGenie] synonym: "up regulation of adipocyte apoptosis" NARROW [GOC:TermGenie] synonym: "up regulation of adipocyte apoptotic process" EXACT [GOC:TermGenie] synonym: "up regulation of adipose cell apoptosis" NARROW [GOC:TermGenie] synonym: "up regulation of adipose cell apoptotic process" EXACT [GOC:TermGenie] synonym: "up regulation of fat cell apoptosis" NARROW [GOC:TermGenie] synonym: "up regulation of fat cell apoptotic process" EXACT [GOC:TermGenie] synonym: "up-regulation of adipocyte apoptosis" NARROW [GOC:TermGenie] synonym: "up-regulation of adipocyte apoptotic process" EXACT [GOC:TermGenie] synonym: "up-regulation of adipose cell apoptosis" NARROW [GOC:TermGenie] synonym: "up-regulation of adipose cell apoptotic process" EXACT [GOC:TermGenie] synonym: "up-regulation of fat cell apoptosis" NARROW [GOC:TermGenie] synonym: "up-regulation of fat cell apoptotic process" EXACT [GOC:TermGenie] synonym: "upregulation of adipocyte apoptosis" NARROW [GOC:TermGenie] synonym: "upregulation of adipocyte apoptotic process" EXACT [GOC:TermGenie] synonym: "upregulation of adipose cell apoptosis" NARROW [GOC:TermGenie] synonym: "upregulation of adipose cell apoptotic process" EXACT [GOC:TermGenie] synonym: "upregulation of fat cell apoptosis" NARROW [GOC:TermGenie] synonym: "upregulation of fat cell apoptotic process" EXACT [GOC:TermGenie] is_a: GO:0043065 ! positive regulation of apoptotic process is_a: GO:1904649 ! regulation of fat cell apoptotic process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:1904606 ! fat cell apoptotic process relationship: positively_regulates GO:1904606 ! fat cell apoptotic process created_by: sl creation_date: 2015-08-31T20:59:40Z [Term] id: GO:1904675 name: regulation of somatic stem cell division namespace: biological_process def: "Any process that modulates the frequency, rate or extent of somatic stem cell division." [GO_REF:0000058, GOC:BHF, GOC:BHF_miRNA, GOC:rph, GOC:TermGenie, PMID:19409607] synonym: "regulation of somatic stem cell renewal" EXACT [GOC:TermGenie] is_a: GO:2000035 ! regulation of stem cell division intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0048103 ! somatic stem cell division relationship: regulates GO:0048103 ! somatic stem cell division created_by: rph creation_date: 2015-09-14T08:47:22Z [Term] id: GO:1904676 name: negative regulation of somatic stem cell division namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of somatic stem cell division." [GO_REF:0000058, GOC:BHF, GOC:BHF_miRNA, GOC:rph, GOC:TermGenie, PMID:19409607] synonym: "down regulation of somatic stem cell division" EXACT [GOC:TermGenie] synonym: "down regulation of somatic stem cell renewal" EXACT [GOC:TermGenie] synonym: "down-regulation of somatic stem cell division" EXACT [GOC:TermGenie] synonym: "down-regulation of somatic stem cell renewal" EXACT [GOC:TermGenie] synonym: "downregulation of somatic stem cell division" EXACT [GOC:TermGenie] synonym: "downregulation of somatic stem cell renewal" EXACT [GOC:TermGenie] synonym: "inhibition of somatic stem cell division" NARROW [GOC:TermGenie] synonym: "inhibition of somatic stem cell renewal" NARROW [GOC:TermGenie] synonym: "negative regulation of somatic stem cell renewal" EXACT [GOC:TermGenie] is_a: GO:0051782 ! negative regulation of cell division is_a: GO:1904675 ! regulation of somatic stem cell division intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0048103 ! somatic stem cell division relationship: negatively_regulates GO:0048103 ! somatic stem cell division created_by: rph creation_date: 2015-09-14T08:47:28Z [Term] id: GO:1904677 name: positive regulation of somatic stem cell division namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of somatic stem cell division." [GO_REF:0000058, GOC:BHF, GOC:BHF_miRNA, GOC:rph, GOC:TermGenie, PMID:19409607] synonym: "activation of somatic stem cell division" NARROW [GOC:TermGenie] synonym: "activation of somatic stem cell renewal" NARROW [GOC:TermGenie] synonym: "positive regulation of somatic stem cell renewal" EXACT [GOC:TermGenie] synonym: "up regulation of somatic stem cell division" EXACT [GOC:TermGenie] synonym: "up regulation of somatic stem cell renewal" EXACT [GOC:TermGenie] synonym: "up-regulation of somatic stem cell division" EXACT [GOC:TermGenie] synonym: "up-regulation of somatic stem cell renewal" EXACT [GOC:TermGenie] synonym: "upregulation of somatic stem cell division" EXACT [GOC:TermGenie] synonym: "upregulation of somatic stem cell renewal" EXACT [GOC:TermGenie] is_a: GO:0051781 ! positive regulation of cell division is_a: GO:1904675 ! regulation of somatic stem cell division intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0048103 ! somatic stem cell division relationship: positively_regulates GO:0048103 ! somatic stem cell division created_by: rph creation_date: 2015-09-14T08:47:34Z [Term] id: GO:1904693 name: midbrain morphogenesis namespace: biological_process def: "The developmental process by which a midbrain is generated and organized." [GO_REF:0000083, GOC:bf, GOC:PARL, GOC:TermGenie, PMID:21347250] synonym: "MB morphogenesis" BROAD [GOC:TermGenie] synonym: "mesencephalon morphogenesis" RELATED [GOC:TermGenie] is_a: GO:0009653 ! anatomical structure morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0001891 ! midbrain relationship: part_of GO:0030901 ! midbrain development relationship: part_of GO:0048854 ! brain morphogenesis relationship: results_in_morphogenesis_of UBERON:0001891 ! midbrain created_by: bf creation_date: 2015-09-29T09:15:28Z [Term] id: GO:1904705 name: regulation of vascular associated smooth muscle cell proliferation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of vascular smooth muscle cell proliferation." [GO_REF:0000058, GOC:TermGenie, PMID:23246467] synonym: "regulation of vascular smooth muscle cell proliferation" EXACT [] synonym: "regulation of VSMC proliferation" EXACT [GOC:TermGenie] is_a: GO:0048660 ! regulation of smooth muscle cell proliferation intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:1990874 ! vascular associated smooth muscle cell proliferation relationship: regulates GO:1990874 ! vascular associated smooth muscle cell proliferation created_by: sl creation_date: 2015-10-01T16:05:20Z [Term] id: GO:1904706 name: negative regulation of vascular associated smooth muscle cell proliferation namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of vascular smooth muscle cell proliferation." [GO_REF:0000058, GOC:TermGenie, PMID:23246467] synonym: "down regulation of vascular smooth muscle cell proliferation" EXACT [GOC:TermGenie] synonym: "down regulation of VSMC proliferation" EXACT [GOC:TermGenie] synonym: "down-regulation of vascular smooth muscle cell proliferation" EXACT [GOC:TermGenie] synonym: "down-regulation of VSMC proliferation" EXACT [GOC:TermGenie] synonym: "downregulation of vascular smooth muscle cell proliferation" EXACT [GOC:TermGenie] synonym: "downregulation of VSMC proliferation" EXACT [GOC:TermGenie] synonym: "inhibition of vascular smooth muscle cell proliferation" NARROW [GOC:TermGenie] synonym: "inhibition of VSMC proliferation" NARROW [GOC:TermGenie] synonym: "negative regulation of vascular smooth muscle cell proliferation" EXACT [] synonym: "negative regulation of VSMC proliferation" EXACT [GOC:TermGenie] is_a: GO:0048662 ! negative regulation of smooth muscle cell proliferation is_a: GO:1904705 ! regulation of vascular associated smooth muscle cell proliferation intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:1990874 ! vascular associated smooth muscle cell proliferation relationship: negatively_regulates GO:1990874 ! vascular associated smooth muscle cell proliferation created_by: sl creation_date: 2015-10-01T16:05:26Z [Term] id: GO:1904707 name: positive regulation of vascular associated smooth muscle cell proliferation namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of vascular smooth muscle cell proliferation." [GO_REF:0000058, GOC:TermGenie, PMID:23246467] synonym: "activation of vascular smooth muscle cell proliferation" NARROW [GOC:TermGenie] synonym: "activation of VSMC proliferation" NARROW [GOC:TermGenie] synonym: "positive regulation of vascular smooth muscle cell proliferation" EXACT [] synonym: "positive regulation of VSMC proliferation" EXACT [GOC:TermGenie] synonym: "up regulation of vascular smooth muscle cell proliferation" EXACT [GOC:TermGenie] synonym: "up regulation of VSMC proliferation" EXACT [GOC:TermGenie] synonym: "up-regulation of vascular smooth muscle cell proliferation" EXACT [GOC:TermGenie] synonym: "up-regulation of VSMC proliferation" EXACT [GOC:TermGenie] synonym: "upregulation of vascular smooth muscle cell proliferation" EXACT [GOC:TermGenie] synonym: "upregulation of VSMC proliferation" EXACT [GOC:TermGenie] is_a: GO:0048661 ! positive regulation of smooth muscle cell proliferation is_a: GO:1904705 ! regulation of vascular associated smooth muscle cell proliferation intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:1990874 ! vascular associated smooth muscle cell proliferation relationship: positively_regulates GO:1990874 ! vascular associated smooth muscle cell proliferation created_by: sl creation_date: 2015-10-01T16:05:32Z [Term] id: GO:1904739 name: regulation of synapse organization by posttranscriptional regulation of gene expression namespace: biological_process def: "A posttranscriptional regulation of gene expression that results in regulation of synapse organization." [GO_REF:0000063, GOC:rb, GOC:TermGenie, PMID:20729808] synonym: "regulation of synapse development by posttranscriptional regulation of gene expression" EXACT [GOC:TermGenie] synonym: "regulation of synapse morphogenesis by posttranscriptional regulation of gene expression" RELATED [GOC:TermGenie] synonym: "regulation of synapse organisation by posttranscriptional regulation of gene expression" EXACT [GOC:TermGenie] synonym: "regulation of synapse organization and biogenesis by posttranscriptional regulation of gene expression" RELATED [GOC:TermGenie] is_a: GO:0010608 ! posttranscriptional regulation of gene expression is_a: GO:0050807 ! regulation of synapse organization intersection_of: GO:0010608 ! posttranscriptional regulation of gene expression intersection_of: regulates GO:0050808 ! synapse organization created_by: tb creation_date: 2015-10-15T21:25:46Z [Term] id: GO:1904746 name: negative regulation of apoptotic process involved in development namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of apoptotic process involved in development." [GO_REF:0000058, GOC:TermGenie, PMID:22801495] comment: U4PR86 in PMID:22801495 inferred from mutant phenotype synonym: "down regulation of activation of apoptosis involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "down regulation of activation of apoptosis involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "down regulation of apoptosis activator activity involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "down regulation of apoptosis activator activity involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "down regulation of apoptosis involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "down regulation of apoptosis involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "down regulation of apoptosis signaling involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "down regulation of apoptosis signaling involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "down regulation of apoptotic cell death involved in anatomical structure development" EXACT [GOC:TermGenie] synonym: "down regulation of apoptotic cell death involved in development of an anatomical structure" EXACT [GOC:TermGenie] synonym: "down regulation of apoptotic process involved in anatomical structure development" EXACT [GOC:TermGenie] synonym: "down regulation of apoptotic process involved in development" EXACT [GOC:TermGenie] synonym: "down regulation of apoptotic process involved in development of an anatomical structure" EXACT [GOC:TermGenie] synonym: "down regulation of apoptotic program involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "down regulation of apoptotic program involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "down regulation of apoptotic programmed cell death involved in anatomical structure development" EXACT [GOC:TermGenie] synonym: "down regulation of apoptotic programmed cell death involved in development of an anatomical structure" EXACT [GOC:TermGenie] synonym: "down regulation of commitment to apoptosis involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "down regulation of commitment to apoptosis involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "down regulation of induction of apoptosis by p53 involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "down regulation of induction of apoptosis by p53 involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "down regulation of induction of apoptosis involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "down regulation of induction of apoptosis involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "down regulation of programmed cell death by apoptosis involved in anatomical structure development" EXACT [GOC:TermGenie] synonym: "down regulation of programmed cell death by apoptosis involved in development of an anatomical structure" EXACT [GOC:TermGenie] synonym: "down regulation of signaling (initiator) caspase activity involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "down regulation of signaling (initiator) caspase activity involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "down regulation of type I programmed cell death involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "down regulation of type I programmed cell death involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "down-regulation of activation of apoptosis involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "down-regulation of activation of apoptosis involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "down-regulation of apoptosis activator activity involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "down-regulation of apoptosis activator activity involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "down-regulation of apoptosis involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "down-regulation of apoptosis involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "down-regulation of apoptosis signaling involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "down-regulation of apoptosis signaling involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "down-regulation of apoptotic cell death involved in anatomical structure development" EXACT [GOC:TermGenie] synonym: "down-regulation of apoptotic cell death involved in development of an anatomical structure" EXACT [GOC:TermGenie] synonym: "down-regulation of apoptotic process involved in anatomical structure development" EXACT [GOC:TermGenie] synonym: "down-regulation of apoptotic process involved in development" EXACT [GOC:TermGenie] synonym: "down-regulation of apoptotic process involved in development of an anatomical structure" EXACT [GOC:TermGenie] synonym: "down-regulation of apoptotic program involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "down-regulation of apoptotic program involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "down-regulation of apoptotic programmed cell death involved in anatomical structure development" EXACT [GOC:TermGenie] synonym: "down-regulation of apoptotic programmed cell death involved in development of an anatomical structure" EXACT [GOC:TermGenie] synonym: "down-regulation of commitment to apoptosis involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "down-regulation of commitment to apoptosis involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "down-regulation of induction of apoptosis by p53 involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "down-regulation of induction of apoptosis by p53 involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "down-regulation of induction of apoptosis involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "down-regulation of induction of apoptosis involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "down-regulation of programmed cell death by apoptosis involved in anatomical structure development" EXACT [GOC:TermGenie] synonym: "down-regulation of programmed cell death by apoptosis involved in development of an anatomical structure" EXACT [GOC:TermGenie] synonym: "down-regulation of signaling (initiator) caspase activity involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "down-regulation of signaling (initiator) caspase activity involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "down-regulation of type I programmed cell death involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "down-regulation of type I programmed cell death involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "downregulation of activation of apoptosis involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "downregulation of activation of apoptosis involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "downregulation of apoptosis activator activity involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "downregulation of apoptosis activator activity involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "downregulation of apoptosis involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "downregulation of apoptosis involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "downregulation of apoptosis signaling involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "downregulation of apoptosis signaling involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "downregulation of apoptotic cell death involved in anatomical structure development" EXACT [GOC:TermGenie] synonym: "downregulation of apoptotic cell death involved in development of an anatomical structure" EXACT [GOC:TermGenie] synonym: "downregulation of apoptotic process involved in anatomical structure development" EXACT [GOC:TermGenie] synonym: "downregulation of apoptotic process involved in development" EXACT [GOC:TermGenie] synonym: "downregulation of apoptotic process involved in development of an anatomical structure" EXACT [GOC:TermGenie] synonym: "downregulation of apoptotic program involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "downregulation of apoptotic program involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "downregulation of apoptotic programmed cell death involved in anatomical structure development" EXACT [GOC:TermGenie] synonym: "downregulation of apoptotic programmed cell death involved in development of an anatomical structure" EXACT [GOC:TermGenie] synonym: "downregulation of commitment to apoptosis involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "downregulation of commitment to apoptosis involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "downregulation of induction of apoptosis by p53 involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "downregulation of induction of apoptosis by p53 involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "downregulation of induction of apoptosis involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "downregulation of induction of apoptosis involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "downregulation of programmed cell death by apoptosis involved in anatomical structure development" EXACT [GOC:TermGenie] synonym: "downregulation of programmed cell death by apoptosis involved in development of an anatomical structure" EXACT [GOC:TermGenie] synonym: "downregulation of signaling (initiator) caspase activity involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "downregulation of signaling (initiator) caspase activity involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "downregulation of type I programmed cell death involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "downregulation of type I programmed cell death involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "inhibition of activation of apoptosis involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "inhibition of activation of apoptosis involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "inhibition of apoptosis activator activity involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "inhibition of apoptosis activator activity involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "inhibition of apoptosis involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "inhibition of apoptosis involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "inhibition of apoptosis signaling involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "inhibition of apoptosis signaling involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "inhibition of apoptotic cell death involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "inhibition of apoptotic cell death involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "inhibition of apoptotic process involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "inhibition of apoptotic process involved in development" NARROW [GOC:TermGenie] synonym: "inhibition of apoptotic process involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "inhibition of apoptotic program involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "inhibition of apoptotic program involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "inhibition of apoptotic programmed cell death involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "inhibition of apoptotic programmed cell death involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "inhibition of commitment to apoptosis involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "inhibition of commitment to apoptosis involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "inhibition of induction of apoptosis by p53 involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "inhibition of induction of apoptosis by p53 involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "inhibition of induction of apoptosis involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "inhibition of induction of apoptosis involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "inhibition of programmed cell death by apoptosis involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "inhibition of programmed cell death by apoptosis involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "inhibition of signaling (initiator) caspase activity involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "inhibition of signaling (initiator) caspase activity involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "inhibition of type I programmed cell death involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "inhibition of type I programmed cell death involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "negative regulation of activation of apoptosis involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "negative regulation of activation of apoptosis involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "negative regulation of apoptosis activator activity involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "negative regulation of apoptosis activator activity involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "negative regulation of apoptosis involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "negative regulation of apoptosis involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "negative regulation of apoptosis signaling involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "negative regulation of apoptosis signaling involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "negative regulation of apoptotic cell death involved in anatomical structure development" EXACT [GOC:TermGenie] synonym: "negative regulation of apoptotic cell death involved in development of an anatomical structure" EXACT [GOC:TermGenie] synonym: "negative regulation of apoptotic process involved in anatomical structure development" EXACT [GOC:TermGenie] synonym: "negative regulation of apoptotic process involved in development of an anatomical structure" EXACT [GOC:TermGenie] synonym: "negative regulation of apoptotic program involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "negative regulation of apoptotic program involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "negative regulation of apoptotic programmed cell death involved in anatomical structure development" EXACT [GOC:TermGenie] synonym: "negative regulation of apoptotic programmed cell death involved in development of an anatomical structure" EXACT [GOC:TermGenie] synonym: "negative regulation of commitment to apoptosis involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "negative regulation of commitment to apoptosis involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "negative regulation of induction of apoptosis by p53 involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "negative regulation of induction of apoptosis by p53 involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "negative regulation of induction of apoptosis involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "negative regulation of induction of apoptosis involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "negative regulation of programmed cell death by apoptosis involved in anatomical structure development" EXACT [GOC:TermGenie] synonym: "negative regulation of programmed cell death by apoptosis involved in development of an anatomical structure" EXACT [GOC:TermGenie] synonym: "negative regulation of signaling (initiator) caspase activity involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "negative regulation of signaling (initiator) caspase activity involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "negative regulation of type I programmed cell death involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "negative regulation of type I programmed cell death involved in development of an anatomical structure" NARROW [GOC:TermGenie] is_a: GO:0043066 ! negative regulation of apoptotic process is_a: GO:0051093 ! negative regulation of developmental process is_a: GO:1904748 ! regulation of apoptotic process involved in development intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:1902742 ! apoptotic process involved in development relationship: negatively_regulates GO:1902742 ! apoptotic process involved in development created_by: es creation_date: 2015-10-19T14:12:27Z [Term] id: GO:1904747 name: positive regulation of apoptotic process involved in development namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of apoptotic process involved in development." [GO_REF:0000058, GOC:TermGenie, PMID:22801495] comment: U4PR86 in PMID:22801495 inferred from mutant phenotype synonym: "activation of activation of apoptosis involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "activation of activation of apoptosis involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "activation of apoptosis activator activity involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "activation of apoptosis activator activity involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "activation of apoptosis involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "activation of apoptosis involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "activation of apoptosis signaling involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "activation of apoptosis signaling involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "activation of apoptotic cell death involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "activation of apoptotic cell death involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "activation of apoptotic process involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "activation of apoptotic process involved in development" NARROW [GOC:TermGenie] synonym: "activation of apoptotic process involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "activation of apoptotic program involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "activation of apoptotic program involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "activation of apoptotic programmed cell death involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "activation of apoptotic programmed cell death involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "activation of commitment to apoptosis involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "activation of commitment to apoptosis involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "activation of induction of apoptosis by p53 involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "activation of induction of apoptosis by p53 involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "activation of induction of apoptosis involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "activation of induction of apoptosis involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "activation of programmed cell death by apoptosis involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "activation of programmed cell death by apoptosis involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "activation of signaling (initiator) caspase activity involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "activation of signaling (initiator) caspase activity involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "activation of type I programmed cell death involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "activation of type I programmed cell death involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "positive regulation of activation of apoptosis involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "positive regulation of activation of apoptosis involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "positive regulation of apoptosis activator activity involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "positive regulation of apoptosis activator activity involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "positive regulation of apoptosis involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "positive regulation of apoptosis involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "positive regulation of apoptosis signaling involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "positive regulation of apoptosis signaling involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "positive regulation of apoptotic cell death involved in anatomical structure development" EXACT [GOC:TermGenie] synonym: "positive regulation of apoptotic cell death involved in development of an anatomical structure" EXACT [GOC:TermGenie] synonym: "positive regulation of apoptotic process involved in anatomical structure development" EXACT [GOC:TermGenie] synonym: "positive regulation of apoptotic process involved in development of an anatomical structure" EXACT [GOC:TermGenie] synonym: "positive regulation of apoptotic program involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "positive regulation of apoptotic program involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "positive regulation of apoptotic programmed cell death involved in anatomical structure development" EXACT [GOC:TermGenie] synonym: "positive regulation of apoptotic programmed cell death involved in development of an anatomical structure" EXACT [GOC:TermGenie] synonym: "positive regulation of commitment to apoptosis involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "positive regulation of commitment to apoptosis involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "positive regulation of induction of apoptosis by p53 involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "positive regulation of induction of apoptosis by p53 involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "positive regulation of induction of apoptosis involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "positive regulation of induction of apoptosis involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "positive regulation of programmed cell death by apoptosis involved in anatomical structure development" EXACT [GOC:TermGenie] synonym: "positive regulation of programmed cell death by apoptosis involved in development of an anatomical structure" EXACT [GOC:TermGenie] synonym: "positive regulation of signaling (initiator) caspase activity involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "positive regulation of signaling (initiator) caspase activity involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "positive regulation of type I programmed cell death involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "positive regulation of type I programmed cell death involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "up regulation of activation of apoptosis involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "up regulation of activation of apoptosis involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "up regulation of apoptosis activator activity involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "up regulation of apoptosis activator activity involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "up regulation of apoptosis involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "up regulation of apoptosis involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "up regulation of apoptosis signaling involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "up regulation of apoptosis signaling involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "up regulation of apoptotic cell death involved in anatomical structure development" EXACT [GOC:TermGenie] synonym: "up regulation of apoptotic cell death involved in development of an anatomical structure" EXACT [GOC:TermGenie] synonym: "up regulation of apoptotic process involved in anatomical structure development" EXACT [GOC:TermGenie] synonym: "up regulation of apoptotic process involved in development" EXACT [GOC:TermGenie] synonym: "up regulation of apoptotic process involved in development of an anatomical structure" EXACT [GOC:TermGenie] synonym: "up regulation of apoptotic program involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "up regulation of apoptotic program involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "up regulation of apoptotic programmed cell death involved in anatomical structure development" EXACT [GOC:TermGenie] synonym: "up regulation of apoptotic programmed cell death involved in development of an anatomical structure" EXACT [GOC:TermGenie] synonym: "up regulation of commitment to apoptosis involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "up regulation of commitment to apoptosis involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "up regulation of induction of apoptosis by p53 involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "up regulation of induction of apoptosis by p53 involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "up regulation of induction of apoptosis involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "up regulation of induction of apoptosis involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "up regulation of programmed cell death by apoptosis involved in anatomical structure development" EXACT [GOC:TermGenie] synonym: "up regulation of programmed cell death by apoptosis involved in development of an anatomical structure" EXACT [GOC:TermGenie] synonym: "up regulation of signaling (initiator) caspase activity involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "up regulation of signaling (initiator) caspase activity involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "up regulation of type I programmed cell death involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "up regulation of type I programmed cell death involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "up-regulation of activation of apoptosis involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "up-regulation of activation of apoptosis involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "up-regulation of apoptosis activator activity involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "up-regulation of apoptosis activator activity involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "up-regulation of apoptosis involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "up-regulation of apoptosis involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "up-regulation of apoptosis signaling involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "up-regulation of apoptosis signaling involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "up-regulation of apoptotic cell death involved in anatomical structure development" EXACT [GOC:TermGenie] synonym: "up-regulation of apoptotic cell death involved in development of an anatomical structure" EXACT [GOC:TermGenie] synonym: "up-regulation of apoptotic process involved in anatomical structure development" EXACT [GOC:TermGenie] synonym: "up-regulation of apoptotic process involved in development" EXACT [GOC:TermGenie] synonym: "up-regulation of apoptotic process involved in development of an anatomical structure" EXACT [GOC:TermGenie] synonym: "up-regulation of apoptotic program involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "up-regulation of apoptotic program involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "up-regulation of apoptotic programmed cell death involved in anatomical structure development" EXACT [GOC:TermGenie] synonym: "up-regulation of apoptotic programmed cell death involved in development of an anatomical structure" EXACT [GOC:TermGenie] synonym: "up-regulation of commitment to apoptosis involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "up-regulation of commitment to apoptosis involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "up-regulation of induction of apoptosis by p53 involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "up-regulation of induction of apoptosis by p53 involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "up-regulation of induction of apoptosis involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "up-regulation of induction of apoptosis involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "up-regulation of programmed cell death by apoptosis involved in anatomical structure development" EXACT [GOC:TermGenie] synonym: "up-regulation of programmed cell death by apoptosis involved in development of an anatomical structure" EXACT [GOC:TermGenie] synonym: "up-regulation of signaling (initiator) caspase activity involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "up-regulation of signaling (initiator) caspase activity involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "up-regulation of type I programmed cell death involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "up-regulation of type I programmed cell death involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "upregulation of activation of apoptosis involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "upregulation of activation of apoptosis involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "upregulation of apoptosis activator activity involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "upregulation of apoptosis activator activity involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "upregulation of apoptosis involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "upregulation of apoptosis involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "upregulation of apoptosis signaling involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "upregulation of apoptosis signaling involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "upregulation of apoptotic cell death involved in anatomical structure development" EXACT [GOC:TermGenie] synonym: "upregulation of apoptotic cell death involved in development of an anatomical structure" EXACT [GOC:TermGenie] synonym: "upregulation of apoptotic process involved in anatomical structure development" EXACT [GOC:TermGenie] synonym: "upregulation of apoptotic process involved in development" EXACT [GOC:TermGenie] synonym: "upregulation of apoptotic process involved in development of an anatomical structure" EXACT [GOC:TermGenie] synonym: "upregulation of apoptotic program involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "upregulation of apoptotic program involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "upregulation of apoptotic programmed cell death involved in anatomical structure development" EXACT [GOC:TermGenie] synonym: "upregulation of apoptotic programmed cell death involved in development of an anatomical structure" EXACT [GOC:TermGenie] synonym: "upregulation of commitment to apoptosis involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "upregulation of commitment to apoptosis involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "upregulation of induction of apoptosis by p53 involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "upregulation of induction of apoptosis by p53 involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "upregulation of induction of apoptosis involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "upregulation of induction of apoptosis involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "upregulation of programmed cell death by apoptosis involved in anatomical structure development" EXACT [GOC:TermGenie] synonym: "upregulation of programmed cell death by apoptosis involved in development of an anatomical structure" EXACT [GOC:TermGenie] synonym: "upregulation of signaling (initiator) caspase activity involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "upregulation of signaling (initiator) caspase activity involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "upregulation of type I programmed cell death involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "upregulation of type I programmed cell death involved in development of an anatomical structure" NARROW [GOC:TermGenie] is_a: GO:0043065 ! positive regulation of apoptotic process is_a: GO:0051094 ! positive regulation of developmental process is_a: GO:1904748 ! regulation of apoptotic process involved in development intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:1902742 ! apoptotic process involved in development relationship: positively_regulates GO:1902742 ! apoptotic process involved in development created_by: es creation_date: 2015-10-19T14:12:34Z [Term] id: GO:1904748 name: regulation of apoptotic process involved in development namespace: biological_process def: "Any process that modulates the frequency, rate or extent of apoptotic process involved in development." [GO_REF:0000058, GOC:TermGenie, PMID:22801495] comment: Q10943 in PMID:22801495, inferred from mutant phenotype synonym: "regulation of activation of apoptosis involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "regulation of activation of apoptosis involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "regulation of apoptosis activator activity involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "regulation of apoptosis activator activity involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "regulation of apoptosis involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "regulation of apoptosis involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "regulation of apoptosis signaling involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "regulation of apoptosis signaling involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "regulation of apoptotic cell death involved in anatomical structure development" EXACT [GOC:TermGenie] synonym: "regulation of apoptotic cell death involved in development of an anatomical structure" EXACT [GOC:TermGenie] synonym: "regulation of apoptotic process involved in anatomical structure development" EXACT [GOC:TermGenie] synonym: "regulation of apoptotic process involved in development of an anatomical structure" EXACT [GOC:TermGenie] synonym: "regulation of apoptotic program involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "regulation of apoptotic program involved in development of an anatomical structure" NARROW [GOC:TermGenie] synonym: "regulation of apoptotic programmed cell death involved in anatomical structure development" EXACT [GOC:TermGenie] synonym: "regulation of apoptotic programmed cell death involved in development of an anatomical structure" EXACT [GOC:TermGenie] synonym: "regulation of commitment to apoptosis involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "regulation of commitment to apoptosis involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "regulation of induction of apoptosis by p53 involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "regulation of induction of apoptosis by p53 involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "regulation of induction of apoptosis involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "regulation of induction of apoptosis involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "regulation of programmed cell death by apoptosis involved in anatomical structure development" EXACT [GOC:TermGenie] synonym: "regulation of programmed cell death by apoptosis involved in development of an anatomical structure" EXACT [GOC:TermGenie] synonym: "regulation of signaling (initiator) caspase activity involved in anatomical structure development" RELATED [GOC:TermGenie] synonym: "regulation of signaling (initiator) caspase activity involved in development of an anatomical structure" RELATED [GOC:TermGenie] synonym: "regulation of type I programmed cell death involved in anatomical structure development" NARROW [GOC:TermGenie] synonym: "regulation of type I programmed cell death involved in development of an anatomical structure" NARROW [GOC:TermGenie] is_a: GO:0042981 ! regulation of apoptotic process is_a: GO:0050793 ! regulation of developmental process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:1902742 ! apoptotic process involved in development relationship: regulates GO:1902742 ! apoptotic process involved in development created_by: es creation_date: 2015-10-19T15:02:28Z [Term] id: GO:1904749 name: regulation of protein localization to nucleolus namespace: biological_process def: "Any process that modulates the frequency, rate or extent of protein localization to nucleolus." [GO_REF:0000058, GOC:BHF, GOC:BHF_telomere, GOC:nc, GOC:TermGenie, PMID:24415760] synonym: "regulation of protein localisation in nucleolus" EXACT [GOC:TermGenie] synonym: "regulation of protein localisation to nucleolus" EXACT [GOC:TermGenie] synonym: "regulation of protein localization in nucleolus" EXACT [GOC:TermGenie] is_a: GO:1900180 ! regulation of protein localization to nucleus intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:1902570 ! protein localization to nucleolus relationship: regulates GO:1902570 ! protein localization to nucleolus created_by: nc creation_date: 2015-10-19T15:16:17Z [Term] id: GO:1904750 name: negative regulation of protein localization to nucleolus namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of protein localization to nucleolus." [GO_REF:0000058, GOC:BHF, GOC:BHF_telomere, GOC:nc, GOC:TermGenie, PMID:24415760] synonym: "down regulation of protein localisation in nucleolus" EXACT [GOC:TermGenie] synonym: "down regulation of protein localisation to nucleolus" EXACT [GOC:TermGenie] synonym: "down regulation of protein localization in nucleolus" EXACT [GOC:TermGenie] synonym: "down regulation of protein localization to nucleolus" EXACT [GOC:TermGenie] synonym: "down-regulation of protein localisation in nucleolus" EXACT [GOC:TermGenie] synonym: "down-regulation of protein localisation to nucleolus" EXACT [GOC:TermGenie] synonym: "down-regulation of protein localization in nucleolus" EXACT [GOC:TermGenie] synonym: "down-regulation of protein localization to nucleolus" EXACT [GOC:TermGenie] synonym: "downregulation of protein localisation in nucleolus" EXACT [GOC:TermGenie] synonym: "downregulation of protein localisation to nucleolus" EXACT [GOC:TermGenie] synonym: "downregulation of protein localization in nucleolus" EXACT [GOC:TermGenie] synonym: "downregulation of protein localization to nucleolus" EXACT [GOC:TermGenie] synonym: "inhibition of protein localisation in nucleolus" NARROW [GOC:TermGenie] synonym: "inhibition of protein localisation to nucleolus" NARROW [GOC:TermGenie] synonym: "inhibition of protein localization in nucleolus" NARROW [GOC:TermGenie] synonym: "inhibition of protein localization to nucleolus" NARROW [GOC:TermGenie] synonym: "negative regulation of protein localisation in nucleolus" EXACT [GOC:TermGenie] synonym: "negative regulation of protein localisation to nucleolus" EXACT [GOC:TermGenie] synonym: "negative regulation of protein localization in nucleolus" EXACT [GOC:TermGenie] is_a: GO:1900181 ! negative regulation of protein localization to nucleus is_a: GO:1904749 ! regulation of protein localization to nucleolus intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:1902570 ! protein localization to nucleolus relationship: negatively_regulates GO:1902570 ! protein localization to nucleolus created_by: nc creation_date: 2015-10-19T15:16:24Z [Term] id: GO:1904751 name: positive regulation of protein localization to nucleolus namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of protein localization to nucleolus." [GO_REF:0000058, GOC:BHF, GOC:BHF_telomere, GOC:nc, GOC:TermGenie, PMID:24415760] synonym: "activation of protein localisation in nucleolus" NARROW [GOC:TermGenie] synonym: "activation of protein localisation to nucleolus" NARROW [GOC:TermGenie] synonym: "activation of protein localization in nucleolus" NARROW [GOC:TermGenie] synonym: "activation of protein localization to nucleolus" NARROW [GOC:TermGenie] synonym: "positive regulation of protein localisation in nucleolus" EXACT [GOC:TermGenie] synonym: "positive regulation of protein localisation to nucleolus" EXACT [GOC:TermGenie] synonym: "positive regulation of protein localization in nucleolus" EXACT [GOC:TermGenie] synonym: "up regulation of protein localisation in nucleolus" EXACT [GOC:TermGenie] synonym: "up regulation of protein localisation to nucleolus" EXACT [GOC:TermGenie] synonym: "up regulation of protein localization in nucleolus" EXACT [GOC:TermGenie] synonym: "up regulation of protein localization to nucleolus" EXACT [GOC:TermGenie] synonym: "up-regulation of protein localisation in nucleolus" EXACT [GOC:TermGenie] synonym: "up-regulation of protein localisation to nucleolus" EXACT [GOC:TermGenie] synonym: "up-regulation of protein localization in nucleolus" EXACT [GOC:TermGenie] synonym: "up-regulation of protein localization to nucleolus" EXACT [GOC:TermGenie] synonym: "upregulation of protein localisation in nucleolus" EXACT [GOC:TermGenie] synonym: "upregulation of protein localisation to nucleolus" EXACT [GOC:TermGenie] synonym: "upregulation of protein localization in nucleolus" EXACT [GOC:TermGenie] synonym: "upregulation of protein localization to nucleolus" EXACT [GOC:TermGenie] is_a: GO:1900182 ! positive regulation of protein localization to nucleus is_a: GO:1904749 ! regulation of protein localization to nucleolus intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:1902570 ! protein localization to nucleolus relationship: positively_regulates GO:1902570 ! protein localization to nucleolus created_by: nc creation_date: 2015-10-19T15:16:30Z [Term] id: GO:1904770 name: intramembranous bone morphogenesis namespace: biological_process def: "The developmental process by which an intramembranous bone is generated and organized." [GO_REF:0000083, GOC:TermGenie, PMID:26399686] synonym: "intramembranous bones morphogenesis" RELATED [GOC:TermGenie] synonym: "membrane bone morphogenesis" RELATED [GOC:TermGenie] is_a: GO:0060349 ! bone morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0002514 ! intramembranous bone relationship: results_in_morphogenesis_of UBERON:0002514 ! intramembranous bone created_by: dos creation_date: 2015-10-28T11:46:04Z [Term] id: GO:1904776 name: regulation of protein localization to cell cortex namespace: biological_process def: "Any process that modulates the frequency, rate or extent of protein localization to cell cortex." [GO_REF:0000058, GOC:TermGenie, PMID:17115027] comment: An example is cye-1 in C. elegans, UniProt ID O01501 in PMID:17115027. synonym: "regulation of protein localisation to cell cortex" EXACT [GOC:TermGenie] is_a: GO:1904375 ! regulation of protein localization to cell periphery intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0072697 ! protein localization to cell cortex relationship: regulates GO:0072697 ! protein localization to cell cortex created_by: es creation_date: 2015-10-29T16:55:01Z [Term] id: GO:1904777 name: negative regulation of protein localization to cell cortex namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of protein localization to cell cortex." [GO_REF:0000058, GOC:TermGenie, PMID:17115027] comment: An example is cye-1 in C. elegans, UniProt ID O01501 in PMID:17115027. synonym: "down regulation of protein localisation to cell cortex" EXACT [GOC:TermGenie] synonym: "down regulation of protein localization to cell cortex" EXACT [GOC:TermGenie] synonym: "down-regulation of protein localisation to cell cortex" EXACT [GOC:TermGenie] synonym: "down-regulation of protein localization to cell cortex" EXACT [GOC:TermGenie] synonym: "downregulation of protein localisation to cell cortex" EXACT [GOC:TermGenie] synonym: "downregulation of protein localization to cell cortex" EXACT [GOC:TermGenie] synonym: "inhibition of protein localisation to cell cortex" NARROW [GOC:TermGenie] synonym: "inhibition of protein localization to cell cortex" NARROW [GOC:TermGenie] synonym: "negative regulation of protein localisation to cell cortex" EXACT [GOC:TermGenie] is_a: GO:1904376 ! negative regulation of protein localization to cell periphery is_a: GO:1904776 ! regulation of protein localization to cell cortex intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0072697 ! protein localization to cell cortex relationship: negatively_regulates GO:0072697 ! protein localization to cell cortex created_by: es creation_date: 2015-10-29T16:55:08Z [Term] id: GO:1904778 name: positive regulation of protein localization to cell cortex namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of protein localization to cell cortex." [GO_REF:0000058, GOC:TermGenie, PMID:17115027] comment: An example is cye-1 in C. elegans, UniProt ID O01501 in PMID:17115027. synonym: "activation of protein localisation to cell cortex" NARROW [GOC:TermGenie] synonym: "activation of protein localization to cell cortex" NARROW [GOC:TermGenie] synonym: "positive regulation of protein localisation to cell cortex" EXACT [GOC:TermGenie] synonym: "up regulation of protein localisation to cell cortex" EXACT [GOC:TermGenie] synonym: "up regulation of protein localization to cell cortex" EXACT [GOC:TermGenie] synonym: "up-regulation of protein localisation to cell cortex" EXACT [GOC:TermGenie] synonym: "up-regulation of protein localization to cell cortex" EXACT [GOC:TermGenie] synonym: "upregulation of protein localisation to cell cortex" EXACT [GOC:TermGenie] synonym: "upregulation of protein localization to cell cortex" EXACT [GOC:TermGenie] is_a: GO:1904377 ! positive regulation of protein localization to cell periphery is_a: GO:1904776 ! regulation of protein localization to cell cortex intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0072697 ! protein localization to cell cortex relationship: positively_regulates GO:0072697 ! protein localization to cell cortex created_by: es creation_date: 2015-10-29T16:55:15Z [Term] id: GO:1904817 name: serous membrane development namespace: biological_process def: "The process whose specific outcome is the progression of a serous membrane over time, from its formation to the mature structure." [GO_REF:0000094, GOC:dph, GOC:TermGenie, PMID:15840053] synonym: "serosa development" RELATED [GOC:TermGenie] synonym: "tunica serosa development" EXACT [GOC:TermGenie] synonym: "wall of serous sac development" EXACT [GOC:TermGenie] is_a: GO:0048856 ! anatomical structure development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0000042 ! serous membrane relationship: results_in_development_of UBERON:0000042 ! serous membrane created_by: dph creation_date: 2015-11-17T19:00:01Z [Term] id: GO:1904818 name: visceral peritoneum development namespace: biological_process def: "The process whose specific outcome is the progression of a visceral peritoneum over time, from its formation to the mature structure." [GO_REF:0000094, GOC:dph, GOC:TermGenie, PMID:15840053] is_a: GO:0048856 ! anatomical structure development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0001178 ! visceral peritoneum relationship: part_of GO:1904820 ! peritoneum development relationship: results_in_development_of UBERON:0001178 ! visceral peritoneum created_by: dph creation_date: 2015-11-17T19:00:17Z [Term] id: GO:1904819 name: parietal peritoneum development namespace: biological_process def: "The process whose specific outcome is the progression of a parietal peritoneum over time, from its formation to the mature structure." [GO_REF:0000094, GOC:dph, GOC:TermGenie, PMID:15840053] synonym: "peritoneal cavity lining development" EXACT [GOC:TermGenie] is_a: GO:0048856 ! anatomical structure development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0001366 ! parietal peritoneum relationship: part_of GO:1904820 ! peritoneum development relationship: results_in_development_of UBERON:0001366 ! parietal peritoneum created_by: dph creation_date: 2015-11-17T19:00:24Z [Term] id: GO:1904820 name: peritoneum development namespace: biological_process def: "The process whose specific outcome is the progression of a peritoneum over time, from its formation to the mature structure." [GO_REF:0000094, GOC:dph, GOC:TermGenie, PMID:15840053] synonym: "peritonaeum development" RELATED [GOC:TermGenie] is_a: GO:1904817 ! serous membrane development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0002358 ! peritoneum relationship: results_in_development_of UBERON:0002358 ! peritoneum created_by: dph creation_date: 2015-11-18T17:23:51Z [Term] id: GO:1904829 name: regulation of aortic smooth muscle cell differentiation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of aortic smooth muscle cell differentiation." [GO_REF:0000058, GOC:BHF, GOC:BHF_miRNA, GOC:rph, GOC:TermGenie, PMID:22034194] is_a: GO:1905063 ! regulation of vascular associated smooth muscle cell differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0035887 ! aortic smooth muscle cell differentiation relationship: regulates GO:0035887 ! aortic smooth muscle cell differentiation created_by: rph creation_date: 2015-11-24T10:20:40Z [Term] id: GO:1904830 name: negative regulation of aortic smooth muscle cell differentiation namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of aortic smooth muscle cell differentiation." [GO_REF:0000058, GOC:BHF, GOC:BHF_miRNA, GOC:rph, GOC:TermGenie, PMID:22034194] synonym: "down regulation of aortic smooth muscle cell differentiation" EXACT [GOC:TermGenie] synonym: "down-regulation of aortic smooth muscle cell differentiation" EXACT [GOC:TermGenie] synonym: "downregulation of aortic smooth muscle cell differentiation" EXACT [GOC:TermGenie] synonym: "inhibition of aortic smooth muscle cell differentiation" NARROW [GOC:TermGenie] is_a: GO:1904829 ! regulation of aortic smooth muscle cell differentiation is_a: GO:1905064 ! negative regulation of vascular associated smooth muscle cell differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0035887 ! aortic smooth muscle cell differentiation relationship: negatively_regulates GO:0035887 ! aortic smooth muscle cell differentiation created_by: rph creation_date: 2015-11-24T10:20:47Z [Term] id: GO:1904831 name: positive regulation of aortic smooth muscle cell differentiation namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of aortic smooth muscle cell differentiation." [GO_REF:0000058, GOC:BHF, GOC:BHF_miRNA, GOC:rph, GOC:TermGenie, PMID:22034194] synonym: "activation of aortic smooth muscle cell differentiation" NARROW [GOC:TermGenie] synonym: "up regulation of aortic smooth muscle cell differentiation" EXACT [GOC:TermGenie] synonym: "up-regulation of aortic smooth muscle cell differentiation" EXACT [GOC:TermGenie] synonym: "upregulation of aortic smooth muscle cell differentiation" EXACT [GOC:TermGenie] is_a: GO:1904829 ! regulation of aortic smooth muscle cell differentiation is_a: GO:1905065 ! positive regulation of vascular associated smooth muscle cell differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0035887 ! aortic smooth muscle cell differentiation relationship: positively_regulates GO:0035887 ! aortic smooth muscle cell differentiation created_by: rph creation_date: 2015-11-24T10:20:54Z [Term] id: GO:1904888 name: cranial skeletal system development namespace: biological_process def: "The process whose specific outcome is the progression of a cranial skeletal system over time, from its formation to the mature structure. The cranial skeletal system is the skeletal subdivision of the head, and includes the skull (cranium plus mandible), pharyngeal and/or hyoid apparatus." [GO_REF:0000094, GOC:bf, GOC:PARL, GOC:TermGenie, PMID:11262227] synonym: "cranial skeleton development" NARROW [GOC:TermGenie] synonym: "craniofacial development" NARROW [PMID:11262227] synonym: "cranium development" RELATED [GOC:TermGenie] synonym: "osteocranium development" NARROW [GOC:TermGenie] is_a: GO:0048856 ! anatomical structure development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of UBERON:0010323 ! cranial skeletal system relationship: results_in_development_of UBERON:0010323 ! cranial skeletal system created_by: bf creation_date: 2016-01-07T13:45:06Z [Term] id: GO:1904933 name: regulation of cell proliferation in midbrain namespace: biological_process def: "Any process that modulates the frequency, rate or extent of cell proliferation in midbrain." [GO_REF:0000058, GOC:bf, GOC:PARL, GOC:TermGenie, PMID:18953410, PMID:24431302] synonym: "regulation of cell proliferation in mesencephalon" EXACT [GOC:TermGenie] synonym: "regulation of mesencepahalic cell proliferation" RELATED [GOC:TermGenie] is_a: GO:2000177 ! regulation of neural precursor cell proliferation intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0033278 ! cell proliferation in midbrain relationship: regulates GO:0033278 ! cell proliferation in midbrain created_by: bf creation_date: 2016-02-01T13:16:11Z [Term] id: GO:1904934 name: negative regulation of cell proliferation in midbrain namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of cell proliferation in midbrain." [GO_REF:0000058, GOC:bf, GOC:PARL, GOC:TermGenie, PMID:18953410, PMID:24431302] synonym: "down regulation of cell proliferation in mesencephalon" EXACT [GOC:TermGenie] synonym: "down regulation of cell proliferation in midbrain" EXACT [GOC:TermGenie] synonym: "down regulation of mesencepahalic cell proliferation" RELATED [GOC:TermGenie] synonym: "down-regulation of cell proliferation in mesencephalon" EXACT [GOC:TermGenie] synonym: "down-regulation of cell proliferation in midbrain" EXACT [GOC:TermGenie] synonym: "down-regulation of mesencepahalic cell proliferation" RELATED [GOC:TermGenie] synonym: "downregulation of cell proliferation in mesencephalon" EXACT [GOC:TermGenie] synonym: "downregulation of cell proliferation in midbrain" EXACT [GOC:TermGenie] synonym: "downregulation of mesencepahalic cell proliferation" RELATED [GOC:TermGenie] synonym: "inhibition of cell proliferation in mesencephalon" NARROW [GOC:TermGenie] synonym: "inhibition of cell proliferation in midbrain" NARROW [GOC:TermGenie] synonym: "inhibition of mesencepahalic cell proliferation" RELATED [GOC:TermGenie] synonym: "negative regulation of cell proliferation in mesencephalon" EXACT [GOC:TermGenie] synonym: "negative regulation of mesencepahalic cell proliferation" RELATED [GOC:TermGenie] is_a: GO:1904933 ! regulation of cell proliferation in midbrain is_a: GO:2000178 ! negative regulation of neural precursor cell proliferation intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0033278 ! cell proliferation in midbrain relationship: negatively_regulates GO:0033278 ! cell proliferation in midbrain created_by: bf creation_date: 2016-02-01T13:16:19Z [Term] id: GO:1904935 name: positive regulation of cell proliferation in midbrain namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of cell proliferation in midbrain." [GO_REF:0000058, GOC:bf, GOC:PARL, GOC:TermGenie, PMID:24431302] synonym: "activation of cell proliferation in mesencephalon" NARROW [GOC:TermGenie] synonym: "activation of cell proliferation in midbrain" NARROW [GOC:TermGenie] synonym: "activation of mesencepahalic cell proliferation" RELATED [GOC:TermGenie] synonym: "positive regulation of cell proliferation in mesencephalon" EXACT [GOC:TermGenie] synonym: "positive regulation of mesencepahalic cell proliferation" RELATED [GOC:TermGenie] synonym: "up regulation of cell proliferation in mesencephalon" EXACT [GOC:TermGenie] synonym: "up regulation of cell proliferation in midbrain" EXACT [GOC:TermGenie] synonym: "up regulation of mesencepahalic cell proliferation" RELATED [GOC:TermGenie] synonym: "up-regulation of cell proliferation in mesencephalon" EXACT [GOC:TermGenie] synonym: "up-regulation of cell proliferation in midbrain" EXACT [GOC:TermGenie] synonym: "up-regulation of mesencepahalic cell proliferation" RELATED [GOC:TermGenie] synonym: "upregulation of cell proliferation in mesencephalon" EXACT [GOC:TermGenie] synonym: "upregulation of cell proliferation in midbrain" EXACT [GOC:TermGenie] synonym: "upregulation of mesencepahalic cell proliferation" RELATED [GOC:TermGenie] is_a: GO:1904933 ! regulation of cell proliferation in midbrain is_a: GO:2000179 ! positive regulation of neural precursor cell proliferation intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0033278 ! cell proliferation in midbrain relationship: positively_regulates GO:0033278 ! cell proliferation in midbrain created_by: bf creation_date: 2016-02-01T13:16:27Z [Term] id: GO:1904942 name: regulation of cardiac ventricle formation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of cardiac ventricle formation." [GO_REF:0000058, GOC:bc, GOC:BHF, GOC:BHF_miRNA, GOC:TermGenie, PMID:23575307] is_a: GO:1901210 ! regulation of cardiac chamber formation intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0003211 ! cardiac ventricle formation relationship: regulates GO:0003211 ! cardiac ventricle formation created_by: bc creation_date: 2016-02-02T16:37:16Z [Term] id: GO:1904943 name: negative regulation of cardiac ventricle formation namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of cardiac ventricle formation." [GO_REF:0000058, GOC:bc, GOC:BHF, GOC:BHF_miRNA, GOC:TermGenie, PMID:23575307] synonym: "down regulation of cardiac ventricle formation" EXACT [GOC:TermGenie] synonym: "down-regulation of cardiac ventricle formation" EXACT [GOC:TermGenie] synonym: "downregulation of cardiac ventricle formation" EXACT [GOC:TermGenie] synonym: "inhibition of cardiac ventricle formation" NARROW [GOC:TermGenie] is_a: GO:1901211 ! negative regulation of cardiac chamber formation is_a: GO:1904413 ! negative regulation of cardiac ventricle development is_a: GO:1904942 ! regulation of cardiac ventricle formation intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0003211 ! cardiac ventricle formation relationship: negatively_regulates GO:0003211 ! cardiac ventricle formation created_by: bc creation_date: 2016-02-02T16:37:24Z [Term] id: GO:1904944 name: positive regulation of cardiac ventricle formation namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of cardiac ventricle formation." [GO_REF:0000058, GOC:bc, GOC:BHF, GOC:BHF_miRNA, GOC:TermGenie, PMID:23575307] synonym: "activation of cardiac ventricle formation" NARROW [GOC:TermGenie] synonym: "up regulation of cardiac ventricle formation" EXACT [GOC:TermGenie] synonym: "up-regulation of cardiac ventricle formation" EXACT [GOC:TermGenie] synonym: "upregulation of cardiac ventricle formation" EXACT [GOC:TermGenie] is_a: GO:1901212 ! positive regulation of cardiac chamber formation is_a: GO:1904942 ! regulation of cardiac ventricle formation intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0003211 ! cardiac ventricle formation relationship: positively_regulates GO:0003211 ! cardiac ventricle formation created_by: bc creation_date: 2016-02-02T16:37:31Z [Term] id: GO:1904950 name: negative regulation of establishment of protein localization namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of establishment of protein localization." [GO_REF:0000058, GOC:TermGenie, PMID:22761445] synonym: "down regulation of establishment of protein localisation" EXACT [GOC:TermGenie] synonym: "down regulation of establishment of protein localization" EXACT [GOC:TermGenie] synonym: "down regulation of protein positioning" EXACT [GOC:TermGenie] synonym: "down regulation of protein recruitment" EXACT [GOC:TermGenie] synonym: "down-regulation of establishment of protein localisation" EXACT [GOC:TermGenie] synonym: "down-regulation of establishment of protein localization" EXACT [GOC:TermGenie] synonym: "down-regulation of protein positioning" EXACT [GOC:TermGenie] synonym: "down-regulation of protein recruitment" EXACT [GOC:TermGenie] synonym: "downregulation of establishment of protein localisation" EXACT [GOC:TermGenie] synonym: "downregulation of establishment of protein localization" EXACT [GOC:TermGenie] synonym: "downregulation of protein positioning" EXACT [GOC:TermGenie] synonym: "downregulation of protein recruitment" EXACT [GOC:TermGenie] synonym: "inhibition of establishment of protein localisation" NARROW [GOC:TermGenie] synonym: "inhibition of establishment of protein localization" NARROW [GOC:TermGenie] synonym: "inhibition of protein positioning" NARROW [GOC:TermGenie] synonym: "inhibition of protein recruitment" NARROW [GOC:TermGenie] synonym: "negative regulation of establishment of protein localisation" EXACT [GOC:TermGenie] synonym: "negative regulation of protein positioning" EXACT [GOC:TermGenie] synonym: "negative regulation of protein recruitment" EXACT [GOC:TermGenie] is_a: GO:0070201 ! regulation of establishment of protein localization is_a: GO:1903828 ! negative regulation of protein localization intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0045184 ! establishment of protein localization relationship: negatively_regulates GO:0045184 ! establishment of protein localization created_by: mec creation_date: 2016-02-05T09:59:24Z [Term] id: GO:1904951 name: positive regulation of establishment of protein localization namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of establishment of protein localization." [GO_REF:0000058, GOC:TermGenie, PMID:22761445] synonym: "activation of establishment of protein localisation" NARROW [GOC:TermGenie] synonym: "activation of establishment of protein localization" NARROW [GOC:TermGenie] synonym: "activation of protein positioning" NARROW [GOC:TermGenie] synonym: "activation of protein recruitment" NARROW [GOC:TermGenie] synonym: "positive regulation of establishment of protein localisation" EXACT [GOC:TermGenie] synonym: "positive regulation of protein positioning" EXACT [GOC:TermGenie] synonym: "positive regulation of protein recruitment" EXACT [GOC:TermGenie] synonym: "up regulation of establishment of protein localisation" EXACT [GOC:TermGenie] synonym: "up regulation of establishment of protein localization" EXACT [GOC:TermGenie] synonym: "up regulation of protein positioning" EXACT [GOC:TermGenie] synonym: "up regulation of protein recruitment" EXACT [GOC:TermGenie] synonym: "up-regulation of establishment of protein localisation" EXACT [GOC:TermGenie] synonym: "up-regulation of establishment of protein localization" EXACT [GOC:TermGenie] synonym: "up-regulation of protein positioning" EXACT [GOC:TermGenie] synonym: "up-regulation of protein recruitment" EXACT [GOC:TermGenie] synonym: "upregulation of establishment of protein localisation" EXACT [GOC:TermGenie] synonym: "upregulation of establishment of protein localization" EXACT [GOC:TermGenie] synonym: "upregulation of protein positioning" EXACT [GOC:TermGenie] synonym: "upregulation of protein recruitment" EXACT [GOC:TermGenie] is_a: GO:0070201 ! regulation of establishment of protein localization is_a: GO:1903829 ! positive regulation of protein localization intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0045184 ! establishment of protein localization relationship: positively_regulates GO:0045184 ! establishment of protein localization created_by: mec creation_date: 2016-02-05T09:59:32Z [Term] id: GO:1905063 name: regulation of vascular associated smooth muscle cell differentiation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of vascular smooth muscle cell differentiation." [GO_REF:0000058, GOC:BHF, GOC:BHF_miRNA, GOC:rph, GOC:TermGenie, PMID:19088079] synonym: "regulation of vascular smooth muscle cell differentiation" EXACT [GOC:TermGenie] synonym: "regulation of VSMC differentiation" EXACT [GOC:TermGenie] is_a: GO:0051150 ! regulation of smooth muscle cell differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0035886 ! vascular associated smooth muscle cell differentiation relationship: regulates GO:0035886 ! vascular associated smooth muscle cell differentiation created_by: rph creation_date: 2016-03-21T11:14:53Z [Term] id: GO:1905064 name: negative regulation of vascular associated smooth muscle cell differentiation namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of vascular smooth muscle cell differentiation." [GO_REF:0000058, GOC:BHF, GOC:BHF_miRNA, GOC:rph, GOC:TermGenie, PMID:19088079] synonym: "down regulation of vascular associated smooth muscle cell differentiation" EXACT [GOC:TermGenie] synonym: "down regulation of vascular smooth muscle cell differentiation" EXACT [GOC:TermGenie] synonym: "down regulation of VSMC differentiation" EXACT [GOC:TermGenie] synonym: "down-regulation of vascular associated smooth muscle cell differentiation" EXACT [GOC:TermGenie] synonym: "down-regulation of vascular smooth muscle cell differentiation" EXACT [GOC:TermGenie] synonym: "down-regulation of VSMC differentiation" EXACT [GOC:TermGenie] synonym: "downregulation of vascular associated smooth muscle cell differentiation" EXACT [GOC:TermGenie] synonym: "downregulation of vascular smooth muscle cell differentiation" EXACT [GOC:TermGenie] synonym: "downregulation of VSMC differentiation" EXACT [GOC:TermGenie] synonym: "inhibition of vascular associated smooth muscle cell differentiation" NARROW [GOC:TermGenie] synonym: "inhibition of vascular smooth muscle cell differentiation" NARROW [GOC:TermGenie] synonym: "inhibition of VSMC differentiation" NARROW [GOC:TermGenie] synonym: "negative regulation of vascular smooth muscle cell differentiation" EXACT [GOC:TermGenie] synonym: "negative regulation of VSMC differentiation" EXACT [GOC:TermGenie] is_a: GO:0051151 ! negative regulation of smooth muscle cell differentiation is_a: GO:1905063 ! regulation of vascular associated smooth muscle cell differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0035886 ! vascular associated smooth muscle cell differentiation relationship: negatively_regulates GO:0035886 ! vascular associated smooth muscle cell differentiation created_by: rph creation_date: 2016-03-21T11:15:03Z [Term] id: GO:1905065 name: positive regulation of vascular associated smooth muscle cell differentiation namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of vascular smooth muscle cell differentiation." [GO_REF:0000058, GOC:BHF, GOC:BHF_miRNA, GOC:rph, GOC:TermGenie, PMID:19088079] synonym: "activation of vascular associated smooth muscle cell differentiation" NARROW [GOC:TermGenie] synonym: "activation of vascular smooth muscle cell differentiation" NARROW [GOC:TermGenie] synonym: "activation of VSMC differentiation" NARROW [GOC:TermGenie] synonym: "positive regulation of vascular smooth muscle cell differentiation" EXACT [GOC:TermGenie] synonym: "positive regulation of VSMC differentiation" EXACT [GOC:TermGenie] synonym: "up regulation of vascular associated smooth muscle cell differentiation" EXACT [GOC:TermGenie] synonym: "up regulation of vascular smooth muscle cell differentiation" EXACT [GOC:TermGenie] synonym: "up regulation of VSMC differentiation" EXACT [GOC:TermGenie] synonym: "up-regulation of vascular associated smooth muscle cell differentiation" EXACT [GOC:TermGenie] synonym: "up-regulation of vascular smooth muscle cell differentiation" EXACT [GOC:TermGenie] synonym: "up-regulation of VSMC differentiation" EXACT [GOC:TermGenie] synonym: "upregulation of vascular associated smooth muscle cell differentiation" EXACT [GOC:TermGenie] synonym: "upregulation of vascular smooth muscle cell differentiation" EXACT [GOC:TermGenie] synonym: "upregulation of VSMC differentiation" EXACT [GOC:TermGenie] is_a: GO:0051152 ! positive regulation of smooth muscle cell differentiation is_a: GO:1905063 ! regulation of vascular associated smooth muscle cell differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0035886 ! vascular associated smooth muscle cell differentiation relationship: positively_regulates GO:0035886 ! vascular associated smooth muscle cell differentiation created_by: rph creation_date: 2016-03-21T11:15:13Z [Term] id: GO:1905126 name: regulation of axo-dendritic protein transport namespace: biological_process def: "Any process that modulates the frequency, rate or extent of axo-dendritic protein transport." [GO_REF:0000058, GOC:TermGenie, PMID:20694152] synonym: "regulation of axonal protein transport" NARROW [GOC:TermGenie] is_a: GO:0033157 ! regulation of intracellular protein transport is_a: GO:0060632 ! regulation of microtubule-based movement intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0099640 ! axo-dendritic protein transport relationship: regulates GO:0099640 ! axo-dendritic protein transport created_by: sl creation_date: 2016-04-11T20:38:31Z [Term] id: GO:1905127 name: negative regulation of axo-dendritic protein transport namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of axo-dendritic protein transport." [GO_REF:0000058, GOC:TermGenie, PMID:20694152] synonym: "down regulation of axo-dendritic protein transport" EXACT [GOC:TermGenie] synonym: "down regulation of axonal protein transport" NARROW [GOC:TermGenie] synonym: "down-regulation of axo-dendritic protein transport" EXACT [GOC:TermGenie] synonym: "down-regulation of axonal protein transport" NARROW [GOC:TermGenie] synonym: "downregulation of axo-dendritic protein transport" EXACT [GOC:TermGenie] synonym: "downregulation of axonal protein transport" NARROW [GOC:TermGenie] synonym: "inhibition of axo-dendritic protein transport" NARROW [GOC:TermGenie] synonym: "inhibition of axonal protein transport" NARROW [GOC:TermGenie] synonym: "negative regulation of axonal protein transport" NARROW [GOC:TermGenie] is_a: GO:0051271 ! negative regulation of cellular component movement is_a: GO:0090317 ! negative regulation of intracellular protein transport is_a: GO:1905126 ! regulation of axo-dendritic protein transport intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0099640 ! axo-dendritic protein transport relationship: negatively_regulates GO:0099640 ! axo-dendritic protein transport created_by: sl creation_date: 2016-04-11T20:38:40Z [Term] id: GO:1905128 name: positive regulation of axo-dendritic protein transport namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of axo-dendritic protein transport." [GO_REF:0000058, GOC:TermGenie, PMID:20694152] synonym: "activation of axo-dendritic protein transport" NARROW [GOC:TermGenie] synonym: "activation of axonal protein transport" NARROW [GOC:TermGenie] synonym: "positive regulation of axonal protein transport" NARROW [GOC:TermGenie] synonym: "up regulation of axo-dendritic protein transport" EXACT [GOC:TermGenie] synonym: "up regulation of axonal protein transport" NARROW [GOC:TermGenie] synonym: "up-regulation of axo-dendritic protein transport" EXACT [GOC:TermGenie] synonym: "up-regulation of axonal protein transport" NARROW [GOC:TermGenie] synonym: "upregulation of axo-dendritic protein transport" EXACT [GOC:TermGenie] synonym: "upregulation of axonal protein transport" NARROW [GOC:TermGenie] is_a: GO:0051272 ! positive regulation of cellular component movement is_a: GO:0090316 ! positive regulation of intracellular protein transport is_a: GO:1905126 ! regulation of axo-dendritic protein transport intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0099640 ! axo-dendritic protein transport relationship: positively_regulates GO:0099640 ! axo-dendritic protein transport created_by: sl creation_date: 2016-04-11T20:38:48Z [Term] id: GO:1905147 name: regulation of smooth muscle hypertrophy namespace: biological_process def: "Any process that modulates the frequency, rate or extent of smooth muscle hypertrophy." [GO_REF:0000058, GOC:bc, GOC:BHF, GOC:BHF_miRNA, GOC:TermGenie, PMID:22161164] is_a: GO:0014743 ! regulation of muscle hypertrophy is_a: GO:0043502 ! regulation of muscle adaptation intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0014895 ! smooth muscle hypertrophy relationship: regulates GO:0014895 ! smooth muscle hypertrophy created_by: bc creation_date: 2016-04-15T12:47:07Z [Term] id: GO:1905148 name: negative regulation of smooth muscle hypertrophy namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of smooth muscle hypertrophy." [GO_REF:0000058, GOC:bc, GOC:BHF, GOC:BHF_miRNA, GOC:TermGenie, PMID:22161164] synonym: "down regulation of smooth muscle hypertrophy" EXACT [GOC:TermGenie] synonym: "down-regulation of smooth muscle hypertrophy" EXACT [GOC:TermGenie] synonym: "downregulation of smooth muscle hypertrophy" EXACT [GOC:TermGenie] synonym: "inhibition of smooth muscle hypertrophy" NARROW [GOC:TermGenie] is_a: GO:0014741 ! negative regulation of muscle hypertrophy is_a: GO:0014745 ! negative regulation of muscle adaptation is_a: GO:1905147 ! regulation of smooth muscle hypertrophy intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0014895 ! smooth muscle hypertrophy relationship: negatively_regulates GO:0014895 ! smooth muscle hypertrophy created_by: bc creation_date: 2016-04-15T12:47:16Z [Term] id: GO:1905149 name: positive regulation of smooth muscle hypertrophy namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of smooth muscle hypertrophy." [GO_REF:0000058, GOC:bc, GOC:BHF, GOC:BHF_miRNA, GOC:TermGenie, PMID:22161164] synonym: "activation of smooth muscle hypertrophy" NARROW [GOC:TermGenie] synonym: "up regulation of smooth muscle hypertrophy" EXACT [GOC:TermGenie] synonym: "up-regulation of smooth muscle hypertrophy" EXACT [GOC:TermGenie] synonym: "upregulation of smooth muscle hypertrophy" EXACT [GOC:TermGenie] is_a: GO:0014742 ! positive regulation of muscle hypertrophy is_a: GO:0014744 ! positive regulation of muscle adaptation is_a: GO:1905147 ! regulation of smooth muscle hypertrophy intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0014895 ! smooth muscle hypertrophy relationship: positively_regulates GO:0014895 ! smooth muscle hypertrophy created_by: bc creation_date: 2016-04-15T12:47:24Z [Term] id: GO:1905207 name: regulation of cardiocyte differentiation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of cardiocyte differentiation." [GO_REF:0000058, GOC:bc, GOC:BHF, GOC:BHF_miRNA, GOC:TermGenie, PMID:23069713] synonym: "regulation of cardiac cell differentiation" EXACT [GOC:TermGenie] synonym: "regulation of heart cell differentiation" EXACT [GOC:TermGenie] is_a: GO:0045595 ! regulation of cell differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0035051 ! cardiocyte differentiation relationship: regulates GO:0035051 ! cardiocyte differentiation created_by: bc creation_date: 2016-06-02T07:20:01Z [Term] id: GO:1905208 name: negative regulation of cardiocyte differentiation namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of cardiocyte differentiation." [GO_REF:0000058, GOC:bc, GOC:BHF, GOC:BHF_miRNA, GOC:TermGenie, PMID:23069713] synonym: "down regulation of cardiac cell differentiation" EXACT [GOC:TermGenie] synonym: "down regulation of cardiocyte differentiation" EXACT [GOC:TermGenie] synonym: "down regulation of heart cell differentiation" EXACT [GOC:TermGenie] synonym: "down-regulation of cardiac cell differentiation" EXACT [GOC:TermGenie] synonym: "down-regulation of cardiocyte differentiation" EXACT [GOC:TermGenie] synonym: "down-regulation of heart cell differentiation" EXACT [GOC:TermGenie] synonym: "downregulation of cardiac cell differentiation" EXACT [GOC:TermGenie] synonym: "downregulation of cardiocyte differentiation" EXACT [GOC:TermGenie] synonym: "downregulation of heart cell differentiation" EXACT [GOC:TermGenie] synonym: "inhibition of cardiac cell differentiation" NARROW [GOC:TermGenie] synonym: "inhibition of cardiocyte differentiation" NARROW [GOC:TermGenie] synonym: "inhibition of heart cell differentiation" NARROW [GOC:TermGenie] synonym: "negative regulation of cardiac cell differentiation" EXACT [GOC:TermGenie] synonym: "negative regulation of heart cell differentiation" EXACT [GOC:TermGenie] is_a: GO:0045596 ! negative regulation of cell differentiation is_a: GO:0051241 ! negative regulation of multicellular organismal process is_a: GO:1905207 ! regulation of cardiocyte differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0035051 ! cardiocyte differentiation relationship: negatively_regulates GO:0035051 ! cardiocyte differentiation created_by: bc creation_date: 2016-06-02T07:20:09Z [Term] id: GO:1905209 name: positive regulation of cardiocyte differentiation namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of cardiocyte differentiation." [GO_REF:0000058, GOC:bc, GOC:BHF, GOC:BHF_miRNA, GOC:TermGenie, PMID:23069713] synonym: "activation of cardiac cell differentiation" NARROW [GOC:TermGenie] synonym: "activation of cardiocyte differentiation" NARROW [GOC:TermGenie] synonym: "activation of heart cell differentiation" NARROW [GOC:TermGenie] synonym: "positive regulation of cardiac cell differentiation" EXACT [GOC:TermGenie] synonym: "positive regulation of heart cell differentiation" EXACT [GOC:TermGenie] synonym: "up regulation of cardiac cell differentiation" EXACT [GOC:TermGenie] synonym: "up regulation of cardiocyte differentiation" EXACT [GOC:TermGenie] synonym: "up regulation of heart cell differentiation" EXACT [GOC:TermGenie] synonym: "up-regulation of cardiac cell differentiation" EXACT [GOC:TermGenie] synonym: "up-regulation of cardiocyte differentiation" EXACT [GOC:TermGenie] synonym: "up-regulation of heart cell differentiation" EXACT [GOC:TermGenie] synonym: "upregulation of cardiac cell differentiation" EXACT [GOC:TermGenie] synonym: "upregulation of cardiocyte differentiation" EXACT [GOC:TermGenie] synonym: "upregulation of heart cell differentiation" EXACT [GOC:TermGenie] is_a: GO:0045597 ! positive regulation of cell differentiation is_a: GO:0051240 ! positive regulation of multicellular organismal process is_a: GO:1905207 ! regulation of cardiocyte differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0035051 ! cardiocyte differentiation relationship: positively_regulates GO:0035051 ! cardiocyte differentiation created_by: bc creation_date: 2016-06-02T07:20:16Z [Term] id: GO:1905213 name: negative regulation of mitotic chromosome condensation namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of mitotic chromosome condensation." [GO_REF:0000058, GOC:TermGenie, PMID:23219725] is_a: GO:0010948 ! negative regulation of cell cycle process is_a: GO:1902340 ! negative regulation of chromosome condensation is_a: GO:1903379 ! regulation of mitotic chromosome condensation intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0007076 ! mitotic chromosome condensation relationship: negatively_regulates GO:0007076 ! mitotic chromosome condensation created_by: vw creation_date: 2016-06-03T08:41:08Z [Term] id: GO:1905214 name: regulation of RNA binding namespace: biological_process def: "Any process that modulates the frequency, rate or extent of RNA binding." [GO_REF:0000059, GOC:bf, GOC:PARL, GOC:TermGenie] is_a: GO:0051098 ! regulation of binding intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0003723 ! RNA binding relationship: regulates GO:0003723 ! RNA binding created_by: bf creation_date: 2016-06-06T10:20:56Z [Term] id: GO:1905215 name: negative regulation of RNA binding namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of RNA binding." [GO_REF:0000059, GOC:bf, GOC:PARL, GOC:TermGenie] synonym: "down regulation of RNA binding" EXACT [GOC:TermGenie] synonym: "down-regulation of RNA binding" EXACT [GOC:TermGenie] synonym: "downregulation of RNA binding" EXACT [GOC:TermGenie] synonym: "inhibition of RNA binding" NARROW [GOC:TermGenie] is_a: GO:0051100 ! negative regulation of binding is_a: GO:1905214 ! regulation of RNA binding intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0003723 ! RNA binding relationship: negatively_regulates GO:0003723 ! RNA binding created_by: bf creation_date: 2016-06-06T10:21:04Z [Term] id: GO:1905216 name: positive regulation of RNA binding namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of RNA binding." [GO_REF:0000059, GOC:bf, GOC:PARL, GOC:TermGenie, PMID:25116364] synonym: "activation of RNA binding" NARROW [GOC:TermGenie] synonym: "up regulation of RNA binding" EXACT [GOC:TermGenie] synonym: "up-regulation of RNA binding" EXACT [GOC:TermGenie] synonym: "upregulation of RNA binding" EXACT [GOC:TermGenie] is_a: GO:0051099 ! positive regulation of binding is_a: GO:1905214 ! regulation of RNA binding intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0003723 ! RNA binding relationship: positively_regulates GO:0003723 ! RNA binding created_by: bf creation_date: 2016-06-06T10:21:12Z [Term] id: GO:1905223 name: epicardium morphogenesis namespace: biological_process def: "The developmental process by which an epicardium is generated and organized." [GO_REF:0000083, GOC:BHF, GOC:rl, GOC:TermGenie, PMID:18718461] synonym: "heart epicardium morphogenesis" EXACT [GOC:TermGenie] synonym: "pericardium visceral mesothelium morphogenesis" RELATED [GOC:TermGenie] synonym: "visceral serous pericardium of heart morphogenesis" EXACT [GOC:TermGenie] synonym: "visceral serous pericardium proper morphogenesis" EXACT [GOC:TermGenie] is_a: GO:0009653 ! anatomical structure morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0002348 ! epicardium relationship: results_in_morphogenesis_of UBERON:0002348 ! epicardium created_by: rl creation_date: 2016-06-07T10:02:32Z [Term] id: GO:1905268 name: negative regulation of chromatin organization namespace: biological_process alt_id: GO:1903309 def: "Any process that stops, prevents or reduces the frequency, rate or extent of chromatin organization." [GO_REF:0000058, GOC:pr, GOC:TermGenie, GOC:vw, PMID:654321] synonym: "down regulation of chromatin organisation" EXACT [GOC:TermGenie] synonym: "down regulation of chromatin organization" EXACT [GOC:TermGenie] synonym: "down regulation of establishment or maintenance of chromatin architecture" EXACT [GOC:TermGenie] synonym: "down-regulation of chromatin organisation" EXACT [GOC:TermGenie] synonym: "down-regulation of chromatin organization" EXACT [GOC:TermGenie] synonym: "down-regulation of establishment or maintenance of chromatin architecture" EXACT [GOC:TermGenie] synonym: "downregulation of chromatin organisation" EXACT [GOC:TermGenie] synonym: "downregulation of chromatin organization" EXACT [GOC:TermGenie] synonym: "downregulation of establishment or maintenance of chromatin architecture" EXACT [GOC:TermGenie] synonym: "inhibition of chromatin organisation" NARROW [GOC:TermGenie] synonym: "inhibition of chromatin organization" NARROW [GOC:TermGenie] synonym: "inhibition of establishment or maintenance of chromatin architecture" NARROW [GOC:TermGenie] synonym: "negative regulation of chromatin modification" RELATED [] synonym: "negative regulation of chromatin organisation" EXACT [GOC:TermGenie] synonym: "negative regulation of establishment or maintenance of chromatin architecture" EXACT [GOC:TermGenie] is_a: GO:0051129 ! negative regulation of cellular component organization is_a: GO:1902275 ! regulation of chromatin organization intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0006325 ! chromatin organization relationship: negatively_regulates GO:0006325 ! chromatin organization created_by: pr creation_date: 2016-06-15T20:14:47Z [Term] id: GO:1905269 name: positive regulation of chromatin organization namespace: biological_process alt_id: GO:1903310 def: "Any process that activates or increases the frequency, rate or extent of chromatin organization." [GO_REF:0000058, GOC:pr, GOC:TermGenie, GOC:vw, PMID:654321] synonym: "activation of chromatin organisation" NARROW [GOC:TermGenie] synonym: "activation of chromatin organization" NARROW [GOC:TermGenie] synonym: "activation of establishment or maintenance of chromatin architecture" NARROW [GOC:TermGenie] synonym: "positive regulation of chromatin modification" RELATED [] synonym: "positive regulation of chromatin organisation" EXACT [GOC:TermGenie] synonym: "positive regulation of establishment or maintenance of chromatin architecture" EXACT [GOC:TermGenie] synonym: "up regulation of chromatin organisation" EXACT [GOC:TermGenie] synonym: "up regulation of chromatin organization" EXACT [GOC:TermGenie] synonym: "up regulation of establishment or maintenance of chromatin architecture" EXACT [GOC:TermGenie] synonym: "up-regulation of chromatin organisation" EXACT [GOC:TermGenie] synonym: "up-regulation of chromatin organization" EXACT [GOC:TermGenie] synonym: "up-regulation of establishment or maintenance of chromatin architecture" EXACT [GOC:TermGenie] synonym: "upregulation of chromatin organisation" EXACT [GOC:TermGenie] synonym: "upregulation of chromatin organization" EXACT [GOC:TermGenie] synonym: "upregulation of establishment or maintenance of chromatin architecture" EXACT [GOC:TermGenie] is_a: GO:1902275 ! regulation of chromatin organization is_a: GO:2001252 ! positive regulation of chromosome organization intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0006325 ! chromatin organization relationship: positively_regulates GO:0006325 ! chromatin organization created_by: pr creation_date: 2016-06-15T20:14:56Z [Term] id: GO:1905276 name: regulation of epithelial tube formation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of epithelial tube formation." [GO_REF:0000058, GOC:bhm, GOC:TermGenie, PMID:25745997] comment: An example of this is MMRN2 in human (Q9H8L6) in PMID:25745997 (inferred from direct assay). is_a: GO:1905330 ! regulation of morphogenesis of an epithelium is_a: GO:2000026 ! regulation of multicellular organismal development intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0072175 ! epithelial tube formation relationship: regulates GO:0072175 ! epithelial tube formation created_by: bhm creation_date: 2016-06-20T09:35:41Z [Term] id: GO:1905277 name: negative regulation of epithelial tube formation namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of epithelial tube formation." [GO_REF:0000058, GOC:bhm, GOC:TermGenie, PMID:25745997] comment: An example of this is MMRN2 in human (Q9H8L6) in PMID:25745997 (inferred from direct assay). synonym: "down regulation of epithelial tube formation" EXACT [GOC:TermGenie] synonym: "down-regulation of epithelial tube formation" EXACT [GOC:TermGenie] synonym: "downregulation of epithelial tube formation" EXACT [GOC:TermGenie] synonym: "inhibition of epithelial tube formation" NARROW [GOC:TermGenie] is_a: GO:0051241 ! negative regulation of multicellular organismal process is_a: GO:1905276 ! regulation of epithelial tube formation is_a: GO:1905331 ! negative regulation of morphogenesis of an epithelium intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0072175 ! epithelial tube formation relationship: negatively_regulates GO:0072175 ! epithelial tube formation created_by: bhm creation_date: 2016-06-20T09:35:49Z [Term] id: GO:1905278 name: positive regulation of epithelial tube formation namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of epithelial tube formation." [GO_REF:0000058, GOC:bhm, GOC:TermGenie, PMID:25745997] comment: An example of this is MMRN2 in human (Q9H8L6) in PMID:25745997 (inferred from direct assay). synonym: "activation of epithelial tube formation" NARROW [GOC:TermGenie] synonym: "up regulation of epithelial tube formation" EXACT [GOC:TermGenie] synonym: "up-regulation of epithelial tube formation" EXACT [GOC:TermGenie] synonym: "upregulation of epithelial tube formation" EXACT [GOC:TermGenie] is_a: GO:0051240 ! positive regulation of multicellular organismal process is_a: GO:1905276 ! regulation of epithelial tube formation is_a: GO:1905332 ! positive regulation of morphogenesis of an epithelium intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0072175 ! epithelial tube formation relationship: positively_regulates GO:0072175 ! epithelial tube formation created_by: bhm creation_date: 2016-06-20T09:35:57Z [Term] id: GO:1905288 name: vascular associated smooth muscle cell apoptotic process namespace: biological_process def: "Any apoptotic process in a vascular associated smooth muscle cell." [GO_REF:0000085, GOC:BHF, GOC:BHF_miRNA, GOC:rph, GOC:TermGenie, PMID:26493107] synonym: "vascular associated smooth muscle cell apoptosis" NARROW [GOC:TermGenie] synonym: "vascular smooth muscle cell apoptosis" NARROW [GOC:TermGenie] synonym: "vascular smooth muscle cell apoptotic process" EXACT [GOC:TermGenie] synonym: "VSMC apoptosis" NARROW [GOC:TermGenie] synonym: "VSMC apoptotic process" EXACT [GOC:TermGenie] is_a: GO:0034390 ! smooth muscle cell apoptotic process intersection_of: GO:0006915 ! apoptotic process intersection_of: occurs_in CL:0000359 ! vascular associated smooth muscle cell relationship: occurs_in CL:0000359 ! vascular associated smooth muscle cell created_by: rph creation_date: 2016-06-23T13:24:20Z [Term] id: GO:1905292 name: regulation of neural crest cell differentiation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of neural crest cell differentiation." [GO_REF:0000058, GOC:BHF, GOC:rl, GOC:TermGenie, PMID:15073157] is_a: GO:2000736 ! regulation of stem cell differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0014033 ! neural crest cell differentiation relationship: regulates GO:0014033 ! neural crest cell differentiation created_by: rl creation_date: 2016-06-28T15:02:01Z [Term] id: GO:1905293 name: negative regulation of neural crest cell differentiation namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of neural crest cell differentiation." [GO_REF:0000058, GOC:BHF, GOC:rl, GOC:TermGenie, PMID:15073157] synonym: "down regulation of neural crest cell differentiation" EXACT [GOC:TermGenie] synonym: "down-regulation of neural crest cell differentiation" EXACT [GOC:TermGenie] synonym: "downregulation of neural crest cell differentiation" EXACT [GOC:TermGenie] synonym: "inhibition of neural crest cell differentiation" NARROW [GOC:TermGenie] is_a: GO:0051241 ! negative regulation of multicellular organismal process is_a: GO:1905292 ! regulation of neural crest cell differentiation is_a: GO:2000737 ! negative regulation of stem cell differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0014033 ! neural crest cell differentiation relationship: negatively_regulates GO:0014033 ! neural crest cell differentiation created_by: rl creation_date: 2016-06-28T15:02:09Z [Term] id: GO:1905294 name: positive regulation of neural crest cell differentiation namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of neural crest cell differentiation." [GO_REF:0000058, GOC:BHF, GOC:rl, GOC:TermGenie, PMID:15073157] synonym: "activation of neural crest cell differentiation" NARROW [GOC:TermGenie] synonym: "up regulation of neural crest cell differentiation" EXACT [GOC:TermGenie] synonym: "up-regulation of neural crest cell differentiation" EXACT [GOC:TermGenie] synonym: "upregulation of neural crest cell differentiation" EXACT [GOC:TermGenie] is_a: GO:0051240 ! positive regulation of multicellular organismal process is_a: GO:1905292 ! regulation of neural crest cell differentiation is_a: GO:2000738 ! positive regulation of stem cell differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0014033 ! neural crest cell differentiation relationship: positively_regulates GO:0014033 ! neural crest cell differentiation created_by: rl creation_date: 2016-06-28T15:02:16Z [Term] id: GO:1905304 name: regulation of cardiac myofibril assembly namespace: biological_process def: "Any process that modulates the frequency, rate or extent of cardiac myofibril assembly." [GO_REF:0000058, GOC:BHF, GOC:rl, GOC:TermGenie, PMID:16151019] synonym: "regulation of cardiac myofibril development" EXACT [GOC:TermGenie] synonym: "regulation of cardiac myofibril morphogenesis" EXACT [GOC:TermGenie] synonym: "regulation of heart myofibril assembly" RELATED [GOC:TermGenie] is_a: GO:0060284 ! regulation of cell development is_a: GO:0110020 ! regulation of actomyosin structure organization is_a: GO:1902115 ! regulation of organelle assembly is_a: GO:1902903 ! regulation of supramolecular fiber organization intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0055003 ! cardiac myofibril assembly relationship: regulates GO:0055003 ! cardiac myofibril assembly created_by: rl creation_date: 2016-07-06T10:01:49Z [Term] id: GO:1905305 name: negative regulation of cardiac myofibril assembly namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of cardiac myofibril assembly." [GO_REF:0000058, GOC:BHF, GOC:rl, GOC:TermGenie, PMID:16151019] synonym: "down regulation of cardiac myofibril assembly" EXACT [GOC:TermGenie] synonym: "down regulation of cardiac myofibril development" EXACT [GOC:TermGenie] synonym: "down regulation of cardiac myofibril morphogenesis" EXACT [GOC:TermGenie] synonym: "down regulation of heart myofibril assembly" RELATED [GOC:TermGenie] synonym: "down-regulation of cardiac myofibril assembly" EXACT [GOC:TermGenie] synonym: "down-regulation of cardiac myofibril development" EXACT [GOC:TermGenie] synonym: "down-regulation of cardiac myofibril morphogenesis" EXACT [GOC:TermGenie] synonym: "down-regulation of heart myofibril assembly" RELATED [GOC:TermGenie] synonym: "downregulation of cardiac myofibril assembly" EXACT [GOC:TermGenie] synonym: "downregulation of cardiac myofibril development" EXACT [GOC:TermGenie] synonym: "downregulation of cardiac myofibril morphogenesis" EXACT [GOC:TermGenie] synonym: "downregulation of heart myofibril assembly" RELATED [GOC:TermGenie] synonym: "inhibition of cardiac myofibril assembly" NARROW [GOC:TermGenie] synonym: "inhibition of cardiac myofibril development" NARROW [GOC:TermGenie] synonym: "inhibition of cardiac myofibril morphogenesis" NARROW [GOC:TermGenie] synonym: "inhibition of heart myofibril assembly" RELATED [GOC:TermGenie] synonym: "negative regulation of cardiac myofibril development" EXACT [GOC:TermGenie] synonym: "negative regulation of cardiac myofibril morphogenesis" EXACT [GOC:TermGenie] synonym: "negative regulation of heart myofibril assembly" RELATED [GOC:TermGenie] is_a: GO:0051494 ! negative regulation of cytoskeleton organization is_a: GO:1902116 ! negative regulation of organelle assembly is_a: GO:1902904 ! negative regulation of supramolecular fiber organization is_a: GO:1905304 ! regulation of cardiac myofibril assembly is_a: GO:2000726 ! negative regulation of cardiac muscle cell differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0055003 ! cardiac myofibril assembly relationship: negatively_regulates GO:0055003 ! cardiac myofibril assembly created_by: rl creation_date: 2016-07-06T10:01:58Z [Term] id: GO:1905306 name: positive regulation of cardiac myofibril assembly namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of cardiac myofibril assembly." [GO_REF:0000058, GOC:BHF, GOC:rl, GOC:TermGenie, PMID:16151019] synonym: "activation of cardiac myofibril assembly" NARROW [GOC:TermGenie] synonym: "activation of cardiac myofibril development" NARROW [GOC:TermGenie] synonym: "activation of cardiac myofibril morphogenesis" NARROW [GOC:TermGenie] synonym: "activation of heart myofibril assembly" RELATED [GOC:TermGenie] synonym: "positive regulation of cardiac myofibril development" EXACT [GOC:TermGenie] synonym: "positive regulation of cardiac myofibril morphogenesis" EXACT [GOC:TermGenie] synonym: "positive regulation of heart myofibril assembly" RELATED [GOC:TermGenie] synonym: "up regulation of cardiac myofibril assembly" EXACT [GOC:TermGenie] synonym: "up regulation of cardiac myofibril development" EXACT [GOC:TermGenie] synonym: "up regulation of cardiac myofibril morphogenesis" EXACT [GOC:TermGenie] synonym: "up regulation of heart myofibril assembly" RELATED [GOC:TermGenie] synonym: "up-regulation of cardiac myofibril assembly" EXACT [GOC:TermGenie] synonym: "up-regulation of cardiac myofibril development" EXACT [GOC:TermGenie] synonym: "up-regulation of cardiac myofibril morphogenesis" EXACT [GOC:TermGenie] synonym: "up-regulation of heart myofibril assembly" RELATED [GOC:TermGenie] synonym: "upregulation of cardiac myofibril assembly" EXACT [GOC:TermGenie] synonym: "upregulation of cardiac myofibril development" EXACT [GOC:TermGenie] synonym: "upregulation of cardiac myofibril morphogenesis" EXACT [GOC:TermGenie] synonym: "upregulation of heart myofibril assembly" RELATED [GOC:TermGenie] is_a: GO:0051094 ! positive regulation of developmental process is_a: GO:0051495 ! positive regulation of cytoskeleton organization is_a: GO:1902117 ! positive regulation of organelle assembly is_a: GO:1902905 ! positive regulation of supramolecular fiber organization is_a: GO:1905304 ! regulation of cardiac myofibril assembly intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0055003 ! cardiac myofibril assembly relationship: positively_regulates GO:0055003 ! cardiac myofibril assembly created_by: rl creation_date: 2016-07-06T10:02:07Z [Term] id: GO:1905315 name: cell proliferation involved in endocardial cushion morphogenesis namespace: biological_process def: "Any cell proliferation that is involved in endocardial cushion morphogenesis." [GO_REF:0000060, GOC:BHF, GOC:rl, GOC:TermGenie, PMID:20652948] is_a: GO:0061323 ! cell proliferation involved in heart morphogenesis intersection_of: GO:0008283 ! cell population proliferation intersection_of: part_of GO:0003203 ! endocardial cushion morphogenesis relationship: part_of GO:0003203 ! endocardial cushion morphogenesis created_by: rl creation_date: 2016-07-12T13:56:36Z [Term] id: GO:1905330 name: regulation of morphogenesis of an epithelium namespace: biological_process def: "Any process that modulates the frequency, rate or extent of morphogenesis of an epithelium." [GO_REF:0000058, GOC:bhm, GOC:TermGenie, PMID:25745997] comment: An example of this is MMRN2 in human (Q9H8L6) in PMID:25745997 (inferred from direct assay). synonym: "regulation of epithelium morphogenesis" EXACT [GOC:TermGenie] is_a: GO:0022603 ! regulation of anatomical structure morphogenesis intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0002009 ! morphogenesis of an epithelium relationship: regulates GO:0002009 ! morphogenesis of an epithelium created_by: bhm creation_date: 2016-07-22T07:13:49Z [Term] id: GO:1905331 name: negative regulation of morphogenesis of an epithelium namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of morphogenesis of an epithelium." [GO_REF:0000058, GOC:bhm, GOC:TermGenie, PMID:25745997] comment: An example of this is MMRN2 in human (Q9H8L6) in PMID:25745997 (inferred from direct assay). synonym: "down regulation of epithelium morphogenesis" EXACT [GOC:TermGenie] synonym: "down regulation of morphogenesis of an epithelium" EXACT [GOC:TermGenie] synonym: "down-regulation of epithelium morphogenesis" EXACT [GOC:TermGenie] synonym: "down-regulation of morphogenesis of an epithelium" EXACT [GOC:TermGenie] synonym: "downregulation of epithelium morphogenesis" EXACT [GOC:TermGenie] synonym: "downregulation of morphogenesis of an epithelium" EXACT [GOC:TermGenie] synonym: "inhibition of epithelium morphogenesis" NARROW [GOC:TermGenie] synonym: "inhibition of morphogenesis of an epithelium" NARROW [GOC:TermGenie] synonym: "negative regulation of epithelium morphogenesis" EXACT [GOC:TermGenie] is_a: GO:0051093 ! negative regulation of developmental process is_a: GO:1905330 ! regulation of morphogenesis of an epithelium intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0002009 ! morphogenesis of an epithelium relationship: negatively_regulates GO:0002009 ! morphogenesis of an epithelium created_by: bhm creation_date: 2016-07-22T07:13:57Z [Term] id: GO:1905332 name: positive regulation of morphogenesis of an epithelium namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of morphogenesis of an epithelium." [GO_REF:0000058, GOC:bhm, GOC:TermGenie, PMID:25745997] comment: An example of this is MMRN2 in human (Q9H8L6) in PMID:25745997 (inferred from direct assay). synonym: "activation of epithelium morphogenesis" NARROW [GOC:TermGenie] synonym: "activation of morphogenesis of an epithelium" NARROW [GOC:TermGenie] synonym: "positive regulation of epithelium morphogenesis" EXACT [GOC:TermGenie] synonym: "up regulation of epithelium morphogenesis" EXACT [GOC:TermGenie] synonym: "up regulation of morphogenesis of an epithelium" EXACT [GOC:TermGenie] synonym: "up-regulation of epithelium morphogenesis" EXACT [GOC:TermGenie] synonym: "up-regulation of morphogenesis of an epithelium" EXACT [GOC:TermGenie] synonym: "upregulation of epithelium morphogenesis" EXACT [GOC:TermGenie] synonym: "upregulation of morphogenesis of an epithelium" EXACT [GOC:TermGenie] is_a: GO:0051094 ! positive regulation of developmental process is_a: GO:1905330 ! regulation of morphogenesis of an epithelium intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0002009 ! morphogenesis of an epithelium relationship: positively_regulates GO:0002009 ! morphogenesis of an epithelium created_by: bhm creation_date: 2016-07-22T07:14:05Z [Term] id: GO:1905349 name: ciliary transition zone assembly namespace: biological_process def: "The aggregation, arrangement and bonding together of a set of components to form a ciliary transition zone." [GO_REF:0000079, GOC:cilia, GOC:TermGenie, PMID:21725307, PMID:23644468, PMID:24448408, PMID:26595381, PMID:26982032] synonym: "cilial transition zone assembly" EXACT [GOC:TermGenie] synonym: "cilial transition zone formation" EXACT [GOC:TermGenie] synonym: "ciliary transition zone formation" EXACT [GOC:TermGenie] synonym: "cilium transition zone assembly" EXACT [GOC:TermGenie] synonym: "cilium transition zone formation" EXACT [GOC:TermGenie] is_a: GO:0022607 ! cellular component assembly intersection_of: GO:0022607 ! cellular component assembly intersection_of: results_in_assembly_of GO:0035869 ! ciliary transition zone relationship: part_of GO:0060271 ! cilium assembly relationship: results_in_assembly_of GO:0035869 ! ciliary transition zone created_by: pr creation_date: 2016-08-04T14:49:43Z [Term] id: GO:1905383 name: protein localization to presynapse namespace: biological_process def: "A process in which a protein is transported to, or maintained in, a location within a presynapse." [GO_REF:0000087, GOC:TermGenie, PMID:24449494] synonym: "protein localisation in presynapse" EXACT [GOC:TermGenie] synonym: "protein localisation to presynapse" EXACT [GOC:TermGenie] synonym: "protein localization in presynapse" EXACT [GOC:TermGenie] synonym: "recruitment of presynaptic proteins" EXACT [PMID:24449494] is_a: GO:0035418 ! protein localization to synapse intersection_of: GO:0008104 ! protein localization intersection_of: has_target_end_location GO:0098793 ! presynapse relationship: has_target_end_location GO:0098793 ! presynapse created_by: dos creation_date: 2016-08-18T14:42:59Z [Term] id: GO:1905384 name: regulation of protein localization to presynapse namespace: biological_process def: "Any process that modulates the frequency, rate or extent of protein localization to presynapse." [GO_REF:0000058, GOC:bf, GOC:PARL, GOC:TermGenie, PMID:24449494] synonym: "regulation of protein localisation in presynapse" EXACT [GOC:TermGenie] synonym: "regulation of protein localisation to presynapse" EXACT [GOC:TermGenie] synonym: "regulation of protein localization in presynapse" EXACT [GOC:TermGenie] synonym: "regulation of recruitment of presynaptic proteins" EXACT [GOC:TermGenie] is_a: GO:1902473 ! regulation of protein localization to synapse intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:1905383 ! protein localization to presynapse relationship: regulates GO:1905383 ! protein localization to presynapse created_by: dos creation_date: 2016-08-18T14:56:00Z [Term] id: GO:1905385 name: negative regulation of protein localization to presynapse namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of protein localization to presynapse." [GO_REF:0000058, GOC:bf, GOC:PARL, GOC:TermGenie, PMID:24449494] synonym: "down regulation of protein localisation in presynapse" EXACT [GOC:TermGenie] synonym: "down regulation of protein localisation to presynapse" EXACT [GOC:TermGenie] synonym: "down regulation of protein localization in presynapse" EXACT [GOC:TermGenie] synonym: "down regulation of protein localization to presynapse" EXACT [GOC:TermGenie] synonym: "down regulation of recruitment of presynaptic proteins" EXACT [GOC:TermGenie] synonym: "down-regulation of protein localisation in presynapse" EXACT [GOC:TermGenie] synonym: "down-regulation of protein localisation to presynapse" EXACT [GOC:TermGenie] synonym: "down-regulation of protein localization in presynapse" EXACT [GOC:TermGenie] synonym: "down-regulation of protein localization to presynapse" EXACT [GOC:TermGenie] synonym: "down-regulation of recruitment of presynaptic proteins" EXACT [GOC:TermGenie] synonym: "downregulation of protein localisation in presynapse" EXACT [GOC:TermGenie] synonym: "downregulation of protein localisation to presynapse" EXACT [GOC:TermGenie] synonym: "downregulation of protein localization in presynapse" EXACT [GOC:TermGenie] synonym: "downregulation of protein localization to presynapse" EXACT [GOC:TermGenie] synonym: "downregulation of recruitment of presynaptic proteins" EXACT [GOC:TermGenie] synonym: "inhibition of protein localisation in presynapse" NARROW [GOC:TermGenie] synonym: "inhibition of protein localisation to presynapse" NARROW [GOC:TermGenie] synonym: "inhibition of protein localization in presynapse" NARROW [GOC:TermGenie] synonym: "inhibition of protein localization to presynapse" NARROW [GOC:TermGenie] synonym: "inhibition of recruitment of presynaptic proteins" NARROW [GOC:TermGenie] synonym: "negative regulation of protein localisation in presynapse" EXACT [GOC:TermGenie] synonym: "negative regulation of protein localisation to presynapse" EXACT [GOC:TermGenie] synonym: "negative regulation of protein localization in presynapse" EXACT [GOC:TermGenie] synonym: "negative regulation of recruitment of presynaptic proteins" EXACT [GOC:TermGenie] is_a: GO:1903828 ! negative regulation of protein localization is_a: GO:1905384 ! regulation of protein localization to presynapse intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:1905383 ! protein localization to presynapse relationship: negatively_regulates GO:1905383 ! protein localization to presynapse created_by: dos creation_date: 2016-08-18T14:56:08Z [Term] id: GO:1905386 name: positive regulation of protein localization to presynapse namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of protein localization to presynapse." [GO_REF:0000058, GOC:bf, GOC:PARL, GOC:TermGenie, PMID:24449494] synonym: "activation of protein localisation in presynapse" NARROW [GOC:TermGenie] synonym: "activation of protein localisation to presynapse" NARROW [GOC:TermGenie] synonym: "activation of protein localization in presynapse" NARROW [GOC:TermGenie] synonym: "activation of protein localization to presynapse" NARROW [GOC:TermGenie] synonym: "activation of recruitment of presynaptic proteins" NARROW [GOC:TermGenie] synonym: "positive regulation of protein localisation in presynapse" EXACT [GOC:TermGenie] synonym: "positive regulation of protein localisation to presynapse" EXACT [GOC:TermGenie] synonym: "positive regulation of protein localization in presynapse" EXACT [GOC:TermGenie] synonym: "positive regulation of recruitment of presynaptic proteins" EXACT [GOC:TermGenie] synonym: "up regulation of protein localisation in presynapse" EXACT [GOC:TermGenie] synonym: "up regulation of protein localisation to presynapse" EXACT [GOC:TermGenie] synonym: "up regulation of protein localization in presynapse" EXACT [GOC:TermGenie] synonym: "up regulation of protein localization to presynapse" EXACT [GOC:TermGenie] synonym: "up regulation of recruitment of presynaptic proteins" EXACT [GOC:TermGenie] synonym: "up-regulation of protein localisation in presynapse" EXACT [GOC:TermGenie] synonym: "up-regulation of protein localisation to presynapse" EXACT [GOC:TermGenie] synonym: "up-regulation of protein localization in presynapse" EXACT [GOC:TermGenie] synonym: "up-regulation of protein localization to presynapse" EXACT [GOC:TermGenie] synonym: "up-regulation of recruitment of presynaptic proteins" EXACT [GOC:TermGenie] synonym: "upregulation of protein localisation in presynapse" EXACT [GOC:TermGenie] synonym: "upregulation of protein localisation to presynapse" EXACT [GOC:TermGenie] synonym: "upregulation of protein localization in presynapse" EXACT [GOC:TermGenie] synonym: "upregulation of protein localization to presynapse" EXACT [GOC:TermGenie] synonym: "upregulation of recruitment of presynaptic proteins" EXACT [GOC:TermGenie] is_a: GO:1902474 ! positive regulation of protein localization to synapse is_a: GO:1905384 ! regulation of protein localization to presynapse intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:1905383 ! protein localization to presynapse relationship: positively_regulates GO:1905383 ! protein localization to presynapse created_by: dos creation_date: 2016-08-18T14:56:21Z [Term] id: GO:1905427 name: intracellular signal transduction involved in positive regulation of cell growth namespace: biological_process def: "Any intracellular signal transduction that is involved in positive regulation of cell growth." [GO_REF:0000060, GOC:al, GOC:TermGenie, GOC:vw, PMID:15917811] synonym: "intracellular protein kinase cascade involved in activation of cell growth" NARROW [GOC:TermGenie] synonym: "intracellular protein kinase cascade involved in positive regulation of cell growth" NARROW [GOC:TermGenie] synonym: "intracellular protein kinase cascade involved in stimulation of cell growth" NARROW [GOC:TermGenie] synonym: "intracellular protein kinase cascade involved in up regulation of cell growth" NARROW [GOC:TermGenie] synonym: "intracellular protein kinase cascade involved in up-regulation of cell growth" NARROW [GOC:TermGenie] synonym: "intracellular protein kinase cascade involved in upregulation of cell growth" NARROW [GOC:TermGenie] synonym: "intracellular signal transduction involved in activation of cell growth" NARROW [GOC:TermGenie] synonym: "intracellular signal transduction involved in stimulation of cell growth" NARROW [GOC:TermGenie] synonym: "intracellular signal transduction involved in up regulation of cell growth" EXACT [GOC:TermGenie] synonym: "intracellular signal transduction involved in up-regulation of cell growth" EXACT [GOC:TermGenie] synonym: "intracellular signal transduction involved in upregulation of cell growth" EXACT [GOC:TermGenie] synonym: "intracellular signal transduction pathway involved in activation of cell growth" NARROW [GOC:TermGenie] synonym: "intracellular signal transduction pathway involved in positive regulation of cell growth" NARROW [GOC:TermGenie] synonym: "intracellular signal transduction pathway involved in stimulation of cell growth" NARROW [GOC:TermGenie] synonym: "intracellular signal transduction pathway involved in up regulation of cell growth" NARROW [GOC:TermGenie] synonym: "intracellular signal transduction pathway involved in up-regulation of cell growth" NARROW [GOC:TermGenie] synonym: "intracellular signal transduction pathway involved in upregulation of cell growth" NARROW [GOC:TermGenie] synonym: "intracellular signaling cascade involved in activation of cell growth" RELATED [GOC:TermGenie] synonym: "intracellular signaling cascade involved in positive regulation of cell growth" RELATED [GOC:TermGenie] synonym: "intracellular signaling cascade involved in stimulation of cell growth" RELATED [GOC:TermGenie] synonym: "intracellular signaling cascade involved in up regulation of cell growth" RELATED [GOC:TermGenie] synonym: "intracellular signaling cascade involved in up-regulation of cell growth" RELATED [GOC:TermGenie] synonym: "intracellular signaling cascade involved in upregulation of cell growth" RELATED [GOC:TermGenie] synonym: "intracellular signaling chain involved in activation of cell growth" NARROW [GOC:TermGenie] synonym: "intracellular signaling chain involved in positive regulation of cell growth" EXACT [GOC:TermGenie] synonym: "intracellular signaling chain involved in stimulation of cell growth" NARROW [GOC:TermGenie] synonym: "intracellular signaling chain involved in up regulation of cell growth" EXACT [GOC:TermGenie] synonym: "intracellular signaling chain involved in up-regulation of cell growth" EXACT [GOC:TermGenie] synonym: "intracellular signaling chain involved in upregulation of cell growth" EXACT [GOC:TermGenie] synonym: "intracellular signaling pathway involved in activation of cell growth" RELATED [GOC:TermGenie] synonym: "intracellular signaling pathway involved in positive regulation of cell growth" RELATED [GOC:TermGenie] synonym: "intracellular signaling pathway involved in stimulation of cell growth" RELATED [GOC:TermGenie] synonym: "intracellular signaling pathway involved in up regulation of cell growth" RELATED [GOC:TermGenie] synonym: "intracellular signaling pathway involved in up-regulation of cell growth" RELATED [GOC:TermGenie] synonym: "intracellular signaling pathway involved in upregulation of cell growth" RELATED [GOC:TermGenie] synonym: "protein kinase cascade involved in activation of cell growth" NARROW [GOC:TermGenie] synonym: "protein kinase cascade involved in positive regulation of cell growth" NARROW [GOC:TermGenie] synonym: "protein kinase cascade involved in stimulation of cell growth" NARROW [GOC:TermGenie] synonym: "protein kinase cascade involved in up regulation of cell growth" NARROW [GOC:TermGenie] synonym: "protein kinase cascade involved in up-regulation of cell growth" NARROW [GOC:TermGenie] synonym: "protein kinase cascade involved in upregulation of cell growth" NARROW [GOC:TermGenie] synonym: "signal transduction via intracellular signaling cascade involved in activation of cell growth" RELATED [GOC:TermGenie] synonym: "signal transduction via intracellular signaling cascade involved in positive regulation of cell growth" RELATED [GOC:TermGenie] synonym: "signal transduction via intracellular signaling cascade involved in stimulation of cell growth" RELATED [GOC:TermGenie] synonym: "signal transduction via intracellular signaling cascade involved in up regulation of cell growth" RELATED [GOC:TermGenie] synonym: "signal transduction via intracellular signaling cascade involved in up-regulation of cell growth" RELATED [GOC:TermGenie] synonym: "signal transduction via intracellular signaling cascade involved in upregulation of cell growth" RELATED [GOC:TermGenie] synonym: "signal transmission via intracellular cascade involved in activation of cell growth" NARROW [GOC:TermGenie] synonym: "signal transmission via intracellular cascade involved in positive regulation of cell growth" NARROW [GOC:TermGenie] synonym: "signal transmission via intracellular cascade involved in stimulation of cell growth" NARROW [GOC:TermGenie] synonym: "signal transmission via intracellular cascade involved in up regulation of cell growth" NARROW [GOC:TermGenie] synonym: "signal transmission via intracellular cascade involved in up-regulation of cell growth" NARROW [GOC:TermGenie] synonym: "signal transmission via intracellular cascade involved in upregulation of cell growth" NARROW [GOC:TermGenie] is_a: GO:0035556 ! intracellular signal transduction intersection_of: GO:0035556 ! intracellular signal transduction intersection_of: part_of GO:0030307 ! positive regulation of cell growth relationship: part_of GO:0030307 ! positive regulation of cell growth created_by: dph creation_date: 2016-09-07T18:15:01Z [Term] id: GO:1905432 name: regulation of retrograde trans-synaptic signaling by neuropeptide namespace: biological_process def: "Any process that modulates the frequency, rate or extent of retrograde trans-synaptic signaling by neuropeptide." [GO_REF:0000058, GOC:bf, GOC:PARL, GOC:TermGenie, PMID:19448629] synonym: "regulation of neuropeptide-mediated retrograde trans-synaptic signaling" RELATED [GOC:bf] is_a: GO:0099177 ! regulation of trans-synaptic signaling intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0099082 ! retrograde trans-synaptic signaling by neuropeptide relationship: regulates GO:0099082 ! retrograde trans-synaptic signaling by neuropeptide created_by: bf creation_date: 2016-09-14T10:56:47Z [Term] id: GO:1905433 name: negative regulation of retrograde trans-synaptic signaling by neuropeptide namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of retrograde trans-synaptic signaling by neuropeptide." [GO_REF:0000058, GOC:bf, GOC:PARL, GOC:TermGenie, PMID:19448629] synonym: "down regulation of retrograde trans-synaptic signaling by neuropeptide" EXACT [GOC:TermGenie] synonym: "down-regulation of retrograde trans-synaptic signaling by neuropeptide" EXACT [GOC:TermGenie] synonym: "downregulation of retrograde trans-synaptic signaling by neuropeptide" EXACT [GOC:TermGenie] synonym: "inhibition of neuropeptide-mediated retrograde trans-synaptic signaling" RELATED [GOC:bf] synonym: "inhibition of retrograde trans-synaptic signaling by neuropeptide" NARROW [GOC:TermGenie] synonym: "negative regulation of neuropeptide-mediated retrograde trans-synaptic signaling" RELATED [GOC:bf] is_a: GO:0010648 ! negative regulation of cell communication is_a: GO:0023057 ! negative regulation of signaling is_a: GO:1905432 ! regulation of retrograde trans-synaptic signaling by neuropeptide intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0099082 ! retrograde trans-synaptic signaling by neuropeptide relationship: negatively_regulates GO:0099082 ! retrograde trans-synaptic signaling by neuropeptide created_by: bf creation_date: 2016-09-14T10:56:55Z [Term] id: GO:1905434 name: positive regulation of retrograde trans-synaptic signaling by neuropeptide namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of retrograde trans-synaptic signaling by neuropeptide." [GO_REF:0000058, GOC:bf, GOC:PARL, GOC:TermGenie, PMID:19448629] synonym: "activation of retrograde trans-synaptic signaling by neuropeptide" NARROW [GOC:TermGenie] synonym: "positive regulation of neuropeptide-mediated retrograde trans-synaptic signaling" RELATED [GOC:bf] synonym: "up regulation of retrograde trans-synaptic signaling by neuropeptide" EXACT [GOC:TermGenie] synonym: "up-regulation of retrograde trans-synaptic signaling by neuropeptide" EXACT [GOC:TermGenie] synonym: "upregulation of retrograde trans-synaptic signaling by neuropeptide" EXACT [GOC:TermGenie] is_a: GO:0010647 ! positive regulation of cell communication is_a: GO:0023056 ! positive regulation of signaling is_a: GO:1905432 ! regulation of retrograde trans-synaptic signaling by neuropeptide intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0099082 ! retrograde trans-synaptic signaling by neuropeptide relationship: positively_regulates GO:0099082 ! retrograde trans-synaptic signaling by neuropeptide created_by: bf creation_date: 2016-09-14T10:57:02Z [Term] id: GO:1905453 name: regulation of myeloid progenitor cell differentiation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of myeloid progenitor cell differentiation." [GO_REF:0000058, GOC:TermGenie, PMID:27010503] is_a: GO:1901532 ! regulation of hematopoietic progenitor cell differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0002318 ! myeloid progenitor cell differentiation relationship: regulates GO:0002318 ! myeloid progenitor cell differentiation created_by: rz creation_date: 2016-09-16T12:32:18Z [Term] id: GO:1905454 name: negative regulation of myeloid progenitor cell differentiation namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of myeloid progenitor cell differentiation." [GO_REF:0000058, GOC:TermGenie, PMID:27010503] synonym: "down regulation of myeloid progenitor cell differentiation" EXACT [GOC:TermGenie] synonym: "down-regulation of myeloid progenitor cell differentiation" EXACT [GOC:TermGenie] synonym: "downregulation of myeloid progenitor cell differentiation" EXACT [GOC:TermGenie] synonym: "inhibition of myeloid progenitor cell differentiation" NARROW [GOC:TermGenie] is_a: GO:1901533 ! negative regulation of hematopoietic progenitor cell differentiation is_a: GO:1905453 ! regulation of myeloid progenitor cell differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0002318 ! myeloid progenitor cell differentiation relationship: negatively_regulates GO:0002318 ! myeloid progenitor cell differentiation created_by: rz creation_date: 2016-09-16T12:32:26Z [Term] id: GO:1905455 name: positive regulation of myeloid progenitor cell differentiation namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of myeloid progenitor cell differentiation." [GO_REF:0000058, GOC:TermGenie, PMID:27010503] synonym: "activation of myeloid progenitor cell differentiation" NARROW [GOC:TermGenie] synonym: "up regulation of myeloid progenitor cell differentiation" EXACT [GOC:TermGenie] synonym: "up-regulation of myeloid progenitor cell differentiation" EXACT [GOC:TermGenie] synonym: "upregulation of myeloid progenitor cell differentiation" EXACT [GOC:TermGenie] is_a: GO:1901534 ! positive regulation of hematopoietic progenitor cell differentiation is_a: GO:1905453 ! regulation of myeloid progenitor cell differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0002318 ! myeloid progenitor cell differentiation relationship: positively_regulates GO:0002318 ! myeloid progenitor cell differentiation created_by: rz creation_date: 2016-09-16T12:32:33Z [Term] id: GO:1905459 name: regulation of vascular associated smooth muscle cell apoptotic process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of vascular associated smooth muscle cell apoptotic process." [GO_REF:0000058, GOC:BHF, GOC:BHF_miRNA, GOC:rph, GOC:TermGenie, PMID:26493107] synonym: "regulation of vascular associated smooth muscle cell apoptosis" NARROW [GOC:TermGenie] synonym: "regulation of vascular smooth muscle cell apoptosis" NARROW [GOC:TermGenie] synonym: "regulation of vascular smooth muscle cell apoptotic process" EXACT [GOC:TermGenie] synonym: "regulation of VSMC apoptosis" NARROW [GOC:TermGenie] synonym: "regulation of VSMC apoptotic process" EXACT [GOC:TermGenie] is_a: GO:0034391 ! regulation of smooth muscle cell apoptotic process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:1905288 ! vascular associated smooth muscle cell apoptotic process relationship: regulates GO:1905288 ! vascular associated smooth muscle cell apoptotic process created_by: rph creation_date: 2016-09-19T11:33:54Z [Term] id: GO:1905460 name: negative regulation of vascular associated smooth muscle cell apoptotic process namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of vascular associated smooth muscle cell apoptotic process." [GO_REF:0000058, GOC:BHF, GOC:BHF_miRNA, GOC:rph, GOC:TermGenie, PMID:26493107] synonym: "down regulation of vascular associated smooth muscle cell apoptosis" NARROW [GOC:TermGenie] synonym: "down regulation of vascular associated smooth muscle cell apoptotic process" EXACT [GOC:TermGenie] synonym: "down regulation of vascular smooth muscle cell apoptosis" NARROW [GOC:TermGenie] synonym: "down regulation of vascular smooth muscle cell apoptotic process" EXACT [GOC:TermGenie] synonym: "down regulation of VSMC apoptosis" NARROW [GOC:TermGenie] synonym: "down regulation of VSMC apoptotic process" EXACT [GOC:TermGenie] synonym: "down-regulation of vascular associated smooth muscle cell apoptosis" NARROW [GOC:TermGenie] synonym: "down-regulation of vascular associated smooth muscle cell apoptotic process" EXACT [GOC:TermGenie] synonym: "down-regulation of vascular smooth muscle cell apoptosis" NARROW [GOC:TermGenie] synonym: "down-regulation of vascular smooth muscle cell apoptotic process" EXACT [GOC:TermGenie] synonym: "down-regulation of VSMC apoptosis" NARROW [GOC:TermGenie] synonym: "down-regulation of VSMC apoptotic process" EXACT [GOC:TermGenie] synonym: "downregulation of vascular associated smooth muscle cell apoptosis" NARROW [GOC:TermGenie] synonym: "downregulation of vascular associated smooth muscle cell apoptotic process" EXACT [GOC:TermGenie] synonym: "downregulation of vascular smooth muscle cell apoptosis" NARROW [GOC:TermGenie] synonym: "downregulation of vascular smooth muscle cell apoptotic process" EXACT [GOC:TermGenie] synonym: "downregulation of VSMC apoptosis" NARROW [GOC:TermGenie] synonym: "downregulation of VSMC apoptotic process" EXACT [GOC:TermGenie] synonym: "inhibition of vascular associated smooth muscle cell apoptosis" NARROW [GOC:TermGenie] synonym: "inhibition of vascular associated smooth muscle cell apoptotic process" NARROW [GOC:TermGenie] synonym: "inhibition of vascular smooth muscle cell apoptosis" NARROW [GOC:TermGenie] synonym: "inhibition of vascular smooth muscle cell apoptotic process" NARROW [GOC:TermGenie] synonym: "inhibition of VSMC apoptosis" NARROW [GOC:TermGenie] synonym: "inhibition of VSMC apoptotic process" NARROW [GOC:TermGenie] synonym: "negative regulation of vascular associated smooth muscle cell apoptosis" NARROW [GOC:TermGenie] synonym: "negative regulation of vascular smooth muscle cell apoptosis" NARROW [GOC:TermGenie] synonym: "negative regulation of vascular smooth muscle cell apoptotic process" EXACT [GOC:TermGenie] synonym: "negative regulation of VSMC apoptosis" NARROW [GOC:TermGenie] synonym: "negative regulation of VSMC apoptotic process" EXACT [GOC:TermGenie] is_a: GO:0034392 ! negative regulation of smooth muscle cell apoptotic process is_a: GO:1905459 ! regulation of vascular associated smooth muscle cell apoptotic process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:1905288 ! vascular associated smooth muscle cell apoptotic process relationship: negatively_regulates GO:1905288 ! vascular associated smooth muscle cell apoptotic process created_by: rph creation_date: 2016-09-19T11:34:03Z [Term] id: GO:1905461 name: positive regulation of vascular associated smooth muscle cell apoptotic process namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of vascular associated smooth muscle cell apoptotic process." [GO_REF:0000058, GOC:BHF, GOC:BHF_miRNA, GOC:rph, GOC:TermGenie, PMID:26493107] synonym: "activation of vascular associated smooth muscle cell apoptosis" NARROW [GOC:TermGenie] synonym: "activation of vascular associated smooth muscle cell apoptotic process" NARROW [GOC:TermGenie] synonym: "activation of vascular smooth muscle cell apoptosis" NARROW [GOC:TermGenie] synonym: "activation of vascular smooth muscle cell apoptotic process" NARROW [GOC:TermGenie] synonym: "activation of VSMC apoptosis" NARROW [GOC:TermGenie] synonym: "activation of VSMC apoptotic process" NARROW [GOC:TermGenie] synonym: "positive regulation of vascular associated smooth muscle cell apoptosis" NARROW [GOC:TermGenie] synonym: "positive regulation of vascular smooth muscle cell apoptosis" NARROW [GOC:TermGenie] synonym: "positive regulation of vascular smooth muscle cell apoptotic process" EXACT [GOC:TermGenie] synonym: "positive regulation of VSMC apoptosis" NARROW [GOC:TermGenie] synonym: "positive regulation of VSMC apoptotic process" EXACT [GOC:TermGenie] synonym: "up regulation of vascular associated smooth muscle cell apoptosis" NARROW [GOC:TermGenie] synonym: "up regulation of vascular associated smooth muscle cell apoptotic process" EXACT [GOC:TermGenie] synonym: "up regulation of vascular smooth muscle cell apoptosis" NARROW [GOC:TermGenie] synonym: "up regulation of vascular smooth muscle cell apoptotic process" EXACT [GOC:TermGenie] synonym: "up regulation of VSMC apoptosis" NARROW [GOC:TermGenie] synonym: "up regulation of VSMC apoptotic process" EXACT [GOC:TermGenie] synonym: "up-regulation of vascular associated smooth muscle cell apoptosis" NARROW [GOC:TermGenie] synonym: "up-regulation of vascular associated smooth muscle cell apoptotic process" EXACT [GOC:TermGenie] synonym: "up-regulation of vascular smooth muscle cell apoptosis" NARROW [GOC:TermGenie] synonym: "up-regulation of vascular smooth muscle cell apoptotic process" EXACT [GOC:TermGenie] synonym: "up-regulation of VSMC apoptosis" NARROW [GOC:TermGenie] synonym: "up-regulation of VSMC apoptotic process" EXACT [GOC:TermGenie] synonym: "upregulation of vascular associated smooth muscle cell apoptosis" NARROW [GOC:TermGenie] synonym: "upregulation of vascular associated smooth muscle cell apoptotic process" EXACT [GOC:TermGenie] synonym: "upregulation of vascular smooth muscle cell apoptosis" NARROW [GOC:TermGenie] synonym: "upregulation of vascular smooth muscle cell apoptotic process" EXACT [GOC:TermGenie] synonym: "upregulation of VSMC apoptosis" NARROW [GOC:TermGenie] synonym: "upregulation of VSMC apoptotic process" EXACT [GOC:TermGenie] is_a: GO:0034393 ! positive regulation of smooth muscle cell apoptotic process is_a: GO:1905459 ! regulation of vascular associated smooth muscle cell apoptotic process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:1905288 ! vascular associated smooth muscle cell apoptotic process relationship: positively_regulates GO:1905288 ! vascular associated smooth muscle cell apoptotic process created_by: rph creation_date: 2016-09-19T11:34:10Z [Term] id: GO:1905475 name: regulation of protein localization to membrane namespace: biological_process def: "Any process that modulates the frequency, rate or extent of protein localization to membrane." [GO_REF:0000058, GOC:bc, GOC:PARL, GOC:TermGenie, PMID:26911690] synonym: "regulation of protein localisation in membrane" EXACT [GOC:TermGenie] synonym: "regulation of protein localization in membrane" EXACT [GOC:TermGenie] is_a: GO:0032880 ! regulation of protein localization is_a: GO:0060341 ! regulation of cellular localization intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0072657 ! protein localization to membrane relationship: regulates GO:0072657 ! protein localization to membrane created_by: bc creation_date: 2016-09-21T16:20:03Z [Term] id: GO:1905476 name: negative regulation of protein localization to membrane namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of protein localization to membrane." [GO_REF:0000058, GOC:bc, GOC:PARL, GOC:TermGenie, PMID:26911690] synonym: "down regulation of protein localisation in membrane" EXACT [GOC:TermGenie] synonym: "down regulation of protein localization in membrane" EXACT [GOC:TermGenie] synonym: "down regulation of protein localization to membrane" EXACT [GOC:TermGenie] synonym: "down-regulation of protein localisation in membrane" EXACT [GOC:TermGenie] synonym: "down-regulation of protein localization in membrane" EXACT [GOC:TermGenie] synonym: "down-regulation of protein localization to membrane" EXACT [GOC:TermGenie] synonym: "downregulation of protein localisation in membrane" EXACT [GOC:TermGenie] synonym: "downregulation of protein localization in membrane" EXACT [GOC:TermGenie] synonym: "downregulation of protein localization to membrane" EXACT [GOC:TermGenie] synonym: "inhibition of protein localisation in membrane" NARROW [GOC:TermGenie] synonym: "inhibition of protein localization in membrane" NARROW [GOC:TermGenie] synonym: "inhibition of protein localization to membrane" NARROW [GOC:TermGenie] synonym: "negative regulation of protein localisation in membrane" EXACT [GOC:TermGenie] synonym: "negative regulation of protein localization in membrane" EXACT [GOC:TermGenie] is_a: GO:0048523 ! negative regulation of cellular process is_a: GO:1903828 ! negative regulation of protein localization is_a: GO:1905475 ! regulation of protein localization to membrane intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0072657 ! protein localization to membrane relationship: negatively_regulates GO:0072657 ! protein localization to membrane created_by: bc creation_date: 2016-09-21T16:20:10Z [Term] id: GO:1905477 name: positive regulation of protein localization to membrane namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of protein localization to membrane." [GO_REF:0000058, GOC:bc, GOC:PARL, GOC:TermGenie, PMID:26911690] synonym: "activation of protein localisation in membrane" NARROW [GOC:TermGenie] synonym: "activation of protein localization in membrane" NARROW [GOC:TermGenie] synonym: "activation of protein localization to membrane" NARROW [GOC:TermGenie] synonym: "positive regulation of protein localisation in membrane" EXACT [GOC:TermGenie] synonym: "positive regulation of protein localization in membrane" EXACT [GOC:TermGenie] synonym: "up regulation of protein localisation in membrane" EXACT [GOC:TermGenie] synonym: "up regulation of protein localization in membrane" EXACT [GOC:TermGenie] synonym: "up regulation of protein localization to membrane" EXACT [GOC:TermGenie] synonym: "up-regulation of protein localisation in membrane" EXACT [GOC:TermGenie] synonym: "up-regulation of protein localization in membrane" EXACT [GOC:TermGenie] synonym: "up-regulation of protein localization to membrane" EXACT [GOC:TermGenie] synonym: "upregulation of protein localisation in membrane" EXACT [GOC:TermGenie] synonym: "upregulation of protein localization in membrane" EXACT [GOC:TermGenie] synonym: "upregulation of protein localization to membrane" EXACT [GOC:TermGenie] is_a: GO:0048522 ! positive regulation of cellular process is_a: GO:1903829 ! positive regulation of protein localization is_a: GO:1905475 ! regulation of protein localization to membrane intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0072657 ! protein localization to membrane relationship: positively_regulates GO:0072657 ! protein localization to membrane created_by: bc creation_date: 2016-09-21T16:20:18Z [Term] id: GO:1905492 name: positive regulation of branching morphogenesis of a nerve namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of branching morphogenesis of a nerve." [GO_REF:0000058, GOC:TermGenie, PMID:16516839] synonym: "activation of branching morphogenesis of a nerve" NARROW [GOC:TermGenie] synonym: "up regulation of branching morphogenesis of a nerve" EXACT [GOC:TermGenie] synonym: "up-regulation of branching morphogenesis of a nerve" EXACT [GOC:TermGenie] synonym: "upregulation of branching morphogenesis of a nerve" EXACT [GOC:TermGenie] is_a: GO:0051094 ! positive regulation of developmental process is_a: GO:0051240 ! positive regulation of multicellular organismal process is_a: GO:2000172 ! regulation of branching morphogenesis of a nerve intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0048755 ! branching morphogenesis of a nerve relationship: positively_regulates GO:0048755 ! branching morphogenesis of a nerve created_by: hbye creation_date: 2016-09-23T14:11:52Z [Term] id: GO:1905553 name: regulation of blood vessel branching namespace: biological_process def: "Any process that modulates the frequency, rate or extent of blood vessel branching." [GO_REF:0000058, GOC:BHF, GOC:BHF_telomere, GOC:nc, GOC:TermGenie, PMID:23201774] synonym: "regulation of branching involved in blood vessel morphogenesis" EXACT [GOC:TermGenie] is_a: GO:0045765 ! regulation of angiogenesis is_a: GO:0060688 ! regulation of morphogenesis of a branching structure is_a: GO:1905330 ! regulation of morphogenesis of an epithelium intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0001569 ! branching involved in blood vessel morphogenesis relationship: regulates GO:0001569 ! branching involved in blood vessel morphogenesis created_by: nc creation_date: 2016-10-12T14:19:33Z [Term] id: GO:1905554 name: negative regulation of vessel branching namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of blood vessel branching." [GO_REF:0000058, GOC:BHF, GOC:BHF_telomere, GOC:nc, GOC:TermGenie, PMID:23201774] synonym: "down regulation of branching involved in blood vessel morphogenesis" EXACT [GOC:TermGenie] synonym: "down regulation of patterning of blood vessels" EXACT [GOC:TermGenie] synonym: "down-regulation of branching involved in blood vessel morphogenesis" EXACT [GOC:TermGenie] synonym: "down-regulation of patterning of blood vessels" EXACT [GOC:TermGenie] synonym: "downregulation of branching involved in blood vessel morphogenesis" EXACT [GOC:TermGenie] synonym: "downregulation of patterning of blood vessels" EXACT [GOC:TermGenie] synonym: "inhibition of branching involved in blood vessel morphogenesis" NARROW [GOC:TermGenie] synonym: "inhibition of patterning of blood vessels" NARROW [GOC:TermGenie] synonym: "negative regulation of branching involved in blood vessel morphogenesis" EXACT [GOC:TermGenie] is_a: GO:0016525 ! negative regulation of angiogenesis is_a: GO:1905331 ! negative regulation of morphogenesis of an epithelium is_a: GO:1905553 ! regulation of blood vessel branching intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0001569 ! branching involved in blood vessel morphogenesis relationship: negatively_regulates GO:0001569 ! branching involved in blood vessel morphogenesis created_by: nc creation_date: 2016-10-12T14:19:41Z [Term] id: GO:1905555 name: positive regulation of blood vessel branching namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of blood vessel branching." [GO_REF:0000058, GOC:BHF, GOC:BHF_telomere, GOC:nc, GOC:TermGenie, PMID:23201774] synonym: "activation of branching involved in blood vessel morphogenesis" NARROW [GOC:TermGenie] synonym: "activation of patterning of blood vessels" NARROW [GOC:TermGenie] synonym: "positive regulation of branching involved in blood vessel morphogenesis" EXACT [GOC:TermGenie] synonym: "up regulation of branching involved in blood vessel morphogenesis" EXACT [GOC:TermGenie] synonym: "up regulation of patterning of blood vessels" EXACT [GOC:TermGenie] synonym: "up-regulation of branching involved in blood vessel morphogenesis" EXACT [GOC:TermGenie] synonym: "up-regulation of patterning of blood vessels" EXACT [GOC:TermGenie] synonym: "upregulation of branching involved in blood vessel morphogenesis" EXACT [GOC:TermGenie] synonym: "upregulation of patterning of blood vessels" EXACT [GOC:TermGenie] is_a: GO:0045766 ! positive regulation of angiogenesis is_a: GO:1905332 ! positive regulation of morphogenesis of an epithelium is_a: GO:1905553 ! regulation of blood vessel branching intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0001569 ! branching involved in blood vessel morphogenesis relationship: positively_regulates GO:0001569 ! branching involved in blood vessel morphogenesis created_by: nc creation_date: 2016-10-12T14:19:49Z [Term] id: GO:1905557 name: regulation of mitotic nuclear envelope disassembly namespace: biological_process def: "Any process that modulates the frequency, rate or extent of mitotic nuclear envelope disassembly." [GO_REF:0000058, GOC:TermGenie, PMID:18765790] synonym: "regulation of mitotic nuclear envelope breakdown" EXACT [GOC:TermGenie] synonym: "regulation of mitotic nuclear envelope catabolism" EXACT [GOC:TermGenie] synonym: "regulation of mitotic nuclear envelope degradation" EXACT [GOC:TermGenie] is_a: GO:0010549 ! regulation of membrane disassembly is_a: GO:0010564 ! regulation of cell cycle process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0007077 ! mitotic nuclear membrane disassembly relationship: regulates GO:0007077 ! mitotic nuclear membrane disassembly created_by: hbye creation_date: 2016-10-14T13:14:57Z [Term] id: GO:1905558 name: negative regulation of mitotic nuclear envelope disassembly namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of mitotic nuclear envelope disassembly." [GO_REF:0000058, GOC:TermGenie, PMID:18765790] synonym: "down regulation of mitotic nuclear envelope breakdown" EXACT [GOC:TermGenie] synonym: "down regulation of mitotic nuclear envelope catabolism" EXACT [GOC:TermGenie] synonym: "down regulation of mitotic nuclear envelope degradation" EXACT [GOC:TermGenie] synonym: "down regulation of mitotic nuclear envelope disassembly" EXACT [GOC:TermGenie] synonym: "down-regulation of mitotic nuclear envelope breakdown" EXACT [GOC:TermGenie] synonym: "down-regulation of mitotic nuclear envelope catabolism" EXACT [GOC:TermGenie] synonym: "down-regulation of mitotic nuclear envelope degradation" EXACT [GOC:TermGenie] synonym: "down-regulation of mitotic nuclear envelope disassembly" EXACT [GOC:TermGenie] synonym: "downregulation of mitotic nuclear envelope breakdown" EXACT [GOC:TermGenie] synonym: "downregulation of mitotic nuclear envelope catabolism" EXACT [GOC:TermGenie] synonym: "downregulation of mitotic nuclear envelope degradation" EXACT [GOC:TermGenie] synonym: "downregulation of mitotic nuclear envelope disassembly" EXACT [GOC:TermGenie] synonym: "inhibition of mitotic nuclear envelope breakdown" NARROW [GOC:TermGenie] synonym: "inhibition of mitotic nuclear envelope catabolism" NARROW [GOC:TermGenie] synonym: "inhibition of mitotic nuclear envelope degradation" NARROW [GOC:TermGenie] synonym: "inhibition of mitotic nuclear envelope disassembly" NARROW [GOC:TermGenie] synonym: "negative regulation of mitotic nuclear envelope breakdown" EXACT [GOC:TermGenie] synonym: "negative regulation of mitotic nuclear envelope catabolism" EXACT [GOC:TermGenie] synonym: "negative regulation of mitotic nuclear envelope degradation" EXACT [GOC:TermGenie] is_a: GO:0010948 ! negative regulation of cell cycle process is_a: GO:0051129 ! negative regulation of cellular component organization is_a: GO:1905557 ! regulation of mitotic nuclear envelope disassembly intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0007077 ! mitotic nuclear membrane disassembly relationship: negatively_regulates GO:0007077 ! mitotic nuclear membrane disassembly created_by: hbye creation_date: 2016-10-14T13:15:08Z [Term] id: GO:1905559 name: positive regulation of mitotic nuclear envelope disassembly namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of mitotic nuclear envelope disassembly." [GO_REF:0000058, GOC:TermGenie, PMID:18765790] synonym: "activation of mitotic nuclear envelope breakdown" NARROW [GOC:TermGenie] synonym: "activation of mitotic nuclear envelope catabolism" NARROW [GOC:TermGenie] synonym: "activation of mitotic nuclear envelope degradation" NARROW [GOC:TermGenie] synonym: "activation of mitotic nuclear envelope disassembly" NARROW [GOC:TermGenie] synonym: "positive regulation of mitotic nuclear envelope breakdown" EXACT [GOC:TermGenie] synonym: "positive regulation of mitotic nuclear envelope catabolism" EXACT [GOC:TermGenie] synonym: "positive regulation of mitotic nuclear envelope degradation" EXACT [GOC:TermGenie] synonym: "up regulation of mitotic nuclear envelope breakdown" EXACT [GOC:TermGenie] synonym: "up regulation of mitotic nuclear envelope catabolism" EXACT [GOC:TermGenie] synonym: "up regulation of mitotic nuclear envelope degradation" EXACT [GOC:TermGenie] synonym: "up regulation of mitotic nuclear envelope disassembly" EXACT [GOC:TermGenie] synonym: "up-regulation of mitotic nuclear envelope breakdown" EXACT [GOC:TermGenie] synonym: "up-regulation of mitotic nuclear envelope catabolism" EXACT [GOC:TermGenie] synonym: "up-regulation of mitotic nuclear envelope degradation" EXACT [GOC:TermGenie] synonym: "up-regulation of mitotic nuclear envelope disassembly" EXACT [GOC:TermGenie] synonym: "upregulation of mitotic nuclear envelope breakdown" EXACT [GOC:TermGenie] synonym: "upregulation of mitotic nuclear envelope catabolism" EXACT [GOC:TermGenie] synonym: "upregulation of mitotic nuclear envelope degradation" EXACT [GOC:TermGenie] synonym: "upregulation of mitotic nuclear envelope disassembly" EXACT [GOC:TermGenie] is_a: GO:0051130 ! positive regulation of cellular component organization is_a: GO:0090068 ! positive regulation of cell cycle process is_a: GO:1905557 ! regulation of mitotic nuclear envelope disassembly intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0007077 ! mitotic nuclear membrane disassembly relationship: positively_regulates GO:0007077 ! mitotic nuclear membrane disassembly created_by: hbye creation_date: 2016-10-14T13:15:17Z [Term] id: GO:1905562 name: regulation of vascular endothelial cell proliferation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of vascular endothelial cell proliferation." [GO_REF:0000058, GOC:BHF, GOC:BHF_telomere, GOC:nc, GOC:TermGenie, PMID:23201774] is_a: GO:0001936 ! regulation of endothelial cell proliferation intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0101023 ! vascular endothelial cell proliferation relationship: regulates GO:0101023 ! vascular endothelial cell proliferation created_by: nc creation_date: 2016-10-17T09:24:17Z [Term] id: GO:1905563 name: negative regulation of vascular endothelial cell proliferation namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of vascular endothelial cell proliferation." [GO_REF:0000058, GOC:BHF, GOC:BHF_telomere, GOC:nc, GOC:TermGenie, PMID:23201774] synonym: "down regulation of vascular endothelial cell proliferation" EXACT [GOC:TermGenie] synonym: "down-regulation of vascular endothelial cell proliferation" EXACT [GOC:TermGenie] synonym: "downregulation of vascular endothelial cell proliferation" EXACT [GOC:TermGenie] synonym: "inhibition of vascular endothelial cell proliferation" NARROW [GOC:TermGenie] is_a: GO:0001937 ! negative regulation of endothelial cell proliferation is_a: GO:1905562 ! regulation of vascular endothelial cell proliferation intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0101023 ! vascular endothelial cell proliferation relationship: negatively_regulates GO:0101023 ! vascular endothelial cell proliferation created_by: nc creation_date: 2016-10-17T09:24:26Z [Term] id: GO:1905564 name: positive regulation of vascular endothelial cell proliferation namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of vascular endothelial cell proliferation." [GO_REF:0000058, GOC:BHF, GOC:BHF_telomere, GOC:nc, GOC:TermGenie, PMID:23201774] synonym: "activation of vascular endothelial cell proliferation" NARROW [GOC:TermGenie] synonym: "up regulation of vascular endothelial cell proliferation" EXACT [GOC:TermGenie] synonym: "up-regulation of vascular endothelial cell proliferation" EXACT [GOC:TermGenie] synonym: "upregulation of vascular endothelial cell proliferation" EXACT [GOC:TermGenie] is_a: GO:0001938 ! positive regulation of endothelial cell proliferation is_a: GO:1905562 ! regulation of vascular endothelial cell proliferation intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0101023 ! vascular endothelial cell proliferation relationship: positively_regulates GO:0101023 ! vascular endothelial cell proliferation created_by: nc creation_date: 2016-10-17T09:24:35Z [Term] id: GO:1905606 name: regulation of presynapse assembly namespace: biological_process def: "Any process that modulates the frequency, rate or extent of presynapse assembly." [GO_REF:0000058, GOC:bc, GOC:PARL, GOC:TermGenie, PMID:25533483] subset: goslim_synapse synonym: "regulation of presynapse biogenesis" EXACT [GOC:TermGenie] synonym: "regulation of presynaptic terminal assembly" EXACT [GOC:TermGenie] is_a: GO:0051963 ! regulation of synapse assembly is_a: GO:0099174 ! regulation of presynapse organization intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0099054 ! presynapse assembly relationship: regulates GO:0099054 ! presynapse assembly created_by: bc creation_date: 2016-10-27T16:08:13Z [Term] id: GO:1905607 name: negative regulation of presynapse assembly namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of presynapse assembly." [GO_REF:0000058, GOC:bc, GOC:PARL, GOC:TermGenie, PMID:25533483] synonym: "down regulation of presynapse assembly" EXACT [GOC:TermGenie] synonym: "down regulation of presynapse biogenesis" EXACT [GOC:TermGenie] synonym: "down regulation of presynaptic terminal assembly" EXACT [GOC:TermGenie] synonym: "down-regulation of presynapse assembly" EXACT [GOC:TermGenie] synonym: "down-regulation of presynapse biogenesis" EXACT [GOC:TermGenie] synonym: "down-regulation of presynaptic terminal assembly" EXACT [GOC:TermGenie] synonym: "downregulation of presynapse assembly" EXACT [GOC:TermGenie] synonym: "downregulation of presynapse biogenesis" EXACT [GOC:TermGenie] synonym: "downregulation of presynaptic terminal assembly" EXACT [GOC:TermGenie] synonym: "inhibition of presynapse assembly" NARROW [GOC:TermGenie] synonym: "inhibition of presynapse biogenesis" NARROW [GOC:TermGenie] synonym: "inhibition of presynaptic terminal assembly" NARROW [GOC:TermGenie] synonym: "negative regulation of presynapse biogenesis" EXACT [GOC:TermGenie] synonym: "negative regulation of presynaptic terminal assembly" EXACT [GOC:TermGenie] is_a: GO:0051964 ! negative regulation of synapse assembly is_a: GO:1905606 ! regulation of presynapse assembly intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0099054 ! presynapse assembly relationship: negatively_regulates GO:0099054 ! presynapse assembly created_by: bc creation_date: 2016-10-27T16:08:20Z [Term] id: GO:1905608 name: positive regulation of presynapse assembly namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of presynapse assembly." [GO_REF:0000058, GOC:bc, GOC:PARL, GOC:TermGenie, PMID:25533483] synonym: "activation of presynapse assembly" NARROW [GOC:TermGenie] synonym: "activation of presynapse biogenesis" NARROW [GOC:TermGenie] synonym: "activation of presynaptic terminal assembly" NARROW [GOC:TermGenie] synonym: "positive regulation of presynapse biogenesis" EXACT [GOC:TermGenie] synonym: "positive regulation of presynaptic terminal assembly" EXACT [GOC:TermGenie] synonym: "up regulation of presynapse assembly" EXACT [GOC:TermGenie] synonym: "up regulation of presynapse biogenesis" EXACT [GOC:TermGenie] synonym: "up regulation of presynaptic terminal assembly" EXACT [GOC:TermGenie] synonym: "up-regulation of presynapse assembly" EXACT [GOC:TermGenie] synonym: "up-regulation of presynapse biogenesis" EXACT [GOC:TermGenie] synonym: "up-regulation of presynaptic terminal assembly" EXACT [GOC:TermGenie] synonym: "upregulation of presynapse assembly" EXACT [GOC:TermGenie] synonym: "upregulation of presynapse biogenesis" EXACT [GOC:TermGenie] synonym: "upregulation of presynaptic terminal assembly" EXACT [GOC:TermGenie] is_a: GO:0051130 ! positive regulation of cellular component organization is_a: GO:1905606 ! regulation of presynapse assembly intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0099054 ! presynapse assembly relationship: positively_regulates GO:0099054 ! presynapse assembly created_by: bc creation_date: 2016-10-27T16:08:28Z [Term] id: GO:1905627 name: regulation of serotonin biosynthetic process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of serotonin biosynthetic process." [GO_REF:0000058, GOC:pad, GOC:PARL, GOC:TermGenie, PMID:25642596] synonym: "regulation of serotonin anabolism" EXACT [GOC:TermGenie] synonym: "regulation of serotonin biosynthesis" EXACT [GOC:TermGenie] synonym: "regulation of serotonin formation" EXACT [GOC:TermGenie] synonym: "regulation of serotonin synthesis" EXACT [GOC:TermGenie] is_a: GO:0009889 ! regulation of biosynthetic process is_a: GO:0031323 ! regulation of cellular metabolic process is_a: GO:0051171 ! regulation of nitrogen compound metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0042427 ! serotonin biosynthetic process relationship: regulates GO:0042427 ! serotonin biosynthetic process created_by: pad creation_date: 2016-10-31T14:26:20Z [Term] id: GO:1905628 name: negative regulation of serotonin biosynthetic process namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of serotonin biosynthetic process." [GO_REF:0000058, GOC:pad, GOC:PARL, GOC:TermGenie, PMID:25642596] synonym: "down regulation of serotonin anabolism" EXACT [GOC:TermGenie] synonym: "down regulation of serotonin biosynthesis" EXACT [GOC:TermGenie] synonym: "down regulation of serotonin biosynthetic process" EXACT [GOC:TermGenie] synonym: "down regulation of serotonin formation" EXACT [GOC:TermGenie] synonym: "down regulation of serotonin synthesis" EXACT [GOC:TermGenie] synonym: "down-regulation of serotonin anabolism" EXACT [GOC:TermGenie] synonym: "down-regulation of serotonin biosynthesis" EXACT [GOC:TermGenie] synonym: "down-regulation of serotonin biosynthetic process" EXACT [GOC:TermGenie] synonym: "down-regulation of serotonin formation" EXACT [GOC:TermGenie] synonym: "down-regulation of serotonin synthesis" EXACT [GOC:TermGenie] synonym: "downregulation of serotonin anabolism" EXACT [GOC:TermGenie] synonym: "downregulation of serotonin biosynthesis" EXACT [GOC:TermGenie] synonym: "downregulation of serotonin biosynthetic process" EXACT [GOC:TermGenie] synonym: "downregulation of serotonin formation" EXACT [GOC:TermGenie] synonym: "downregulation of serotonin synthesis" EXACT [GOC:TermGenie] synonym: "inhibition of serotonin anabolism" NARROW [GOC:TermGenie] synonym: "inhibition of serotonin biosynthesis" NARROW [GOC:TermGenie] synonym: "inhibition of serotonin biosynthetic process" NARROW [GOC:TermGenie] synonym: "inhibition of serotonin formation" NARROW [GOC:TermGenie] synonym: "inhibition of serotonin synthesis" NARROW [GOC:TermGenie] synonym: "negative regulation of serotonin anabolism" EXACT [GOC:TermGenie] synonym: "negative regulation of serotonin biosynthesis" EXACT [GOC:TermGenie] synonym: "negative regulation of serotonin formation" EXACT [GOC:TermGenie] synonym: "negative regulation of serotonin synthesis" EXACT [GOC:TermGenie] is_a: GO:0009890 ! negative regulation of biosynthetic process is_a: GO:0031324 ! negative regulation of cellular metabolic process is_a: GO:0051172 ! negative regulation of nitrogen compound metabolic process is_a: GO:1905627 ! regulation of serotonin biosynthetic process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0042427 ! serotonin biosynthetic process relationship: negatively_regulates GO:0042427 ! serotonin biosynthetic process created_by: pad creation_date: 2016-10-31T14:26:28Z [Term] id: GO:1905629 name: positive regulation of serotonin biosynthetic process namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of serotonin biosynthetic process." [GO_REF:0000058, GOC:pad, GOC:PARL, GOC:TermGenie, PMID:25642596] synonym: "activation of serotonin anabolism" NARROW [GOC:TermGenie] synonym: "activation of serotonin biosynthesis" NARROW [GOC:TermGenie] synonym: "activation of serotonin biosynthetic process" NARROW [GOC:TermGenie] synonym: "activation of serotonin formation" NARROW [GOC:TermGenie] synonym: "activation of serotonin synthesis" NARROW [GOC:TermGenie] synonym: "positive regulation of serotonin anabolism" EXACT [GOC:TermGenie] synonym: "positive regulation of serotonin biosynthesis" EXACT [GOC:TermGenie] synonym: "positive regulation of serotonin formation" EXACT [GOC:TermGenie] synonym: "positive regulation of serotonin synthesis" EXACT [GOC:TermGenie] synonym: "up regulation of serotonin anabolism" EXACT [GOC:TermGenie] synonym: "up regulation of serotonin biosynthesis" EXACT [GOC:TermGenie] synonym: "up regulation of serotonin biosynthetic process" EXACT [GOC:TermGenie] synonym: "up regulation of serotonin formation" EXACT [GOC:TermGenie] synonym: "up regulation of serotonin synthesis" EXACT [GOC:TermGenie] synonym: "up-regulation of serotonin anabolism" EXACT [GOC:TermGenie] synonym: "up-regulation of serotonin biosynthesis" EXACT [GOC:TermGenie] synonym: "up-regulation of serotonin biosynthetic process" EXACT [GOC:TermGenie] synonym: "up-regulation of serotonin formation" EXACT [GOC:TermGenie] synonym: "up-regulation of serotonin synthesis" EXACT [GOC:TermGenie] synonym: "upregulation of serotonin anabolism" EXACT [GOC:TermGenie] synonym: "upregulation of serotonin biosynthesis" EXACT [GOC:TermGenie] synonym: "upregulation of serotonin biosynthetic process" EXACT [GOC:TermGenie] synonym: "upregulation of serotonin formation" EXACT [GOC:TermGenie] synonym: "upregulation of serotonin synthesis" EXACT [GOC:TermGenie] is_a: GO:0009891 ! positive regulation of biosynthetic process is_a: GO:0031325 ! positive regulation of cellular metabolic process is_a: GO:0051173 ! positive regulation of nitrogen compound metabolic process is_a: GO:1905627 ! regulation of serotonin biosynthetic process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0042427 ! serotonin biosynthetic process relationship: positively_regulates GO:0042427 ! serotonin biosynthetic process created_by: pad creation_date: 2016-10-31T14:26:36Z [Term] id: GO:1905634 name: regulation of protein localization to chromatin namespace: biological_process def: "Any process that modulates the frequency, rate or extent of protein localization to chromatin." [GO_REF:0000058, GOC:TermGenie, PMID:20889714] synonym: "regulation of protein localisation to chromatin" EXACT [GOC:TermGenie] is_a: GO:0032880 ! regulation of protein localization is_a: GO:0060341 ! regulation of cellular localization intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0071168 ! protein localization to chromatin relationship: regulates GO:0071168 ! protein localization to chromatin created_by: pga creation_date: 2016-11-01T16:33:52Z [Term] id: GO:1905651 name: regulation of artery morphogenesis namespace: biological_process def: "Any process that modulates the frequency, rate or extent of artery morphogenesis." [GO_REF:0000058, GOC:BHF, GOC:BHF_miRNA, GOC:rph, GOC:TermGenie, PMID:27389411] synonym: "regulation of arterial morphogenesis" EXACT [GOC:TermGenie] synonym: "regulation of arteriogenesis" EXACT [GOC:TermGenie] is_a: GO:0022603 ! regulation of anatomical structure morphogenesis intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0048844 ! artery morphogenesis relationship: regulates GO:0048844 ! artery morphogenesis created_by: rph creation_date: 2016-11-09T12:19:37Z [Term] id: GO:1905652 name: negative regulation of artery morphogenesis namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of artery morphogenesis." [GO_REF:0000058, GOC:BHF, GOC:BHF_miRNA, GOC:rph, GOC:TermGenie, PMID:27389411] synonym: "down regulation of arterial morphogenesis" EXACT [GOC:TermGenie] synonym: "down regulation of arteriogenesis" EXACT [GOC:TermGenie] synonym: "down regulation of artery morphogenesis" EXACT [GOC:TermGenie] synonym: "down-regulation of arterial morphogenesis" EXACT [GOC:TermGenie] synonym: "down-regulation of arteriogenesis" EXACT [GOC:TermGenie] synonym: "down-regulation of artery morphogenesis" EXACT [GOC:TermGenie] synonym: "downregulation of arterial morphogenesis" EXACT [GOC:TermGenie] synonym: "downregulation of arteriogenesis" EXACT [GOC:TermGenie] synonym: "downregulation of artery morphogenesis" EXACT [GOC:TermGenie] synonym: "inhibition of arterial morphogenesis" NARROW [GOC:TermGenie] synonym: "inhibition of arteriogenesis" NARROW [GOC:TermGenie] synonym: "inhibition of artery morphogenesis" NARROW [GOC:TermGenie] synonym: "negative regulation of arterial morphogenesis" EXACT [GOC:TermGenie] synonym: "negative regulation of arteriogenesis" EXACT [GOC:TermGenie] is_a: GO:1905651 ! regulation of artery morphogenesis is_a: GO:2000181 ! negative regulation of blood vessel morphogenesis intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0048844 ! artery morphogenesis relationship: negatively_regulates GO:0048844 ! artery morphogenesis created_by: rph creation_date: 2016-11-09T12:19:53Z [Term] id: GO:1905653 name: positive regulation of artery morphogenesis namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of artery morphogenesis." [GO_REF:0000058, GOC:BHF, GOC:BHF_miRNA, GOC:rph, GOC:TermGenie, PMID:27389411] synonym: "activation of arterial morphogenesis" NARROW [GOC:TermGenie] synonym: "activation of arteriogenesis" NARROW [GOC:TermGenie] synonym: "activation of artery morphogenesis" NARROW [GOC:TermGenie] synonym: "positive regulation of arterial morphogenesis" EXACT [GOC:TermGenie] synonym: "positive regulation of arteriogenesis" EXACT [GOC:TermGenie] synonym: "up regulation of arterial morphogenesis" EXACT [GOC:TermGenie] synonym: "up regulation of arteriogenesis" EXACT [GOC:TermGenie] synonym: "up regulation of artery morphogenesis" EXACT [GOC:TermGenie] synonym: "up-regulation of arterial morphogenesis" EXACT [GOC:TermGenie] synonym: "up-regulation of arteriogenesis" EXACT [GOC:TermGenie] synonym: "up-regulation of artery morphogenesis" EXACT [GOC:TermGenie] synonym: "upregulation of arterial morphogenesis" EXACT [GOC:TermGenie] synonym: "upregulation of arteriogenesis" EXACT [GOC:TermGenie] synonym: "upregulation of artery morphogenesis" EXACT [GOC:TermGenie] is_a: GO:0051094 ! positive regulation of developmental process is_a: GO:1905651 ! regulation of artery morphogenesis intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0048844 ! artery morphogenesis relationship: positively_regulates GO:0048844 ! artery morphogenesis created_by: rph creation_date: 2016-11-09T12:20:01Z [Term] id: GO:1905690 name: nucleus disassembly namespace: biological_process def: "The disaggregation of a nucleus into its constituent components." [GO_REF:0000079, GOC:autophagy, GOC:pr, GOC:TermGenie] synonym: "cell nucleus disassembly" EXACT [GOC:TermGenie] is_a: GO:0006997 ! nucleus organization is_a: GO:1903008 ! organelle disassembly intersection_of: GO:0022411 ! cellular component disassembly intersection_of: results_in_disassembly_of GO:0005634 ! nucleus relationship: results_in_disassembly_of GO:0005634 ! nucleus created_by: pr creation_date: 2016-11-14T13:38:57Z [Term] id: GO:1905720 name: cytoplasmic microtubule bundle namespace: cellular_component def: "Any microtubule bundle that is part of a cytoplasm." [GO_REF:0000064, GOC:TermGenie, PMID:11007487, PMID:26124291] synonym: "microtubule bundle of cytoplasm" EXACT [GOC:TermGenie] synonym: "microtubule fascicle of cytoplasm" EXACT [GOC:TermGenie] is_a: GO:0097427 ! microtubule bundle intersection_of: GO:0097427 ! microtubule bundle intersection_of: part_of GO:0005737 ! cytoplasm relationship: part_of GO:0005737 ! cytoplasm created_by: mah creation_date: 2016-11-24T16:52:02Z [Term] id: GO:1905755 name: protein localization to cytoplasmic microtubule namespace: biological_process def: "A process in which a protein is transported to, or maintained in, a location within a cytoplasmic microtubule." [GO_REF:0000087, GOC:TermGenie, PMID:15177031] synonym: "protein localisation to cytoplasmic microtubule" EXACT [GOC:TermGenie] is_a: GO:0035372 ! protein localization to microtubule intersection_of: GO:0008104 ! protein localization intersection_of: has_target_end_location GO:0005881 ! cytoplasmic microtubule relationship: has_target_end_location GO:0005881 ! cytoplasmic microtubule created_by: mah creation_date: 2016-12-12T15:31:07Z [Term] id: GO:1905770 name: regulation of mesodermal cell differentiation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of mesodermal cell differentiation." [GO_REF:0000058, GOC:BHF, GOC:BHF_miRNA, GOC:rph, GOC:TermGenie, PMID:23765923] synonym: "regulation of mesoderm cell differentiation" EXACT [GOC:TermGenie] is_a: GO:0045595 ! regulation of cell differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0048333 ! mesodermal cell differentiation relationship: regulates GO:0048333 ! mesodermal cell differentiation created_by: rph creation_date: 2016-12-21T12:44:13Z [Term] id: GO:1905771 name: negative regulation of mesodermal cell differentiation namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of mesodermal cell differentiation." [GO_REF:0000058, GOC:BHF, GOC:BHF_miRNA, GOC:rph, GOC:TermGenie, PMID:23765923] synonym: "down regulation of mesoderm cell differentiation" EXACT [GOC:TermGenie] synonym: "down regulation of mesodermal cell differentiation" EXACT [GOC:TermGenie] synonym: "down-regulation of mesoderm cell differentiation" EXACT [GOC:TermGenie] synonym: "down-regulation of mesodermal cell differentiation" EXACT [GOC:TermGenie] synonym: "downregulation of mesoderm cell differentiation" EXACT [GOC:TermGenie] synonym: "downregulation of mesodermal cell differentiation" EXACT [GOC:TermGenie] synonym: "inhibition of mesoderm cell differentiation" NARROW [GOC:TermGenie] synonym: "inhibition of mesodermal cell differentiation" NARROW [GOC:TermGenie] synonym: "negative regulation of mesoderm cell differentiation" EXACT [GOC:TermGenie] is_a: GO:0045596 ! negative regulation of cell differentiation is_a: GO:1905770 ! regulation of mesodermal cell differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0048333 ! mesodermal cell differentiation relationship: negatively_regulates GO:0048333 ! mesodermal cell differentiation created_by: rph creation_date: 2016-12-21T12:44:23Z [Term] id: GO:1905772 name: positive regulation of mesodermal cell differentiation namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of mesodermal cell differentiation." [GO_REF:0000058, GOC:BHF, GOC:BHF_miRNA, GOC:rph, GOC:TermGenie, PMID:23765923] synonym: "activation of mesoderm cell differentiation" NARROW [GOC:TermGenie] synonym: "activation of mesodermal cell differentiation" NARROW [GOC:TermGenie] synonym: "positive regulation of mesoderm cell differentiation" EXACT [GOC:TermGenie] synonym: "up regulation of mesoderm cell differentiation" EXACT [GOC:TermGenie] synonym: "up regulation of mesodermal cell differentiation" EXACT [GOC:TermGenie] synonym: "up-regulation of mesoderm cell differentiation" EXACT [GOC:TermGenie] synonym: "up-regulation of mesodermal cell differentiation" EXACT [GOC:TermGenie] synonym: "upregulation of mesoderm cell differentiation" EXACT [GOC:TermGenie] synonym: "upregulation of mesodermal cell differentiation" EXACT [GOC:TermGenie] is_a: GO:0045597 ! positive regulation of cell differentiation is_a: GO:1905770 ! regulation of mesodermal cell differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0048333 ! mesodermal cell differentiation relationship: positively_regulates GO:0048333 ! mesodermal cell differentiation created_by: rph creation_date: 2016-12-21T12:44:32Z [Term] id: GO:1905806 name: regulation of synapse pruning namespace: biological_process def: "Any process that modulates the frequency, rate or extent of synapse pruning." [GO_REF:0000058, GOC:TermGenie, PMID:27779093] subset: goslim_synapse synonym: "regulation of synapse clearance" EXACT [] synonym: "regulation of synapse disassembly" EXACT syngo_official_label [] synonym: "regulation of synapse elimination" EXACT [] synonym: "regulation of synapse removal" EXACT [] is_a: GO:0050807 ! regulation of synapse organization intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0098883 ! synapse pruning relationship: regulates GO:0098883 ! synapse pruning created_by: tb creation_date: 2017-01-11T22:03:15Z [Term] id: GO:1905807 name: negative regulation of synapse pruning namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of synapse pruning." [GO_REF:0000058, GOC:TermGenie, PMID:27779093] synonym: "down regulation of synapse disassembly" EXACT [GOC:TermGenie] synonym: "down-regulation of synapse disassembly" EXACT [GOC:TermGenie] synonym: "downregulation of synapse disassembly" EXACT [GOC:TermGenie] synonym: "inhibition of synapse disassembly" NARROW [GOC:TermGenie] synonym: "regulation of synapse clearance" BROAD [] synonym: "regulation of synapse disassembly" BROAD [] synonym: "regulation of synapse elimination" BROAD [] synonym: "regulation of synapse removal" BROAD [] is_a: GO:1905806 ! regulation of synapse pruning is_a: GO:1905809 ! negative regulation of synapse organization intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0098883 ! synapse pruning relationship: negatively_regulates GO:0098883 ! synapse pruning created_by: tb creation_date: 2017-01-11T22:03:24Z [Term] id: GO:1905808 name: positive regulation of synapse pruning namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of synapse pruning." [GO_REF:0000058, GOC:TermGenie, PMID:27779093] synonym: "activation of synapse disassembly" NARROW [GOC:TermGenie] synonym: "regulation of synapse clearance" BROAD [] synonym: "regulation of synapse disassembly" BROAD [] synonym: "regulation of synapse elimination" BROAD [] synonym: "regulation of synapse removal" BROAD [] synonym: "up regulation of synapse disassembly" EXACT [GOC:TermGenie] synonym: "up-regulation of synapse disassembly" EXACT [GOC:TermGenie] synonym: "upregulation of synapse disassembly" EXACT [GOC:TermGenie] is_a: GO:0051130 ! positive regulation of cellular component organization is_a: GO:1905806 ! regulation of synapse pruning intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0098883 ! synapse pruning relationship: positively_regulates GO:0098883 ! synapse pruning created_by: tb creation_date: 2017-01-11T22:03:33Z [Term] id: GO:1905809 name: negative regulation of synapse organization namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of synapse organization." [GO_REF:0000058, GOC:TermGenie, PMID:27779093] synonym: "down regulation of synapse development" EXACT [GOC:TermGenie] synonym: "down regulation of synapse morphogenesis" RELATED [GOC:TermGenie] synonym: "down regulation of synapse organisation" EXACT [GOC:TermGenie] synonym: "down regulation of synapse organization" EXACT [GOC:TermGenie] synonym: "down regulation of synapse organization and biogenesis" RELATED [GOC:TermGenie] synonym: "down-regulation of synapse development" EXACT [GOC:TermGenie] synonym: "down-regulation of synapse morphogenesis" RELATED [GOC:TermGenie] synonym: "down-regulation of synapse organisation" EXACT [GOC:TermGenie] synonym: "down-regulation of synapse organization" EXACT [GOC:TermGenie] synonym: "down-regulation of synapse organization and biogenesis" RELATED [GOC:TermGenie] synonym: "downregulation of synapse development" EXACT [GOC:TermGenie] synonym: "downregulation of synapse morphogenesis" RELATED [GOC:TermGenie] synonym: "downregulation of synapse organisation" EXACT [GOC:TermGenie] synonym: "downregulation of synapse organization" EXACT [GOC:TermGenie] synonym: "downregulation of synapse organization and biogenesis" RELATED [GOC:TermGenie] synonym: "inhibition of synapse development" NARROW [GOC:TermGenie] synonym: "inhibition of synapse morphogenesis" RELATED [GOC:TermGenie] synonym: "inhibition of synapse organisation" NARROW [GOC:TermGenie] synonym: "inhibition of synapse organization" NARROW [GOC:TermGenie] synonym: "inhibition of synapse organization and biogenesis" RELATED [GOC:TermGenie] synonym: "negative regulation of synapse development" EXACT [GOC:TermGenie] synonym: "negative regulation of synapse morphogenesis" RELATED [GOC:TermGenie] synonym: "negative regulation of synapse organisation" EXACT [GOC:TermGenie] synonym: "negative regulation of synapse organization and biogenesis" RELATED [GOC:TermGenie] is_a: GO:0050807 ! regulation of synapse organization is_a: GO:0051129 ! negative regulation of cellular component organization intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0050808 ! synapse organization relationship: negatively_regulates GO:0050808 ! synapse organization created_by: tb creation_date: 2017-01-11T22:03:41Z [Term] id: GO:1905821 name: positive regulation of chromosome condensation namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of chromosome condensation." [GO_REF:0000058, GOC:bhm, GOC:TermGenie, PMID:17268547] synonym: "activation of chromosome condensation" NARROW [GOC:TermGenie] synonym: "activation of eukaryotic chromosome condensation" NARROW [GOC:TermGenie] synonym: "activation of nuclear chromosome condensation" NARROW [GOC:TermGenie] synonym: "positive regulation of eukaryotic chromosome condensation" EXACT [GOC:TermGenie] synonym: "positive regulation of nuclear chromosome condensation" EXACT [GOC:TermGenie] synonym: "up regulation of chromosome condensation" EXACT [GOC:TermGenie] synonym: "up regulation of eukaryotic chromosome condensation" EXACT [GOC:TermGenie] synonym: "up regulation of nuclear chromosome condensation" EXACT [GOC:TermGenie] synonym: "up-regulation of chromosome condensation" EXACT [GOC:TermGenie] synonym: "up-regulation of eukaryotic chromosome condensation" EXACT [GOC:TermGenie] synonym: "up-regulation of nuclear chromosome condensation" EXACT [GOC:TermGenie] synonym: "upregulation of chromosome condensation" EXACT [GOC:TermGenie] synonym: "upregulation of eukaryotic chromosome condensation" EXACT [GOC:TermGenie] synonym: "upregulation of nuclear chromosome condensation" EXACT [GOC:TermGenie] is_a: GO:0060623 ! regulation of chromosome condensation is_a: GO:2001252 ! positive regulation of chromosome organization intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0030261 ! chromosome condensation relationship: positively_regulates GO:0030261 ! chromosome condensation created_by: bhm creation_date: 2017-01-13T14:13:44Z [Term] id: GO:1905833 name: negative regulation of microtubule nucleation namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of microtubule nucleation." [GO_REF:0000058, GOC:TermGenie, PMID:27689799] synonym: "down regulation of microtubule nucleation" EXACT [GOC:TermGenie] synonym: "down-regulation of microtubule nucleation" EXACT [GOC:TermGenie] synonym: "downregulation of microtubule nucleation" EXACT [GOC:TermGenie] synonym: "inhibition of microtubule nucleation" NARROW [GOC:TermGenie] is_a: GO:0010968 ! regulation of microtubule nucleation is_a: GO:0031115 ! negative regulation of microtubule polymerization intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0007020 ! microtubule nucleation relationship: negatively_regulates GO:0007020 ! microtubule nucleation created_by: hbye creation_date: 2017-01-17T12:00:56Z [Term] id: GO:1905871 name: regulation of protein localization to cell leading edge namespace: biological_process def: "Any process that modulates the frequency, rate or extent of protein localization to cell leading edge." [GO_REF:0000058, GOC:TermGenie, PMID:26324884] synonym: "regulation of protein localisation in cell leading edge" EXACT [GOC:TermGenie] synonym: "regulation of protein localisation to cell leading edge" EXACT [GOC:TermGenie] synonym: "regulation of protein localization in cell leading edge" EXACT [GOC:TermGenie] is_a: GO:0032880 ! regulation of protein localization is_a: GO:0060341 ! regulation of cellular localization intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:1902463 ! protein localization to cell leading edge relationship: regulates GO:1902463 ! protein localization to cell leading edge created_by: sl creation_date: 2017-01-27T19:34:55Z [Term] id: GO:1905872 name: negative regulation of protein localization to cell leading edge namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of protein localization to cell leading edge." [GO_REF:0000058, GOC:TermGenie, PMID:26324884] synonym: "down regulation of protein localisation in cell leading edge" EXACT [GOC:TermGenie] synonym: "down regulation of protein localisation to cell leading edge" EXACT [GOC:TermGenie] synonym: "down regulation of protein localization in cell leading edge" EXACT [GOC:TermGenie] synonym: "down regulation of protein localization to cell leading edge" EXACT [GOC:TermGenie] synonym: "down-regulation of protein localisation in cell leading edge" EXACT [GOC:TermGenie] synonym: "down-regulation of protein localisation to cell leading edge" EXACT [GOC:TermGenie] synonym: "down-regulation of protein localization in cell leading edge" EXACT [GOC:TermGenie] synonym: "down-regulation of protein localization to cell leading edge" EXACT [GOC:TermGenie] synonym: "downregulation of protein localisation in cell leading edge" EXACT [GOC:TermGenie] synonym: "downregulation of protein localisation to cell leading edge" EXACT [GOC:TermGenie] synonym: "downregulation of protein localization in cell leading edge" EXACT [GOC:TermGenie] synonym: "downregulation of protein localization to cell leading edge" EXACT [GOC:TermGenie] synonym: "inhibition of protein localisation in cell leading edge" NARROW [GOC:TermGenie] synonym: "inhibition of protein localisation to cell leading edge" NARROW [GOC:TermGenie] synonym: "inhibition of protein localization in cell leading edge" NARROW [GOC:TermGenie] synonym: "inhibition of protein localization to cell leading edge" NARROW [GOC:TermGenie] synonym: "negative regulation of protein localisation in cell leading edge" EXACT [GOC:TermGenie] synonym: "negative regulation of protein localisation to cell leading edge" EXACT [GOC:TermGenie] synonym: "negative regulation of protein localization in cell leading edge" EXACT [GOC:TermGenie] is_a: GO:0048523 ! negative regulation of cellular process is_a: GO:1903828 ! negative regulation of protein localization is_a: GO:1905871 ! regulation of protein localization to cell leading edge intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:1902463 ! protein localization to cell leading edge relationship: negatively_regulates GO:1902463 ! protein localization to cell leading edge created_by: sl creation_date: 2017-01-27T19:35:04Z [Term] id: GO:1905873 name: positive regulation of protein localization to cell leading edge namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of protein localization to cell leading edge." [GO_REF:0000058, GOC:TermGenie, PMID:26324884] synonym: "activation of protein localisation in cell leading edge" NARROW [GOC:TermGenie] synonym: "activation of protein localisation to cell leading edge" NARROW [GOC:TermGenie] synonym: "activation of protein localization in cell leading edge" NARROW [GOC:TermGenie] synonym: "activation of protein localization to cell leading edge" NARROW [GOC:TermGenie] synonym: "positive regulation of protein localisation in cell leading edge" EXACT [GOC:TermGenie] synonym: "positive regulation of protein localisation to cell leading edge" EXACT [GOC:TermGenie] synonym: "positive regulation of protein localization in cell leading edge" EXACT [GOC:TermGenie] synonym: "up regulation of protein localisation in cell leading edge" EXACT [GOC:TermGenie] synonym: "up regulation of protein localisation to cell leading edge" EXACT [GOC:TermGenie] synonym: "up regulation of protein localization in cell leading edge" EXACT [GOC:TermGenie] synonym: "up regulation of protein localization to cell leading edge" EXACT [GOC:TermGenie] synonym: "up-regulation of protein localisation in cell leading edge" EXACT [GOC:TermGenie] synonym: "up-regulation of protein localisation to cell leading edge" EXACT [GOC:TermGenie] synonym: "up-regulation of protein localization in cell leading edge" EXACT [GOC:TermGenie] synonym: "up-regulation of protein localization to cell leading edge" EXACT [GOC:TermGenie] synonym: "upregulation of protein localisation in cell leading edge" EXACT [GOC:TermGenie] synonym: "upregulation of protein localisation to cell leading edge" EXACT [GOC:TermGenie] synonym: "upregulation of protein localization in cell leading edge" EXACT [GOC:TermGenie] synonym: "upregulation of protein localization to cell leading edge" EXACT [GOC:TermGenie] is_a: GO:0048522 ! positive regulation of cellular process is_a: GO:1903829 ! positive regulation of protein localization is_a: GO:1905871 ! regulation of protein localization to cell leading edge intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:1902463 ! protein localization to cell leading edge relationship: positively_regulates GO:1902463 ! protein localization to cell leading edge created_by: sl creation_date: 2017-01-27T19:35:13Z [Term] id: GO:1905899 name: regulation of smooth muscle tissue development namespace: biological_process def: "Any process that modulates the frequency, rate or extent of smooth muscle tissue development." [GO_REF:0000058, GOC:bhm, GOC:TermGenie, PMID:14709716] is_a: GO:1901861 ! regulation of muscle tissue development intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0048745 ! smooth muscle tissue development relationship: regulates GO:0048745 ! smooth muscle tissue development created_by: bhm creation_date: 2017-02-01T14:31:16Z [Term] id: GO:1905900 name: negative regulation of smooth muscle tissue development namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of smooth muscle tissue development." [GO_REF:0000058, GOC:bhm, GOC:TermGenie, PMID:14709716] synonym: "down regulation of smooth muscle tissue development" EXACT [GOC:TermGenie] synonym: "down-regulation of smooth muscle tissue development" EXACT [GOC:TermGenie] synonym: "downregulation of smooth muscle tissue development" EXACT [GOC:TermGenie] synonym: "inhibition of smooth muscle tissue development" NARROW [GOC:TermGenie] is_a: GO:1901862 ! negative regulation of muscle tissue development is_a: GO:1905899 ! regulation of smooth muscle tissue development intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0048745 ! smooth muscle tissue development relationship: negatively_regulates GO:0048745 ! smooth muscle tissue development created_by: bhm creation_date: 2017-02-01T14:31:24Z [Term] id: GO:1905901 name: positive regulation of smooth muscle tissue development namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of smooth muscle tissue development." [GO_REF:0000058, GOC:bhm, GOC:TermGenie, PMID:14709716] synonym: "activation of smooth muscle tissue development" NARROW [GOC:TermGenie] synonym: "up regulation of smooth muscle tissue development" EXACT [GOC:TermGenie] synonym: "up-regulation of smooth muscle tissue development" EXACT [GOC:TermGenie] synonym: "upregulation of smooth muscle tissue development" EXACT [GOC:TermGenie] is_a: GO:1901863 ! positive regulation of muscle tissue development is_a: GO:1905899 ! regulation of smooth muscle tissue development intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0048745 ! smooth muscle tissue development relationship: positively_regulates GO:0048745 ! smooth muscle tissue development created_by: bhm creation_date: 2017-02-01T14:31:33Z [Term] id: GO:1905902 name: regulation of mesoderm formation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of mesoderm formation." [GO_REF:0000058, GOC:BHF, GOC:BHF_miRNA, GOC:rph, GOC:TermGenie, PMID:23939491] is_a: GO:0050793 ! regulation of developmental process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0001707 ! mesoderm formation relationship: regulates GO:0001707 ! mesoderm formation created_by: rph creation_date: 2017-02-03T12:28:20Z [Term] id: GO:1905903 name: negative regulation of mesoderm formation namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of mesoderm formation." [GO_REF:0000058, GOC:BHF, GOC:BHF_miRNA, GOC:rph, GOC:TermGenie, PMID:23939491] synonym: "down regulation of mesoderm formation" EXACT [GOC:TermGenie] synonym: "down-regulation of mesoderm formation" EXACT [GOC:TermGenie] synonym: "downregulation of mesoderm formation" EXACT [GOC:TermGenie] synonym: "inhibition of mesoderm formation" NARROW [GOC:TermGenie] is_a: GO:1905902 ! regulation of mesoderm formation is_a: GO:2000381 ! negative regulation of mesoderm development intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0001707 ! mesoderm formation relationship: negatively_regulates GO:0001707 ! mesoderm formation created_by: rph creation_date: 2017-02-03T12:28:29Z [Term] id: GO:1905904 name: positive regulation of mesoderm formation namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of mesoderm formation." [GO_REF:0000058, GOC:BHF, GOC:BHF_miRNA, GOC:rph, GOC:TermGenie, PMID:23939491] synonym: "activation of mesoderm formation" NARROW [GOC:TermGenie] synonym: "up regulation of mesoderm formation" EXACT [GOC:TermGenie] synonym: "up-regulation of mesoderm formation" EXACT [GOC:TermGenie] synonym: "upregulation of mesoderm formation" EXACT [GOC:TermGenie] is_a: GO:1905902 ! regulation of mesoderm formation is_a: GO:2000382 ! positive regulation of mesoderm development intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0001707 ! mesoderm formation relationship: positively_regulates GO:0001707 ! mesoderm formation created_by: rph creation_date: 2017-02-03T12:28:38Z [Term] id: GO:1905905 name: pharyngeal gland morphogenesis namespace: biological_process def: "The developmental process by which a pharyngeal gland is generated and organized." [GO_REF:0000083, GOC:TermGenie, PMID:21868609] synonym: "glandulae pharyngeae morphogenesis" RELATED [GOC:TermGenie] synonym: "pharynx gland morphogenesis" EXACT [GOC:TermGenie] is_a: GO:0022612 ! gland morphogenesis intersection_of: GO:0009653 ! anatomical structure morphogenesis intersection_of: results_in_morphogenesis_of UBERON:0003295 ! pharyngeal gland relationship: results_in_morphogenesis_of UBERON:0003295 ! pharyngeal gland created_by: rz creation_date: 2017-02-03T14:39:10Z [Term] id: GO:1905936 name: regulation of germ cell proliferation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of germ cell proliferation." [GO_REF:0000058, GOC:TermGenie, PMID:15342467] is_a: GO:0042127 ! regulation of cell population proliferation is_a: GO:0051239 ! regulation of multicellular organismal process is_a: GO:2000241 ! regulation of reproductive process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0036093 ! germ cell proliferation relationship: regulates GO:0036093 ! germ cell proliferation created_by: hbye creation_date: 2017-02-09T14:51:31Z [Term] id: GO:1905937 name: negative regulation of germ cell proliferation namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of germ cell proliferation." [GO_REF:0000058, GOC:TermGenie, PMID:15342467] synonym: "down regulation of germ cell proliferation" EXACT [GOC:TermGenie] synonym: "down-regulation of germ cell proliferation" EXACT [GOC:TermGenie] synonym: "downregulation of germ cell proliferation" EXACT [GOC:TermGenie] synonym: "inhibition of germ cell proliferation" NARROW [GOC:TermGenie] is_a: GO:0008285 ! negative regulation of cell population proliferation is_a: GO:0051241 ! negative regulation of multicellular organismal process is_a: GO:1905936 ! regulation of germ cell proliferation is_a: GO:2000242 ! negative regulation of reproductive process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0036093 ! germ cell proliferation relationship: negatively_regulates GO:0036093 ! germ cell proliferation created_by: hbye creation_date: 2017-02-09T14:51:41Z [Term] id: GO:1905938 name: positive regulation of germ cell proliferation namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of germ cell proliferation." [GO_REF:0000058, GOC:TermGenie, PMID:15342467] synonym: "activation of germ cell proliferation" NARROW [GOC:TermGenie] synonym: "up regulation of germ cell proliferation" EXACT [GOC:TermGenie] synonym: "up-regulation of germ cell proliferation" EXACT [GOC:TermGenie] synonym: "upregulation of germ cell proliferation" EXACT [GOC:TermGenie] is_a: GO:0008284 ! positive regulation of cell population proliferation is_a: GO:0051240 ! positive regulation of multicellular organismal process is_a: GO:1905936 ! regulation of germ cell proliferation is_a: GO:2000243 ! positive regulation of reproductive process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0036093 ! germ cell proliferation relationship: positively_regulates GO:0036093 ! germ cell proliferation created_by: hbye creation_date: 2017-02-09T14:51:51Z [Term] id: GO:1905939 name: regulation of gonad development namespace: biological_process def: "Any process that modulates the frequency, rate or extent of gonad development." [GO_REF:0000058, GOC:TermGenie, PMID:15342467] synonym: "regulation of gonadogenesis" EXACT [GOC:TermGenie] is_a: GO:0050793 ! regulation of developmental process is_a: GO:2000241 ! regulation of reproductive process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0008406 ! gonad development relationship: regulates GO:0008406 ! gonad development created_by: hbye creation_date: 2017-02-09T17:01:50Z [Term] id: GO:1905940 name: negative regulation of gonad development namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of gonad development." [GO_REF:0000058, GOC:TermGenie, PMID:15342467] synonym: "down regulation of gonad development" EXACT [GOC:TermGenie] synonym: "down regulation of gonadogenesis" EXACT [GOC:TermGenie] synonym: "down-regulation of gonad development" EXACT [GOC:TermGenie] synonym: "down-regulation of gonadogenesis" EXACT [GOC:TermGenie] synonym: "downregulation of gonad development" EXACT [GOC:TermGenie] synonym: "downregulation of gonadogenesis" EXACT [GOC:TermGenie] synonym: "inhibition of gonad development" NARROW [GOC:TermGenie] synonym: "inhibition of gonadogenesis" NARROW [GOC:TermGenie] synonym: "negative regulation of gonadogenesis" EXACT [GOC:TermGenie] is_a: GO:0051093 ! negative regulation of developmental process is_a: GO:0051241 ! negative regulation of multicellular organismal process is_a: GO:1905939 ! regulation of gonad development is_a: GO:2000242 ! negative regulation of reproductive process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0008406 ! gonad development relationship: negatively_regulates GO:0008406 ! gonad development created_by: hbye creation_date: 2017-02-09T17:01:59Z [Term] id: GO:1905941 name: positive regulation of gonad development namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of gonad development." [GO_REF:0000058, GOC:TermGenie, PMID:15342467] synonym: "activation of gonad development" NARROW [GOC:TermGenie] synonym: "activation of gonadogenesis" NARROW [GOC:TermGenie] synonym: "positive regulation of gonadogenesis" EXACT [GOC:TermGenie] synonym: "up regulation of gonad development" EXACT [GOC:TermGenie] synonym: "up regulation of gonadogenesis" EXACT [GOC:TermGenie] synonym: "up-regulation of gonad development" EXACT [GOC:TermGenie] synonym: "up-regulation of gonadogenesis" EXACT [GOC:TermGenie] synonym: "upregulation of gonad development" EXACT [GOC:TermGenie] synonym: "upregulation of gonadogenesis" EXACT [GOC:TermGenie] is_a: GO:0051094 ! positive regulation of developmental process is_a: GO:0051240 ! positive regulation of multicellular organismal process is_a: GO:1905939 ! regulation of gonad development is_a: GO:2000243 ! positive regulation of reproductive process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0008406 ! gonad development relationship: positively_regulates GO:0008406 ! gonad development created_by: hbye creation_date: 2017-02-09T17:02:08Z [Term] id: GO:1905952 name: regulation of lipid localization namespace: biological_process def: "Any process that modulates the frequency, rate or extent of lipid localization." [GO_REF:0000058, GOC:TermGenie, PMID:17564681] synonym: "regulation of lipid localisation" EXACT [GOC:TermGenie] is_a: GO:0032879 ! regulation of localization intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0010876 ! lipid localization relationship: regulates GO:0010876 ! lipid localization created_by: rz creation_date: 2017-02-21T12:12:22Z [Term] id: GO:1905953 name: negative regulation of lipid localization namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of lipid localization." [GO_REF:0000058, GOC:TermGenie, PMID:17564681] synonym: "down regulation of lipid localisation" EXACT [GOC:TermGenie] synonym: "down regulation of lipid localization" EXACT [GOC:TermGenie] synonym: "down-regulation of lipid localisation" EXACT [GOC:TermGenie] synonym: "down-regulation of lipid localization" EXACT [GOC:TermGenie] synonym: "downregulation of lipid localisation" EXACT [GOC:TermGenie] synonym: "downregulation of lipid localization" EXACT [GOC:TermGenie] synonym: "inhibition of lipid localisation" NARROW [GOC:TermGenie] synonym: "inhibition of lipid localization" NARROW [GOC:TermGenie] synonym: "negative regulation of lipid localisation" EXACT [GOC:TermGenie] is_a: GO:0048519 ! negative regulation of biological process is_a: GO:1905952 ! regulation of lipid localization intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0010876 ! lipid localization relationship: negatively_regulates GO:0010876 ! lipid localization created_by: rz creation_date: 2017-02-21T12:12:41Z [Term] id: GO:1905954 name: positive regulation of lipid localization namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of lipid localization." [GO_REF:0000058, GOC:TermGenie, PMID:17564681] synonym: "activation of lipid localisation" NARROW [GOC:TermGenie] synonym: "activation of lipid localization" NARROW [GOC:TermGenie] synonym: "positive regulation of lipid localisation" EXACT [GOC:TermGenie] synonym: "up regulation of lipid localisation" EXACT [GOC:TermGenie] synonym: "up regulation of lipid localization" EXACT [GOC:TermGenie] synonym: "up-regulation of lipid localisation" EXACT [GOC:TermGenie] synonym: "up-regulation of lipid localization" EXACT [GOC:TermGenie] synonym: "upregulation of lipid localisation" EXACT [GOC:TermGenie] synonym: "upregulation of lipid localization" EXACT [GOC:TermGenie] is_a: GO:0048518 ! positive regulation of biological process is_a: GO:1905952 ! regulation of lipid localization intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0010876 ! lipid localization relationship: positively_regulates GO:0010876 ! lipid localization created_by: rz creation_date: 2017-02-21T12:12:49Z [Term] id: GO:1905955 name: negative regulation of endothelial tube morphogenesis namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of endothelial tube morphogenesis." [GO_REF:0000058, GOC:BHF, GOC:BHF_miRNA, GOC:rph, GOC:TermGenie, PMID:25961718] synonym: "down regulation of endothelial tube morphogenesis" EXACT [GOC:TermGenie] synonym: "down-regulation of endothelial tube morphogenesis" EXACT [GOC:TermGenie] synonym: "downregulation of endothelial tube morphogenesis" EXACT [GOC:TermGenie] synonym: "inhibition of endothelial tube morphogenesis" NARROW [GOC:TermGenie] is_a: GO:0051241 ! negative regulation of multicellular organismal process is_a: GO:1901509 ! regulation of endothelial tube morphogenesis is_a: GO:1905331 ! negative regulation of morphogenesis of an epithelium intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0061154 ! endothelial tube morphogenesis relationship: negatively_regulates GO:0061154 ! endothelial tube morphogenesis created_by: rph creation_date: 2017-02-21T15:17:31Z [Term] id: GO:1905956 name: positive regulation of endothelial tube morphogenesis namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of endothelial tube morphogenesis." [GO_REF:0000058, GOC:BHF, GOC:BHF_miRNA, GOC:rph, GOC:TermGenie, PMID:25961718] synonym: "activation of endothelial tube morphogenesis" NARROW [GOC:TermGenie] synonym: "up regulation of endothelial tube morphogenesis" EXACT [GOC:TermGenie] synonym: "up-regulation of endothelial tube morphogenesis" EXACT [GOC:TermGenie] synonym: "upregulation of endothelial tube morphogenesis" EXACT [GOC:TermGenie] is_a: GO:0051240 ! positive regulation of multicellular organismal process is_a: GO:1901509 ! regulation of endothelial tube morphogenesis is_a: GO:1905332 ! positive regulation of morphogenesis of an epithelium intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0061154 ! endothelial tube morphogenesis relationship: positively_regulates GO:0061154 ! endothelial tube morphogenesis created_by: rph creation_date: 2017-02-21T15:17:39Z [Term] id: GO:1990009 name: retinal cell apoptotic process namespace: biological_process alt_id: GO:0046674 def: "Any apoptotic process in a retinal cell." [GOC:mtg_apoptosis, PMID:15558487, PMID:24664675] synonym: "induction of retinal programmed cell death" RELATED [] is_a: GO:0006915 ! apoptotic process intersection_of: GO:0006915 ! apoptotic process intersection_of: occurs_in CL:0009004 ! retinal cell relationship: occurs_in CL:0009004 ! retinal cell created_by: pr creation_date: 2012-12-12T10:15:08Z [Term] id: GO:1990010 name: compound eye retinal cell apoptotic process namespace: biological_process def: "Any apoptotic process in a compound eye retinal cell." [GOC:mtg_apoptosis, PMID:12021768] is_a: GO:1990009 ! retinal cell apoptotic process intersection_of: GO:0006915 ! apoptotic process intersection_of: occurs_in CL:0009001 ! compound eye retinal cell relationship: occurs_in CL:0009001 ! compound eye retinal cell created_by: pr creation_date: 2012-12-12T10:21:07Z [Term] id: GO:1990104 name: DNA bending complex namespace: cellular_component def: "A protein-DNA complex that contains DNA in combination with a protein which binds to and bends DNA. Often plays a role in DNA compaction." [GOC:bhm, PMID:17097674] synonym: "histone-like DNA binding complex" NARROW [GOC:bhm] is_a: GO:0032991 ! protein-containing complex intersection_of: GO:0032991 ! protein-containing complex intersection_of: capable_of GO:0008301 ! DNA binding, bending relationship: capable_of GO:0008301 ! DNA binding, bending created_by: bhm creation_date: 2013-05-20T09:29:06Z [Term] id: GO:1990182 name: exosomal secretion namespace: biological_process def: "The process whereby a membrane-bounded vesicle is released into the extracellular region by fusion of the limiting endosomal membrane of a multivesicular body with the plasma membrane." [GOC:hjd, PMID:10572093, PMID:12154376, PMID:16773132, PMID:18617898] synonym: "exosomal protein secretion" NARROW [PMID:18617898] synonym: "exosomal secretory pathway" EXACT [PMID:18617898] synonym: "extracellular vesicular exosome secretion" EXACT [GOC:hjd] synonym: "multi-vesicular body fusion with plasma membrane" EXACT [] synonym: "secretion of exosome" EXACT [PMID:18617898] is_a: GO:0006887 ! exocytosis is_a: GO:0051650 ! establishment of vesicle localization intersection_of: GO:0006887 ! exocytosis intersection_of: transports_or_maintains_localization_of GO:0070062 ! extracellular exosome relationship: part_of GO:0097734 ! extracellular exosome biogenesis relationship: transports_or_maintains_localization_of GO:0070062 ! extracellular exosome property_value: RO:0002161 NCBITaxon:4890 created_by: hjd creation_date: 2013-09-04T21:08:14Z [Term] id: GO:1990234 name: transferase complex namespace: cellular_component def: "A protein complex capable of catalyzing the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from one compound (generally regarded as the donor) to another compound (generally regarded as the acceptor)." [GOC:bhm, PMID:16540464] is_a: GO:1902494 ! catalytic complex intersection_of: GO:0032991 ! protein-containing complex intersection_of: capable_of GO:0016740 ! transferase activity relationship: capable_of GO:0016740 ! transferase activity created_by: bhm creation_date: 2013-11-12T13:20:12Z [Term] id: GO:1990239 name: steroid hormone binding namespace: molecular_function def: "Binding to a steroid hormone." [GOC:ln] is_a: GO:0005496 ! steroid binding is_a: GO:0042562 ! hormone binding intersection_of: GO:0005488 ! binding intersection_of: has_input CHEBI:26764 ! steroid hormone relationship: has_input CHEBI:26764 ! steroid hormone created_by: pr creation_date: 2013-11-15T09:26:18Z [Term] id: GO:1990280 name: RNA localization to chromatin namespace: biological_process def: "A process in which RNA is transported to and maintained in a part of a chromosome that is organized into chromatin." [GOC:dos, GOC:mah, PMID:22582262] synonym: "RNA localisation to chromatin" EXACT [] is_a: GO:0006403 ! RNA localization intersection_of: GO:0006403 ! RNA localization intersection_of: has_target_end_location GO:0000785 ! chromatin relationship: has_target_end_location GO:0000785 ! chromatin created_by: mah creation_date: 2014-01-30T15:55:34Z [Term] id: GO:1990768 name: gastric mucosal blood circulation namespace: biological_process def: "The flow of blood through the gastric mucosa of an animal, enabling the transport of nutrients and the removal of waste products." [PMID:10807413] synonym: "stomach mucosal blood circulation" EXACT [] is_a: GO:0008015 ! blood circulation intersection_of: GO:0008015 ! blood circulation intersection_of: occurs_in UBERON:0004786 ! gastrointestinal system mucosa relationship: occurs_in UBERON:0004786 ! gastrointestinal system mucosa created_by: sl creation_date: 2015-06-10T20:11:09Z [Term] id: GO:1990778 name: protein localization to cell periphery namespace: biological_process def: "A process in which a protein is transported to, or maintained in, the cell periphery." [PMID:18216290] is_a: GO:0034613 ! cellular protein localization intersection_of: GO:0008104 ! protein localization intersection_of: has_target_end_location GO:0071944 ! cell periphery relationship: has_target_end_location GO:0071944 ! cell periphery creation_date: 2015-06-18T22:37:39Z [Term] id: GO:1990849 name: vacuolar localization namespace: biological_process def: "Any process in which the vacuole is transported to, and/or maintained in, a specific location within the cell." [PMID:26283797] synonym: "maintenance of vacuolar localization" EXACT [] synonym: "maintenance of vacuolar location" NARROW [] synonym: "maintenance of vacuole localization" EXACT [] synonym: "maintenance of vacuole location" EXACT [] is_a: GO:0051640 ! organelle localization intersection_of: GO:0051179 ! localization intersection_of: transports_or_maintains_localization_of GO:0005773 ! vacuole relationship: transports_or_maintains_localization_of GO:0005773 ! vacuole property_value: IAO:0000233 https://github.com/geneontology/go-ontology/issues/22182 xsd:anyURI created_by: mcc creation_date: 2015-09-10T08:16:02Z [Term] id: GO:1990874 name: vascular associated smooth muscle cell proliferation namespace: biological_process def: "The multiplication or reproduction of vascular smooth muscle cells, resulting in the expansion of a cell population. A vascular smooth muscle cell is a non-striated, elongated, spindle-shaped cell found lining the blood vessels." [PMID:23246467] synonym: "vascular smooth muscle cell proliferation" EXACT [] synonym: "VSMC proliferation" EXACT [] is_a: GO:0048659 ! smooth muscle cell proliferation intersection_of: GO:0008283 ! cell population proliferation intersection_of: acts_on_population_of CL:0000359 ! vascular associated smooth muscle cell relationship: acts_on_population_of CL:0000359 ! vascular associated smooth muscle cell created_by: sl creation_date: 2015-09-29T16:34:59Z [Term] id: GO:1990904 name: ribonucleoprotein complex namespace: cellular_component alt_id: GO:0030529 alt_id: GO:1990903 def: "A macromolecular complex that contains both RNA and protein molecules." [GOC:krc, GOC:vesicles] subset: goslim_pir synonym: "extracellular ribonucleoprotein complex" NARROW [] synonym: "intracellular ribonucleoprotein complex" NARROW [] synonym: "protein-RNA complex" EXACT [] synonym: "RNA-protein complex" EXACT [] synonym: "RNP" EXACT [] xref: Wikipedia:Ribonucleoprotein is_a: GO:0032991 ! protein-containing complex relationship: has_part CHEBI:33697 ! ribonucleic acid created_by: pr creation_date: 2015-11-19T12:26:37Z [Term] id: GO:2000026 name: regulation of multicellular organismal development namespace: biological_process def: "Any process that modulates the frequency, rate or extent of multicellular organismal development." [GOC:obol] is_a: GO:0050793 ! regulation of developmental process is_a: GO:0051239 ! regulation of multicellular organismal process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0007275 ! multicellular organism development relationship: regulates GO:0007275 ! multicellular organism development created_by: tb creation_date: 2010-08-05T11:25:59Z [Term] id: GO:2000027 name: regulation of animal organ morphogenesis namespace: biological_process def: "Any process that modulates the frequency, rate or extent of animal organ morphogenesis." [GOC:obol] synonym: "regulation of histogenesis and organogenesis" RELATED [GOC:obol] is_a: GO:0022603 ! regulation of anatomical structure morphogenesis intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0009887 ! animal organ morphogenesis relationship: regulates GO:0009887 ! animal organ morphogenesis created_by: tb creation_date: 2010-08-05T11:26:27Z [Term] id: GO:2000035 name: regulation of stem cell division namespace: biological_process def: "Any process that modulates the frequency, rate or extent of stem cell division." [GOC:obol] synonym: "regulation of stem cell renewal" EXACT [GOC:obol] is_a: GO:0051302 ! regulation of cell division intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0017145 ! stem cell division relationship: regulates GO:0017145 ! stem cell division created_by: tb creation_date: 2010-08-05T11:34:53Z [Term] id: GO:2000106 name: regulation of leukocyte apoptotic process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of leukocyte apoptotic process." [GOC:BHF, GOC:mtg_apoptosis] synonym: "regulation of leukocyte apoptosis" NARROW [] is_a: GO:0042981 ! regulation of apoptotic process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0071887 ! leukocyte apoptotic process relationship: regulates GO:0071887 ! leukocyte apoptotic process created_by: mah creation_date: 2010-09-15T01:42:05Z [Term] id: GO:2000107 name: negative regulation of leukocyte apoptotic process namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of leukocyte apoptotic process." [GOC:BHF, GOC:mtg_apoptosis] synonym: "negative regulation of leukocyte apoptosis" NARROW [] is_a: GO:0043066 ! negative regulation of apoptotic process is_a: GO:2000106 ! regulation of leukocyte apoptotic process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0071887 ! leukocyte apoptotic process relationship: negatively_regulates GO:0071887 ! leukocyte apoptotic process created_by: mah creation_date: 2010-09-15T01:42:09Z [Term] id: GO:2000108 name: positive regulation of leukocyte apoptotic process namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of leukocyte apoptotic process." [GOC:BHF, GOC:mtg_apoptosis] synonym: "positive regulation of leukocyte apoptosis" NARROW [] is_a: GO:0043065 ! positive regulation of apoptotic process is_a: GO:2000106 ! regulation of leukocyte apoptotic process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0071887 ! leukocyte apoptotic process relationship: positively_regulates GO:0071887 ! leukocyte apoptotic process created_by: mah creation_date: 2010-09-15T01:42:12Z [Term] id: GO:2000112 name: regulation of cellular macromolecule biosynthetic process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of cellular macromolecule biosynthetic process." [GOC:obol] synonym: "regulation of cellular biopolymer biosynthetic process" EXACT [GOC:obol] synonym: "regulation of cellular macromolecule anabolism" EXACT [GOC:obol] synonym: "regulation of cellular macromolecule biosynthesis" EXACT [GOC:obol] synonym: "regulation of cellular macromolecule formation" EXACT [GOC:obol] synonym: "regulation of cellular macromolecule synthesis" EXACT [GOC:obol] is_a: GO:0010556 ! regulation of macromolecule biosynthetic process is_a: GO:0031326 ! regulation of cellular biosynthetic process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0034645 ! cellular macromolecule biosynthetic process relationship: regulates GO:0034645 ! cellular macromolecule biosynthetic process created_by: tb creation_date: 2010-09-15T08:55:45Z [Term] id: GO:2000113 name: negative regulation of cellular macromolecule biosynthetic process namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of cellular macromolecule biosynthetic process." [GOC:obol] synonym: "negative regulation of cellular biopolymer biosynthetic process" EXACT [GOC:obol] synonym: "negative regulation of cellular macromolecule anabolism" EXACT [GOC:obol] synonym: "negative regulation of cellular macromolecule biosynthesis" EXACT [GOC:obol] synonym: "negative regulation of cellular macromolecule formation" EXACT [GOC:obol] synonym: "negative regulation of cellular macromolecule synthesis" EXACT [GOC:obol] is_a: GO:0010558 ! negative regulation of macromolecule biosynthetic process is_a: GO:0031327 ! negative regulation of cellular biosynthetic process is_a: GO:2000112 ! regulation of cellular macromolecule biosynthetic process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0034645 ! cellular macromolecule biosynthetic process relationship: negatively_regulates GO:0034645 ! cellular macromolecule biosynthetic process created_by: tb creation_date: 2010-09-15T08:55:48Z [Term] id: GO:2000136 name: regulation of cell proliferation involved in heart morphogenesis namespace: biological_process def: "Any process that modulates the frequency, rate or extent of cell proliferation involved in heart morphogenesis." [GOC:dph] is_a: GO:0042127 ! regulation of cell population proliferation intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0061323 ! cell proliferation involved in heart morphogenesis relationship: regulates GO:0061323 ! cell proliferation involved in heart morphogenesis created_by: dph creation_date: 2010-09-29T12:43:53Z [Term] id: GO:2000137 name: negative regulation of cell proliferation involved in heart morphogenesis namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of cell proliferation involved in heart morphogenesis." [GOC:dph] is_a: GO:0008285 ! negative regulation of cell population proliferation is_a: GO:2000136 ! regulation of cell proliferation involved in heart morphogenesis intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0061323 ! cell proliferation involved in heart morphogenesis relationship: negatively_regulates GO:0061323 ! cell proliferation involved in heart morphogenesis created_by: dph creation_date: 2010-09-29T12:43:55Z [Term] id: GO:2000138 name: positive regulation of cell proliferation involved in heart morphogenesis namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of cell proliferation involved in heart morphogenesis." [GOC:dph] is_a: GO:0008284 ! positive regulation of cell population proliferation is_a: GO:2000136 ! regulation of cell proliferation involved in heart morphogenesis intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0061323 ! cell proliferation involved in heart morphogenesis relationship: positively_regulates GO:0061323 ! cell proliferation involved in heart morphogenesis created_by: dph creation_date: 2010-09-29T12:43:57Z [Term] id: GO:2000145 name: regulation of cell motility namespace: biological_process def: "Any process that modulates the frequency, rate or extent of cell motility." [GOC:mah] synonym: "regulation of cell locomotion" EXACT [GOC:obol] synonym: "regulation of cell movement" RELATED [GOC:obol] synonym: "regulation of movement of a cell" EXACT [GOC:obol] is_a: GO:0040012 ! regulation of locomotion is_a: GO:0051270 ! regulation of cellular component movement intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0048870 ! cell motility relationship: regulates GO:0048870 ! cell motility created_by: mah creation_date: 2010-10-01T09:41:21Z [Term] id: GO:2000146 name: negative regulation of cell motility namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of cell motility." [GOC:mah] synonym: "negative regulation of cell locomotion" EXACT [GOC:obol] synonym: "negative regulation of cell movement" RELATED [GOC:obol] synonym: "negative regulation of movement of a cell" EXACT [GOC:obol] is_a: GO:0040013 ! negative regulation of locomotion is_a: GO:0051271 ! negative regulation of cellular component movement is_a: GO:2000145 ! regulation of cell motility intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0048870 ! cell motility relationship: negatively_regulates GO:0048870 ! cell motility created_by: mah creation_date: 2010-10-01T09:41:26Z [Term] id: GO:2000147 name: positive regulation of cell motility namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of cell motility." [GOC:mah] synonym: "positive regulation of cell locomotion" EXACT [GOC:obol] synonym: "positive regulation of cell movement" RELATED [GOC:obol] synonym: "positive regulation of movement of a cell" EXACT [GOC:obol] is_a: GO:0040017 ! positive regulation of locomotion is_a: GO:0051272 ! positive regulation of cellular component movement is_a: GO:2000145 ! regulation of cell motility intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0048870 ! cell motility relationship: positively_regulates GO:0048870 ! cell motility created_by: mah creation_date: 2010-10-01T09:41:30Z [Term] id: GO:2000172 name: regulation of branching morphogenesis of a nerve namespace: biological_process def: "Any process that modulates the frequency, rate or extent of branching morphogenesis of a nerve." [GOC:BHF] is_a: GO:0060688 ! regulation of morphogenesis of a branching structure intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0048755 ! branching morphogenesis of a nerve relationship: regulates GO:0048755 ! branching morphogenesis of a nerve created_by: rl creation_date: 2010-10-07T12:07:54Z [Term] id: GO:2000173 name: negative regulation of branching morphogenesis of a nerve namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of branching morphogenesis of a nerve." [GOC:BHF] is_a: GO:0051093 ! negative regulation of developmental process is_a: GO:0051241 ! negative regulation of multicellular organismal process is_a: GO:2000172 ! regulation of branching morphogenesis of a nerve intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0048755 ! branching morphogenesis of a nerve relationship: negatively_regulates GO:0048755 ! branching morphogenesis of a nerve created_by: rl creation_date: 2010-10-07T12:07:56Z [Term] id: GO:2000177 name: regulation of neural precursor cell proliferation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of neural precursor cell proliferation." [GOC:dph, GOC:yaf] is_a: GO:0042127 ! regulation of cell population proliferation intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0061351 ! neural precursor cell proliferation relationship: regulates GO:0061351 ! neural precursor cell proliferation created_by: dph creation_date: 2010-10-13T12:40:41Z [Term] id: GO:2000178 name: negative regulation of neural precursor cell proliferation namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of neural precursor cell proliferation." [GOC:dph, GOC:yaf] is_a: GO:0008285 ! negative regulation of cell population proliferation is_a: GO:2000177 ! regulation of neural precursor cell proliferation intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0061351 ! neural precursor cell proliferation relationship: negatively_regulates GO:0061351 ! neural precursor cell proliferation created_by: dph creation_date: 2010-10-13T12:40:43Z [Term] id: GO:2000179 name: positive regulation of neural precursor cell proliferation namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of neural precursor cell proliferation." [GOC:dph, GOC:yaf] is_a: GO:0008284 ! positive regulation of cell population proliferation is_a: GO:2000177 ! regulation of neural precursor cell proliferation intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0061351 ! neural precursor cell proliferation relationship: positively_regulates GO:0061351 ! neural precursor cell proliferation created_by: dph creation_date: 2010-10-13T12:40:45Z [Term] id: GO:2000181 name: negative regulation of blood vessel morphogenesis namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of blood vessel morphogenesis." [GOC:dph, GOC:yaf] is_a: GO:0022603 ! regulation of anatomical structure morphogenesis is_a: GO:1901343 ! negative regulation of vasculature development intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0048514 ! blood vessel morphogenesis relationship: negatively_regulates GO:0048514 ! blood vessel morphogenesis created_by: dph creation_date: 2010-10-13T12:46:31Z [Term] id: GO:2000194 name: regulation of female gonad development namespace: biological_process def: "Any process that modulates the frequency, rate or extent of female gonad development." [GOC:obol] synonym: "regulation of ovarian development" EXACT [GOC:obol] synonym: "regulation of ovary development" EXACT [GOC:obol] is_a: GO:1905939 ! regulation of gonad development is_a: GO:2000026 ! regulation of multicellular organismal development intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0008585 ! female gonad development relationship: regulates GO:0008585 ! female gonad development created_by: yaf creation_date: 2010-10-19T10:45:34Z [Term] id: GO:2000195 name: negative regulation of female gonad development namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of female gonad development." [GOC:obol] synonym: "negative regulation of ovarian development" EXACT [GOC:obol] synonym: "negative regulation of ovary development" EXACT [GOC:obol] is_a: GO:1905940 ! negative regulation of gonad development is_a: GO:2000194 ! regulation of female gonad development intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0008585 ! female gonad development relationship: negatively_regulates GO:0008585 ! female gonad development created_by: yaf creation_date: 2010-10-19T10:45:38Z [Term] id: GO:2000196 name: positive regulation of female gonad development namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of female gonad development." [GOC:obol] synonym: "positive regulation of ovarian development" EXACT [GOC:obol] synonym: "positive regulation of ovary development" EXACT [GOC:obol] is_a: GO:1905941 ! positive regulation of gonad development is_a: GO:2000194 ! regulation of female gonad development intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0008585 ! female gonad development relationship: positively_regulates GO:0008585 ! female gonad development created_by: yaf creation_date: 2010-10-19T10:45:41Z [Term] id: GO:2000241 name: regulation of reproductive process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of reproductive process." [GOC:mah] is_a: GO:0050789 ! regulation of biological process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0022414 ! reproductive process relationship: regulates GO:0022414 ! reproductive process created_by: mah creation_date: 2010-11-10T02:44:02Z [Term] id: GO:2000242 name: negative regulation of reproductive process namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of reproductive process." [GOC:mah] is_a: GO:0048519 ! negative regulation of biological process is_a: GO:2000241 ! regulation of reproductive process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0022414 ! reproductive process relationship: negatively_regulates GO:0022414 ! reproductive process created_by: mah creation_date: 2010-11-10T02:44:05Z [Term] id: GO:2000243 name: positive regulation of reproductive process namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of reproductive process." [GOC:mah] is_a: GO:0048518 ! positive regulation of biological process is_a: GO:2000241 ! regulation of reproductive process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0022414 ! reproductive process relationship: positively_regulates GO:0022414 ! reproductive process created_by: mah creation_date: 2010-11-10T02:44:08Z [Term] id: GO:2000269 name: regulation of fibroblast apoptotic process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of fibroblast apoptotic process." [GOC:mtg_apoptosis, GOC:obol, GOC:yaf] synonym: "regulation of fibroblast apoptosis" NARROW [] is_a: GO:0042981 ! regulation of apoptotic process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0044346 ! fibroblast apoptotic process relationship: regulates GO:0044346 ! fibroblast apoptotic process created_by: jl creation_date: 2010-11-23T01:07:23Z [Term] id: GO:2000270 name: negative regulation of fibroblast apoptotic process namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of fibroblast apoptotic process." [GOC:mtg_apoptosis, GOC:obol, GOC:yaf] synonym: "negative regulation of fibroblast apoptosis" NARROW [] is_a: GO:0043066 ! negative regulation of apoptotic process is_a: GO:2000269 ! regulation of fibroblast apoptotic process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0044346 ! fibroblast apoptotic process relationship: negatively_regulates GO:0044346 ! fibroblast apoptotic process created_by: jl creation_date: 2010-11-23T01:07:27Z [Term] id: GO:2000271 name: positive regulation of fibroblast apoptotic process namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of fibroblast apoptotic process." [GOC:mtg_apoptosis, GOC:obol, GOC:yaf] synonym: "positive regulation of fibroblast apoptosis" NARROW [] is_a: GO:0043065 ! positive regulation of apoptotic process is_a: GO:2000269 ! regulation of fibroblast apoptotic process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0044346 ! fibroblast apoptotic process relationship: positively_regulates GO:0044346 ! fibroblast apoptotic process created_by: jl creation_date: 2010-11-23T01:07:29Z [Term] id: GO:2000278 name: regulation of DNA biosynthetic process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of DNA biosynthetic process." [GOC:obol] synonym: "regulation of DNA anabolism" EXACT [GOC:obol] synonym: "regulation of DNA biosynthesis" EXACT [GOC:obol] synonym: "regulation of DNA formation" EXACT [GOC:obol] synonym: "regulation of DNA synthesis" EXACT [GOC:obol] is_a: GO:0051052 ! regulation of DNA metabolic process is_a: GO:2000112 ! regulation of cellular macromolecule biosynthetic process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0071897 ! DNA biosynthetic process relationship: regulates GO:0071897 ! DNA biosynthetic process created_by: yaf creation_date: 2010-12-08T04:48:15Z [Term] id: GO:2000279 name: negative regulation of DNA biosynthetic process namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of DNA biosynthetic process." [GOC:obol] synonym: "negative regulation of DNA anabolism" EXACT [GOC:obol] synonym: "negative regulation of DNA biosynthesis" EXACT [GOC:obol] synonym: "negative regulation of DNA formation" EXACT [GOC:obol] synonym: "negative regulation of DNA synthesis" EXACT [GOC:obol] is_a: GO:0051053 ! negative regulation of DNA metabolic process is_a: GO:2000113 ! negative regulation of cellular macromolecule biosynthetic process is_a: GO:2000278 ! regulation of DNA biosynthetic process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0071897 ! DNA biosynthetic process relationship: negatively_regulates GO:0071897 ! DNA biosynthetic process created_by: yaf creation_date: 2010-12-08T04:48:20Z [Term] id: GO:2000282 name: regulation of cellular amino acid biosynthetic process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of cellular amino acid biosynthetic process." [GOC:obol] synonym: "regulation of amino acid biosynthetic process" EXACT [GOC:obol] synonym: "regulation of cellular amino acid anabolism" EXACT [GOC:obol] synonym: "regulation of cellular amino acid biosynthesis" EXACT [GOC:obol] synonym: "regulation of cellular amino acid formation" EXACT [GOC:obol] synonym: "regulation of cellular amino acid synthesis" EXACT [GOC:obol] is_a: GO:0006521 ! regulation of cellular amino acid metabolic process is_a: GO:0031326 ! regulation of cellular biosynthetic process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0008652 ! cellular amino acid biosynthetic process relationship: regulates GO:0008652 ! cellular amino acid biosynthetic process created_by: vw creation_date: 2010-12-10T11:54:19Z [Term] id: GO:2000283 name: negative regulation of cellular amino acid biosynthetic process namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of cellular amino acid biosynthetic process." [GOC:obol] synonym: "negative regulation of amino acid biosynthetic process" EXACT [GOC:obol] synonym: "negative regulation of cellular amino acid anabolism" EXACT [GOC:obol] synonym: "negative regulation of cellular amino acid biosynthesis" EXACT [GOC:obol] synonym: "negative regulation of cellular amino acid formation" EXACT [GOC:obol] synonym: "negative regulation of cellular amino acid synthesis" EXACT [GOC:obol] is_a: GO:0031327 ! negative regulation of cellular biosynthetic process is_a: GO:0045763 ! negative regulation of cellular amino acid metabolic process is_a: GO:2000282 ! regulation of cellular amino acid biosynthetic process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0008652 ! cellular amino acid biosynthetic process relationship: negatively_regulates GO:0008652 ! cellular amino acid biosynthetic process created_by: vw creation_date: 2010-12-10T11:54:23Z [Term] id: GO:2000284 name: positive regulation of cellular amino acid biosynthetic process namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of cellular amino acid biosynthetic process." [GOC:obol] synonym: "positive regulation of amino acid biosynthetic process" EXACT [GOC:obol] synonym: "positive regulation of cellular amino acid anabolism" EXACT [GOC:obol] synonym: "positive regulation of cellular amino acid biosynthesis" EXACT [GOC:obol] synonym: "positive regulation of cellular amino acid formation" EXACT [GOC:obol] synonym: "positive regulation of cellular amino acid synthesis" EXACT [GOC:obol] is_a: GO:0031328 ! positive regulation of cellular biosynthetic process is_a: GO:0045764 ! positive regulation of cellular amino acid metabolic process is_a: GO:2000282 ! regulation of cellular amino acid biosynthetic process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0008652 ! cellular amino acid biosynthetic process relationship: positively_regulates GO:0008652 ! cellular amino acid biosynthetic process created_by: vw creation_date: 2010-12-10T11:54:27Z [Term] id: GO:2000287 name: positive regulation of myotome development namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of myotome development." [GOC:BHF] is_a: GO:0051094 ! positive regulation of developmental process is_a: GO:2000290 ! regulation of myotome development intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0061055 ! myotome development relationship: positively_regulates GO:0061055 ! myotome development created_by: rl creation_date: 2010-12-16T05:17:15Z [Term] id: GO:2000288 name: positive regulation of myoblast proliferation namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of myoblast proliferation." [GOC:BHF] is_a: GO:0008284 ! positive regulation of cell population proliferation is_a: GO:2000291 ! regulation of myoblast proliferation intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0051450 ! myoblast proliferation relationship: positively_regulates GO:0051450 ! myoblast proliferation created_by: rl creation_date: 2010-12-16T05:20:52Z [Term] id: GO:2000290 name: regulation of myotome development namespace: biological_process def: "Any process that modulates the frequency, rate or extent of myotome development." [GOC:mah] is_a: GO:0050793 ! regulation of developmental process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0061055 ! myotome development relationship: regulates GO:0061055 ! myotome development created_by: mah creation_date: 2010-12-20T10:22:05Z [Term] id: GO:2000291 name: regulation of myoblast proliferation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of myoblast proliferation." [GOC:mah] is_a: GO:0042127 ! regulation of cell population proliferation intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0051450 ! myoblast proliferation relationship: regulates GO:0051450 ! myoblast proliferation created_by: mah creation_date: 2010-12-20T10:34:26Z [Term] id: GO:2000351 name: regulation of endothelial cell apoptotic process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of endothelial cell apoptotic process." [GOC:mah, GOC:mtg_apoptosis] synonym: "regulation of apoptosis of endothelial cells" EXACT [GOC:obol] synonym: "regulation of endothelial cell apoptosis" NARROW [] synonym: "regulation of endothelial cell programmed cell death by apoptosis" EXACT [GOC:obol] synonym: "regulation of killing of endothelial cells" EXACT [GOC:obol] synonym: "regulation of programmed cell death of endothelial cells by apoptosis" EXACT [GOC:obol] synonym: "regulation of programmed cell death, endothelial cells" EXACT [GOC:obol] is_a: GO:1904035 ! regulation of epithelial cell apoptotic process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0072577 ! endothelial cell apoptotic process relationship: regulates GO:0072577 ! endothelial cell apoptotic process created_by: mah creation_date: 2011-02-03T10:43:16Z [Term] id: GO:2000352 name: negative regulation of endothelial cell apoptotic process namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of endothelial cell apoptotic process." [GOC:BHF, GOC:mah, GOC:mtg_apoptosis] synonym: "negative regulation of apoptosis of endothelial cells" EXACT [GOC:obol] synonym: "negative regulation of endothelial cell apoptosis" NARROW [] synonym: "negative regulation of endothelial cell programmed cell death by apoptosis" EXACT [GOC:obol] synonym: "negative regulation of killing of endothelial cells" EXACT [GOC:obol] synonym: "negative regulation of programmed cell death of endothelial cells by apoptosis" EXACT [GOC:obol] synonym: "negative regulation of programmed cell death, endothelial cells" EXACT [GOC:obol] is_a: GO:1904036 ! negative regulation of epithelial cell apoptotic process is_a: GO:2000351 ! regulation of endothelial cell apoptotic process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0072577 ! endothelial cell apoptotic process relationship: negatively_regulates GO:0072577 ! endothelial cell apoptotic process created_by: mah creation_date: 2011-02-03T10:43:20Z [Term] id: GO:2000353 name: positive regulation of endothelial cell apoptotic process namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of endothelial cell apoptotic process." [GOC:BHF, GOC:mah, GOC:mtg_apoptosis] synonym: "positive regulation of apoptosis of endothelial cells" EXACT [GOC:obol] synonym: "positive regulation of endothelial cell apoptosis" NARROW [] synonym: "positive regulation of endothelial cell programmed cell death by apoptosis" EXACT [GOC:obol] synonym: "positive regulation of killing of endothelial cells" EXACT [GOC:obol] synonym: "positive regulation of programmed cell death of endothelial cells by apoptosis" EXACT [GOC:obol] synonym: "positive regulation of programmed cell death, endothelial cells" EXACT [GOC:obol] is_a: GO:1904037 ! positive regulation of epithelial cell apoptotic process is_a: GO:2000351 ! regulation of endothelial cell apoptotic process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0072577 ! endothelial cell apoptotic process relationship: positively_regulates GO:0072577 ! endothelial cell apoptotic process created_by: mah creation_date: 2011-02-03T10:43:23Z [Term] id: GO:2000374 name: regulation of oxygen metabolic process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of oxygen metabolic process." [GOC:mah] synonym: "regulation of diatomic oxygen metabolic process" EXACT [GOC:obol] synonym: "regulation of oxygen metabolism" EXACT [GOC:obol] is_a: GO:0031323 ! regulation of cellular metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0072592 ! oxygen metabolic process relationship: regulates GO:0072592 ! oxygen metabolic process created_by: mah creation_date: 2011-02-11T02:03:32Z [Term] id: GO:2000375 name: negative regulation of oxygen metabolic process namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of oxygen metabolic process." [GOC:mah] synonym: "negative regulation of diatomic oxygen metabolic process" EXACT [GOC:obol] synonym: "negative regulation of oxygen metabolism" EXACT [GOC:obol] is_a: GO:0031324 ! negative regulation of cellular metabolic process is_a: GO:2000374 ! regulation of oxygen metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0072592 ! oxygen metabolic process relationship: negatively_regulates GO:0072592 ! oxygen metabolic process created_by: mah creation_date: 2011-02-11T02:03:44Z [Term] id: GO:2000376 name: positive regulation of oxygen metabolic process namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of oxygen metabolic process." [GOC:mah] synonym: "positive regulation of diatomic oxygen metabolic process" EXACT [GOC:obol] synonym: "positive regulation of oxygen metabolism" EXACT [GOC:obol] is_a: GO:0031325 ! positive regulation of cellular metabolic process is_a: GO:2000374 ! regulation of oxygen metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0072592 ! oxygen metabolic process relationship: positively_regulates GO:0072592 ! oxygen metabolic process created_by: mah creation_date: 2011-02-11T02:03:52Z [Term] id: GO:2000380 name: regulation of mesoderm development namespace: biological_process def: "Any process that modulates the frequency, rate or extent of mesoderm development." [GOC:BHF] is_a: GO:0050793 ! regulation of developmental process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0007498 ! mesoderm development relationship: regulates GO:0007498 ! mesoderm development created_by: vk creation_date: 2011-02-15T03:09:46Z [Term] id: GO:2000381 name: negative regulation of mesoderm development namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of mesoderm development." [GOC:BHF] is_a: GO:0051093 ! negative regulation of developmental process is_a: GO:2000380 ! regulation of mesoderm development intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0007498 ! mesoderm development relationship: negatively_regulates GO:0007498 ! mesoderm development created_by: vk creation_date: 2011-02-15T03:10:02Z [Term] id: GO:2000382 name: positive regulation of mesoderm development namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of mesoderm development." [GOC:BHF] is_a: GO:0051094 ! positive regulation of developmental process is_a: GO:2000380 ! regulation of mesoderm development intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0007498 ! mesoderm development relationship: positively_regulates GO:0007498 ! mesoderm development created_by: vk creation_date: 2011-02-15T03:10:12Z [Term] id: GO:2000383 name: regulation of ectoderm development namespace: biological_process def: "Any process that modulates the frequency, rate or extent of ectoderm development." [GOC:BHF] is_a: GO:0050793 ! regulation of developmental process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0007398 ! ectoderm development relationship: regulates GO:0007398 ! ectoderm development created_by: vk creation_date: 2011-02-15T03:17:10Z [Term] id: GO:2000384 name: negative regulation of ectoderm development namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of ectoderm development." [GOC:BHF] is_a: GO:0051093 ! negative regulation of developmental process is_a: GO:2000383 ! regulation of ectoderm development intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0007398 ! ectoderm development relationship: negatively_regulates GO:0007398 ! ectoderm development created_by: vk creation_date: 2011-02-15T03:17:27Z [Term] id: GO:2000385 name: positive regulation of ectoderm development namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of ectoderm development." [GOC:BHF] is_a: GO:0051094 ! positive regulation of developmental process is_a: GO:2000383 ! regulation of ectoderm development intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0007398 ! ectoderm development relationship: positively_regulates GO:0007398 ! ectoderm development created_by: vk creation_date: 2011-02-15T03:17:39Z [Term] id: GO:2000495 name: regulation of cell proliferation involved in compound eye morphogenesis namespace: biological_process def: "Any process that modulates the frequency, rate or extent of cell proliferation involved in compound eye morphogenesis." [GOC:obol] is_a: GO:0042127 ! regulation of cell population proliferation intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0035736 ! cell proliferation involved in compound eye morphogenesis relationship: regulates GO:0035736 ! cell proliferation involved in compound eye morphogenesis created_by: bf creation_date: 2011-03-18T02:18:34Z [Term] id: GO:2000496 name: negative regulation of cell proliferation involved in compound eye morphogenesis namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of cell proliferation involved in compound eye morphogenesis." [GOC:obol] is_a: GO:0008285 ! negative regulation of cell population proliferation is_a: GO:2000495 ! regulation of cell proliferation involved in compound eye morphogenesis intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0035736 ! cell proliferation involved in compound eye morphogenesis relationship: negatively_regulates GO:0035736 ! cell proliferation involved in compound eye morphogenesis created_by: bf creation_date: 2011-03-18T02:19:22Z [Term] id: GO:2000497 name: positive regulation of cell proliferation involved in compound eye morphogenesis namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of cell proliferation involved in compound eye morphogenesis." [GOC:obol] is_a: GO:0008284 ! positive regulation of cell population proliferation is_a: GO:2000495 ! regulation of cell proliferation involved in compound eye morphogenesis intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0035736 ! cell proliferation involved in compound eye morphogenesis relationship: positively_regulates GO:0035736 ! cell proliferation involved in compound eye morphogenesis created_by: bf creation_date: 2011-03-18T02:19:54Z [Term] id: GO:2000542 name: negative regulation of gastrulation namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of gastrulation." [GOC:obol] is_a: GO:0010470 ! regulation of gastrulation is_a: GO:0045992 ! negative regulation of embryonic development intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0007369 ! gastrulation relationship: negatively_regulates GO:0007369 ! gastrulation created_by: yaf creation_date: 2011-04-01T04:10:08Z [Term] id: GO:2000543 name: positive regulation of gastrulation namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of gastrulation." [GOC:obol] is_a: GO:0010470 ! regulation of gastrulation is_a: GO:0040019 ! positive regulation of embryonic development intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0007369 ! gastrulation relationship: positively_regulates GO:0007369 ! gastrulation created_by: yaf creation_date: 2011-04-01T04:10:15Z [Term] id: GO:2000573 name: positive regulation of DNA biosynthetic process namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of DNA biosynthetic process." [GOC:obol] synonym: "positive regulation of DNA anabolism" EXACT [GOC:obol] synonym: "positive regulation of DNA biosynthesis" EXACT [GOC:obol] synonym: "positive regulation of DNA formation" EXACT [GOC:obol] synonym: "positive regulation of DNA synthesis" EXACT [GOC:obol] is_a: GO:0010557 ! positive regulation of macromolecule biosynthetic process is_a: GO:0031328 ! positive regulation of cellular biosynthetic process is_a: GO:0051054 ! positive regulation of DNA metabolic process is_a: GO:2000278 ! regulation of DNA biosynthetic process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0071897 ! DNA biosynthetic process relationship: positively_regulates GO:0071897 ! DNA biosynthetic process created_by: yaf creation_date: 2011-04-04T10:01:20Z [Term] id: GO:2000647 name: negative regulation of stem cell proliferation namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of stem cell proliferation." [GOC:dph] is_a: GO:0008285 ! negative regulation of cell population proliferation is_a: GO:0072091 ! regulation of stem cell proliferation intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0072089 ! stem cell proliferation relationship: negatively_regulates GO:0072089 ! stem cell proliferation created_by: dph creation_date: 2011-04-27T01:04:22Z [Term] id: GO:2000648 name: positive regulation of stem cell proliferation namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of stem cell proliferation." [GOC:dph] is_a: GO:0008284 ! positive regulation of cell population proliferation is_a: GO:0072091 ! regulation of stem cell proliferation intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0072089 ! stem cell proliferation relationship: positively_regulates GO:0072089 ! stem cell proliferation created_by: dph creation_date: 2011-04-27T01:04:25Z [Term] id: GO:2000671 name: regulation of motor neuron apoptotic process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of motor neuron apoptotic process." [GOC:mtg_apoptosis, GOC:obol] synonym: "regulation of motoneuron apoptosis" EXACT [GOC:obol] synonym: "regulation of motor neuron apoptosis" NARROW [] is_a: GO:0043523 ! regulation of neuron apoptotic process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0097049 ! motor neuron apoptotic process relationship: regulates GO:0097049 ! motor neuron apoptotic process created_by: pr creation_date: 2011-05-09T10:56:17Z [Term] id: GO:2000672 name: negative regulation of motor neuron apoptotic process namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of motor neuron apoptotic process." [GOC:mtg_apoptosis, GOC:obol] synonym: "negative regulation of motoneuron apoptosis" EXACT [GOC:obol] synonym: "negative regulation of motor neuron apoptosis" NARROW [] is_a: GO:0043524 ! negative regulation of neuron apoptotic process is_a: GO:2000671 ! regulation of motor neuron apoptotic process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0097049 ! motor neuron apoptotic process relationship: negatively_regulates GO:0097049 ! motor neuron apoptotic process created_by: pr creation_date: 2011-05-09T10:56:21Z [Term] id: GO:2000673 name: positive regulation of motor neuron apoptotic process namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of motor neuron apoptotic process." [GOC:mtg_apoptosis, GOC:obol] synonym: "positive regulation of motoneuron apoptosis" EXACT [GOC:obol] synonym: "positive regulation of motor neuron apoptosis" NARROW [] is_a: GO:0043525 ! positive regulation of neuron apoptotic process is_a: GO:2000671 ! regulation of motor neuron apoptotic process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0097049 ! motor neuron apoptotic process relationship: positively_regulates GO:0097049 ! motor neuron apoptotic process created_by: pr creation_date: 2011-05-09T10:56:24Z [Term] id: GO:2000690 name: regulation of cardiac muscle cell myoblast differentiation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of cardiac muscle cell myoblast differentiation." [GOC:obol] synonym: "regulation of cardiac myoblast differentiation" RELATED [GOC:obol] synonym: "regulation of myocardial precursor cell differentiation" EXACT [GOC:obol] is_a: GO:0045661 ! regulation of myoblast differentiation is_a: GO:0051890 ! regulation of cardioblast differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0060379 ! cardiac muscle cell myoblast differentiation relationship: regulates GO:0060379 ! cardiac muscle cell myoblast differentiation created_by: yaf creation_date: 2011-05-25T09:08:01Z [Term] id: GO:2000691 name: negative regulation of cardiac muscle cell myoblast differentiation namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of cardiac muscle cell myoblast differentiation." [GOC:obol] synonym: "negative regulation of cardiac myoblast differentiation" RELATED [GOC:obol] synonym: "negative regulation of myocardial precursor cell differentiation" EXACT [GOC:obol] is_a: GO:0045662 ! negative regulation of myoblast differentiation is_a: GO:0051892 ! negative regulation of cardioblast differentiation is_a: GO:2000690 ! regulation of cardiac muscle cell myoblast differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0060379 ! cardiac muscle cell myoblast differentiation relationship: negatively_regulates GO:0060379 ! cardiac muscle cell myoblast differentiation created_by: yaf creation_date: 2011-05-25T09:08:06Z [Term] id: GO:2000700 name: positive regulation of cardiac muscle cell myoblast differentiation namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of cardiac muscle cell myoblast differentiation." [GOC:obol] synonym: "positive regulation of cardiac myoblast differentiation" RELATED [GOC:obol] synonym: "positive regulation of myocardial precursor cell differentiation" EXACT [GOC:obol] is_a: GO:0045663 ! positive regulation of myoblast differentiation is_a: GO:0051891 ! positive regulation of cardioblast differentiation is_a: GO:2000690 ! regulation of cardiac muscle cell myoblast differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0060379 ! cardiac muscle cell myoblast differentiation relationship: positively_regulates GO:0060379 ! cardiac muscle cell myoblast differentiation created_by: yaf creation_date: 2011-05-25T09:08:09Z [Term] id: GO:2000725 name: regulation of cardiac muscle cell differentiation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of cardiac muscle cell differentiation." [GOC:BHF] synonym: "regulation of cardiomyocyte differentiation" EXACT [GOC:obol] synonym: "regulation of heart muscle cell differentiation" RELATED [GOC:obol] is_a: GO:0051153 ! regulation of striated muscle cell differentiation is_a: GO:1905207 ! regulation of cardiocyte differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0055007 ! cardiac muscle cell differentiation relationship: regulates GO:0055007 ! cardiac muscle cell differentiation created_by: vk creation_date: 2011-06-08T10:51:06Z [Term] id: GO:2000726 name: negative regulation of cardiac muscle cell differentiation namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of cardiac muscle cell differentiation." [GOC:BHF] synonym: "negative regulation of cardiomyocyte differentiation" EXACT [GOC:obol] synonym: "negative regulation of heart muscle cell differentiation" RELATED [GOC:obol] is_a: GO:0051154 ! negative regulation of striated muscle cell differentiation is_a: GO:1905208 ! negative regulation of cardiocyte differentiation is_a: GO:2000725 ! regulation of cardiac muscle cell differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0055007 ! cardiac muscle cell differentiation relationship: negatively_regulates GO:0055007 ! cardiac muscle cell differentiation created_by: vk creation_date: 2011-06-08T10:51:11Z [Term] id: GO:2000727 name: positive regulation of cardiac muscle cell differentiation namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of cardiac muscle cell differentiation." [GOC:BHF] synonym: "positive regulation of cardiomyocyte differentiation" EXACT [GOC:obol] synonym: "positive regulation of heart muscle cell differentiation" RELATED [GOC:obol] is_a: GO:0051155 ! positive regulation of striated muscle cell differentiation is_a: GO:1905209 ! positive regulation of cardiocyte differentiation is_a: GO:2000725 ! regulation of cardiac muscle cell differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0055007 ! cardiac muscle cell differentiation relationship: positively_regulates GO:0055007 ! cardiac muscle cell differentiation created_by: vk creation_date: 2011-06-08T10:51:15Z [Term] id: GO:2000736 name: regulation of stem cell differentiation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of stem cell differentiation." [GOC:obol] is_a: GO:0045595 ! regulation of cell differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0048863 ! stem cell differentiation relationship: regulates GO:0048863 ! stem cell differentiation created_by: yaf creation_date: 2011-06-14T02:05:16Z [Term] id: GO:2000737 name: negative regulation of stem cell differentiation namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of stem cell differentiation." [GOC:obol] is_a: GO:0045596 ! negative regulation of cell differentiation is_a: GO:2000736 ! regulation of stem cell differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0048863 ! stem cell differentiation relationship: negatively_regulates GO:0048863 ! stem cell differentiation created_by: yaf creation_date: 2011-06-14T02:05:20Z [Term] id: GO:2000738 name: positive regulation of stem cell differentiation namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of stem cell differentiation." [GOC:obol] is_a: GO:0045597 ! positive regulation of cell differentiation is_a: GO:2000736 ! regulation of stem cell differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0048863 ! stem cell differentiation relationship: positively_regulates GO:0048863 ! stem cell differentiation created_by: yaf creation_date: 2011-06-14T02:05:23Z [Term] id: GO:2000790 name: regulation of mesenchymal cell proliferation involved in lung development namespace: biological_process def: "Any process that modulates the frequency, rate or extent of mesenchymal cell proliferation involved in lung development." [PMID:21513708] is_a: GO:0010464 ! regulation of mesenchymal cell proliferation intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0060916 ! mesenchymal cell proliferation involved in lung development relationship: regulates GO:0060916 ! mesenchymal cell proliferation involved in lung development created_by: pr creation_date: 2011-06-24T01:53:50Z [Term] id: GO:2000791 name: negative regulation of mesenchymal cell proliferation involved in lung development namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of mesenchymal cell proliferation involved in lung development." [PMID:21513708] is_a: GO:0051093 ! negative regulation of developmental process is_a: GO:0051241 ! negative regulation of multicellular organismal process is_a: GO:0072201 ! negative regulation of mesenchymal cell proliferation is_a: GO:2000790 ! regulation of mesenchymal cell proliferation involved in lung development intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0060916 ! mesenchymal cell proliferation involved in lung development relationship: negatively_regulates GO:0060916 ! mesenchymal cell proliferation involved in lung development created_by: pr creation_date: 2011-06-24T01:53:53Z [Term] id: GO:2000792 name: positive regulation of mesenchymal cell proliferation involved in lung development namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of mesenchymal cell proliferation involved in lung development." [PMID:21513708] is_a: GO:0002053 ! positive regulation of mesenchymal cell proliferation is_a: GO:0051094 ! positive regulation of developmental process is_a: GO:0051240 ! positive regulation of multicellular organismal process is_a: GO:2000790 ! regulation of mesenchymal cell proliferation involved in lung development intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0060916 ! mesenchymal cell proliferation involved in lung development relationship: positively_regulates GO:0060916 ! mesenchymal cell proliferation involved in lung development created_by: pr creation_date: 2011-06-24T01:53:56Z [Term] id: GO:2000794 name: regulation of epithelial cell proliferation involved in lung morphogenesis namespace: biological_process def: "Any process that modulates the frequency, rate or extent of epithelial cell proliferation involved in lung morphogenesis." [PMID:21513708] is_a: GO:0050678 ! regulation of epithelial cell proliferation intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0060502 ! epithelial cell proliferation involved in lung morphogenesis relationship: regulates GO:0060502 ! epithelial cell proliferation involved in lung morphogenesis created_by: pr creation_date: 2011-06-25T07:22:38Z [Term] id: GO:2000795 name: negative regulation of epithelial cell proliferation involved in lung morphogenesis namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of epithelial cell proliferation involved in lung morphogenesis." [PMID:21513708] is_a: GO:0050680 ! negative regulation of epithelial cell proliferation is_a: GO:2000794 ! regulation of epithelial cell proliferation involved in lung morphogenesis intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0060502 ! epithelial cell proliferation involved in lung morphogenesis relationship: negatively_regulates GO:0060502 ! epithelial cell proliferation involved in lung morphogenesis created_by: pr creation_date: 2011-06-25T07:22:42Z [Term] id: GO:2000818 name: negative regulation of myoblast proliferation namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of myoblast proliferation." [GOC:obol] is_a: GO:0008285 ! negative regulation of cell population proliferation is_a: GO:2000291 ! regulation of myoblast proliferation intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0051450 ! myoblast proliferation relationship: negatively_regulates GO:0051450 ! myoblast proliferation created_by: pr creation_date: 2011-07-12T03:06:04Z [Term] id: GO:2000826 name: regulation of heart morphogenesis namespace: biological_process def: "Any process that modulates the frequency, rate or extent of heart morphogenesis." [GOC:BHF] synonym: "regulation of cardiac morphogenesis" RELATED [GOC:obol] is_a: GO:2000027 ! regulation of animal organ morphogenesis intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0003007 ! heart morphogenesis relationship: regulates GO:0003007 ! heart morphogenesis created_by: vk creation_date: 2011-07-19T10:08:58Z [Term] id: GO:2000831 name: regulation of steroid hormone secretion namespace: biological_process def: "Any process that modulates the frequency, rate or extent of steroid hormone secretion." [GOC:sl] is_a: GO:0032368 ! regulation of lipid transport is_a: GO:0044060 ! regulation of endocrine process is_a: GO:0046883 ! regulation of hormone secretion intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0035929 ! steroid hormone secretion relationship: regulates GO:0035929 ! steroid hormone secretion created_by: bf creation_date: 2011-07-26T08:38:46Z [Term] id: GO:2000832 name: negative regulation of steroid hormone secretion namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of steroid hormone secretion." [GOC:sl] is_a: GO:0032369 ! negative regulation of lipid transport is_a: GO:0046888 ! negative regulation of hormone secretion is_a: GO:0051241 ! negative regulation of multicellular organismal process is_a: GO:2000831 ! regulation of steroid hormone secretion intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0035929 ! steroid hormone secretion relationship: negatively_regulates GO:0035929 ! steroid hormone secretion created_by: bf creation_date: 2011-07-26T08:38:50Z [Term] id: GO:2000833 name: positive regulation of steroid hormone secretion namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of steroid hormone secretion." [GOC:sl] is_a: GO:0032370 ! positive regulation of lipid transport is_a: GO:0046887 ! positive regulation of hormone secretion is_a: GO:0051240 ! positive regulation of multicellular organismal process is_a: GO:2000831 ! regulation of steroid hormone secretion intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0035929 ! steroid hormone secretion relationship: positively_regulates GO:0035929 ! steroid hormone secretion created_by: bf creation_date: 2011-07-26T08:38:51Z [Term] id: GO:2000834 name: regulation of androgen secretion namespace: biological_process def: "Any process that modulates the frequency, rate or extent of androgen secretion." [GOC:sl] is_a: GO:2000831 ! regulation of steroid hormone secretion intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0035935 ! androgen secretion relationship: regulates GO:0035935 ! androgen secretion created_by: bf creation_date: 2011-07-26T08:39:45Z [Term] id: GO:2000835 name: negative regulation of androgen secretion namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of androgen secretion." [GOC:sl] is_a: GO:2000832 ! negative regulation of steroid hormone secretion is_a: GO:2000834 ! regulation of androgen secretion intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0035935 ! androgen secretion relationship: negatively_regulates GO:0035935 ! androgen secretion created_by: bf creation_date: 2011-07-26T08:39:48Z [Term] id: GO:2000836 name: positive regulation of androgen secretion namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of androgen secretion." [GOC:sl] is_a: GO:2000833 ! positive regulation of steroid hormone secretion is_a: GO:2000834 ! regulation of androgen secretion intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0035935 ! androgen secretion relationship: positively_regulates GO:0035935 ! androgen secretion created_by: bf creation_date: 2011-07-26T08:39:51Z [Term] id: GO:2001014 name: regulation of skeletal muscle cell differentiation namespace: biological_process def: "Any process that modulates the frequency, rate or extent of skeletal muscle cell differentiation." [GOC:obol] is_a: GO:0045595 ! regulation of cell differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0035914 ! skeletal muscle cell differentiation relationship: regulates GO:0035914 ! skeletal muscle cell differentiation created_by: yaf creation_date: 2011-08-11T08:54:37Z [Term] id: GO:2001015 name: negative regulation of skeletal muscle cell differentiation namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of skeletal muscle cell differentiation." [GOC:obol] is_a: GO:0045596 ! negative regulation of cell differentiation is_a: GO:2001014 ! regulation of skeletal muscle cell differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0035914 ! skeletal muscle cell differentiation relationship: negatively_regulates GO:0035914 ! skeletal muscle cell differentiation created_by: yaf creation_date: 2011-08-11T08:54:41Z [Term] id: GO:2001016 name: positive regulation of skeletal muscle cell differentiation namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of skeletal muscle cell differentiation." [GOC:obol] is_a: GO:0045597 ! positive regulation of cell differentiation is_a: GO:2001014 ! regulation of skeletal muscle cell differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0035914 ! skeletal muscle cell differentiation relationship: positively_regulates GO:0035914 ! skeletal muscle cell differentiation created_by: yaf creation_date: 2011-08-11T08:54:44Z [Term] id: GO:2001053 name: regulation of mesenchymal cell apoptotic process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of mesenchymal cell apoptotic process." [GOC:mtg_apoptosis, GOC:obol] synonym: "regulation of mesenchymal cell apoptosis" NARROW [] is_a: GO:0042981 ! regulation of apoptotic process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0097152 ! mesenchymal cell apoptotic process relationship: regulates GO:0097152 ! mesenchymal cell apoptotic process created_by: yaf creation_date: 2011-09-08T02:49:59Z [Term] id: GO:2001054 name: negative regulation of mesenchymal cell apoptotic process namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of mesenchymal cell apoptotic process." [GOC:mtg_apoptosis, GOC:obol] synonym: "negative regulation of mesenchymal cell apoptosis" NARROW [] is_a: GO:0043066 ! negative regulation of apoptotic process is_a: GO:2001053 ! regulation of mesenchymal cell apoptotic process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0097152 ! mesenchymal cell apoptotic process relationship: negatively_regulates GO:0097152 ! mesenchymal cell apoptotic process created_by: yaf creation_date: 2011-09-08T02:50:05Z [Term] id: GO:2001055 name: positive regulation of mesenchymal cell apoptotic process namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of mesenchymal cell apoptotic process." [GOC:mtg_apoptosis, GOC:obol] synonym: "positive regulation of mesenchymal cell apoptosis" NARROW [] is_a: GO:0043065 ! positive regulation of apoptotic process is_a: GO:2001053 ! regulation of mesenchymal cell apoptotic process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0097152 ! mesenchymal cell apoptotic process relationship: positively_regulates GO:0097152 ! mesenchymal cell apoptotic process created_by: yaf creation_date: 2011-09-08T02:50:09Z [Term] id: GO:2001141 name: regulation of RNA biosynthetic process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of RNA biosynthetic process." [GOC:dph] synonym: "regulation of RNA anabolism" EXACT [GOC:obol] synonym: "regulation of RNA biosynthesis" EXACT [GOC:obol] synonym: "regulation of RNA formation" EXACT [GOC:obol] synonym: "regulation of RNA synthesis" EXACT [GOC:obol] is_a: GO:0010556 ! regulation of macromolecule biosynthetic process is_a: GO:0031326 ! regulation of cellular biosynthetic process is_a: GO:0051252 ! regulation of RNA metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0032774 ! RNA biosynthetic process relationship: regulates GO:0032774 ! RNA biosynthetic process created_by: dph creation_date: 2011-10-17T11:36:25Z [Term] id: GO:2001212 name: regulation of vasculogenesis namespace: biological_process def: "Any process that modulates the frequency, rate or extent of vasculogenesis." [GOC:obol] synonym: "regulation of vascular morphogenesis" EXACT [GOC:obol] is_a: GO:0045595 ! regulation of cell differentiation intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0001570 ! vasculogenesis relationship: regulates GO:0001570 ! vasculogenesis created_by: yaf creation_date: 2011-11-15T01:22:31Z [Term] id: GO:2001213 name: negative regulation of vasculogenesis namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of vasculogenesis." [GOC:obol] synonym: "negative regulation of vascular morphogenesis" EXACT [GOC:obol] is_a: GO:0045596 ! negative regulation of cell differentiation is_a: GO:2001212 ! regulation of vasculogenesis intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0001570 ! vasculogenesis relationship: negatively_regulates GO:0001570 ! vasculogenesis created_by: yaf creation_date: 2011-11-15T01:22:36Z [Term] id: GO:2001214 name: positive regulation of vasculogenesis namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of vasculogenesis." [GOC:obol] synonym: "positive regulation of vascular morphogenesis" EXACT [GOC:obol] is_a: GO:0045597 ! positive regulation of cell differentiation is_a: GO:2001212 ! regulation of vasculogenesis intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0001570 ! vasculogenesis relationship: positively_regulates GO:0001570 ! vasculogenesis created_by: yaf creation_date: 2011-11-15T01:22:39Z [Term] id: GO:2001233 name: regulation of apoptotic signaling pathway namespace: biological_process def: "Any process that modulates the frequency, rate or extent of apoptotic signaling pathway." [GOC:mtg_apoptosis] synonym: "regulation of apoptotic signalling pathway" EXACT [GOC:mah] is_a: GO:0009966 ! regulation of signal transduction is_a: GO:0042981 ! regulation of apoptotic process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0097190 ! apoptotic signaling pathway relationship: regulates GO:0097190 ! apoptotic signaling pathway created_by: pr creation_date: 2011-11-24T01:20:49Z [Term] id: GO:2001234 name: negative regulation of apoptotic signaling pathway namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of apoptotic signaling pathway." [GOC:mtg_apoptosis] synonym: "negative regulation of apoptotic signalling pathway" EXACT [GOC:mah] is_a: GO:0009968 ! negative regulation of signal transduction is_a: GO:0043066 ! negative regulation of apoptotic process is_a: GO:2001233 ! regulation of apoptotic signaling pathway intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0097190 ! apoptotic signaling pathway relationship: negatively_regulates GO:0097190 ! apoptotic signaling pathway created_by: pr creation_date: 2011-11-24T01:20:54Z [Term] id: GO:2001235 name: positive regulation of apoptotic signaling pathway namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of apoptotic signaling pathway." [GOC:mtg_apoptosis] synonym: "positive regulation of apoptotic signalling pathway" EXACT [GOC:mah] is_a: GO:0009967 ! positive regulation of signal transduction is_a: GO:0043065 ! positive regulation of apoptotic process is_a: GO:2001233 ! regulation of apoptotic signaling pathway intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0097190 ! apoptotic signaling pathway relationship: positively_regulates GO:0097190 ! apoptotic signaling pathway created_by: pr creation_date: 2011-11-24T01:20:58Z [Term] id: GO:2001251 name: negative regulation of chromosome organization namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of chromosome organization." [GOC:obol] synonym: "negative regulation of chromosome organisation" EXACT [GOC:obol] synonym: "negative regulation of chromosome organization and biogenesis" RELATED [GOC:obol] synonym: "negative regulation of maintenance of genome integrity" RELATED [GOC:obol] synonym: "negative regulation of nuclear genome maintenance" RELATED [GOC:obol] is_a: GO:0010639 ! negative regulation of organelle organization is_a: GO:0033044 ! regulation of chromosome organization intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0051276 ! chromosome organization relationship: negatively_regulates GO:0051276 ! chromosome organization created_by: yaf creation_date: 2011-12-02T02:01:20Z [Term] id: GO:2001252 name: positive regulation of chromosome organization namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of chromosome organization." [GOC:obol] synonym: "positive regulation of chromosome organisation" EXACT [GOC:obol] synonym: "positive regulation of chromosome organization and biogenesis" RELATED [GOC:obol] synonym: "positive regulation of maintenance of genome integrity" RELATED [GOC:obol] synonym: "positive regulation of nuclear genome maintenance" RELATED [GOC:obol] is_a: GO:0010638 ! positive regulation of organelle organization is_a: GO:0033044 ! regulation of chromosome organization intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0051276 ! chromosome organization relationship: positively_regulates GO:0051276 ! chromosome organization created_by: yaf creation_date: 2011-12-02T02:01:26Z [Term] id: IAO:0000027 name: data item def: "a data item is an information content entity that is intended to be a truthful statement about something (modulo, e.g., measurement precision or other systematic errors) and is constructed/acquired by a method which reliably tends to produce (approximately) truthful statements." [] def: "An information content entity that is intended to be a truthful statement about something (modulo, e.g., measurement precision or other systematic errors) and is constructed/acquired by a method which reliably tends to produce (approximately) truthful statements." [] is_a: IAO:0000030 ! information content entity property_value: editor_note "2/2/2009 Alan and Bjoern discussing FACS run output data. This is a data item because it is about the cell population. Each element records an event and is typically further composed a set of measurment data items that record the fluorescent intensity stimulated by one of the lasers." xsd:string property_value: editor_note "2009-03-16: data item deliberatly ambiguous: we merged data set and datum to be one entity, not knowing how to define singular versus plural. So data item is more general than datum." xsd:string property_value: editor_note "2009-03-16: removed datum as alternative term as datum specifically refers to singular form, and is thus not an exact synonym." xsd:string property_value: editor_note "2014-03-31: See discussion at http://odontomachus.wordpress.com/2014/03/30/aboutness-objects-propositions/" xsd:string property_value: editor_note "JAR: datum -- well, this will be very tricky to define, but maybe some \ninformation-like stuff that might be put into a computer and that is \nmeant, by someone, to denote and/or to be interpreted by some \nprocess... I would include lists, tables, sentences... I think I might \ndefer to Barry, or to Brian Cantwell Smith\n\nJAR: A data item is an approximately justified approximately true approximate belief" xsd:string property_value: example_of_usage "Data items include counts of things, analyte concentrations, and statistical summaries." xsd:string property_value: IAO:0000111 "data item" xsd:string property_value: IAO:0000114 IAO:0000125 property_value: IAO:0000117 "PERSON: Alan Ruttenberg" xsd:string property_value: IAO:0000117 "PERSON: Chris Stoeckert" xsd:string property_value: IAO:0000117 "PERSON: Jonathan Rees" xsd:string property_value: IAO:0000118 "data" xsd:string property_value: IAO:0000412 http://purl.obolibrary.org/obo/obi.owl [Term] id: IAO:0000030 name: information content entity def: "A generically dependent continuant that is about some thing." [] is_a: BFO:0000031 ! generically dependent continuant relationship: IAO:0000136 BFO:0000001 ! is about entity property_value: editor_note "2014-03-10: The use of \"thing\" is intended to be general enough to include universals and configurations (see https://groups.google.com/d/msg/information-ontology/GBxvYZCk1oc/-L6B5fSBBTQJ)." xsd:string property_value: editor_note "information_content_entity 'is_encoded_in' some digital_entity in obi before split (040907). information_content_entity 'is_encoded_in' some physical_document in obi before split (040907).\n\nPrevious. An information content entity is a non-realizable information entity that 'is encoded in' some digital or physical entity." xsd:string property_value: example_of_usage "Examples of information content entites include journal articles, data, graphical layouts, and graphs." xsd:string property_value: IAO:0000111 "information content entity" xsd:string property_value: IAO:0000114 IAO:0000122 property_value: IAO:0000117 "PERSON: Chris Stoeckert" xsd:string property_value: IAO:0000119 "OBI_0000142" xsd:string [Term] id: IAO:0000078 name: curation status specification def: "The curation status of the term. The allowed values come from an enumerated list of predefined terms. See the specification of these instances for more detailed definitions of each enumerated value." [] is_a: IAO:0000102 ! data about an ontology part property_value: editor_note "Better to represent curation as a process with parts and then relate labels to that process (in IAO meeting)" xsd:string property_value: IAO:0000111 "curation status specification" xsd:string property_value: IAO:0000114 IAO:0000125 property_value: IAO:0000117 "PERSON:Bill Bug" xsd:string property_value: IAO:0000119 GROUP:OBI: xsd:string property_value: IAO:0000119 "OBI_0000266" xsd:string [Term] id: IAO:0000102 name: data about an ontology part def: "Data about an ontology part is a data item about a part of an ontology, for example a term" [] is_a: IAO:0000027 ! data item property_value: IAO:0000111 "data about an ontology part" xsd:string property_value: IAO:0000117 "Person:Alan Ruttenberg" xsd:string [Term] id: IAO:0000225 name: obsolescence reason specification def: "The reason for which a term has been deprecated. The allowed values come from an enumerated list of predefined terms. See the specification of these instances for more detailed definitions of each enumerated value." [] is_a: IAO:0000102 ! data about an ontology part property_value: editor_note "The creation of this class has been inspired in part by Werner Ceusters' paper, Applying evolutionary terminology auditing to the Gene Ontology." xsd:string property_value: IAO:0000111 "obsolescence reason specification" xsd:string property_value: IAO:0000114 IAO:0000125 property_value: IAO:0000117 "PERSON: Alan Ruttenberg" xsd:string property_value: IAO:0000117 "PERSON: Melanie Courtot" xsd:string [Term] id: IAO:0000409 name: denotator type def: "A denotator type indicates how a term should be interpreted from an ontological perspective." [] is_a: IAO:0000102 ! data about an ontology part property_value: example_of_usage "The Basic Formal Ontology ontology makes a distinction between Universals and defined classes, where the formal are \"natural kinds\" and the latter arbitrary collections of entities." xsd:string property_value: IAO:0000111 "denotator type" xsd:string property_value: IAO:0000117 "Alan Ruttenberg" xsd:string property_value: IAO:0000119 "Barry Smith, Werner Ceusters" xsd:string [Term] id: NBO:0000001 name: body part movement is_a: NBO:0000338 ! kinesthetic behavior [Term] id: NBO:0000003 name: emotional behavior namespace: behavior_ontology def: "\"Behavior related to the complex psychophysiological experience of an individual's state of mind as interacting with biochemical (internal) and environmental (external) influences.\" [wikipedia:Emotions]" [] synonym: "affective behaviour" EXACT [] synonym: "mood" EXACT [] is_a: NBO:0000313 ! behavior process property_value: http://purl.org/dc/elements/1.1/date 2011-04-14T01:03:39Z xsd:string created_by: George Gkoutos [Term] id: NBO:0000007 name: mouth movement is_a: NBO:0000001 ! body part movement [Term] id: NBO:0000010 name: reproductive behavior namespace: behavior_ontology def: "Behavior directly related to the production of offspring [NBO:AC]" [] synonym: "reproduction" EXACT [] synonym: "reproductive behaviour" EXACT [] xref: GO:0019098 is_a: NBO:0000313 ! behavior process property_value: http://purl.org/dc/elements/1.1/date 2011-04-14T01:03:39Z xsd:string created_by: George Gkoutos [Term] id: NBO:0000011 name: social behavior namespace: behavior_ontology def: "\"A behavior that occurs predominantly or only, in individuals that are part of a group.\" [Wikipedia:Social_behavior]" [] synonym: "social behaviour" EXACT [] xref: GO:0035176 is_a: NBO:0000313 ! behavior process property_value: http://purl.org/dc/elements/1.1/date 2011-04-14T01:03:39Z xsd:string created_by: George Gkoutos [Term] id: NBO:0000014 name: mating behavior namespace: behavior_ontology def: "\"Behavior related to the interactions between organisms for the purpose of mating.\" [NBO:GVG]" [] synonym: "mating behaviour" EXACT [] xref: GO:0007617 is_a: NBO:0000010 ! reproductive behavior disjoint_from: NBO:0000034 ! sexual activity property_value: http://purl.org/dc/elements/1.1/date 2011-04-14T01:03:39Z xsd:string created_by: George Gkoutos [Term] id: NBO:0000015 name: aggressive behavior namespace: behavior_ontology def: "\"A behavioral interaction between organisms in which one organism has the intention of inflicting damage on another individual using physical or verbal means.\" [wikipedia:Aggression]" [] synonym: "aggression" EXACT [] synonym: "aggressive behaviour" EXACT [] synonym: "agonism" EXACT [] xref: GO:0002118 is_a: NBO:0000003 ! emotional behavior property_value: http://purl.org/dc/elements/1.1/date 2011-04-14T01:03:39Z xsd:string created_by: George Gkoutos [Term] id: NBO:0000034 name: sexual activity namespace: behavior_ontology def: "\"Behaviour related to the activity which primary purpose is the sexual reproduction.\" [NBO:GVG]" [] synonym: "sexual actions" RELATED [] is_a: NBO:0000010 ! reproductive behavior property_value: http://purl.org/dc/elements/1.1/date 2011-04-14T01:03:39Z xsd:string created_by: George Gkoutos [Term] id: NBO:0000060 name: copulation namespace: behavior_ontology def: "Male's insertion of sperm-transfer organ into the body of the female [NBO:SMAC]" [] synonym: "copulate" EXACT [] is_a: NBO:0000034 ! sexual activity disjoint_from: NBO:0000548 ! male sexual activity property_value: http://purl.org/dc/elements/1.1/date 2011-04-14T01:03:39Z xsd:string created_by: George Gkoutos [Term] id: NBO:0000063 name: regulation of eating behavior namespace: behavior_ontology def: "\"A feeding behavior associated with the intake or the frequency of intake or preference or manner of intake of food.\" [NBO:GVG]" [] synonym: "eating behaviour" EXACT [] xref: GO:0042755 is_a: NBO:0002436 ! regulation of feeding behavior relationship: regulates NBO:0000134 ! food consumption property_value: http://purl.org/dc/elements/1.1/date 2011-04-14T01:20:02Z xsd:string created_by: George Gkoutos [Term] id: NBO:0000064 name: regulation of drinking behavior namespace: behavior_ontology def: "\"A feeding behavior associated with the intake or the frequency of intake or preference or manner of intake of liquids.\" [NBO:GVG]" [] synonym: "drinking behaviour" EXACT [] xref: GO:0042756 is_a: NBO:0002436 ! regulation of feeding behavior relationship: regulates NBO:0000130 ! liquid consumption property_value: http://purl.org/dc/elements/1.1/date 2011-04-14T01:20:02Z xsd:string created_by: George Gkoutos [Term] id: NBO:0000073 name: chewing is_a: NBO:0000747 ! jaw movement [Term] id: NBO:0000077 name: courtship behavior namespace: behavior_ontology def: "\"The behavioral interactions between organisms for the purpose of attracting sexual partners.\" [GOC:dph]" [] synonym: "courtship" EXACT [] synonym: "courtship behaviour" EXACT [] xref: GO:0007619 is_a: NBO:0000014 ! mating behavior disjoint_from: NBO:0000146 ! mating receptivity property_value: http://purl.org/dc/elements/1.1/date 2011-04-14T01:20:02Z xsd:string created_by: George Gkoutos [Term] id: NBO:0000078 name: post-mating behavior namespace: behavior_ontology alt_id: NBO:0000325 def: "\"Behavior related to the specific actions or reactions of an organism following mating.\" [GOC:bf]" [] synonym: "post mating behaviour" EXACT [] synonym: "post-copulatory behavior" EXACT [] synonym: "post-mating behaviour" EXACT [] xref: GO:0045297 is_a: NBO:0000010 ! reproductive behavior property_value: http://purl.org/dc/elements/1.1/date 2011-04-14T01:20:02Z xsd:string created_by: George Gkoutos [Term] id: NBO:0000079 name: feeding behavior namespace: behavior_ontology def: "The act of bringing an object or substance into the body by swallowing, surrounding or absorbing it [NBO:SMAC]" [] synonym: "feeding behaviour" EXACT [] xref: GO:0007631 is_a: NBO:0001845 ! consumption behavior property_value: http://purl.org/dc/elements/1.1/date 2011-04-14T01:20:02Z xsd:string created_by: George Gkoutos [Term] id: NBO:0000087 name: antipredation behavior namespace: behavior_ontology def: "\"Behavior related to defence against predation or predators.\" [NBO:GVG]" [] synonym: "antipredator behavior" EXACT [] is_a: NBO:0000636 ! protective behavior property_value: http://purl.org/dc/elements/1.1/date 2011-04-14T01:20:02Z xsd:string created_by: George Gkoutos [Term] id: NBO:0000088 name: acute stress response namespace: behavior_ontology def: "\"Behavior related to the preparation of the body to \\\"fight\\\" or \\\"flee\\\" from perceived attack, harm or threat.\" [NBO:GVG]" [] synonym: "fight-or-flight response" EXACT [] synonym: "fight-or-flight-or-freeze response" EXACT [] is_a: NBO:0000087 ! antipredation behavior is_a: NBO:0000470 ! behavioral alarm property_value: http://purl.org/dc/elements/1.1/date 2011-04-14T01:20:02Z xsd:string created_by: George Gkoutos [Term] id: NBO:0000089 name: predator behavior namespace: behavior_ontology def: "\"A physical aggression behavior involving attack on prey by a predator.\" [NBO:GVG]" [] synonym: "predatory aggression" EXACT [] synonym: "predatory aggressive behaviour" EXACT [] xref: GO:0002120 is_a: NBO:0000120 ! physical aggression behavior is_a: NBO:0000235 ! hunger motivation behavior property_value: http://purl.org/dc/elements/1.1/date 2011-04-14T01:20:02Z xsd:string created_by: George Gkoutos [Term] id: NBO:0000105 name: aggressive behavior towards animals namespace: behavior_ontology def: "\"Exhibiting a domineering, assault posture and/or hostile physical action towards animals.\" [NBO:GVG]" [] synonym: "aggressive behavior towards animals" EXACT [] is_a: NBO:0000740 ! aggressive behavior by intent property_value: http://purl.org/dc/elements/1.1/date 2011-03-31T10:51:12Z xsd:string created_by: George Gkoutos [Term] id: NBO:0000120 name: physical aggression behavior namespace: behavior_ontology def: "\"An aggressive behavior that aims to inflicting damage on another entity using physical means.\" [NBO:GVG]" [] synonym: "physical aggression behaviour" EXACT [] synonym: "violent behaviour" EXACT [] is_a: NBO:0000741 ! aggressive behavior by means property_value: http://purl.org/dc/elements/1.1/date 2011-03-31T11:14:04Z xsd:string created_by: George Gkoutos [Term] id: NBO:0000121 name: agonistic behavior namespace: behavior_ontology synonym: "agonism" EXACT [] is_a: NBO:0000003 ! emotional behavior is_a: NBO:0000011 ! social behavior property_value: http://purl.org/dc/elements/1.1/date 2011-03-31T11:42:15Z xsd:string created_by: George Gkoutos [Term] id: NBO:0000122 name: submissive behavior namespace: behavior_ontology def: "Any behavior that tends to prevent further or future attack, often by signalling a willingness to yield or surrender [NBO:AC]" [] synonym: "submissive behaviour" EXACT [] is_a: NBO:0000121 ! agonistic behavior disjoint_from: NBO:0000127 ! retreat behavior property_value: http://purl.org/dc/elements/1.1/date 2011-03-31T11:43:11Z xsd:string created_by: George Gkoutos [Term] id: NBO:0000127 name: retreat behavior namespace: behavior_ontology def: "Behavior by which an animal removes itself spatially from an agonistic encounter in which it is not the winner [NBO:AC]" [] synonym: "retreat" EXACT [] synonym: "retreat behaviour" EXACT [] is_a: NBO:0000121 ! agonistic behavior property_value: http://purl.org/dc/elements/1.1/date 2011-03-31T11:49:03Z xsd:string created_by: George Gkoutos [Term] id: NBO:0000128 name: irritability behavior namespace: behavior_ontology def: "\"Behavior characterized by a quick excitability to annoyance, impatience, or anger.\" [NBO:GVG]" [] is_a: NBO:0000121 ! agonistic behavior property_value: http://purl.org/dc/elements/1.1/date 2011-03-31T12:16:00Z xsd:string created_by: George Gkoutos [Term] id: NBO:0000130 name: liquid consumption namespace: behavior_ontology def: "\"A behavior associated with the intake of liquid.\" [NBO:GVG]" [] is_a: NBO:0000079 ! feeding behavior relationship: has_participant PATO:0001548 ! quality of a liquid property_value: http://purl.org/dc/elements/1.1/date 2011-03-31T12:40:37Z xsd:string created_by: George Gkoutos [Term] id: NBO:0000134 name: food consumption namespace: behavior_ontology def: "\"A feeding behavior associated with the intake of food.\" [NBO:GVG]" [] is_a: NBO:0000079 ! feeding behavior intersection_of: NBO:0000079 ! feeding behavior intersection_of: has_participant CHEBI:33290 ! food relationship: has_participant CHEBI:33290 ! food property_value: http://purl.org/dc/elements/1.1/date 2011-03-31T12:42:46Z xsd:string created_by: George Gkoutos [Term] id: NBO:0000146 name: mating receptivity namespace: behavior_ontology is_a: NBO:0000014 ! mating behavior property_value: http://purl.org/dc/elements/1.1/date 2011-03-31T02:17:36Z xsd:string created_by: George Gkoutos [Term] id: NBO:0000147 name: sexual display behavior namespace: behavior_ontology synonym: "mate attraction behavior" NARROW [] is_a: NBO:0000014 ! mating behavior property_value: http://purl.org/dc/elements/1.1/date 2011-03-31T02:21:53Z xsd:string created_by: George Gkoutos [Term] id: NBO:0000233 name: motivation behavior namespace: behavior_ontology alt_id: NBO:0000050 def: "\"Behavior related to the tendency of an organism to maintain internal equilibrium.\" [NBO:GVG]" [] synonym: "behavioral homeostasis" EXACT [] synonym: "maintenance behaviour" EXACT [] synonym: "perception of need" EXACT [] is_a: NBO:0000313 ! behavior process property_value: http://purl.org/dc/elements/1.1/date 2011-04-04T08:29:40Z xsd:string created_by: George Gkoutos [Term] id: NBO:0000235 name: hunger motivation behavior namespace: behavior_ontology def: "\"Behavior related to the deprivation of food.\" [NBO:GVG]" [] synonym: "appetite related behaviour" EXACT [] is_a: NBO:0000233 ! motivation behavior property_value: http://purl.org/dc/elements/1.1/date 2011-04-04T08:30:11Z xsd:string created_by: George Gkoutos [Term] id: NBO:0000285 name: altruism behavior namespace: behavior_ontology def: "\"A helping behavior (without expectation of extrinsic rewards and sometimes involving personal risk or sacrifice) that benefits individuals or society.\" [NBO:GVG]" [] is_a: NBO:0000286 ! prosocial behavior property_value: http://purl.org/dc/elements/1.1/date 2011-04-04T09:19:33Z xsd:string created_by: George Gkoutos [Term] id: NBO:0000286 name: prosocial behavior namespace: behavior_ontology def: "\"Prosocial behavior is caring about the welfare and rights of others, feeling concern and empathy for them, and acting in ways that benefit others.\" [wikipedia:Prosocial_behavior]" [] is_a: NBO:0000011 ! social behavior property_value: http://purl.org/dc/elements/1.1/date 2011-04-04T09:22:04Z xsd:string created_by: George Gkoutos [Term] id: NBO:0000287 name: helping behavior namespace: behavior_ontology def: "\"Helping behavior refers to voluntary actions intended to help the others, with reward regarded or disregarded.\" [wikipedia:Helping_behavior]" [] is_a: NBO:0000286 ! prosocial behavior property_value: http://purl.org/dc/elements/1.1/date 2011-04-04T09:23:26Z xsd:string created_by: George Gkoutos [Term] id: NBO:0000288 name: reciprocal altruism namespace: behavior_ontology def: "\"Reciprocal altruism is the idea that the incentive for an individual to help in the present is based on the expectation of the potential receipt in the future.\" [wikipedia:Helping_behavior]" [] is_a: NBO:0000286 ! prosocial behavior property_value: http://purl.org/dc/elements/1.1/date 2011-04-04T09:25:04Z xsd:string created_by: George Gkoutos [Term] id: NBO:0000296 name: conciliation behavior namespace: behavior_ontology def: "Behavior that facilitates the restoration of normal interactions between parties that recently engaged in a conflict.[NBO:AC]" [] synonym: "reconciliation" EXACT [] synonym: "reconciliation behavior" EXACT [] is_a: NBO:0000121 ! agonistic behavior property_value: http://purl.org/dc/elements/1.1/date 2011-04-19T09:50:09Z xsd:string created_by: George Gkoutos [Term] id: NBO:0000313 name: behavior process namespace: behavior_ontology alt_id: NBO:0000000 def: "\"The action, reaction, or performance of an organism in response to external or internal stimuli.\" [GO:GO\\:0007610]" [] synonym: "behavior" EXACT [] synonym: "behaviour" EXACT [] xref: GO:0007610 is_a: GO:0007610 ! behavior property_value: http://purl.org/dc/elements/1.1/date 2011-04-05T09:53:10Z xsd:string created_by: George Gkoutos [Term] id: NBO:0000338 name: kinesthetic behavior is_a: NBO:0000313 ! behavior process [Term] id: NBO:0000469 name: stress related behavior namespace: behavior_ontology def: "\"Behavior related to how the body reacts to a stressor ( a stimulus that causes stress), real or imagined.\" [wikipedia:Stress_(biological)]" [] comment: It refers to the consequence of the failure of an organism to respond adequately to mental, emotional or physical demands, whether actual or imagined. is_a: NBO:0000313 ! behavior process property_value: http://purl.org/dc/elements/1.1/date 2011-04-08T01:52:36Z xsd:string created_by: George Gkoutos [Term] id: NBO:0000470 name: behavioral alarm namespace: behavior_ontology def: "\"Behavior related to the identification or realization of a threat or a stressor.\" [wikipedia:Stress_(biological)]" [] is_a: NBO:0000469 ! stress related behavior property_value: http://purl.org/dc/elements/1.1/date 2011-04-08T01:55:58Z xsd:string created_by: George Gkoutos [Term] id: NBO:0000471 name: predator avoidance behavior namespace: behavior_ontology is_a: NBO:0000088 ! acute stress response is_a: NBO:0000127 ! retreat behavior property_value: http://purl.org/dc/elements/1.1/date 2011-04-08T02:00:36Z xsd:string created_by: George Gkoutos [Term] id: NBO:0000548 name: male sexual activity namespace: behavior_ontology def: "\"Behaviour related to the male activity which primary purpose is the sexual reproduction.\" [NBO:GVG]" [] is_a: NBO:0000034 ! sexual activity property_value: http://purl.org/dc/elements/1.1/date 2011-04-10T10:41:10Z xsd:string created_by: George Gkoutos [Term] id: NBO:0000549 name: female sexual activity namespace: behavior_ontology def: "\"Behaviour related to the female activity which primary purpose is the sexual reproduction.\" [NBO:GVG]" [] is_a: NBO:0000034 ! sexual activity property_value: http://purl.org/dc/elements/1.1/date 2011-04-10T10:41:10Z xsd:string created_by: George Gkoutos [Term] id: NBO:0000612 name: communication behavior namespace: behavior_ontology def: "\"A social behavior related to the activity of conveying information.\" [wikipedia:Communication]" [] synonym: "communicating" EXACT [] synonym: "signal exchange" NARROW [] is_a: NBO:0000011 ! social behavior property_value: http://purl.org/dc/elements/1.1/date 2011-04-14T04:39:42Z xsd:string created_by: George Gkoutos [Term] id: NBO:0000613 name: nonverbal communication behavior namespace: behavior_ontology def: "\"Communication behavior related to the process of conveying meaning in the form of non-word messages through for example gesture, body language or posture; facial expression and eye contact etc.\" [wikipedia:.wikipedia.org/wiki/Nonverbal_communication]" [] synonym: "non-verbal communication behaviour" EXACT [] synonym: "nonverbal communication behaviour" EXACT [] is_a: NBO:0000612 ! communication behavior property_value: http://purl.org/dc/elements/1.1/date 2011-04-14T04:40:59Z xsd:string created_by: George Gkoutos [Term] id: NBO:0000633 name: territorial aggressive behavior namespace: behavior_ontology def: "\"Aggressive behavior related to the defence of a fixed area against intruders, typically conspecifics.\" [GOC:hjd]" [] synonym: "territorial aggression" EXACT [] synonym: "territorial aggressive behaviour" EXACT [] xref: GO:0002124 is_a: NBO:0000105 ! aggressive behavior towards animals property_value: http://purl.org/dc/elements/1.1/date 2011-04-19T02:02:11Z xsd:string created_by: George Gkoutos [Term] id: NBO:0000635 name: avoidance behavior namespace: behavior_ontology def: "\"Behavior related to the activity seen in animals exposed to adverse stimuli, in which the tendency to act defensively is stronger than the tendency to attack.\" [web:http\\://www.britannica.com/EBchecked/topic/45916/avoidance-behavior]" [] is_a: NBO:0000233 ! motivation behavior property_value: http://purl.org/dc/elements/1.1/date 2011-04-19T03:36:00Z xsd:string created_by: George Gkoutos [Term] id: NBO:0000636 name: protective behavior namespace: behavior_ontology def: "\"Behavior related to the activity seen in animals exposed to potential danger in which they exhibit the tendency to act defensively.\" [NBO:SD]" [] synonym: "defense" EXACT [] synonym: "defensive behaviour" EXACT [] is_a: NBO:0000635 ! avoidance behavior property_value: http://purl.org/dc/elements/1.1/date 2011-04-19T03:49:55Z xsd:string created_by: George Gkoutos [Term] id: NBO:0000637 name: male courtship behavior namespace: behavior_ontology def: "\"The actions or reactions of a male, for the purpose of attracting a sexual partner.\" [GOC:bf]" [] synonym: "male courtship behaviour" EXACT [] xref: GO:0008049 is_a: NBO:0000077 ! courtship behavior disjoint_from: NBO:0000638 ! female courtship behavior property_value: http://purl.org/dc/elements/1.1/date 2011-04-21T08:40:33Z xsd:string created_by: George Gkoutos [Term] id: NBO:0000638 name: female courtship behavior namespace: behavior_ontology def: "\"The actions or reactions of a female, for the purpose of attracting a sexual partner.\" [GOC:bf]" [] synonym: "female courtship behaviour" EXACT [] xref: GO:0008050 is_a: NBO:0000077 ! courtship behavior property_value: http://purl.org/dc/elements/1.1/date 2011-04-21T08:42:23Z xsd:string created_by: George Gkoutos [Term] id: NBO:0000740 name: aggressive behavior by intent namespace: behavior_ontology is_a: NBO:0000015 ! aggressive behavior property_value: http://purl.org/dc/elements/1.1/date 2012-02-16T01:16:13Z xsd:string created_by: gkoutos [Term] id: NBO:0000741 name: aggressive behavior by means namespace: behavior_ontology is_a: NBO:0000015 ! aggressive behavior property_value: http://purl.org/dc/elements/1.1/date 2012-02-16T01:16:31Z xsd:string created_by: gkoutos [Term] id: NBO:0000743 name: social aggression behavior namespace: behavior_ontology def: "\"An aggressive behavior towards other members of the society.\" [NBO:RH]" [] is_a: NBO:0000105 ! aggressive behavior towards animals is_a: NBO:0000121 ! agonistic behavior property_value: http://purl.org/dc/elements/1.1/date 2012-02-16T02:27:08Z xsd:string created_by: gkoutos [Term] id: NBO:0000747 name: jaw movement is_a: NBO:0000007 ! mouth movement [Term] id: NBO:0001786 name: regulation of behavior def: "\"Any process that modulates the frequency, rate or extent of behavior, the specific actions or reactions of an organism in response to external or internal stimuli.\" [GO:0050795]" [] xref: GO:0050795 is_a: NBO:0000313 ! behavior process relationship: regulates NBO:0000313 ! behavior process created_by: George Gkoutos [Term] id: NBO:0001845 name: consumption behavior def: "\"Behavior related to the intake of substances.\" [NBOC:GVG]" [] synonym: "ingest" BROAD [] is_a: NBO:0000313 ! behavior process created_by: George Gkoutos [Term] id: NBO:0002169 name: regulation of consumption behavior def: "\"Any process that modulates the frequency, rate or extent of consumption behavior, the specific actions or reactions of an organism in response to external or internal stimuli.\" [NBOC:GVG]" [] is_a: NBO:0001786 ! regulation of behavior relationship: regulates NBO:0001845 ! consumption behavior created_by: George Gkoutos [Term] id: NBO:0002436 name: regulation of feeding behavior def: "\"Any process that modulates the frequency, rate or extent of consumption of food or liquid\" [NBOC:GVG]" [] is_a: NBO:0002169 ! regulation of consumption behavior created_by: George Gkoutos [Term] id: NBO:0002603 name: regulation of sexual activity def: "\"Any process that modulates the frequency, rate or extent of sexual activity, the specific actions or reactions of an organism in response to external or internal stimuli.\" [NBOC:GVG]" [] is_a: NBO:0001786 ! regulation of behavior relationship: regulates NBO:0000034 ! sexual activity created_by: George Gkoutos [Term] id: NBO:0009003 name: hunting behavior def: "A predator behavior involving actively stalking prey over a distance." [] is_a: NBO:0000089 ! predator behavior is_a: NBO:0015003 ! active foraging behavior property_value: http://purl.org/dc/elements/1.1/contributor http://orcid.org/0000-0002-2908-3327 xsd:string property_value: http://purl.org/dc/elements/1.1/date 2019-03-11T13:51:02Z xsd:string created_by: Nicolas Matentzoglu [Term] id: NBO:0015000 name: ambush behavior def: "A predator behavior involving a surprise attack on unsuspecting prey. The predator remains in one place and waits for prey to come near. The predator conceals itself and then subdues its prey with its own body or body parts." [] is_a: NBO:0000089 ! predator behavior property_value: http://purl.org/dc/elements/1.1/contributor http://orcid.org/0000-0002-2908-3327 xsd:string property_value: http://purl.org/dc/elements/1.1/date 2019-03-11T13:51:02Z xsd:string created_by: Nicolas Matentzoglu [Term] id: NBO:0015002 name: trapping behavior def: "A predator behavior involving subduing prey using a structure or modification of the environment created by the predator for that purpose." [] is_a: NBO:0000089 ! predator behavior property_value: http://purl.org/dc/elements/1.1/contributor http://orcid.org/0000-0002-2908-3327 xsd:string property_value: http://purl.org/dc/elements/1.1/date 2019-03-11T13:51:02Z xsd:string created_by: Nicolas Matentzoglu [Term] id: NBO:0015003 name: active foraging behavior def: "Feeding behavior during which a living entity acquires food and energy by actively searching for food resources." [] is_a: NBO:0000079 ! feeding behavior property_value: http://purl.org/dc/elements/1.1/contributor http://orcid.org/0000-0002-2908-3327 xsd:string property_value: http://purl.org/dc/elements/1.1/date 2019-08-04T13:51:02Z xsd:string created_by: https://orcid.org/0000-0002-7356-1779 [Term] id: NBO:0020018 name: kill def: "Behavior in which one animal causes the death of another." [] synonym: "killing" EXACT [] is_a: NBO:0000121 ! agonistic behavior created_by: Luke Slater [Term] id: NBO:0020033 name: contact aggression def: "Agonistic behavior involving direct physical contact including (but not limited to) biting, kicking, grabbing." [] is_a: NBO:0000121 ! agonistic behavior created_by: Luke Slater [Term] id: NBO:0020048 name: facilitating oviposition def: "Deposition of eggs either into the medium, or onto a substrate." [] is_a: NBO:0000034 ! sexual activity created_by: Luke Slater [Term] id: NBO:0020063 name: coercion def: "Forcible alteration of behavior of one animal by another." [] is_a: NBO:0000121 ! agonistic behavior created_by: Luke Slater [Term] id: NBO:0020066 name: gamete release function def: "Facilitating release or transfer of gametes." [] is_a: NBO:0000034 ! sexual activity created_by: Luke Slater [Term] id: NBO:0020084 name: mate finding behavior def: "Active search for possible mates." [] is_a: NBO:0000010 ! reproductive behavior created_by: Luke Slater [Term] id: NBO:0020093 name: assessment behavior def: "A behavior on the part of one individual associated with evaluating the fighting ability or correlates of fighting ability of a potential opponent." [] is_a: NBO:0000121 ! agonistic behavior created_by: Luke Slater [Term] id: NBO:0020098 name: courtship begging def: "Behavior by one animals soliciting food provision by a potential mate." [] is_a: NBO:0000077 ! courtship behavior created_by: Luke Slater [Term] id: NBO:0020101 name: sexual cannibalism def: "Consumption of one member of a mating pair, usually the male, usually after the mating." [] is_a: NBO:0000077 ! courtship behavior created_by: Luke Slater [Term] id: NBO:0020108 name: threat def: "Behavior that signifies hostility and predicts an increased probability of attack." [] is_a: NBO:0000121 ! agonistic behavior created_by: Luke Slater [Term] id: NBO:0020111 name: injure def: "Behavior in which one animal causes bodily damage to another." [] synonym: "injuring" EXACT [] is_a: NBO:0000121 ! agonistic behavior created_by: Luke Slater [Term] id: NBO:0020112 name: agonistic buffering def: "Carrying or manipulation of infants or equivalent items to reduce chances of aggression on carrier by other animals." [] is_a: NBO:0000121 ! agonistic behavior created_by: Luke Slater [Term] id: NBO:0020141 name: agonistic chase def: "Chasing of one animal by another during an agonistic conflict." [] is_a: NBO:0000121 ! agonistic behavior created_by: Luke Slater [Term] id: NBO:0020145 name: agonistic alarm def: "Alarm behavior triggered by agonistic actions or postures" [] def: "Alarm behavior triggered by agonistic actions or postures." [] is_a: NBO:0000121 ! agonistic behavior is_a: NBO:0000470 ! behavioral alarm created_by: Luke Slater [Term] id: NBO:0020182 name: escalation def: "Increasing intensity of directed agonistic behavior." [] is_a: NBO:0000121 ! agonistic behavior created_by: Luke Slater [Term] id: NBO:0020220 name: exclusion def: "Behavior that serves to exlude an animal from a group." [] is_a: NBO:0000121 ! agonistic behavior created_by: Luke Slater [Term] id: NBO:0020239 name: triumph def: "Display behavior by the winner of a prior agonistic contest." [] is_a: NBO:0000121 ! agonistic behavior created_by: Luke Slater [Term] id: NBO:0020253 name: mating appeasement def: "Behavior that serves to demonstrate non-aggressive intent by one member of a courting or potentially mating pair to the other." [] is_a: NBO:0000077 ! courtship behavior created_by: Luke Slater [Term] id: NBO:0020254 name: sexual harassment def: "Any of several behaviors directed towards one animal unwilling to mate by another eager to do so." [] is_a: NBO:0000010 ! reproductive behavior created_by: Luke Slater [Term] id: NBO:0020255 name: displacement behavior def: "An acitvity that seems irrelevant to its behavioral context to a human observer and often occurs when its performer is in a conflict situation." [] is_a: NBO:0000121 ! agonistic behavior created_by: Luke Slater [Term] id: NBO:0020264 name: courtship feeding def: "Provision of food to a potential mate" [] is_a: NBO:0000077 ! courtship behavior created_by: Luke Slater [Term] id: NBO:0020273 name: breeding site selection def: "Actions resulting in establishment or use of one locale for reproductive activity." [] is_a: NBO:0000014 ! mating behavior created_by: Luke Slater [Term] id: NBO:0020279 name: appeasement def: "Behaviors that appear to signifiy lack of hostility and to reduce chances of attack." [] is_a: NBO:0000121 ! agonistic behavior created_by: Luke Slater [Term] id: NBO:0020298 name: sexual interference def: "Usually interference by members of one sex in the completion of courtship or mating activities by one or more members of the same sex." [] is_a: NBO:0000010 ! reproductive behavior created_by: Luke Slater [Term] id: NBO:0020299 name: mate rejection def: "Behavior associated with refusing courtship or solicitation behaviors by avoidance, retreat, or other active repulsion of suitor." [] is_a: NBO:0000010 ! reproductive behavior created_by: Luke Slater [Term] id: NCBITaxon:1 name: root namespace: ncbi_taxonomy synonym: "all" RELATED synonym [] xref: GC_ID:1 is_a: OBI:0100026 ! organism [Term] id: NCBITaxon:10066 name: Muridae namespace: ncbi_taxonomy xref: GC_ID:1 xref: PMID:15371245 is_a: NCBITaxon:337687 ! Muroidea property_value: has_rank NCBITaxon:family [Term] id: NCBITaxon:10088 name: Mus namespace: ncbi_taxonomy synonym: "mice" EXACT common_name [] synonym: "mouse" EXACT common_name [] synonym: "Mus" EXACT scientific_name [] xref: GC_ID:1 is_a: NCBITaxon:39107 ! Murinae property_value: has_rank NCBITaxon:genus [Term] id: NCBITaxon:10090 name: Mus musculus namespace: ncbi_taxonomy alt_id: NCBITaxon:85055 synonym: "house mouse" EXACT genbank_common_name [] synonym: "mouse" EXACT common_name [] xref: GC_ID:1 is_a: NCBITaxon:862507 ! Mus property_value: has_rank NCBITaxon:species [Term] id: NCBITaxon:10239 name: Viruses is_a: OBI:0100026 ! organism [Term] id: NCBITaxon:117570 name: Teleostomi namespace: ncbi_taxonomy xref: GC_ID:1 is_a: NCBITaxon:7776 ! Gnathostomata relationship: in_taxon NCBITaxon:117570 ! Teleostomi property_value: has_rank NCBITaxon:clade property_value: isDefinedBy http://purl.obolibrary.org/obo/ncbitaxon.owl [Term] id: NCBITaxon:117571 name: Euteleostomi namespace: ncbi_taxonomy alt_id: NCBITaxon:40673 synonym: "bony vertebrates" EXACT genbank_common_name [] xref: GC_ID:1 is_a: NCBITaxon:117570 ! Teleostomi relationship: in_taxon NCBITaxon:117571 ! Euteleostomi property_value: has_rank NCBITaxon:clade property_value: isDefinedBy http://purl.obolibrary.org/obo/ncbitaxon.owl [Term] id: NCBITaxon:1206794 name: Ecdysozoa namespace: ncbi_taxonomy xref: GC_ID:1 is_a: NCBITaxon:33317 ! Protostomia property_value: has_rank NCBITaxon:clade [Term] id: NCBITaxon:131221 name: Streptophytina namespace: ncbi_taxonomy synonym: "Charophyta/Embryophyta group" RELATED synonym [] synonym: "charophyte/embryophyte group" EXACT equivalent_name [] xref: GC_ID:1 is_a: NCBITaxon:35493 ! Streptophyta property_value: has_rank NCBITaxon:subphylum [Term] id: NCBITaxon:131567 name: cellular organisms namespace: ncbi_taxonomy synonym: "biota" RELATED synonym [] xref: GC_ID:1 is_a: NCBITaxon:1 ! root property_value: isDefinedBy http://purl.obolibrary.org/obo/ncbitaxon.owl [Term] id: NCBITaxon:1329799 name: Archelosauria namespace: ncbi_taxonomy synonym: "Archosauria-Testudines" RELATED synonym [] synonym: "Testudines + Archosauria group" RELATED synonym [] xref: GC_ID:1 xref: PMID:22839753 xref: PMID:25450099 is_a: NCBITaxon:32561 ! Sauria property_value: has_rank NCBITaxon:clade [Term] id: NCBITaxon:1338369 name: Dipnotetrapodomorpha namespace: ncbi_taxonomy xref: GC_ID:1 is_a: NCBITaxon:8287 ! Sarcopterygii property_value: has_rank NCBITaxon:clade property_value: isDefinedBy http://purl.obolibrary.org/obo/ncbitaxon.owl [Term] id: NCBITaxon:142796 name: Eumycetozoa namespace: ncbi_taxonomy synonym: "Eumycetozoa Zopf, 1884" RELATED synonym [] synonym: "Mycetozoa" RELATED synonym [] synonym: "mycetozoans" RELATED synonym [] xref: GC_ID:1 xref: PMID:11062127 xref: PMID:9342353 is_a: NCBITaxon:2605435 ! Evosea property_value: has_rank NCBITaxon:class [Term] id: NCBITaxon:1437010 name: Boreoeutheria namespace: ncbi_taxonomy synonym: "Boreotheria" RELATED synonym [] xref: GC_ID:1 xref: PMID:11743200 xref: PMID:11791233 is_a: NCBITaxon:9347 ! Eutheria property_value: has_rank NCBITaxon:clade property_value: isDefinedBy http://purl.obolibrary.org/obo/ncbitaxon.owl [Term] id: NCBITaxon:1437180 name: Acrogymnospermae namespace: ncbi_taxonomy xref: GC_ID:1 is_a: NCBITaxon:58024 ! Spermatophyta property_value: has_rank NCBITaxon:clade [Term] id: NCBITaxon:147537 name: Saccharomycotina namespace: ncbi_taxonomy synonym: "true yeasts" EXACT genbank_common_name [] xref: GC_ID:1 is_a: NCBITaxon:716545 ! saccharomyceta property_value: has_rank NCBITaxon:subphylum [Term] id: NCBITaxon:147554 name: Schizosaccharomycetes namespace: ncbi_taxonomy synonym: "Archiascomycota" RELATED in_part [] xref: GC_ID:1 is_a: NCBITaxon:451866 ! Taphrinomycotina property_value: has_rank NCBITaxon:class [Term] id: NCBITaxon:186623 name: Actinopteri namespace: ncbi_taxonomy xref: GC_ID:1 is_a: NCBITaxon:7898 ! Actinopterygii property_value: has_rank NCBITaxon:class [Term] id: NCBITaxon:1963758 name: Myomorpha namespace: ncbi_taxonomy synonym: "mice and others" EXACT genbank_common_name [] synonym: "Sciurognathi" RELATED in_part [] xref: GC_ID:1 is_a: NCBITaxon:9989 ! Rodentia property_value: has_rank NCBITaxon:suborder [Term] id: NCBITaxon:197562 name: Pancrustacea namespace: ncbi_taxonomy xref: GC_ID:1 xref: PMID:10874751 xref: PMID:11557979 is_a: NCBITaxon:197563 ! Mandibulata property_value: has_rank NCBITaxon:clade [Term] id: NCBITaxon:197563 name: Mandibulata namespace: ncbi_taxonomy synonym: "mandibulates" EXACT common_name [] xref: GC_ID:1 xref: PMID:11557979 xref: PMID:9727836 is_a: NCBITaxon:6656 ! Arthropoda property_value: has_rank NCBITaxon:clade [Term] id: NCBITaxon:2 name: Bacteria namespace: ncbi_taxonomy synonym: "bacteria" RELATED blast_name [] synonym: "eubacteria" EXACT genbank_common_name [] synonym: "Monera" RELATED in_part [] synonym: "Procaryotae" RELATED in_part [] synonym: "Prokaryota" RELATED in_part [] synonym: "Prokaryotae" RELATED in_part [] synonym: "prokaryote" RELATED in_part [] synonym: "prokaryotes" RELATED in_part [] xref: GC_ID:11 xref: PMID:10425795 xref: PMID:10425796 xref: PMID:10425797 xref: PMID:10490293 xref: PMID:10843050 xref: PMID:10939651 xref: PMID:10939673 xref: PMID:10939677 xref: PMID:11211268 xref: PMID:11321083 xref: PMID:11321113 xref: PMID:11411719 xref: PMID:11540071 xref: PMID:11542017 xref: PMID:11542087 xref: PMID:11760965 xref: PMID:12054223 xref: PMID:2112744 xref: PMID:270744 xref: PMID:7520741 xref: PMID:8123559 xref: PMID:8186100 xref: PMID:8590690 xref: PMID:9103655 xref: PMID:9336922 is_a: NCBITaxon:131567 ! cellular organisms property_value: has_rank NCBITaxon:superkingdom property_value: isDefinedBy http://purl.obolibrary.org/obo/ncbitaxon.owl [Term] id: NCBITaxon:2058185 name: Dictyosteliaceae namespace: ncbi_taxonomy xref: GC_ID:1 xref: PMID:29367151 is_a: NCBITaxon:2058949 ! Dictyosteliales property_value: has_rank NCBITaxon:family [Term] id: NCBITaxon:2058949 name: Dictyosteliales namespace: ncbi_taxonomy xref: GC_ID:1 xref: PMID:29367151 is_a: NCBITaxon:33083 ! Dictyostelia property_value: has_rank NCBITaxon:order [Term] id: NCBITaxon:207598 name: Homininae namespace: ncbi_taxonomy synonym: "Homo/Pan/Gorilla group" RELATED synonym [] xref: GC_ID:1 is_a: NCBITaxon:9604 ! Hominidae property_value: has_rank NCBITaxon:subfamily property_value: isDefinedBy http://purl.obolibrary.org/obo/ncbitaxon.owl [Term] id: NCBITaxon:2157 name: Archaea namespace: ncbi_taxonomy synonym: "archaea" RELATED blast_name [] synonym: "Archaebacteria" RELATED synonym [] synonym: "Mendosicutes" RELATED synonym [] synonym: "Metabacteria" RELATED synonym [] synonym: "Monera" RELATED in_part [] synonym: "Procaryotae" RELATED in_part [] synonym: "Prokaryota" RELATED in_part [] synonym: "Prokaryotae" RELATED in_part [] synonym: "prokaryote" RELATED in_part [] synonym: "prokaryotes" RELATED in_part [] xref: GC_ID:11 xref: PMID:10425795 xref: PMID:10425796 xref: PMID:10425797 xref: PMID:10490293 xref: PMID:10843050 xref: PMID:10939651 xref: PMID:10939673 xref: PMID:10939677 xref: PMID:11211268 xref: PMID:11321083 xref: PMID:11321113 xref: PMID:11411719 xref: PMID:11540071 xref: PMID:11541975 xref: PMID:11542064 xref: PMID:11542149 xref: PMID:11760965 xref: PMID:12054223 xref: PMID:2112744 xref: PMID:25527841 xref: PMID:270744 xref: PMID:8123559 xref: PMID:8590690 xref: PMID:9103655 xref: PMID:9336922 is_a: NCBITaxon:131567 ! cellular organisms property_value: has_rank NCBITaxon:superkingdom property_value: isDefinedBy http://purl.obolibrary.org/obo/ncbitaxon.owl [Term] id: NCBITaxon:2605435 name: Evosea namespace: ncbi_taxonomy xref: GC_ID:1 is_a: NCBITaxon:554915 ! Amoebozoa property_value: has_rank NCBITaxon:phylum [Term] id: NCBITaxon:2611352 name: Discoba namespace: ncbi_taxonomy xref: GC_ID:1 is_a: NCBITaxon:2759 ! Eukaryota property_value: has_rank NCBITaxon:clade [Term] id: NCBITaxon:2698737 name: Sar namespace: ncbi_taxonomy synonym: "SAR supergroup" RELATED synonym [] xref: GC_ID:1 is_a: NCBITaxon:2759 ! Eukaryota property_value: has_rank NCBITaxon:clade [Term] id: NCBITaxon:2759 name: Eukaryota namespace: ncbi_taxonomy synonym: "Eucarya" RELATED synonym [] synonym: "Eucaryotae" RELATED synonym [] synonym: "eucaryotes" EXACT genbank_common_name [] synonym: "euk-" RELATED PRO-short-label [PRO:DAN] synonym: "Eukarya" RELATED synonym [] synonym: "Eukaryotae" RELATED synonym [] synonym: "eukaryotes" EXACT common_name [] synonym: "eukaryotes" RELATED blast_name [] xref: GC_ID:1 xref: PMID:23020233 xref: PMID:30257078 is_a: NCBITaxon:131567 ! cellular organisms relationship: in_taxon NCBITaxon:2759 ! Eukaryota property_value: has_rank NCBITaxon:superkingdom property_value: has_rank NCBITaxon:superkingdom property_value: isDefinedBy http://purl.obolibrary.org/obo/ncbitaxon.owl [Term] id: NCBITaxon:314146 name: Euarchontoglires namespace: ncbi_taxonomy xref: GC_ID:1 xref: PMID:11214319 xref: PMID:12082125 xref: PMID:12878460 xref: PMID:15522813 is_a: NCBITaxon:1437010 ! Boreoeutheria property_value: has_rank NCBITaxon:superorder property_value: isDefinedBy http://purl.obolibrary.org/obo/ncbitaxon.owl [Term] id: NCBITaxon:314147 name: Glires namespace: ncbi_taxonomy synonym: "Rodents and rabbits" EXACT genbank_common_name [] xref: GC_ID:1 xref: PMID:11214319 xref: PMID:12082125 xref: PMID:15522813 is_a: NCBITaxon:314146 ! Euarchontoglires property_value: has_rank NCBITaxon:clade [Term] id: NCBITaxon:314293 name: Simiiformes namespace: ncbi_taxonomy synonym: "Anthropoidea" RELATED synonym [] xref: GC_ID:1 is_a: NCBITaxon:376913 ! Haplorrhini property_value: has_rank NCBITaxon:infraorder property_value: isDefinedBy http://purl.obolibrary.org/obo/ncbitaxon.owl [Term] id: NCBITaxon:314295 name: Hominoidea namespace: ncbi_taxonomy synonym: "ape" EXACT common_name [] synonym: "apes" EXACT genbank_common_name [] xref: GC_ID:1 is_a: NCBITaxon:9526 ! Catarrhini property_value: has_rank NCBITaxon:superfamily property_value: isDefinedBy http://purl.obolibrary.org/obo/ncbitaxon.owl [Term] id: NCBITaxon:3193 name: Embryophyta namespace: ncbi_taxonomy synonym: "higher plants" EXACT common_name [] synonym: "land plants" EXACT common_name [] synonym: "land plants" RELATED blast_name [] synonym: "plants" EXACT common_name [] xref: GC_ID:1 is_a: NCBITaxon:131221 ! Streptophytina property_value: has_rank NCBITaxon:clade [Term] id: NCBITaxon:32443 name: Teleostei namespace: ncbi_taxonomy synonym: "teleost fishes" EXACT genbank_common_name [] xref: GC_ID:1 is_a: NCBITaxon:41665 ! Neopterygii property_value: has_rank NCBITaxon:infraclass [Term] id: NCBITaxon:32523 name: Tetrapoda namespace: ncbi_taxonomy synonym: "tetrapods" EXACT genbank_common_name [] xref: GC_ID:1 is_a: NCBITaxon:1338369 ! Dipnotetrapodomorpha property_value: has_rank NCBITaxon:clade property_value: isDefinedBy http://purl.obolibrary.org/obo/ncbitaxon.owl [Term] id: NCBITaxon:32524 name: Amniota namespace: ncbi_taxonomy synonym: "amniotes" EXACT genbank_common_name [] xref: GC_ID:1 is_a: NCBITaxon:32523 ! Tetrapoda property_value: has_rank NCBITaxon:clade property_value: isDefinedBy http://purl.obolibrary.org/obo/ncbitaxon.owl [Term] id: NCBITaxon:32525 name: Theria namespace: ncbi_taxonomy synonym: "Theria" EXACT scientific_name [] xref: GC_ID:1 is_a: NCBITaxon:40674 ! Mammalia property_value: has_rank NCBITaxon:clade property_value: isDefinedBy http://purl.obolibrary.org/obo/ncbitaxon.owl [Term] id: NCBITaxon:32561 name: Sauria namespace: ncbi_taxonomy synonym: "Diapsida" RELATED synonym [] synonym: "diapsids" EXACT genbank_common_name [] xref: GC_ID:1 is_a: NCBITaxon:8457 ! Sauropsida property_value: has_rank NCBITaxon:clade [Term] id: NCBITaxon:33083 name: Dictyostelia namespace: ncbi_taxonomy synonym: "cellular slime molds" RELATED blast_name [] synonym: "dictyostelid cellular slime molds" EXACT genbank_common_name [] synonym: "Dictyostelida" RELATED synonym [] synonym: "Dictyostelids" RELATED synonym [] synonym: "Dictyosteliida" RELATED synonym [] xref: GC_ID:1 xref: PMID:11062127 xref: PMID:29367151 xref: PMID:9342353 is_a: NCBITaxon:142796 ! Eumycetozoa property_value: has_rank NCBITaxon:clade [Term] id: NCBITaxon:33090 name: Viridiplantae namespace: ncbi_taxonomy synonym: "Chlorobionta" RELATED synonym [] synonym: "Chlorophyta/Embryophyta group" EXACT equivalent_name [] synonym: "Chlorophyta/Embryophyta group" RELATED synonym [] synonym: "chlorophyte/embryophyte group" EXACT equivalent_name [] synonym: "chlorophyte/embryophyte group" RELATED synonym [] synonym: "Chloroplastida" RELATED synonym [] synonym: "green plants" EXACT common_name [] synonym: "green plants" RELATED blast_name [] xref: GC_ID:1 xref: PMID:16248873 xref: PMID:30257078 is_a: NCBITaxon:2759 ! Eukaryota property_value: has_rank NCBITaxon:kingdom [Term] id: NCBITaxon:3312 name: Coniferophyta namespace: ncbi_taxonomy synonym: "conifers" RELATED blast_name [] xref: GC_ID:1 is_a: NCBITaxon:1437180 ! Acrogymnospermae property_value: has_rank NCBITaxon:clade [Term] id: NCBITaxon:33154 name: Opisthokonta namespace: ncbi_taxonomy synonym: "Fungi/Metazoa group" RELATED synonym [] synonym: "opisthokonts" RELATED synonym [] xref: GC_ID:1 is_a: NCBITaxon:2759 ! Eukaryota relationship: in_taxon NCBITaxon:33154 ! Opisthokonta property_value: has_rank NCBITaxon:clade property_value: isDefinedBy http://purl.obolibrary.org/obo/ncbitaxon.owl [Term] id: NCBITaxon:33208 name: Metazoa namespace: ncbi_taxonomy synonym: "Animalia" RELATED synonym [] synonym: "animals" RELATED blast_name [] synonym: "metazoan-" RELATED PRO-short-label [PRO:DAN] synonym: "metazoans" EXACT genbank_common_name [] synonym: "multicellular animals" EXACT common_name [] xref: GC_ID:1 is_a: NCBITaxon:33154 ! Opisthokonta relationship: in_taxon NCBITaxon:33208 ! Metazoa property_value: has_rank NCBITaxon:kingdom property_value: isDefinedBy http://purl.obolibrary.org/obo/ncbitaxon.owl [Term] id: NCBITaxon:33213 name: Bilateria namespace: ncbi_taxonomy xref: GC_ID:1 is_a: NCBITaxon:6072 ! Eumetazoa relationship: in_taxon NCBITaxon:33213 ! Bilateria property_value: has_rank NCBITaxon:clade property_value: isDefinedBy http://purl.obolibrary.org/obo/ncbitaxon.owl [Term] id: NCBITaxon:33317 name: Protostomia namespace: ncbi_taxonomy xref: GC_ID:1 is_a: NCBITaxon:33213 ! Bilateria property_value: has_rank NCBITaxon:clade [Term] id: NCBITaxon:33511 name: Deuterostomia namespace: ncbi_taxonomy synonym: "deuterostomes" EXACT common_name [] xref: GC_ID:1 is_a: NCBITaxon:33213 ! Bilateria relationship: in_taxon NCBITaxon:33511 ! Deuterostomia property_value: has_rank NCBITaxon:clade property_value: isDefinedBy http://purl.obolibrary.org/obo/ncbitaxon.owl [Term] id: NCBITaxon:33630 name: Alveolata namespace: ncbi_taxonomy synonym: "alveolates" EXACT genbank_common_name [] xref: GC_ID:1 is_a: NCBITaxon:2698737 ! Sar property_value: has_rank NCBITaxon:clade [Term] id: NCBITaxon:33682 name: Euglenozoa namespace: ncbi_taxonomy synonym: "Euglenozoans" RELATED synonym [] xref: GC_ID:1 is_a: NCBITaxon:2611352 ! Discoba property_value: has_rank NCBITaxon:phylum [Term] id: NCBITaxon:337687 name: Muroidea namespace: ncbi_taxonomy xref: GC_ID:1 xref: PMID:15019624 xref: PMID:15371245 is_a: NCBITaxon:1963758 ! Myomorpha property_value: has_rank NCBITaxon:clade [Term] id: NCBITaxon:3398 name: Magnoliopsida namespace: ncbi_taxonomy synonym: "Angiospermae" RELATED synonym [] synonym: "angiosperms" EXACT common_name [] synonym: "flowering plants" EXACT genbank_common_name [] synonym: "flowering plants" RELATED blast_name [] synonym: "Magnoliophyta" RELATED synonym [] xref: GC_ID:1 xref: PMID:25249442 is_a: NCBITaxon:58024 ! Spermatophyta property_value: has_rank NCBITaxon:class [Term] id: NCBITaxon:34346 name: Schizosaccharomycetales namespace: ncbi_taxonomy xref: GC_ID:1 is_a: NCBITaxon:147554 ! Schizosaccharomycetes property_value: has_rank NCBITaxon:order [Term] id: NCBITaxon:35493 name: Streptophyta namespace: ncbi_taxonomy xref: GC_ID:1 is_a: NCBITaxon:33090 ! Viridiplantae property_value: has_rank NCBITaxon:phylum [Term] id: NCBITaxon:376913 name: Haplorrhini namespace: ncbi_taxonomy xref: GC_ID:1 is_a: NCBITaxon:9443 ! Primates property_value: has_rank NCBITaxon:suborder property_value: isDefinedBy http://purl.obolibrary.org/obo/ncbitaxon.owl [Term] id: NCBITaxon:38254 name: Glaucocystophyceae namespace: ncbi_taxonomy synonym: "algae" RELATED in_part [] synonym: "glaucocystophytes" EXACT common_name [] synonym: "Glaucophyceae" RELATED synonym [] synonym: "Glaucophyta" RELATED synonym [] xref: GC_ID:1 is_a: NCBITaxon:2759 ! Eukaryota property_value: has_rank NCBITaxon:class [Term] id: NCBITaxon:39107 name: Murinae namespace: ncbi_taxonomy alt_id: NCBITaxon:109679 xref: GC_ID:1 is_a: NCBITaxon:10066 ! Muridae property_value: has_rank NCBITaxon:subfamily [Term] id: NCBITaxon:40674 name: Mammalia namespace: ncbi_taxonomy synonym: "mammals" EXACT genbank_common_name [] synonym: "mammals" RELATED blast_name [] xref: GC_ID:1 is_a: NCBITaxon:32524 ! Amniota property_value: has_rank NCBITaxon:class property_value: isDefinedBy http://purl.obolibrary.org/obo/ncbitaxon.owl [Term] id: NCBITaxon:41665 name: Neopterygii namespace: ncbi_taxonomy synonym: "Neopterygi" RELATED synonym [] xref: GC_ID:1 is_a: NCBITaxon:186623 ! Actinopteri property_value: has_rank NCBITaxon:subclass [Term] id: NCBITaxon:436486 name: Dinosauria namespace: ncbi_taxonomy synonym: "dinosaur" EXACT common_name [] synonym: "dinosaurs" EXACT common_name [] xref: GC_ID:1 is_a: NCBITaxon:8492 ! Archosauria property_value: has_rank NCBITaxon:clade [Term] id: NCBITaxon:436489 name: Saurischia namespace: ncbi_taxonomy xref: GC_ID:1 is_a: NCBITaxon:436486 ! Dinosauria property_value: has_rank NCBITaxon:clade [Term] id: NCBITaxon:436491 name: Theropoda namespace: ncbi_taxonomy xref: GC_ID:1 is_a: NCBITaxon:436489 ! Saurischia property_value: has_rank NCBITaxon:clade [Term] id: NCBITaxon:436492 name: Coelurosauria namespace: ncbi_taxonomy xref: GC_ID:1 is_a: NCBITaxon:436491 ! Theropoda property_value: has_rank NCBITaxon:clade [Term] id: NCBITaxon:451864 name: Dikarya namespace: ncbi_taxonomy xref: GC_ID:1 xref: PMID:15689432 xref: PMID:16151185 xref: PMID:17010206 xref: PMID:17051209 xref: PMID:17572334 is_a: NCBITaxon:4751 ! Fungi property_value: has_rank NCBITaxon:subkingdom [Term] id: NCBITaxon:451866 name: Taphrinomycotina namespace: ncbi_taxonomy xref: GC_ID:1 is_a: NCBITaxon:4890 ! Ascomycota property_value: has_rank NCBITaxon:subphylum [Term] id: NCBITaxon:4751 name: Fungi namespace: ncbi_taxonomy synonym: "fungi" EXACT genbank_common_name [] synonym: "fungi" RELATED blast_name [] synonym: "fungi" RELATED in_part [] synonym: "Mycota" RELATED genbank_synonym [] xref: GC_ID:1 xref: PMID:11062127 xref: PMID:12684019 is_a: NCBITaxon:33154 ! Opisthokonta property_value: has_rank NCBITaxon:kingdom property_value: has_rank NCBITaxon:kingdom property_value: isDefinedBy http://purl.obolibrary.org/obo/ncbitaxon.owl [Term] id: NCBITaxon:4890 name: Ascomycota namespace: ncbi_taxonomy synonym: "ascomycetes" EXACT genbank_common_name [] synonym: "ascomycetes" RELATED blast_name [] synonym: "sac fungi" EXACT common_name [] xref: GC_ID:1 xref: PMID:17572334 is_a: NCBITaxon:451864 ! Dikarya property_value: has_rank NCBITaxon:phylum [Term] id: NCBITaxon:4891 name: Saccharomycetes namespace: ncbi_taxonomy synonym: "Hemiascomycetes" RELATED synonym [] xref: GC_ID:1 is_a: NCBITaxon:147537 ! Saccharomycotina property_value: has_rank NCBITaxon:class [Term] id: NCBITaxon:4892 name: Saccharomycetales namespace: ncbi_taxonomy synonym: "budding yeasts" RELATED blast_name [] synonym: "Endomycetales" RELATED synonym [] xref: GC_ID:1 is_a: NCBITaxon:4891 ! Saccharomycetes property_value: has_rank NCBITaxon:order [Term] id: NCBITaxon:4893 name: Saccharomycetaceae namespace: ncbi_taxonomy alt_id: NCBITaxon:221665 alt_id: NCBITaxon:44280 xref: GC_ID:1 is_a: NCBITaxon:4892 ! Saccharomycetales property_value: has_rank NCBITaxon:family [Term] id: NCBITaxon:4894 name: Schizosaccharomycetaceae namespace: ncbi_taxonomy synonym: "fission yeasts" EXACT genbank_common_name [] synonym: "Schizosaccharomycetoideae" RELATED synonym [] xref: GC_ID:1 is_a: NCBITaxon:34346 ! Schizosaccharomycetales property_value: has_rank NCBITaxon:family [Term] id: NCBITaxon:4895 name: Schizosaccharomyces namespace: ncbi_taxonomy xref: GC_ID:1 is_a: NCBITaxon:4894 ! Schizosaccharomycetaceae property_value: has_rank NCBITaxon:genus [Term] id: NCBITaxon:4896 name: Schizosaccharomyces pombe namespace: ncbi_taxonomy alt_id: NCBITaxon:45042 synonym: "fission yeast" EXACT genbank_common_name [] synonym: "Schizosaccharomyces malidevorans" RELATED synonym [] xref: GC_ID:1 is_a: NCBITaxon:4895 ! Schizosaccharomyces property_value: has_rank NCBITaxon:species [Term] id: NCBITaxon:4930 name: Saccharomyces namespace: ncbi_taxonomy alt_id: NCBITaxon:36915 synonym: "Pachytichospora" RELATED synonym [] xref: GC_ID:1 is_a: NCBITaxon:4893 ! Saccharomycetaceae property_value: has_rank NCBITaxon:genus [Term] id: NCBITaxon:4932 name: Saccharomyces cerevisiae namespace: ncbi_taxonomy synonym: "baker's yeast" EXACT genbank_common_name [] synonym: "brewer's yeast" EXACT common_name [] synonym: "Candida robusta" RELATED synonym [] synonym: "Mycoderma cerevisiae" RELATED synonym [] synonym: "S. cerevisiae" EXACT common_name [] synonym: "Saccharomyces capensis" RELATED synonym [] synonym: "Saccharomyces italicus" RELATED synonym [] synonym: "Saccharomyces oviformis" RELATED synonym [] synonym: "Saccharomyces uvarum var. melibiosus" RELATED synonym [] xref: GC_ID:1 is_a: NCBITaxon:4930 ! Saccharomyces property_value: has_rank NCBITaxon:species [Term] id: NCBITaxon:50557 name: Insecta namespace: ncbi_taxonomy synonym: "insects" RELATED blast_name [] synonym: "true insects" EXACT genbank_common_name [] xref: GC_ID:1 is_a: NCBITaxon:6960 ! Hexapoda property_value: has_rank NCBITaxon:class [Term] id: NCBITaxon:554915 name: Amoebozoa namespace: ncbi_taxonomy xref: GC_ID:1 xref: PMID:23020233 xref: PMID:30257078 is_a: NCBITaxon:2759 ! Eukaryota property_value: has_rank NCBITaxon:clade [Term] id: NCBITaxon:5782 name: Dictyostelium namespace: ncbi_taxonomy synonym: "Hyalostilbum" RELATED synonym [] xref: GC_ID:1 xref: PMID:29367151 is_a: NCBITaxon:2058185 ! Dictyosteliaceae property_value: has_rank NCBITaxon:genus [Term] id: NCBITaxon:58023 name: Tracheophyta namespace: ncbi_taxonomy synonym: "vascular plants" EXACT common_name [] synonym: "vascular plants" RELATED blast_name [] xref: GC_ID:1 is_a: NCBITaxon:3193 ! Embryophyta property_value: has_rank NCBITaxon:clade [Term] id: NCBITaxon:58024 name: Spermatophyta namespace: ncbi_taxonomy synonym: "seed plants" EXACT common_name [] synonym: "seed plants" RELATED blast_name [] xref: GC_ID:1 is_a: NCBITaxon:78536 ! Euphyllophyta property_value: has_rank NCBITaxon:clade [Term] id: NCBITaxon:6072 name: Eumetazoa namespace: ncbi_taxonomy xref: GC_ID:1 is_a: NCBITaxon:33208 ! Metazoa relationship: in_taxon NCBITaxon:6072 ! Eumetazoa property_value: has_rank NCBITaxon:clade property_value: isDefinedBy http://purl.obolibrary.org/obo/ncbitaxon.owl [Term] id: NCBITaxon:6656 name: Arthropoda namespace: ncbi_taxonomy synonym: "arthropods" EXACT genbank_common_name [] synonym: "arthropods" RELATED blast_name [] xref: GC_ID:1 is_a: NCBITaxon:88770 ! Panarthropoda property_value: has_rank NCBITaxon:phylum [Term] id: NCBITaxon:6960 name: Hexapoda namespace: ncbi_taxonomy synonym: "Atelocerata" RELATED in_part [] synonym: "hexapods" RELATED blast_name [] synonym: "insects" EXACT genbank_common_name [] synonym: "Tracheata" RELATED in_part [] synonym: "Uniramia" RELATED in_part [] xref: GC_ID:1 is_a: NCBITaxon:197562 ! Pancrustacea property_value: has_rank NCBITaxon:subphylum [Term] id: NCBITaxon:716545 name: saccharomyceta namespace: ncbi_taxonomy xref: GC_ID:1 is_a: NCBITaxon:4890 ! Ascomycota property_value: has_rank NCBITaxon:clade [Term] id: NCBITaxon:7711 name: Chordata namespace: ncbi_taxonomy synonym: "chordates" EXACT genbank_common_name [] synonym: "chordates" RELATED blast_name [] xref: GC_ID:1 is_a: NCBITaxon:33511 ! Deuterostomia relationship: in_taxon NCBITaxon:7711 ! Chordata property_value: has_rank NCBITaxon:phylum property_value: isDefinedBy http://purl.obolibrary.org/obo/ncbitaxon.owl [Term] id: NCBITaxon:7742 name: Vertebrata namespace: ncbi_taxonomy synonym: "Vertebrata" EXACT scientific_name [] synonym: "vertebrates" EXACT genbank_common_name [] synonym: "vertebrates" RELATED blast_name [] xref: GC_ID:1 is_a: NCBITaxon:89593 ! Craniata relationship: in_taxon NCBITaxon:7742 ! Vertebrata property_value: has_rank NCBITaxon:clade property_value: isDefinedBy http://purl.obolibrary.org/obo/ncbitaxon.owl [Term] id: NCBITaxon:7776 name: Gnathostomata namespace: ncbi_taxonomy synonym: "Gnathostomata" EXACT scientific_name [] synonym: "jawed vertebrates" EXACT genbank_common_name [] xref: GC_ID:1 is_a: NCBITaxon:7742 ! Vertebrata relationship: in_taxon NCBITaxon:7776 ! Gnathostomata property_value: has_rank NCBITaxon:clade property_value: isDefinedBy http://purl.obolibrary.org/obo/ncbitaxon.owl [Term] id: NCBITaxon:78536 name: Euphyllophyta namespace: ncbi_taxonomy synonym: "euphyllophytes" EXACT equivalent_name [] xref: GC_ID:1 is_a: NCBITaxon:58023 ! Tracheophyta property_value: has_rank NCBITaxon:clade [Term] id: NCBITaxon:7898 name: Actinopterygii namespace: ncbi_taxonomy synonym: "Actinopterygi" RELATED synonym [] synonym: "bony fishes" RELATED blast_name [] synonym: "fish" EXACT common_name [] synonym: "fishes" EXACT common_name [] synonym: "Osteichthyes" RELATED in_part [] synonym: "ray-finned fishes" EXACT genbank_common_name [] xref: GC_ID:1 is_a: NCBITaxon:117571 ! Euteleostomi property_value: has_rank NCBITaxon:superclass [Term] id: NCBITaxon:8287 name: Sarcopterygii namespace: ncbi_taxonomy xref: GC_ID:1 is_a: NCBITaxon:117571 ! Euteleostomi relationship: in_taxon NCBITaxon:8287 ! Sarcopterygii property_value: has_rank NCBITaxon:superclass property_value: isDefinedBy http://purl.obolibrary.org/obo/ncbitaxon.owl [Term] id: NCBITaxon:8457 name: Sauropsida namespace: ncbi_taxonomy synonym: "sauropsids" EXACT genbank_common_name [] xref: GC_ID:1 is_a: NCBITaxon:32524 ! Amniota property_value: has_rank NCBITaxon:clade [Term] id: NCBITaxon:8492 name: Archosauria namespace: ncbi_taxonomy xref: GC_ID:1 is_a: NCBITaxon:1329799 ! Archelosauria property_value: has_rank NCBITaxon:clade [Term] id: NCBITaxon:862507 name: Mus namespace: ncbi_taxonomy synonym: "Mus" EXACT scientific_name [] xref: GC_ID:1 is_a: NCBITaxon:10088 ! Mus property_value: has_rank NCBITaxon:subgenus [Term] id: NCBITaxon:8782 name: Aves namespace: ncbi_taxonomy synonym: "avian" RELATED synonym [] synonym: "birds" EXACT genbank_common_name [] synonym: "birds" RELATED blast_name [] xref: GC_ID:1 is_a: NCBITaxon:436492 ! Coelurosauria property_value: has_rank NCBITaxon:class [Term] id: NCBITaxon:88770 name: Panarthropoda namespace: ncbi_taxonomy xref: GC_ID:1 is_a: NCBITaxon:1206794 ! Ecdysozoa property_value: has_rank NCBITaxon:clade [Term] id: NCBITaxon:89593 name: Craniata namespace: ncbi_taxonomy synonym: "Craniata" EXACT scientific_name [] xref: GC_ID:1 is_a: NCBITaxon:7711 ! Chordata relationship: in_taxon NCBITaxon:89593 ! Craniata property_value: has_rank NCBITaxon:subphylum property_value: isDefinedBy http://purl.obolibrary.org/obo/ncbitaxon.owl [Term] id: NCBITaxon:9347 name: Eutheria namespace: ncbi_taxonomy synonym: "eutherian mammals" EXACT common_name [] synonym: "placental mammals" EXACT common_name [] synonym: "Placentalia" RELATED synonym [] synonym: "placentals" EXACT genbank_common_name [] synonym: "placentals" RELATED blast_name [] xref: GC_ID:1 is_a: NCBITaxon:32525 ! Theria property_value: has_rank NCBITaxon:clade property_value: isDefinedBy http://purl.obolibrary.org/obo/ncbitaxon.owl [Term] id: NCBITaxon:9443 name: Primates namespace: ncbi_taxonomy synonym: "Primata" RELATED synonym [] synonym: "primate" EXACT equivalent_name [] synonym: "primates" RELATED blast_name [] xref: GC_ID:1 is_a: NCBITaxon:314146 ! Euarchontoglires property_value: has_rank NCBITaxon:order property_value: isDefinedBy http://purl.obolibrary.org/obo/ncbitaxon.owl [Term] id: NCBITaxon:9526 name: Catarrhini namespace: ncbi_taxonomy xref: GC_ID:1 is_a: NCBITaxon:314293 ! Simiiformes property_value: has_rank NCBITaxon:parvorder property_value: isDefinedBy http://purl.obolibrary.org/obo/ncbitaxon.owl [Term] id: NCBITaxon:9604 name: Hominidae namespace: ncbi_taxonomy synonym: "great apes" EXACT genbank_common_name [] synonym: "Pongidae" RELATED synonym [] xref: GC_ID:1 is_a: NCBITaxon:314295 ! Hominoidea property_value: has_rank NCBITaxon:family property_value: isDefinedBy http://purl.obolibrary.org/obo/ncbitaxon.owl [Term] id: NCBITaxon:9605 name: Homo namespace: ncbi_taxonomy synonym: "humans" EXACT common_name [] xref: GC_ID:1 is_a: NCBITaxon:207598 ! Homininae property_value: has_rank NCBITaxon:genus property_value: isDefinedBy http://purl.obolibrary.org/obo/ncbitaxon.owl [Term] id: NCBITaxon:9606 name: Homo sapiens namespace: ncbi_taxonomy synonym: "human" EXACT genbank_common_name [] synonym: "man" EXACT common_name [] xref: GC_ID:1 is_a: NCBITaxon:9605 ! Homo property_value: has_rank NCBITaxon:species property_value: isDefinedBy http://purl.obolibrary.org/obo/ncbitaxon.owl [Term] id: NCBITaxon:9989 name: Rodentia namespace: ncbi_taxonomy synonym: "rodent" EXACT genbank_common_name [] synonym: "rodents" RELATED blast_name [] xref: GC_ID:1 is_a: NCBITaxon:314147 ! Glires property_value: has_rank NCBITaxon:order [Term] id: OBI:0000011 name: planned process def: "A process that realizes a plan which is the concretization of a plan specification." [] is_a: BFO:0000015 ! process [Term] id: OBI:0100026 name: organism namespace: obi def: "A material entity that is an individual living system, such as animal, plant, bacteria or virus, that is capable of replicating or reproducing, growth and maintenance in the right environment. An organism may be unicellular or made up, like humans, of many billions of cells divided into specialized tissues and organs." [] comment: Category=external. is_a: BFO:0000030 ! object union_of: NCBITaxon:10239 ! Viruses union_of: NCBITaxon:2 ! Bacteria union_of: NCBITaxon:2157 ! Archaea union_of: NCBITaxon:2759 ! Eukaryota [Term] id: PATO:0000001 name: quality namespace: quality alt_id: PATO:0000072 def: "A dependent entity that inheres in a bearer by virtue of how the bearer is related to other entities" [PATOC:GVG] is_a: BFO:0000020 ! specifically dependent continuant property_value: IAO:0000589 "quality (PATO)" xsd:string property_value: isDefinedBy http://purl.obolibrary.org/obo/pato.owl [Term] id: PATO:0000025 name: composition namespace: quality alt_id: PATO:0002015 def: "A single physical entity inhering in an bearer by virtue of the bearer's quantities or relative ratios of subparts." [PATOC:GVG] comment: For example calcium composition (which may inhere in bone), haemoglobin composition (which may inhere in blood). subset: attribute_slim subset: scalar_slim synonym: "composed of" EXACT [] synonym: "compositionality" EXACT [] synonym: "content" EXACT [] synonym: "structure, composition" EXACT [] is_a: PATO:0000141 ! structure [Term] id: PATO:0000051 name: morphology namespace: quality def: "A quality of a single physical entity inhering in the bearer by virtue of the bearer's size or shape or structure." [PATOC:GVG] subset: attribute_slim is_a: PATO:0001241 ! physical object quality [Term] id: PATO:0000052 name: shape namespace: quality alt_id: PATO:0001647 def: "A morphological quality inhering in a bearer by virtue of the bearer's ratios of distances between its features (points, edges, surfaces and also holes etc)." [PATOC:GVG] comment: Shapes are invariant on size transformations. Shapes can be subdivided into 2D and 3D shapes, We can also make a distinction between shapes of complete self-connected objects, and shapes of parts of objects. subset: attribute_slim synonym: "relational shape quality" EXACT [] is_a: PATO:0000051 ! morphology [Term] id: PATO:0000068 name: qualitative namespace: quality comment: TODO: define this or obsolete it and move children somewhere else. is_a: PATO:0000001 ! quality [Term] id: PATO:0000069 name: deviation (from_normal) namespace: quality def: "A quality inhering in a bearer by virtue of the whether the bearer differs from normal or average." [PATOC:GVG] subset: attribute_slim is_a: PATO:0000068 ! qualitative [Term] id: PATO:0000117 name: size namespace: quality def: "A morphology quality inhering in a bearer by virtue of the bearer's physical magnitude." [WordNet:WordNet] subset: attribute_slim subset: scalar_slim is_a: PATO:0000051 ! morphology [Term] id: PATO:0000136 name: closure is_a: PATO:0000051 ! morphology [Term] id: PATO:0000141 name: structure namespace: quality alt_id: PATO:0001452 def: "A morphology quality inhering in a bearer by virtue of the bearer's relative position, shape, arrangements and connectivity of an organism's various parts; the pattern underlying its form." [PATOC:GVG] subset: attribute_slim synonym: "conformation" BROAD [VT:1000738] synonym: "relational structural quality" EXACT [] is_a: PATO:0000051 ! morphology [Term] id: PATO:0000150 name: texture namespace: quality def: "A morphologic quality inhering in a bearer by virtue of the bearer's relative size, organization and distribution of its surface elements or the representation or invention of the appearance of its surface; visual and tactile surface characteristics." [PATOC:GVG] subset: attribute_slim is_a: PATO:0000051 ! morphology [Term] id: PATO:0000169 name: viability namespace: quality def: "An organismal quality inhering in a bearer or a population by virtue of the bearer's disposition to survive and develop normally or the number of surviving individuals in a given population." [PATOC:GVG] subset: attribute_slim subset: disposition_slim is_a: PATO:0001995 ! organismal quality [Term] id: PATO:0000261 name: maturity is_a: PATO:0001995 ! organismal quality [Term] id: PATO:0000274 name: fertility namespace: quality def: "A reproductive quality inhering in a bearer by virtue of the bearer's initiating, sustaining, or supporting reproduction." [PATOC:GVG] subset: attribute_slim subset: disposition_slim is_a: PATO:0001434 ! reproductive quality [Term] id: PATO:0000402 name: branched namespace: quality def: "A branchiness quality inhering in a bearer by virtue of the bearer's having branches." [WordNet:WordNet] subset: cell_quality subset: mpath_slim subset: value_slim synonym: "ramified" EXACT [] synonym: "ramiform" EXACT [] is_a: PATO:0002009 ! branchiness property_value: RO:0002604 PATO:0000414 [Term] id: PATO:0000407 name: flat namespace: quality def: "A quality inhering in a bearer by virtue of the bearer's having a horizontal surface without a slope, tilt, or curvature." [web:http\://www.merriam-webster.com/] subset: cell_quality subset: mpath_slim subset: value_slim synonym: "plate-like" RELATED [] is_a: PATO:0002254 ! flattened [Term] id: PATO:0000411 name: circular namespace: quality def: "A shape quality inhering in a bearer by virtue of the bearer's being such that every part of the surface or the circumference is equidistant from the center." [thefreedictionary.com:thefreedictionary.com] subset: cell_quality subset: mpath_slim subset: value_slim synonym: "round" RELATED [] synonym: "rounded" RELATED [] is_a: PATO:0000947 ! elliptic [Term] id: PATO:0000461 name: normal namespace: quality def: "A quality inhering in a bearer by virtue of the bearer's exhibiting no deviation from normal or average." [PATOC:GVG] subset: abnormal_slim subset: mpath_slim subset: value_slim synonym: "average" RELATED [] is_a: PATO:0000068 ! qualitative property_value: RO:0002604 PATO:0000460 [Term] id: PATO:0000586 name: increased size namespace: quality alt_id: PATO:0001202 def: "A size quality which is relatively high." [PATOC:GVG] subset: value_slim synonym: "big" RELATED [] synonym: "enlarged" RELATED [] synonym: "expanded" RELATED [] synonym: "great" RELATED [] synonym: "large" RELATED [] is_a: PATO:0000117 ! size is_a: PATO:0002305 ! increased object quality intersection_of: PATO:0000117 ! size intersection_of: RO:0015007 PATO:0000461 ! increased in magnitude relative to normal property_value: RO:0002604 PATO:0000587 [Term] id: PATO:0000587 name: decreased size def: "A size quality which is relatively low." [] synonym: "hypoplasia" NARROW [] synonym: "reduced" RELATED [] synonym: "small" RELATED [] synonym: "tiny" RELATED [] synonym: "underdeveloped" NARROW [] is_a: PATO:0000117 ! size is_a: PATO:0002303 ! decreased object quality [Term] id: PATO:0000608 name: closed is_a: PATO:0000136 ! closure [Term] id: PATO:0000719 name: viable namespace: quality def: "A viability quality inhering in a bearer or a population by virtue of the bearer's ability to survive or the long term survival ability of a given population." [PATOC:GVG] subset: disposition_slim subset: value_slim is_a: PATO:0000169 ! viability [Term] id: PATO:0000947 name: elliptic namespace: quality def: "A spheroid quality inhering in a bearer by virtue of the bearer's being oval with two axes of symmetry, as produced by a conical section." [PATOC:GVG] subset: cell_quality subset: mpath_slim subset: value_slim synonym: "ellipse-shaped" EXACT [] synonym: "ellipsoid" EXACT [] synonym: "elliptical" EXACT [] synonym: "oval" RELATED [] synonym: "ovoid" RELATED [] is_a: PATO:0002318 ! superelliptic [Term] id: PATO:0000955 name: fertile namespace: quality def: "A fertility quality inhering in a bearer by virtue of the bearer's being capable of initiating, sustaining, or supporting reproduction." [PATOC:GVG] subset: disposition_slim subset: value_slim is_a: PATO:0000274 ! fertility disjoint_from: PATO:0000956 ! sterile property_value: RO:0002604 PATO:0000956 [Term] id: PATO:0000956 name: sterile namespace: quality def: "A fertility quality inhering in a bearer by virtue of the bearer's being incapable of initiating, sustaining, or supporting reproduction." [PATOC:GVG] subset: disposition_slim subset: value_slim is_a: PATO:0000274 ! fertility property_value: RO:0002604 PATO:0000955 [Term] id: PATO:0000957 name: opacity namespace: quality def: "An optical quality which obtains by virtue of the ability of the bearer to absorb visible light." [PATOC:GVG] subset: attribute_slim is_a: PATO:0001300 ! optical quality [Term] id: PATO:0000963 name: opaque namespace: quality def: "A optical quality inhering in a bearer by virtue of the bearer's not being clear; not transmitting or reflecting light or radiant energy." [PATOC:GVG] subset: mpath_slim subset: value_slim synonym: "clouding" RELATED [] synonym: "cloudy" RELATED [] synonym: "non-transparent" EXACT [] is_a: PATO:0000957 ! opacity property_value: RO:0002604 PATO:0000964 [Term] id: PATO:0000964 name: transparent namespace: quality def: "A optical quality inhering in a bearer by virtue of the bearer's lacking opacity." [PATOC:GVG] subset: mpath_slim subset: value_slim synonym: "clear" EXACT [] synonym: "hyaline" EXACT [] is_a: PATO:0000957 ! opacity property_value: RO:0002604 PATO:0000963 [Term] id: PATO:0001018 name: physical quality namespace: quality alt_id: PATO:0002079 def: "A quality of a physical entity that exists through action of continuants at the physical level of organisation in relation to other entities." [PATOC:GVG] subset: attribute_slim synonym: "relational physical quality" EXACT [] xref: Wikipedia:Physical_property is_a: PATO:0001241 ! physical object quality [Term] id: PATO:0001031 name: elasticity namespace: quality def: "A physical quality inhering in a bearer by virtue of the bearer's disposition to recover its size and shape after deformation in any way." [merriam-webster:merriam-webster] subset: attribute_slim subset: disposition_slim subset: scalar_slim is_a: PATO:0001018 ! physical quality [Term] id: PATO:0001171 name: elastic namespace: quality def: "An elasticity quality inhering in a bearer by virtue of the bearer's ability to recover its size and shape after deformation in any way." [merriam-webster:merriam-webster] subset: disposition_slim subset: mpath_slim subset: value_slim is_a: PATO:0001031 ! elasticity property_value: RO:0002604 PATO:0001172 [Term] id: PATO:0001185 name: larval is_a: PATO:0000261 ! maturity [Term] id: PATO:0001190 name: juvenile is_a: PATO:0000261 ! maturity [Term] id: PATO:0001241 name: physical object quality namespace: quality alt_id: PATO:0001237 alt_id: PATO:0001238 def: "A quality which inheres in a continuant." [PATOC:GVG] comment: Relational qualities are qualities that hold between multiple entities. Normal (monadic) qualities such as the shape of a eyeball exist purely as a quality of that eyeball. A relational quality such as sensitivity to light is a quality of that eyeball (and connecting nervous system) as it relates to incoming light waves/particles. synonym: "monadic quality of a continuant" EXACT [] synonym: "monadic quality of an object" NARROW [] synonym: "monadic quality of continuant" NARROW [] synonym: "multiply inhering quality of a physical entity" EXACT [] synonym: "quality of a continuant" EXACT [] synonym: "quality of a single physical entity" EXACT [] synonym: "quality of an object" EXACT [] synonym: "quality of continuant" EXACT [] xref: snap:Quality is_a: BFO:0000019 ! quality is_a: PATO:0000001 ! quality property_value: isDefinedBy http://purl.obolibrary.org/obo/pato.owl [Term] id: PATO:0001291 name: electromagnetic (EM) radiation quality namespace: quality def: "A physical quality that inheres in an bearer by virtue of how that bearer interacts with electromagnetic radiation." [Wikipedia:http\://en.wikipedia.org/wiki/Electromagnetic_radiation] subset: attribute_slim is_a: PATO:0001739 ! radiation quality [Term] id: PATO:0001300 name: optical quality namespace: quality def: "An EM radiation quality in which the EM radiation is within the fiat range of the spectrum visible deemed to be light." [PATOC:GVG] subset: attribute_slim is_a: PATO:0001291 ! electromagnetic (EM) radiation quality [Term] id: PATO:0001374 name: ploidy namespace: quality def: "A cellular quality inhering in a bearer by virtue of the bearer's number of homologous sets of chromosomes in the nucleus or primary chromosome-containing compartment of the cell, each set essentially coding for all the biological traits of the organism." [Wikipedia:http\://en.wikipedia.org/wiki/Ploidy] subset: attribute_slim is_a: PATO:0001396 ! cellular quality [Term] id: PATO:0001393 name: euploid namespace: quality def: "A ploidy quality inhering in a bearer by virtue of the bearer's containing an integral multiple of the monoploid number, possibly excluding the sex-determining chromosomes." [Wikipedia:http\://en.wikipedia.org/wiki/Euploid] subset: cell_quality subset: value_slim is_a: PATO:0001374 ! ploidy [Term] id: PATO:0001396 name: cellular quality namespace: quality def: "A monadic quality of continuant that exists at the cellular level of organisation." [PATOC:GVG] is_a: PATO:0070044 ! anatomical structure quality [Term] id: PATO:0001397 name: cellular potency namespace: quality def: "A cellular quality that arises by virtue of whether the bearer's disposition to differentiate into one or more mature cell types." [PATOC:GVG] subset: attribute_slim subset: disposition_slim is_a: PATO:0001396 ! cellular quality [Term] id: PATO:0001400 name: unipotent namespace: quality def: "A cellular potency that is the capacity to produce only one differentiated cell type." [Wikipedia:http\://en.wikipedia.org/wiki/Unipotent] comment: Unipotent cells have the quality of self-renewal which distinguishes them from non-stem cells. subset: cell_quality subset: disposition_slim subset: value_slim is_a: PATO:0001397 ! cellular potency [Term] id: PATO:0001401 name: oligopotent namespace: quality def: "A cellular potency that is the capacity to form multiple differentiated cell types of a specific lineage and lack self renewing capacity." [PATOC:MAH] comment: Less potent than multipotent, often thought of as precursor or progenitor cell status. subset: cell_quality subset: disposition_slim subset: value_slim is_a: PATO:0001397 ! cellular potency [Term] id: PATO:0001402 name: multipotent namespace: quality def: "A cellular potency that is the capacity to form multiple differentiated cell types." [Wikipedia:http\://en.wikipedia.org/wiki/Multipotent] subset: cell_quality subset: disposition_slim subset: value_slim is_a: PATO:0001397 ! cellular potency [Term] id: PATO:0001404 name: nucleate quality namespace: quality def: "A cellular quality inhering in a bearer by virtue of bearer's number of nuclei." [PATOC:GVG] subset: attribute_slim is_a: PATO:0001396 ! cellular quality [Term] id: PATO:0001405 name: anucleate namespace: quality def: "A nucleate quality inhering in a bearer by virtue of the bearer's having no nucleus." [Biology-online:Biology-online] subset: cell_quality subset: mpath_slim subset: value_slim is_a: PATO:0001404 ! nucleate quality [Term] id: PATO:0001406 name: binucleate namespace: quality def: "A nucleate quality inhering in a bearer by virtue of the bearer's having two nuclei." [Biology-online:Biology-online] subset: cell_quality subset: mpath_slim subset: value_slim is_a: PATO:0001908 ! multinucleate [Term] id: PATO:0001407 name: mononucleate namespace: quality def: "A nucleate quality inhering in a bearer by virtue of the bearer's having one nucleus." [Biology-online:Biology-online] subset: cell_quality subset: mpath_slim subset: value_slim is_a: PATO:0002505 ! nucleated [Term] id: PATO:0001408 name: ciliatedness namespace: quality def: "A cellular quality inhering in a bearer by virtue of the bearer's having thin, tail-like projections extending outwards from the cell body." [Wikipedia:http\://en.wikipedia.org/wiki/Ciliated] subset: cell_quality subset: value_slim is_a: PATO:0001396 ! cellular quality [Term] id: PATO:0001410 name: striated namespace: quality def: "A shape quality inhering in a bearer by virtue of the bearer's being marked by narrow lines or grooves, usually parallel." [Biology-online:Biology-online] subset: cell_quality subset: mpath_slim subset: value_slim is_a: PATO:0000052 ! shape [Term] id: PATO:0001421 name: alive namespace: quality def: "A viability quality inhering in a bearer by virtue of the bearer's condition before death." [PATOC:GVG] subset: value_slim is_a: PATO:0000169 ! viability [Term] id: PATO:0001422 name: dead namespace: quality def: "A viability quality inhering in a bearer by virtue of the cessation of the bearer's life." [PATOC:GVG] subset: value_slim is_a: PATO:0000169 ! viability [Term] id: PATO:0001432 name: decayed namespace: quality def: "A quality inhering in a bearer by virtue of the bearer's decomposition into component parts." [Medical-dictionary:Medical-dictionary] subset: value_slim is_a: PATO:0000169 ! viability [Term] id: PATO:0001434 name: reproductive quality namespace: quality def: "An organismal quality inhering in a bearer by virtue of the bearer's ability to produce new life or offspring." [WordNet:WordNet] is_a: PATO:0001995 ! organismal quality [Term] id: PATO:0001497 name: brood viability namespace: quality def: "A reproductive quality inhering in the young of an animal by virtue of the bearer's disposition to survive and develop normally." [PATOC:GVG] subset: attribute_slim subset: disposition_slim is_a: PATO:0000169 ! viability [Term] id: PATO:0001546 name: quality of a solid namespace: quality def: "A physical quality inhering in a bearer by virtue of the bearer's exhibiting the physical characteristics of an entity characterized by particles arranged such that their shape and volume are relatively stable." [Chemistry:http\://chemistry.about.com/od/chemistryglossary/a/soliddefinition.htm] subset: attribute_slim synonym: "solidity" EXACT [] is_a: PATO:0002198 ! quality of a substance [Term] id: PATO:0001547 name: quality of a gas namespace: quality def: "A physical quality inhering in a bearer by virtue of the bearer's exhibiting the physical characteristics of an entity consisting of particles that have neither a defined volume nor defined shape." [Chemistry:http\://chemistry.about.com/od/chemistryglossary/a/gasdefinition.htm, PATOC:GVG] subset: attribute_slim synonym: "gaseous" EXACT [] is_a: PATO:0002198 ! quality of a substance [Term] id: PATO:0001548 name: quality of a liquid namespace: quality def: "A physical quality inhering in an entity exhibiting the physical characteristics of an amorphous (non-crystalline) form of matter between a gas and a solid that has a definite volume, but no definite shape." [url:http\://www.chemistry-dictionary.com/definition/liquid.php] subset: attribute_slim synonym: "liquidity" EXACT [] is_a: PATO:0002198 ! quality of a substance [Term] id: PATO:0001579 name: contractility namespace: quality def: "A physical quality that is the ability to contract or shrink." [WordNet:WordNet] subset: attribute_slim subset: disposition_slim subset: scalar_slim is_a: PATO:0001018 ! physical quality [Term] id: PATO:0001580 name: increased contractility namespace: quality def: "A contractility which is relatively high." [PATO:GVG] subset: disposition_slim subset: value_slim synonym: "high contractility" EXACT [] is_a: PATO:0001690 ! contractile is_a: PATO:0002305 ! increased object quality intersection_of: PATO:0001690 ! contractile intersection_of: RO:0015007 PATO:0000461 ! increased in magnitude relative to normal property_value: RO:0002604 PATO:0001581 [Term] id: PATO:0001591 name: curvature namespace: quality def: "A surface shape quality inhering in a bearer by virtue of the bearer's exhibiting a degree of bending." [WordNet:WordNet] subset: attribute_slim is_a: PATO:0000052 ! shape [Term] id: PATO:0001690 name: contractile namespace: quality def: "A contractility quality inhering in a bearer by virtue of the bearer's ability of contracting or being contracted." [PATOC:GVG] comment: This refers to the disposition of the bearer. subset: disposition_slim subset: value_slim is_a: PATO:0001579 ! contractility property_value: RO:0002604 PATO:0001691 [Term] id: PATO:0001736 name: solid configuration namespace: quality def: "A physical quality inhering in a bearer by virtue of the bearer's parts having the arrangement which exhibits characteristics of solids." [PATOC:GVG] subset: value_slim synonym: "solid" EXACT [] is_a: PATO:0001546 ! quality of a solid [Term] id: PATO:0001739 name: radiation quality namespace: quality def: "A quality that inheres in an bearer by virtue of how that bearer interacts with radiation." [PATOC:GVG] subset: attribute_slim is_a: PATO:0001018 ! physical quality [Term] id: PATO:0001748 name: invaginated namespace: quality def: "A shape quality in which a portion of the outermost boundary of an entity folds in space such that a portion that was originally convex is now concave." [PATOC:GVG] subset: cell_quality subset: mpath_slim subset: value_slim is_a: PATO:0001857 ! concave [Term] id: PATO:0001759 name: granular def: "A composition quality inhering in a bearer by virtue of the bearer's containing granules." [] is_a: PATO:0000025 ! composition [Term] id: PATO:0001770 name: semi-viable namespace: quality def: "A viability quality inhering in a population by virtue of some of it's members' ability to survive." [PATOC:CVC] subset: disposition_slim subset: value_slim is_a: PATO:0000169 ! viability [Term] id: PATO:0001835 name: increased fertility namespace: quality def: "A fertility which is relatively high." [PATOC:GVG] subset: disposition_slim subset: value_slim synonym: "high fertility" EXACT [] is_a: PATO:0000955 ! fertile is_a: PATO:0002305 ! increased object quality intersection_of: PATO:0000955 ! fertile intersection_of: RO:0015007 PATO:0000461 ! increased in magnitude relative to normal property_value: RO:0002604 PATO:0001834 [Term] id: PATO:0001857 name: concave namespace: quality def: "A shape quality in a bearer by virtue of the bearer's curving inward." [WordNet:WordNet] subset: cell_quality subset: value_slim is_a: PATO:0002005 ! concavity property_value: RO:0002604 PATO:0001355 [Term] id: PATO:0001873 name: cylindrical namespace: quality alt_id: PATO:0001203 def: "A convex 3-D shape quality inhering in a bearer by virtue of the bearer's exhibiting a consistently-sized round cross section." [PATOC:MAH] subset: cell_quality subset: value_slim synonym: "rod-like" EXACT [] synonym: "rod-shaped" EXACT [] synonym: "tubulate" NARROW [] is_a: PATO:0002007 ! convex 3-D shape relationship: RO:0015011 PATO:0000411 ! has cross section circular [Term] id: PATO:0001908 name: multinucleate namespace: quality def: "A nucleate quality inhering in a bearer by virtue of the bearer's having more than one nucleus." [PATOC:GVG] subset: mpath_slim subset: value_slim is_a: PATO:0002505 ! nucleated [Term] id: PATO:0001987 name: saccular is_a: PATO:0002014 ! structure, cavities [Term] id: PATO:0001992 name: cellularity namespace: quality def: "An organismal quality inhering in a bearer by virtue of the bearer's consisting cells." [PATOC:GVG] subset: attribute_slim subset: scalar_slim is_a: PATO:0001995 ! organismal quality [Term] id: PATO:0001993 name: multicellular namespace: quality def: "A cellularity quality inhering in a bearer by virtue of the bearer's consisting of more than one cell." [PATOC:GVG] subset: value_slim is_a: PATO:0001992 ! cellularity [Term] id: PATO:0001995 name: organismal quality namespace: quality def: "A quality that inheres in an entire organism or part of an organism." [PATOC:CJM] is_a: PATO:0001241 ! physical object quality disjoint_from: PATO:0002003 ! population quality [Term] id: PATO:0002003 name: population quality namespace: quality def: "A quality that inheres in an entire population or part of a population." [PATOC:GVG] subset: attribute_slim is_a: PATO:0001241 ! physical object quality property_value: isDefinedBy http://purl.obolibrary.org/obo/pato.owl [Term] id: PATO:0002005 name: concavity namespace: quality def: "Surface shape that refers to the inward or outward curvature of the surface." [PATOC:MAH] subset: attribute_slim is_a: PATO:0000052 ! shape [Term] id: PATO:0002006 name: 2-D shape namespace: quality def: "A shape that inheres in a 2 dimensional entity, such as a cross section or projection of a 3 dimensional entity." [PATOC:CJM] subset: attribute_slim synonym: "2-D projection" RELATED [] synonym: "cross-sectional" RELATED [] is_a: PATO:0000052 ! shape [Term] id: PATO:0002007 name: convex 3-D shape namespace: quality def: "A complete three dimensional shape in which for every line connecting pair of points on the object is within the object. Or: a shape lacking cavities. Contrast: concave." [PATOC:CJM] comment: Use this term or an is_a child of this term when the entire shape of the object is known. subset: attribute_slim xref: Image:http\://upload.wikimedia.org/wikipedia/commons/0/06/Convex_polygon_illustration1.png is_a: PATO:0002266 ! 3-D shape relationship: RO:0015011 PATO:0002006 ! has cross section 2-D shape property_value: RO:0002604 PATO:0002008 [Term] id: PATO:0002009 name: branchiness namespace: quality def: "A shape quality inhering in a bearer by virtue of the degree to which there are subdivisions or offshoots in a bearer entity." [PATOC:MAH] subset: attribute_slim subset: cell_quality is_a: PATO:0000052 ! shape [Term] id: PATO:0002014 name: structure, cavities namespace: quality def: "A structural quality that inheres in a bearer by virtue of the bearer's containing hollow areas." [PATOC:GVG] subset: attribute_slim is_a: PATO:0000141 ! structure [Term] id: PATO:0002039 name: biconcave namespace: quality def: "A concave quality inhering in a bearer by virtue of the bearer's curving inward on both sides or surfaces." [PATOC:GVG] subset: value_slim is_a: PATO:0001857 ! concave property_value: RO:0002604 PATO:0002040 [Term] id: PATO:0002045 name: dendritic namespace: quality def: "A branched quality inhering in a bearer by virtue of the bearer's having smaller branches arising from larger branches. Resembling a tree in branching structure." [PATOC:cvs] subset: value_slim synonym: "dendriform" EXACT [] synonym: "dendroid" EXACT [] synonym: "dendroidal" EXACT [] is_a: PATO:0000402 ! branched property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0002-2061-091X creation_date: 2009-02-15T08:11:41Z [Term] id: PATO:0002078 name: hollow namespace: quality def: "A quality inhering in a bearer by virtue of the bearer's having an empty space or cavity within." [url:http\://www.merriam-webster.com/dictionary/hollow] subset: value_slim is_a: PATO:0002014 ! structure, cavities property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0002-2061-091X creation_date: 2009-09-18T02:19:20Z [Term] id: PATO:0002094 name: basophilic namespace: quality def: "An affinity inhering in an anatomical structure by virtue of the bearer exhibiting a molecular interaction for basic dyes under specific pH conditions." [PATOC:GVG] subset: disposition_slim subset: mpath_slim subset: value_slim is_a: PATO:0070045 ! anatomical histological quality property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0002-2061-091X creation_date: 2009-10-05T12:05:23Z [Term] id: PATO:0002124 name: laminar namespace: quality def: "A quality inhering in a bearer by virtue of the bearer's processing the form of a thin plate sheet or layer." [PATOC:GVG] subset: mpath_slim subset: value_slim is_a: PATO:0000141 ! structure property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0002-2061-091X creation_date: 2009-10-06T04:37:14Z [Term] id: PATO:0002198 name: quality of a substance namespace: quality def: "A quality inhering in a bearer by virtue of its constitution." [PATOC:GVG] subset: attribute_slim is_a: PATO:0001018 ! physical quality property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0002-2061-091X created_by: George Gkoutos creation_date: 2010-03-15T04:35:27Z [Term] id: PATO:0002226 name: subcylindrical namespace: quality def: "A cylindrical shape quality inhering in a bearer by virtue of the bearer's being imperfectly cylindrical or approximately cylindrical." [url:http\://www.thefreedictionary.com/Subcylindrical] subset: value_slim is_a: PATO:0001873 ! cylindrical property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0002-2061-091X creation_date: 2010-07-13T04:22:30Z [Term] id: PATO:0002254 name: flattened namespace: quality def: "A quality inhering in a bearer by virtue of the bearer's surface becoming more extended in a plane." [PATOC:CVS] comment: Becoming flat but not necessarily completely flat. subset: value_slim synonym: "compressed" RELATED [] is_a: PATO:0001591 ! curvature property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0002-2061-091X creation_date: 2010-08-16T03:59:34Z [Term] id: PATO:0002255 name: grooved namespace: quality def: "Texture quality inhering in a bearer by virtue of the bearer's being marked with one or more channels." [PATOC:JE] subset: value_slim synonym: "channeled" RELATED [] synonym: "creased" RELATED [] is_a: PATO:0000150 ! texture property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0002-2061-091X creation_date: 2010-09-01T10:27:48Z [Term] id: PATO:0002266 name: 3-D shape namespace: quality def: "A shape that inheres in a 3 dimensional entity." [PATOC:OREGON] is_a: PATO:0000052 ! shape property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0002-2061-091X creation_date: 2010-10-05T12:31:16Z [Term] id: PATO:0002287 name: increased elasticity namespace: quality def: "An elasticity which is relatively high." [PATOC:GVG] subset: value_slim is_a: PATO:0001171 ! elastic is_a: PATO:0002305 ! increased object quality intersection_of: PATO:0001171 ! elastic intersection_of: RO:0015007 PATO:0000461 ! increased in magnitude relative to normal property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0002-2061-091X property_value: RO:0002604 PATO:0002288 creation_date: 2011-03-30T11:50:21Z [Term] id: PATO:0002299 name: tubular namespace: quality def: "A cylindrical shape that is hollow." [PATOC:GVG] synonym: "tube like" EXACT [] synonym: "tube-shaped" EXACT [] synonym: "tubulate" EXACT [] is_a: PATO:0001873 ! cylindrical is_a: PATO:0002078 ! hollow property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0002-2061-091X creation_date: 2011-06-08T06:33:50Z [Term] id: PATO:0002300 name: increased quality namespace: quality def: "A quality that has a value that is increased compared to normal or average." [PATOC:GVG] is_a: PATO:0000069 ! deviation (from_normal) intersection_of: PATO:0000001 ! quality intersection_of: RO:0015007 PATO:0000461 ! increased in magnitude relative to normal relationship: RO:0015007 PATO:0000461 ! increased in magnitude relative to normal property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0002-2061-091X property_value: RO:0002604 PATO:0002301 creation_date: 2011-06-16T06:39:43Z [Term] id: PATO:0002301 name: decreased quality def: "A quality that has a value that is decreased compared to normal or average." [] is_a: PATO:0000069 ! deviation (from_normal) [Term] id: PATO:0002303 name: decreased object quality def: "A quality of an object that has a value that is decreased compared to normal or average." [] is_a: PATO:0001241 ! physical object quality is_a: PATO:0002301 ! decreased quality [Term] id: PATO:0002305 name: increased object quality namespace: quality def: "A quality of an object that has a value that is increased compared to normal or average." [PATOC:GVG] is_a: PATO:0001241 ! physical object quality is_a: PATO:0002300 ! increased quality intersection_of: PATO:0001241 ! physical object quality intersection_of: RO:0015007 PATO:0000461 ! increased in magnitude relative to normal property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0002-2061-091X property_value: RO:0002604 PATO:0002303 creation_date: 2011-06-16T06:54:01Z [Term] id: PATO:0002309 name: fiber shaped namespace: quality def: "A convex 3-D shape quality inhering in a bearer by virtue of the bearer's exhibiting a by virtue of the bearer's exhibiting a consistently sized and approximately round cross-section along its length, which is many times larger than its diameter." [PATOC:DC] comment: Note that a fiber shaped object may take any circuitous or straight path through space (think of a length of string or rope). subset: value_slim is_a: PATO:0002226 ! subcylindrical property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0002-2061-091X creation_date: 2011-09-09T04:50:10Z [Term] id: PATO:0002318 name: superelliptic namespace: quality def: "A shape constituting a transition between a rectangle and a circle; a closed curve, of which the circle and ellipse are special cases, whose parametric equation is x = a.cos2/rt, y = b.cos2/rt" [wiktionary:superellipse] synonym: "Lamé curve" EXACT [] is_a: PATO:0002006 ! 2-D shape property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0002-2061-091X creation_date: 2011-10-12T12:45:16Z [Term] id: PATO:0002418 name: acidophilic namespace: quality def: "An affinity inhering in an anatomical structure by virtue of the bearer exhibiting a molecular interaction for acidic dyes under specific pH conditions." [PATOC:GVG] subset: mpath_slim subset: value_slim is_a: PATO:0070045 ! anatomical histological quality property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0002-2061-091X creation_date: 2012-12-17T03:01:19Z [Term] id: PATO:0002422 name: acinar namespace: quality def: "Pertaining to the individual parts making up an aggregate fruit like a many-lobed \"berry,\" such as a raspberry." [wikipedia:https\://en.wikipedia.org/wiki/Acinus] comment: Acinus is Latin for berry. subset: mpath_slim subset: value_slim is_a: PATO:0000141 ! structure property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0002-2061-091X creation_date: 2012-12-17T03:11:10Z [Term] id: PATO:0002462 name: collagenous namespace: quality def: "A composition quality inhering in an bearer by virtue of the bearer's consisting of collagen." [PATOC:WD] subset: value_slim is_a: PATO:0000025 ! composition property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0002-2061-091X creation_date: 2013-09-15T11:34:15Z [Term] id: PATO:0002478 name: transversely striated namespace: quality def: "A shape quality inhering in a bearer by virtue of the bearer's being marked by narrow lines or grooves, usually parallel, that are oriented transversely relative to the long axis of the bearer." [PATOC:DS] subset: cell_quality subset: mpath_slim subset: value_slim is_a: PATO:0001410 ! striated property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0002-2061-091X creation_date: 2013-09-15T12:29:15Z [Term] id: PATO:0002505 name: nucleated namespace: quality def: "A nucleate quality inhering in a bearer by virtue of the bearer's having one or more nucleus." [PATOC:GVG] subset: mpath_slim subset: value_slim is_a: PATO:0001404 ! nucleate quality property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0002-2061-091X creation_date: 2013-10-21T05:44:34Z [Term] id: PATO:0015006 name: polymeric namespace: quality def: "A quality inhering in a structure by virtue of it consisting of many of repeated, similar or identical subunits, arranged in some orderly array." [GOC:DOS, https://github.com/pato-ontology/pato/issues/78] comment: A complete coverage of this domain would subclasses homopolymeric, copolymeric, crystalline. subset: value_slim is_a: PATO:0000141 ! structure [Term] id: PATO:0070044 name: anatomical structure quality namespace: quality def: "A quality of continuant that exist at the anatomical level of organisation and anything under it. This includes, but is not limited to, cells , tissues, and components." [] is_a: PATO:0001241 ! physical object quality created_by: http://orcid.org/0000-0001-7258-9596 [Term] id: PATO:0070045 name: anatomical histological quality namespace: quality def: "A quality inhering in an anotomical structure by virtue of its capacity to be stained by specific histological dyes." [] is_a: PATO:0070044 ! anatomical structure quality created_by: http://orcid.org/0000-0001-7258-9596 [Term] id: PATO:0070047 name: polychromatophilic namespace: quality def: "An affinity inhering in an anatomical structure by virtue of the bearer exhibiting a molecular interaction for both basic and acid stains under specific pH conditions." [GOC:add] is_a: PATO:0070045 ! anatomical histological quality created_by: http://orcid.org/0000-0001-7258-9596 [Term] id: PCO:0000000 name: collection of organisms def: "A material entity that consists of two or more organisms, viruses, or viroids." [] comment: May be of the same or different species. is_a: BFO:0000027 ! object aggregate is_a: PCO:0000031 ! organismal entity intersection_of: BFO:0000027 ! object aggregate intersection_of: has_member CARO:0001010 {all_only="true"} ! organism or virus or viroid intersection_of: has_member CARO:0001010 {minCardinality="2"} ! organism or virus or viroid relationship: has_member CARO:0001010 ! organism or virus or viroid relationship: has_member CARO:0001010 ! organism or virus or viroid property_value: example_of_usage "Examples include: population, community, species (meaning the collection of organisms that makes up a species, not the taxonomic rank), and family." xsd:string property_value: IAO:0000114 IAO:0000125 property_value: IAO:0000118 "group of organism" xsd:string property_value: IAO:0000118 "organism collection" xsd:string [Term] id: PCO:0000001 name: population of organisms def: "A collection of organisms, all of the same species, that live in the same place." [] comment: It is sometimes difficult to define the physical boundaries of a population. In the case of sexually reproducing organisms, the individuals within a population have the potential to reproduce with one another during the course of their lifetimes. 'Community', as often used to describe a group of humans, is a type of population of organisms. \n\nClasses for population already exist in IDO ('organism population', IDO_0000509) and OBI ('population', OBI_0000181). The definitions should be standardized across OBO Foundry ontologies and only one term used. is_a: PCO:0000018 ! single-species collection of organisms relationship: RO:0002303 ENVO:01000739 ! has habitat habitat property_value: example_of_usage "" xsd:string property_value: example_of_usage "This a general term that can include every organism of a species living in an area or any subset of them. Subclasses can be more specific as needed." xsd:string property_value: IAO:0000114 IAO:0000125 property_value: IAO:0000119 ISBN:0878932739 xsd:string [Term] id: PCO:0000002 name: ecological community def: "A multi-species collection of organisms of at least two different species, living in a particular area. Must have at least two populations of different species as members." [] comment: Ecological community is defined broadly here, but includes both ecological interactions (inherited from parent term community) and spatial co-existence. It may be used to describe every organisms living in an area, but is often used to refer only to organisms of a particular taxon or guild (e.g., the plant community, the insect community, the herbivore community). The word community, as it often used to describe a group of humans living together, is a type of single-species collection of organisms, not an ecological community. subset: envoPolar is_a: PCO:0000029 ! multi-species collection of organisms property_value: IAO:0000118 "multispecies community" xsd:string property_value: IAO:0000119 ISBN:0865423504 xsd:string [Term] id: PCO:0000003 name: quality of a population def: "A quality that inheres in a population of organisms." [] comment: Includes qualities like population size, population growth rate, carrying capacity, immigration rate, emigration rate, fecundity, and death rate. A population quality may depend on the qualities of individual organisms in the population, but cannot be measured or described for a single organism. This term may be replaced by a PATO term. is_a: PATO:0002003 ! population quality intersection_of: PATO:0002003 ! population quality intersection_of: RO:0000052 PCO:0000001 ! inheres in population of organisms relationship: RO:0000052 PCO:0000001 ! inheres in population of organisms property_value: editor_note "See Chris's comments on population qualities at: http://code.google.com/p/popcomm-ontology/issues/detail?id=4. These may not belong under BFO:quality. May be better to call them population characteristics, and classify as specifically dependent continuants. Need to look at process profiles in BFO2." xsd:string property_value: editor_note "This class is used only for qualities of PCO:population of organsism, while PATO:population quality can inhere in either a population of organisms or an ecological community." xsd:string property_value: IAO:0000114 IAO:0000428 [Term] id: PCO:0000004 name: quality of an ecological community def: "A quality that inheres in a community." [] comment: Includes qualities like diversity, species richness, stability, resilience, community structure, number of trophic levels. A community quality may depend on the qualities of individual organism in the community, but cannot be measured or described for a single individual. is_a: PATO:0002003 ! population quality intersection_of: PATO:0002003 ! population quality intersection_of: RO:0000052 PCO:0000002 ! inheres in ecological community relationship: RO:0000052 PCO:0000002 ! inheres in ecological community property_value: editor_note "These may not belong under BFO:quality. May be better to call them community characteristics, and classify as specifically dependent continuants. Need to look at process profiles in BFO2." xsd:string property_value: IAO:0000114 IAO:0000428 [Term] id: PCO:0000005 name: population process def: "A process that has as primary participant a population. Includes processes such as population growth, extinction, evolution, selection, and adaptation. Population processes may depend on the processes of individual organisms {e.g., population growth reflects the cumulative multicellular organism reproduction (GO:0032504) and death (GO:0016265) of all individuals in a population}, but cannot be described for an individual organism. Some of these processes (e.g., evolution, extinction) can also occur at the species level, so PCO distinguishes between, for example, population extinction and species extinction." [] comment: The GO has the terms 'multi-organism process' (GO:0051704) and 'intraspecies interactions between organisms' (GO:0051703), but these categories are only defined for interactions between two individuals. It is unclear at this point if 'biological process' (GO:0008150) encompasses population processes. is_a: BFO:0000015 ! process relationship: has_participant PCO:0000001 ! population of organisms property_value: IAO:0000114 IAO:0000123 [Term] id: PCO:0000010 name: community species richness def: "The number of different species represented in an ecological community." [] is_a: PCO:0000004 ! quality of an ecological community property_value: editor_note "This is a quality of an ecological community (PCO_0000002). If your metric includes the abundances of species (evenness) as well as the number, you should use community species diversity (PCO_0000019)." xsd:string property_value: IAO:0000114 IAO:0000120 property_value: IAO:0000119 "adapted from http://en.wikipedia.org/wiki/Species_richness" xsd:string [Term] id: PCO:0000011 name: population growth def: "A process that leads to a change in the number of individuals (positive or negative) in a population." [] is_a: PCO:0000005 ! population process property_value: IAO:0000114 IAO:0000123 [Term] id: PCO:0000012 name: logistic population growth def: "A population process that leads to an increase in the numbers of individuals in a population following a logistic (S-shaped) curve. Generally occurs when the population has a carrying capacity in a particular habitat." [] is_a: PCO:0000011 ! population growth property_value: IAO:0000114 IAO:0000123 [Term] id: PCO:0000013 name: exponential population growth def: "A population growth process that leads to an exponential increase in the number of individuals in a population." [] is_a: PCO:0000011 ! population growth property_value: IAO:0000114 IAO:0000123 [Term] id: PCO:0000018 name: single-species collection of organisms def: "A material entity that has as parts two or more organisms, viruses, or viroids of the same species and no members of any other species." [] is_a: PCO:0000000 ! collection of organisms property_value: IAO:0000114 IAO:0000120 property_value: IAO:0000118 "collection of organisms of the same species" xsd:string [Term] id: PCO:0000019 name: community species diversity def: "The number of different species that are represented in a given community, weighted by their abundance. Community species diversity can be calculated in different ways, but consists of two components: species richness and species evenness." [] comment: The Shannon Index and Simpson Index are examples of ways in which species diversity is quantified. is_a: PCO:0000004 ! quality of an ecological community property_value: editor_note "If your metric does not include the abundances of different species, but rather just the numer of species, you should use community species richness (PCO_0000010). More specific subclasses or instances of this class may be created to describe specific ways of measuring diversity." xsd:string property_value: IAO:0000114 IAO:0000120 property_value: IAO:0000119 "adapted from http://en.wikipedia.org/wiki/Species_diversity" xsd:string [Term] id: PCO:0000021 name: population extinction def: "A population process that ultimately leads to the death of all individuals in a population." [] is_a: PCO:0000005 ! population process property_value: IAO:0000114 IAO:0000123 [Term] id: PCO:0000022 name: species extinction def: "A process that ultimately leads to the death of all individuals in a population." [] is_a: BFO:0000015 ! process property_value: IAO:0000114 IAO:0000123 [Term] id: PCO:0000023 name: community species evenness def: "A quality of an ecological community that reflects how close in abundance all species in a community are." [] is_a: PCO:0000004 ! quality of an ecological community property_value: example_of_usage "If there are 40 foxes, and 1000 dogs, the community is not very even, but if there are 40 foxes and 42 dogs, the community is quite even." xsd:string property_value: IAO:0000114 IAO:0000120 property_value: IAO:0000119 "adapted from http://en.wikipedia.org/wiki/Species_evenness" xsd:string [Term] id: PCO:0000027 name: collection of humans def: "A collection of organisms of the same species that has as members only humans." [] is_a: PCO:0000018 ! single-species collection of organisms intersection_of: PCO:0000018 ! single-species collection of organisms intersection_of: has_member NCBITaxon:9606 {all_only="true"} ! Homo sapiens intersection_of: has_member NCBITaxon:9606 {minCardinality="2"} ! Homo sapiens relationship: has_member NCBITaxon:9606 ! Homo sapiens property_value: IAO:0000114 IAO:0000125 property_value: IAO:0000118 "human community" xsd:string property_value: IAO:0000118 "human population" xsd:string [Term] id: PCO:0000029 name: multi-species collection of organisms def: "A collection of organisms that consists of two or more organisms from at least two species." [] is_a: PCO:0000000 ! collection of organisms relationship: has_member PCO:0000001 {minCardinality="2"} ! population of organisms property_value: editor_note "Need to add axiom to specify that it has at a mimum members of two different species, but not sure how to specify that. Can't say \"('has member' only ('member of' min 2 'species as a collection of organisms'))\"." xsd:string property_value: IAO:0000114 IAO:0000123 [Term] id: PCO:0000031 name: organismal entity def: "A material entity that is one or more organisms, viruses or viroids." [] is_a: BFO:0000040 ! material entity union_of: CARO:0001010 ! organism or virus or viroid union_of: PCO:0000000 ! collection of organisms property_value: IAO:0000114 IAO:0000120 [Term] id: PCO:0001000 name: pair of interacting organisms def: "A collection of organisms that consists of exactly two organism, viruses, or viroids that are interacting with each other." [] is_a: PCO:0000000 ! collection of organisms intersection_of: PCO:0000000 ! collection of organisms intersection_of: has_member CARO:0001010 {cardinality="2"} ! organism or virus or viroid [Term] id: PCO:0001001 name: pair of interacting organisms of the same species def: "A pair of interacting organisms that consists of exactly two organism, viruses, or viroids of the same species that are interacting with each other." [] is_a: PCO:0000018 ! single-species collection of organisms is_a: PCO:0001000 ! pair of interacting organisms property_value: IAO:0000114 IAO:0000428 [Term] id: PO:0000003 name: whole plant namespace: plant_anatomy def: "A plant structure (PO:0005679) which is a whole organism." [POC:curators] comment: Examples include plant embryo (PO:0009009), megagametophyte (PO:0025279) and microgametophyte (PO:0025280). subset: reference subset: TraitNet synonym: "bush (narrow)" NARROW [] synonym: "clonal colony (related)" RELATED [] synonym: "colony (related)" RELATED [] synonym: "frutex (narrow)" NARROW [FNA:e4dde193-57f7-4ab9-9d25-96b4ca0088ba] synonym: "frutices (narrow)" NARROW Plural [FNA:ec8c2064-2a67-43d7-8e14-aecfef5cf33b] synonym: "gametophyte (narrow)" NARROW [] synonym: "genet (broad)" BROAD [] synonym: "herb (narrow)" NARROW [] synonym: "liana (narrow)" NARROW [] synonym: "planta entera (Spanish, exact)" EXACT Spanish [POC:Maria_Alejandra_Gandolfo] synonym: "prothalli (narrow)" NARROW Plural [FNA:4b610104-1bb0-4c6b-9bb9-e3cc61d11ac0] synonym: "prothallium (narrow)" NARROW [] synonym: "prothallus (narrow)" NARROW [FNA:f8f31520-e4bc-4430-9274-8dd3cee7ffd8] synonym: "ramet (broad)" BROAD [] synonym: "seedling (narrow)" NARROW [] synonym: "shrub (narrow)" NARROW [] synonym: "sporophyte (narrow)" NARROW [] synonym: "suffrutex (narrow)" NARROW [FNA:99508f62-7116-4e2b-90c0-19ff55ebd967] synonym: "suffrutices (narrow)" NARROW Plural [FNA:ba1b1bd5-75bd-4195-b11c-3aba08da08c2] synonym: "tree (narrow)" NARROW [] synonym: "vine (narrow)" NARROW [] synonym: "woody clump (narrow)" NARROW [FNA:c1ccca7d-2a98-4a9d-8603-c34b551935e0] synonym: "植物体全体 (Japanese, exact)" EXACT Japanese [NIG:Yukiko_Yamazaki] xref: PO_GIT:538 xref: PO_GIT:69 is_a: PO:0009011 ! plant structure [Term] id: PO:0000018 name: ovule primordium namespace: plant_anatomy def: "A floral structure primordium (PO:0025477) that is committed to the development of an ovule (PO:0020003)." [ISBN:0471245208, POC:curators] comment: The transition from ovule primordium to ovule occurs when an integument (PO:0020021) begins to develop from the protoderm (PO:0006210). synonym: "portion of ovule primordium tissue (exact)" EXACT [] synonym: "primordio de óvulo (Spanish, exact)" EXACT Spanish [POC:Maria_Alejandra_Gandolfo] synonym: "胚珠原基（可視的） (Japanese, exact)" EXACT Japanese [NIG:Yukiko_Yamazaki] xref: PO_GIT:465 is_a: PO:0025477 ! floral organ primordium [Term] id: PO:0000019 name: gynoecium primordium namespace: plant_anatomy def: "A floral structure primordium (PO:0025477) that is committed to the development of a gynoecium (PO:0009062)." [POC:curators] comment: Use carpel primordium (PO:0004703) for the primordium (PO:0025127) of an individual carpel (PO:0009030). synonym: "pistil primordium (exact)" EXACT [] synonym: "portion of gynoecium primordium tissue (exact)" EXACT [] synonym: "primordio de gineceo (Spanish, exact)" EXACT Spanish [POC:Maria_Alejandra_Gandolfo] synonym: "雌蕊原基(可視的） (Japanese, exact)" EXACT Japanese [NIG:Yukiko_Yamazaki] xref: PO_GIT:465 is_a: PO:0025477 ! floral organ primordium [Term] id: PO:0000037 name: shoot axis apex namespace: plant_anatomy def: "A shoot axis (PO:0025029) that is the most distal part of a shoot system (PO:0009006) and has as parts a shoot apical meristem (PO:0020148) and the youngest primordia (PO:0025127)." [POC:curators] subset: reference synonym: "ápice del epiblasto (epiblastema) (Spanish, exact)" EXACT Spanish [POC:Maria_Alejandra_Gandolfo] synonym: "シュート頂、茎頂 (Japanese, exact)" EXACT Japanese [NIG:Yukiko_Yamazaki] xref: PO_GIT:234 is_a: PO:0025029 ! shoot axis [Term] id: PO:0000225 name: peripheral zone namespace: plant_anatomy def: "A portion of meristem tissue (PO:0009013) which is the organogenic region of the meristem, characterized by higher rates of cell division." [ISBN:0521288959, TAIR_curator:Leonore_Reiser] synonym: "peripheral meristem (related)" RELATED [] synonym: "zona periférica (Spanish, exact)" EXACT Spanish [POC:Maria_Alejandra_Gandolfo] synonym: "周辺帯 (Japanese, exact)" EXACT Japanese [NIG:Yukiko_Yamazaki] is_a: PO:0009013 ! portion of meristem tissue relationship: part_of PO:0020148 ! shoot apical meristem [Term] id: PO:0000229 name: flower meristem namespace: plant_anatomy alt_id: PO:0006329 alt_id: PO:0006373 alt_id: PO:0006374 alt_id: PO:0025091 def: "A portion of reproductive shoot apical meristem tissue (PO:0008028) that gives rise to the floral organs (PO:0025395)." [Gramene:Pankaj_Jaiswal, POC:curators] comment: In Zea mays and other grasses, the floret meristem is part of a spikelet and develops into a specific type of floret. If you are annotating to this structure for Zea mays or other grasses, please also add an annotation to the spikelet type that the meristem is part of. Choose the most specific term possible from: spikelet (PO:0009051), ear spikelet (PO:0006320), ear pedicellate spikelet (PO:0006348), ear sessile spikelet (PO:0006349), tassel spikelet (PO:0006309), tassel pedicellate spikelet (PO:0006312), tassel sessile spikelet (PO:0006311). synonym: "ear floret meristem (narrow)" NARROW [] synonym: "floral apical meristem (related)" RELATED [] synonym: "floral meristem (exact)" EXACT [] synonym: "floret meristem (narrow)" NARROW [] synonym: "mersitema floral (Spanish, exact)" EXACT Spanish [POC:Maria_Alejandra_Gandolfo] synonym: "Poaceae floret meristem (narrow)" NARROW [] synonym: "tassel floret meristem (narrow)" NARROW [] synonym: "花芽分裂組織 (Japanese, exact)" EXACT Japanese [NIG:Yukiko_Yamazaki] is_a: PO:0008028 ! reproductive shoot apical meristem [Term] id: PO:0004010 name: meristematic cell namespace: plant_anatomy def: "A native plant cell (PO:0025606) synthesizing protoplasm and producing new cells by division and with only a primary cell wall." [ISBN:0471245208, POC:Laurel_Cooper] subset: CL synonym: "célula meristemática (Spanish, exact)" EXACT Spanish [POC:Maria_Alejandra_Gandolfo] synonym: "stem cell (exact)" EXACT [] synonym: "分裂組織細胞 (Japanese, exact)" EXACT Japanese [NIG:Yukiko_Yamazaki] xref: CL:0000034 xref: PO_GIT:272 is_a: PO:0025606 ! native plant cell [Term] id: PO:0005029 name: root primordium namespace: plant_anatomy def: "A primordium (PO:0025127) that develops from a root anlagen (PO:0025433) and is committed to the development of a root (PO:0009005)." [ISBN:0521288959, POC:curators] comment: A root primordium may arise from cells of a pericycle (PO:0006203) in a root in most seed plant (pericyclic lateral root primordium; PO:0025492), from cells of an endodermis (PO:0000252) in ferns and some seed plants (non-pericyclic lateral root primordium: PO:0025493), or from cells of a shoot axis (PO:0025029), in the case of a basal root primordium (PO:0025479) or shoot-borne root primordium (PO:0025480). Transition from root primordium to root occurs with the formation of a root cap (PO:0020123), shortly after the development of a root apical meristem (PO:0020147). synonym: "portion of root primordium tissue (exact)" EXACT [] synonym: "primordio de raíz (Spanish, exact)" EXACT Spanish [POC:Maria_Alejandra_Gandolfo] synonym: "root primordia (exact, plural)" EXACT [] synonym: "根原基（可視的） (Japanese, exact)" EXACT Japanese [NIG:Yukiko_Yamazaki] xref: PO_GIT:467 is_a: CARO:0000000 ! anatomical entity is_a: PO:0025127 ! primordium relationship: develops_from PO:0025433 ! root anlagen [Term] id: PO:0006001 name: phyllome namespace: plant_anatomy def: "A lateral plant organ (PO:0009008) produced by a shoot apical meristem (PO:0020148)." [POC:curators] subset: reference subset: TraitNet synonym: "filoma (Spanish, exact)" EXACT Spanish [POC:Maria_Alejandra_Gandolfo] synonym: "フィロム、葉(的）器官 (Japanese, exact)" EXACT Japanese [NIG:Yukiko_Yamazaki] is_a: CARO:0000000 ! anatomical entity is_a: PO:0009008 ! plant organ relationship: develops_from PO:0025128 ! phyllome primordium relationship: part_of PO:0009006 ! shoot system [Term] id: PO:0006079 name: shoot system meristem namespace: plant_anatomy def: "A portion of meristem tissue (PO:0009013) that is part of a shoot system (PO:0009006)." [Gramene:Pankaj_Jaiswal, POC:Laurel_Cooper] subset: TraitNet synonym: "meristema del epiblasto (epiblastema) (Spanish, exact)" EXACT Spanish [POC:Maria_Alejandra_Gandolfo] synonym: "シュート分裂組織 (Japanese, exact)" EXACT Japanese [NIG:Yukiko_Yamazaki] xref: PO_GIT:472 xref: PO_GIT:583 is_a: PO:0009013 ! portion of meristem tissue relationship: part_of PO:0009006 ! shoot system [Term] id: PO:0006210 name: protoderm namespace: plant_anatomy def: "A portion of meristem tissue (PO:0009013) that is the outer layer of an apical meristem (PO:0020144), or the outer layer of a plant embryo proper (PO:0000001), and gives rise to a portion of epidermis (PO:0005679)." [ISBN:0471245208, POC:Laurel_Cooper] comment: A protoderm may or may not arise from independent initial cells (PO:0004011). Some researchers also refer to it as an epidermis in a meristematic state. synonym: "dermatogen cell (related)" RELATED [] synonym: "portion of protoderm tissue (exact)" EXACT [] synonym: "protodermis (Spanish, exact)" EXACT Spanish [POC:Maria_Alejandra_Gandolfo] synonym: "前表皮、原表皮 (Japanese, exact)" EXACT Japanese [NIG:Yukiko_Yamazaki] xref: PO_GIT:125 is_a: PO:0009013 ! portion of meristem tissue [Term] id: PO:0007033 name: whole plant development stage namespace: plant_structure_development_stage def: "A plant structure development stage (PO:0009012) that has as primary participant a whole plant (PO:0000003)." [POC:curators] subset: TraitNet synonym: "cereal plant growth stage ontology (GRO:0007199) (related)" RELATED [] synonym: "maize growth stage (GRO:0007002) (related)" RELATED [] synonym: "plant growth stages in Arabidopsis (TAIR:0000021) (related)" RELATED [] synonym: "rice growth stage (GRO:0007040) (related)" RELATED [] synonym: "Solanaceae whole plant growth stages (SGN:0000001) (related)" RELATED [] synonym: "sorghum growth stage (GRO:0007124) (related)" RELATED [] synonym: "wheat, barley and oat growth stage (GRO:0007156) (related)" RELATED [] xref: PO_GIT:390 is_a: PO:0009012 ! plant structure development stage relationship: has_participant PO:0000003 ! whole plant [Term] id: PO:0008028 name: reproductive shoot apical meristem namespace: plant_anatomy def: "A shoot apical meristem (PO:0020148) that gives rise to the apical growth of reproductive tissues and organs." [Gramene:Chih-Wei_Tung] synonym: "meristema apical reproductivo del epiblasto (epiblastema) (Spanish, exact)" EXACT Spanish [POC:Maria_Alejandra_Gandolfo] synonym: "生殖シュート頂端 分裂組織 (Japanese, exact)" EXACT Japanese [NIG:Yukiko_Yamazaki] xref: PO_GIT:36 is_a: PO:0020148 ! shoot apical meristem relationship: part_of PO:0025222 ! reproductive shoot apex [Term] id: PO:0009001 name: fruit namespace: plant_anatomy alt_id: PO:0020067 alt_id: PO:0020068 alt_id: PO:0020069 alt_id: PO:0020070 alt_id: PO:0020071 alt_id: PO:0020072 alt_id: PO:0020073 alt_id: PO:0020074 alt_id: PO:0020076 alt_id: PO:0020077 alt_id: PO:0020078 alt_id: PO:0020079 alt_id: PO:0020080 alt_id: PO:0020082 alt_id: PO:0020083 alt_id: PO:0020087 alt_id: PO:0020107 def: "A multi-tissue plant structure (PO:0025496) that develops from a gynoecium (PO:0009062), or a single carpel (PO:0009030), and at maturity may have as parts one or more seeds (PO:0009010)." [NYBG:Brandon_Sinn, NYBG:Dario_Cavaliere, POC:curators, POC:Laurel_Cooper] comment: A fruit (PO:0009001) may contain additional plant structures (PO:0009011) that were part of a flower (PO:0009046) and mature along with the gynoecium, such as a receptacle (PO:0009064). A fruit may develop without fertilization in cases of parthenocarpy, apomixis, or other hormone-induced conditions and may not always contain seeds (PO:0009010). When annotating to fruit (PO:0009001) that are referred to as ‘aggregate’, ‘multiple’, or ‘compound’, please annotate directly to the appropriate plant structure, such as receptacle, hypanthium (PO:0009065) or infructescence (PO:0006342). Fruits only occur in angiosperms. subset: Angiosperm subset: Arabidopsis subset: Maize subset: Poaceae subset: Rice subset: TraitNet synonym: "aggregate fruit (broad)" BROAD [] synonym: "coenocarp (narrow)" NARROW [FNA:c13b1312-1cc5-4ace-98e2-fde12aec09da] synonym: "compound fruit (broad)" BROAD [] synonym: "dehiscent fruit (broad)" BROAD [] synonym: "diaspore (broad)" BROAD [] synonym: "frucht (exact, German)" EXACT German [NYBG:Brandon_Sinn, NYBG:Dario_Cavaliere] synonym: "fruto (exact, Spanish)" EXACT Spanish [POC:Maria_Alejandra_Gandolfo] synonym: "indehiscent fruit (broad)" BROAD [] synonym: "multiple fruit (broad)" BROAD [] synonym: "propagule (broad)" BROAD [] synonym: "syncarp (narrow)" NARROW [FNA:67fa41ae-b735-4d89-b5db-7631b873ef7a] synonym: "果実 (exact, Japanese)" EXACT Japanese [NIG:Yukiko_Yamazaki] xref: PO_GIT:76 is_a: CARO:0000000 ! anatomical entity is_a: PO:0025496 ! multi-tissue plant structure relationship: develops_from PO:0009062 ! gynoecium [Term] id: PO:0009002 name: plant cell namespace: plant_anatomy def: "A cell which is a plant structure (PO:0009011)." [GO:0005623, POC:curators] comment: Applies to cells that are living or dead at maturity (e.g., fiber cell or tracheid) and includes any external encapsulating structures (if present) such as the plasma membrane and the plant-type cell wall. Definition of cell GO:0005623: "The basic structural and functional unit of all organisms. Includes the plasma membrane and any external encapsulating structures such as the cell wall and cell envelope". GO:0009505. Definition of plant-type cell wall (GO:0009505): A more or less rigid structure lying outside the cell membrane of a cell and composed of cellulose and pectin and other organic and inorganic substances, synonym; exact: cellulose and pectin-containing cell wall. subset: CL subset: reference subset: TraitNet synonym: "célula vegetal (Spanish, exact)" EXACT Spanish [POC:Maria_Alejandra_Gandolfo] synonym: "cell (broad)" BROAD [] synonym: "植物細胞 (Japanese, exact)" EXACT Japanese [NIG:Yukiko_Yamazaki] xref: GO:0005623 xref: PO_GIT:56 is_a: PO:0009011 ! plant structure disjoint_from: PO:0009007 ! portion of plant tissue disjoint_from: PO:0009008 ! plant organ disjoint_from: PO:0025007 ! collective plant organ structure [Term] id: PO:0009005 name: root namespace: plant_anatomy alt_id: PO:0003006 def: "A plant axis (PO:0025004) that lacks shoot axis nodes (PO:0005004) and usually grows indeterminately." [ISBN:978-0879015329, ISBN:9780964022157, NYBG:Brandon_Sinn, NYBG:Dario_Cavaliere, POC:curators, POC:Laurel_Cooper] comment: Roots function in the absorption of water and inorganic nutrients, anchoring the plant body to the substrate and supporting it, storage of food and nutrients, and vegetative reproduction. The roots of most vascular plant species enter into symbiosis with soil-borne microorganisms. Roots are usually positively geotropic and found underground, although there are many exceptions such as the aerial roots of orchids. Roots often form secondary thickening from the root lateral meristem (PO:0006308). Commonly thought of as one of the three basic parts of the plant body, along with the shoot axis (PO:0025029) and leaves (PO:0025034). subset: Angiosperm subset: Gymnosperms subset: Maize subset: Musa subset: Potato subset: reference subset: Rice subset: Tomato subset: TraitNet synonym: "aerial root (narrow)" NARROW [] synonym: "climbing root (narrow)" NARROW [FNA:bf0ce902-e91c-401a-92a8-26b20142ce5f] synonym: "raíz (Spanish, exact)" EXACT Spanish [POC:Maria_Alejandra_Gandolfo] synonym: "radices (exact, plural)" EXACT [FNA:3c46e84c-23e4-416b-91cd-2f7c42e4b13d] synonym: "radix (exact)" EXACT [FNA:e6315684-fc99-4976-b39d-b356c4b7e7fd] synonym: "根 (Japanese, exact)" EXACT Japanese [NIG:Yukiko_Yamazaki] xref: PO_GIT:578 is_a: CARO:0000000 ! anatomical entity is_a: PO:0025004 ! plant axis relationship: develops_from PO:0005029 ! root primordium relationship: part_of PO:0025025 ! root system [Term] id: PO:0009006 name: shoot system namespace: plant_anatomy def: "A collective plant organ structure (PO:0025007) that produces shoot-borne portions of meristem tissue (PO:0009013) and the plant structures (PO:0009011) that arise from them." [POC:curators, POC:Laurel_Cooper] comment: The shoot system is generally used to refer to the above-ground plant parts, although some plants have parts of their shoot system underground. For example, a rhizome (PO:0004542), bulb (PO:0025356), a corm (PO:0025355) or a subterranean tuber (PO:0004547), as in Solanum tuberosum (potato) or yam, are all part of the shoot system. subset: reference subset: TraitNet synonym: "Poaceae crown (related)" RELATED [] synonym: "shoot (related)" RELATED [] synonym: "sistema de epiblasto (epiblastema) (Spanish, exact)" EXACT Spanish [POC:Maria_Alejandra_Gandolfo] synonym: "thalli (related)" RELATED Plural [FNA:d1431b5c-7b86-46a0-8d3c-bd426fe12c85] synonym: "thallus (related)" RELATED [FNA:02756ad4-a09c-48d7-8754-903254e557a9] synonym: "tree crown (narrow)" NARROW [] synonym: "シュート系、苗条系 (Japanese, exact)" EXACT Japanese [NIG:Yukiko_Yamazaki] xref: PO_GIT:135 is_a: PO:0025007 ! collective plant organ structure disjoint_from: PO:0025025 ! root system [Term] id: PO:0009007 name: portion of plant tissue namespace: plant_anatomy def: "A plant structure (PO:0009011) that consists predominantly of similarly specialized plant cells (PO:0009002) of one or more types." [POC:curators, TAIR_curator:Leonore_Reiser] comment: A portion of plant tissue may contain one or several types of cells that are organized in a specific spatial arrangement into a structural unit (which includes a mass of callus) and may include an intercellular matrix. May include other types of isolated cells, such as idioblasts. subset: reference subset: TraitNet synonym: "plant tissue (related)" RELATED [] synonym: "porción de un tejido vegetal (Spanish, exact)" EXACT Spanish [POC:Maria_Alejandra_Gandolfo] synonym: "portion of tissue (broad)" BROAD [] synonym: "tissue (broad)" BROAD [] synonym: "植物組織の一部 (Japanese, exact)" EXACT Japanese [NIG:Yukiko_Yamazaki] xref: PO_GIT:59 is_a: PO:0009011 ! plant structure disjoint_from: PO:0009008 ! plant organ disjoint_from: PO:0025007 ! collective plant organ structure [Term] id: PO:0009008 name: plant organ namespace: plant_anatomy def: "A multi-tissue plant structure (PO:0025496) that is a functional unit, is a proper part of a whole plant (PO:0000003), and includes portions of plant tissue (PO:0009007) of at least two different types that derive from a common developmental path." [POC:curators] comment: Examples include stem (PO:0009047), leaf (PO:0025034), and root (PO:0009005). May include individual plant cells (PO:0009002) that are not part of a portion of plant tissue (e.g., idioblasts, PO:0000283). A plant organ may have one or more different plant organs as parts, such as a sporophyll (PO:0009026) that may have as part a sporangium (PO:0025094) or a carpel (PO:0009030) that may have as part a plant ovule (PO:0020003). subset: TraitNet synonym: "órgano vegetal (Spanish, exact)" EXACT Spanish [POC:Maria_Alejandra_Gandolfo] synonym: "compound plant organ (related)" RELATED [] synonym: "organ (broad)" BROAD [] synonym: "simple plant organ (related)" RELATED [PATO:01503] synonym: "植物 器官 (Japanese, exact)" EXACT Japanese [NIG:Yukiko_Yamazaki] xref: PO_GIT:55 is_a: PO:0025496 ! multi-tissue plant structure [Term] id: PO:0009009 name: plant embryo namespace: plant_anatomy def: "A whole plant (PO:0000003) that participates in the plant embryo stage (PO:0007631)." [POC:curators] comment: A plant embryo is generally formed after the first division of a plant zygote (PO:0000423), but in the case of a nucellar (adventitious) plant embryo (PO:0004537), somatic plant embryo (PO:0025302), microspore-derived cultured plant embryo (PO:0025305), and other embryos that arise through apogamy, it begins after the division of a single cell that is not a zygote. The end of the embryo stage varies among taxa; the beginning of a seed germination stage (PO:0007057) in seed plants, formation of the first vascular leaf (PO:0009025) in pteridophytes, the beginning of development of a sporangium (PO:0025094) in bryophytes, or the beginning of the formation of a plant organ (PO:0009008) such as a root (PO:0009005), shoot axis (PO:0025029), or vascular leaf (PO:0009025) in a cultured plant embryo (PO:0000010). synonym: "embrión (Spanish, exact)" EXACT Spanish [POC:Maria_Alejandra_Gandolfo] synonym: "embryo (broad)" BROAD [] synonym: "germ (related)" RELATED [] synonym: "植物胚 (Japanese, exact)" EXACT Japanese [NIG:Yukiko_Yamazaki] xref: PO_GIT:92 is_a: PO:0000003 ! whole plant [Term] id: PO:0009010 name: seed namespace: plant_anatomy def: "A multi-tissue plant structure (PO:0025496) that develops from a plant ovule (PO:0020003) and has as parts a plant embryo (PO:0009009) enclosed in a seed coat (PO:0009088)." [POC:curators] comment: A seed generally develops from an ovule (PO:0020003) after fertilization, but may develop without fertilization in the case of apogamy (e.g., adventitious embryos or somatic embryos). A seed is a reproductive unit of seed plants (gymnosperms, angiosperms, and fossil pteridosperms). subset: Angiosperm subset: Arabidopsis subset: Citrus subset: Gymnosperms subset: Maize subset: Poaceae subset: Rice subset: Tomato subset: TraitNet synonym: "diaspore (broad)" BROAD [] synonym: "pyrene (narrow)" NARROW [FNA:f5c50e73-61e3-48ec-b918-6f85b3f40738] synonym: "semilla (Spanish, exact)" EXACT Spanish [POC:Maria_Alejandra_Gandolfo] synonym: "種子 (Japanese, exact)" EXACT Japanese [NIG:Yukiko_Yamazaki] xref: PO_GIT:405 is_a: CARO:0000000 ! anatomical entity is_a: PO:0025496 ! multi-tissue plant structure relationship: develops_from PO:0020003 ! plant ovule relationship: has_part PO:0009009 ! plant embryo [Term] id: PO:0009011 name: plant structure namespace: plant_anatomy def: "A plant anatomical entity (PO:0025131) that is, or was, part of a plant, or was derived from a part of a plant." [CARO:0000003, POC:curators] comment: 'Part' includes both proper parts and the whole plant. CARO:0000003 'connected anatomical structure' is defined as: Material anatomical entity that is a single connected structure with inherent 3D shape, generated by coordinated expression of the organism's own genome. {xref="PO:cooperl"} subset: TraitNet synonym: "estructura vegetal (Spanish, exact)" EXACT Spanish [POC:Maria_Alejandra_Gandolfo] synonym: "植物 構造 (Japanese, exact)" EXACT Japanese [NIG:Yukiko_Yamazaki] xref: PO_GIT:57 is_a: PO:0025131 ! plant anatomical entity [Term] id: PO:0009012 name: plant structure development stage namespace: plant_structure_development_stage alt_id: PO:0007021 def: "A stage in the life of a plant structure (PO:0009011) during which the plant structure undergoes developmental processes." [BFO:0000003, GO:0032502, POC:curators] comment: Refers to GO:0032502 'developmental process', which includes growth, differentiation, and senescence, and BFO:0000003 'ocurrent'. subset: TraitNet synonym: "Arabidopsis growth (related)" RELATED [TAIR:0000205] synonym: "etapa de desarrollo de estructura vegetal (Spanish, exact)" EXACT Spanish [POC:Maria_Alejandra_Gandolfo] synonym: "plant growth and development stage (exact)" EXACT [] xref: PO_GIT:185 is_a: BFO:0000015 ! process [Term] id: PO:0009013 name: portion of meristem tissue namespace: plant_anatomy def: "A portion of plant tissue (PO:0009007) in which plant cells (PO:0009002) have retained their embryonic characteristics, or have reverted to them secondarily, and that divide to produce new cells that can undergo differentiation to form mature tissues, i.e. they have a capacity for morphogenesis and growth." [APweb:Glossary, Gramene:Pankaj_Jaiswal] subset: TraitNet synonym: "meristem (exact)" EXACT [] synonym: "meristema (Spanish, exact)" EXACT Spanish [POC:Maria_Alejandra_Gandolfo] synonym: "meristematic tissue (exact)" EXACT [] synonym: "分裂組織 (Japanese, exact)" EXACT Japanese [NIG:Yukiko_Yamazaki] xref: PO_GIT:472 is_a: PO:0009007 ! portion of plant tissue relationship: has_part PO:0004010 ! meristematic cell [Term] id: PO:0009046 name: flower namespace: plant_anatomy alt_id: PO:0004541 def: "A determinate reproductive shoot system (PO:0025082) that has as part at least one carpel (PO:0009030) or at least one stamen (PO:0009029) and does not contain any other determinate shoot system (PO:0009006) as a part." [POC:curators] comment: The characteristic reproductive structure of angiosperms. May have as part one or more petals, sepals or tepals. May contain one or more pistillode (PO:0009078), staminode (PO:0009077) or other aborted organs that don't show up in mature form. subset: Angiosperm subset: reference subset: TraitNet synonym: "Asteraceae floret (narrow)" NARROW [] synonym: "basal flower (narrow)" NARROW [CO_125:0000019] synonym: "double flower (narrow)" NARROW [] synonym: "flor (Spanish, exact)" EXACT Spanish [POC:Maria_Alejandra_Gandolfo] synonym: "floret (related)" RELATED [] synonym: "hermaphrodite flower (narrow)" NARROW [CO_125:0000028] synonym: "monoclinous flower (narrow)" NARROW [] synonym: "perfect flower (narrow)" NARROW [] synonym: "花 (Japanese, exact)" EXACT Japanese [NIG:Yukiko_Yamazaki] xref: PO_GIT:160 xref: PO_GIT:259 is_a: CARO:0000000 ! anatomical entity is_a: PO:0025082 ! reproductive shoot system relationship: develops_from PO:0000229 ! flower meristem [Term] id: PO:0009062 name: gynoecium namespace: plant_anatomy alt_id: PO:0006317 alt_id: PO:0006357 alt_id: PO:0006365 alt_id: PO:0006384 alt_id: PO:0006391 alt_id: PO:0006394 alt_id: PO:0006403 alt_id: PO:0006404 alt_id: PO:0006423 alt_id: PO:0006424 alt_id: PO:0006425 alt_id: PO:0006426 alt_id: PO:0025089 def: "A collective phyllome structure (PO:0025023) composed all of the carpels (PO:0009030) in a flower (PO:0009046)." [POC:curators] comment: If annotating gene expression to a gynoecium with a single carpel (PO:0009030), the annotation should go on carpel. A gynoecium with two or more carpels may be either syncarpous (carpels fused) or apopcarpous (carpels free) or the carpels may be partially fused. The word pistil is used synonymously with gynoecium for a synocarpous gynoecium, and synonymously with carpel for an apocarpous gynoecium, whether it has one or more carpels. In Zea mays, gynoecia of tassel florets and of the lower florets of ear spikelets usually do not develop fully, and they are present in a rudimentary state. If you are annotating to this structure for Zea mays or other grasses, please also add an annotation to the corresponding floret type. Choose the most specific term possible from: spikelet floret (PO:0009082), ear floret (PO:0006354), lower floret of pedicellate spikelet of ear (PO:0006353), lower floret of sessile spikelet of ear (PO:0006351), upper floret of pedicellate spikelet of ear (PO:0006350), upper floret of sessile spikelet of ear (PO:0006352), tassel floret (PO:0006310), lower floret of pedicellate spikelet of tassel (PO:0006313), lower floret of sessile spikelet of tassel (PO:0006315), upper floret of pedicellate spikelet of tassel (PO:0006314), upper floret of sessile spikelet of tassel (PO:0006316). subset: reference subset: TraitNet synonym: "apocarpous gynoecium (narrow)" NARROW [] synonym: "ginoecio (Spanish, exact)" EXACT Spanish [POC:Maria_Alejandra_Gandolfo] synonym: "gynaecium (exact)" EXACT [FNA:03f034c5-6bd6-4846-8ef7-c5190d09008c] synonym: "gynoecia (exact, plural)" EXACT [FNA:226a743c-7988-4b66-b163-2ce80d7c8a70] synonym: "gynoecium of ear floret (narrow)" NARROW [] synonym: "gynoecium of lower floret of pedicellate spikelet of ear (narrow)" NARROW [] synonym: "gynoecium of lower floret of pedicellate spikelet of tassel (narrow)" NARROW [] synonym: "gynoecium of lower floret of sessile spikelet of ear (narrow)" NARROW [] synonym: "gynoecium of lower floret of sessile spikelet of tassel (narrow)" NARROW [] synonym: "gynoecium of tassel floret (narrow)" NARROW [] synonym: "gynoecium of upper floret of pedicellate spikelet of ear (narrow)" NARROW [] synonym: "gynoecium of upper floret of pedicellate spikelet of tassel (narrow)" NARROW [] synonym: "gynoecium of upper floret of sessile spikelet of ear (narrow)" NARROW [] synonym: "gynoecium of upper floret of sessile spikelet of tassel (narrow)" NARROW [] synonym: "pistil (broad)" BROAD [] synonym: "Poaceae gynoecium (narrow)" NARROW [] synonym: "syncarpous gynoecium (narrow)" NARROW [] synonym: "Zea gynoecium (narrow)" NARROW [] synonym: "雌蕊群 (Japanese, exact)" EXACT Japanese [NIG:Yukiko_Yamazaki] xref: PO_GIT:470 xref: PO_GIT:71 xref: PO_GIT:98 is_a: CARO:0000000 ! anatomical entity is_a: PO:0025023 ! collective phyllome structure relationship: develops_from PO:0000019 ! gynoecium primordium relationship: part_of PO:0009046 ! flower [Term] id: PO:0020003 name: plant ovule namespace: plant_anatomy alt_id: PO:0006457 alt_id: PO:0006491 def: "A plant organ (PO:0009008) that has as parts a nucellus (PO:0020020) in which a female gametophyte (PO:0025279) is located, one or two integuments (PO:0020021), and a funicle (PO:0020006)." [POC:curators] comment: A seed (PO:0009010) develops from a plant ovule. In angiosperms, a plant ovule is part of a plant ovary (PO:0009072). In conifers, a plant ovule is part of an ovuliferous scale (add term). If you are annotating to this structure for Zea mays or other grasses, please also add an annotation to the corresponding floret type. Choose the most specific term possible from: spikelet floret (PO:0009082), ear floret (PO:0006354), upper floret of pedicellate spikelet of ear (PO:0006350), upper floret of sessile spikelet of ear (PO:0006352). subset: reference subset: TraitNet synonym: "óvulo vegetal (Spanish, exact)" EXACT Spanish [POC:Maria_Alejandra_Gandolfo] synonym: "Poaceae ovule (narrow)" NARROW [] synonym: "Zea ovule (narrow)" NARROW [] synonym: "胚珠 (Japanese, exact)" EXACT Japanese [NIG:Yukiko_Yamazaki] xref: PO_GIT:464 xref: PO_GIT:70 is_a: CARO:0000000 ! anatomical entity is_a: PO:0009008 ! plant organ relationship: develops_from PO:0000018 ! ovule primordium [Term] id: PO:0020144 name: apical meristem namespace: plant_anatomy def: "A maximal portion of meristem tissue (PO:0009013) located at a shoot apex (PO:0000037) or root tip (PO:0000025)." [Gramene:Pankaj_Jaiswal, POC:curators, POC:Laurel_Cooper] subset: TraitNet synonym: "AM (exact)" EXACT [] synonym: "meristema apical (Spanish, exact)" EXACT Spanish [POC:Maria_Alejandra_Gandolfo] synonym: "primary meristem (related)" RELATED [] synonym: "promeristem (broad)" BROAD [] synonym: "頂端分裂組織 (Japanese, exact)" EXACT Japanese [NIG:Yukiko_Yamazaki] xref: PO_GIT:579 is_a: PO:0009013 ! portion of meristem tissue relationship: has_part PO:0006210 ! protoderm [Term] id: PO:0020148 name: shoot apical meristem namespace: plant_anatomy def: "A shoot system meristem (PO:0006079) formed at the apex of the shoot axis (PO:0025029), including those originating from an axillary bud meristem (PO:0000232)." [POC:Laurel_Cooper, UMSL_curator:fz] subset: TraitNet synonym: "meristema apical del epiblasto (epiblastema) (Spanish, exact)" EXACT Spanish [POC:Maria_Alejandra_Gandolfo] synonym: "primary shoot meristem (related)" RELATED [] synonym: "promeristem (broad)" BROAD [] synonym: "SAM (exact)" EXACT [] synonym: "茎頂分裂組織 (Japanese, exact)" EXACT Japanese [NIG:Yukiko_Yamazaki] xref: PO_GIT:472 is_a: PO:0006079 ! shoot system meristem is_a: PO:0020144 ! apical meristem relationship: part_of PO:0000037 ! shoot axis apex [Term] id: PO:0025004 name: plant axis namespace: plant_anatomy def: "An axial plant organ (PO:0009008)." [POC:curators] comment: Includes roots and shoots. subset: TraitNet synonym: "eje de la planta (Spanish, exact)" EXACT Spanish [POC:Maria_Alejandra_Gandolfo] synonym: "plant axes (exact, plural)" EXACT [FNA:2355281f-ab10-4ae2-a3d8-672cace068a8] synonym: "植物軸（軸柱） (Japanese, exact)" EXACT Japanese [NIG:Yukiko_Yamazaki] is_a: PO:0009008 ! plant organ created_by: rwalls creation_date: 2010-07-01T03:44:41Z [Term] id: PO:0025007 name: collective plant organ structure namespace: plant_anatomy def: "A collective plant structure (PO:0025497) that is a proper part of a whole plant (PO:0000003), and is composed of two or more adjacent plant organs (PO:0009008) and the associated portions of plant tissue (PO:0009007)." [POC:curators] comment: Organs can be of the same type or different types. Examples include flower (PO:0009046), perianth (PO:0009058), and inflorescence (PO:0009049). See also collective organ part structure (PO:0025269), for plant structures composed of parts of multiple organs, but no complete plant organs. This was formerly named collective plant structure. subset: TraitNet synonym: "estructura vegetal colectiva de órgano (Spanish, exact)" EXACT Spanish [POC:Maria_Alejandra_Gandolfo] synonym: "集合植物器官構造 (Japanese, exact)" EXACT Japanese [NIG:Yukiko_Yamazaki] xref: PO_GIT:63 is_a: PO:0025497 ! collective plant structure relationship: has_part PO:0009008 ! plant organ created_by: rwalls creation_date: 2010-02-09T04:12:11Z [Term] id: PO:0025023 name: collective phyllome structure namespace: plant_anatomy alt_id: PO:0008033 def: "A collective plant organ structure (PO:0025007) that consists of two or more phyllomes (PO:0006001) originating from the same node or from one or more adjacent nodes with compressed shoot internodes (PO:0005005)." [POC:curators] subset: TraitNet synonym: "cycle (broad)" BROAD [FNA:d42df0a9-60f4-4c24-9c0b-ba815272f2fe] synonym: "estructura colectiva del filoma (Spanish, exact)" EXACT Spanish [POC:Maria_Alejandra_Gandolfo] synonym: "floral whorl (narrow)" NARROW [GO:0048438, GO:0048457, GO:0048458, GO:0048459] synonym: "phyllome whorl (related)" RELATED [] synonym: "verticil (broad)" BROAD [FNA:12607624-3d2a-4113-bd86-0e2557f2f473] synonym: "whorl (narrow)" NARROW [] synonym: "葉的器官が集まった構造 (Japanese, exact)" EXACT Japanese [NIG:Yukiko_Yamazaki] xref: PO_GIT:90 xref: PO_GIT:99 is_a: PO:0025007 ! collective plant organ structure created_by: Laurel_Cooper creation_date: 2010-04-28T11:04:34Z [Term] id: PO:0025025 name: root system namespace: plant_anatomy def: "A collective plant organ structure (PO:0025007) that produces root meristems (PO:0006085), the plant structures (PO:0009011) that arise from them and the parts thereof." [POC:curators, POC:Laurel_Cooper] comment: Generally the below ground portion of a vascular plant. subset: TraitNet synonym: "root (broad)" BROAD [FNA:b7ce680b-c6ed-4d2e-81e6-66970f7deff9] synonym: "sistema de raíz (Spanish, exact)" EXACT Spanish [POC:Maria_Alejandra_Gandolfo] synonym: "根系 (Japanese, exact)" EXACT Japanese [NIG:Yukiko_Yamazaki] xref: PO_GIT:136 is_a: PO:0025007 ! collective plant organ structure relationship: participates_in PO:0028002 ! sporophyte development stage created_by: rwalls creation_date: 2010-07-01T02:11:26Z [Term] id: PO:0025028 name: embryo plant cell namespace: plant_anatomy def: "A native plant cell (PO:0025606) that is part of a plant embryo (PO:0009009)." [POC:curators, POC:Laurel_Cooper] synonym: "célula embriónica vegetal (Spanish, exact)" EXACT Spanish [POC:Maria_Alejandra_Gandolfo] synonym: "embryo cell (broad)" BROAD [] synonym: "embryonic cell (broad)" BROAD [] synonym: "embryonic plant cell (exact)" EXACT [] synonym: "胚性植物細胞 (Japanese, exact)" EXACT Japanese [NIG:Yukiko_Yamazaki] xref: PO_GIT:281 is_a: PO:0025099 ! embryo plant structure is_a: PO:0025606 ! native plant cell intersection_of: PO:0025606 ! native plant cell intersection_of: part_of PO:0009009 ! plant embryo created_by: rwalls creation_date: 2010-05-07T02:41:17Z [Term] id: PO:0025029 name: shoot axis namespace: plant_anatomy def: "A plant axis (PO:0025004) that is part of a shoot system (PO:0009006)." [POC:curators] comment: Often bears leaves and branches. In vascular plants, has at least one node and one internode. subset: Angiosperm subset: Arabidopsis subset: Maize subset: Poaceae subset: Rice subset: TraitNet synonym: "caullome (exact)" EXACT [] synonym: "eje del epiblasto (epiblastema) (Spanish, exact)" EXACT Spanish [POC:Maria_Alejandra_Gandolfo] synonym: "shoot (related)" RELATED [] synonym: "シュート軸 (Japanese, exact)" EXACT Japanese [NIG:Yukiko_Yamazaki] is_a: PO:0025004 ! plant axis relationship: part_of PO:0009006 ! shoot system created_by: rwalls creation_date: 2010-07-01T03:46:35Z [Term] id: PO:0025034 name: leaf namespace: plant_anatomy def: "A phyllome (PO:0006001) that is not associated with a reproductive structure." [POC:curators] subset: TraitNet synonym: "hoja (Spanish, exact)" EXACT Spanish [POC:Maria_Alejandra_Gandolfo] synonym: "葉 (Japanese, exact)" EXACT Japanese [NIG:Yukiko_Yamazaki] xref: PO_GIT:274 xref: PO_GIT:301 is_a: PO:0006001 ! phyllome created_by: rwalls creation_date: 2010-07-12T01:31:44Z [Term] id: PO:0025082 name: reproductive shoot system namespace: plant_anatomy def: "A shoot system (PO:0009006) in the sporophytic phase that has as part at least one sporangium (PO:0025094)." [POC:curators] subset: TraitNet synonym: "sistema de brote reproductivo (Spanish, exact)" EXACT Spanish [POC:Maria_Alejandra_Gandolfo] synonym: "生殖シュート 系、苗条系 (Japanese, exact)" EXACT Japanese [NIG:Yukiko_Yamazaki] is_a: PO:0009006 ! shoot system relationship: participates_in PO:0025530 ! reproductive shoot system development stage created_by: rwalls creation_date: 2010-09-17T09:49:10Z [Term] id: PO:0025099 name: embryo plant structure namespace: plant_anatomy def: "A plant structure (PO:0009011) that is part of an plant embryo (PO:0009009)." [POC:curators] comment: Includes plant structures that only occur in embryos (such as suspensor) as well as plant structures that are part of an embryo when a plant is in the embryonic phase (such as embryonic radicle). synonym: "embryonic plant structure (exact)" EXACT [] synonym: "estructura vegetal embriónica (Spanish, exact)" EXACT Spanish [POC:Maria_Alejandra_Gandolfo] synonym: "胚性植物構造 (Japanese, exact)" EXACT Japanese [NIG:Yukiko_Yamazaki] xref: PO_GIT:245 xref: PO_GIT:339 is_a: PO:0009011 ! plant structure intersection_of: PO:0009011 ! plant structure intersection_of: part_of PO:0009009 ! plant embryo relationship: part_of PO:0009009 ! plant embryo created_by: rwalls creation_date: 2010-11-05T01:36:24Z [Term] id: PO:0025127 name: primordium namespace: plant_anatomy def: "A portion of meristem tissue (PO:0009013) that has as parts protoderm (PO:0006210) and sub-epidermal meristematic tissue and is committed to the development of a particular plant structure (PO:0009011)." [POC:curators] comment: A primordium appears as a protrusion and is the first distinct form of a plant organ (PO:0009008), cardinal organ part (PO:0025001), or collective plant organ structure (PO:0025007). The transition from a primordium to the plant structure it develops into is marked by the development of non-meristematic cells, although meristematic cells may be present after the transition. synonym: "portion of primordial tissue (exact)" EXACT [] synonym: "portion of primordium tissue (exact)" EXACT [] synonym: "primordia (exact, plural)" EXACT [] synonym: "primordio (Spanish, exact)" EXACT Spanish [POC:Maria_Alejandra_Gandolfo] synonym: "原基（可視的） (Japanese, exact)" EXACT Japanese [NIG:Yukiko_Yamazaki] xref: PO_GIT:186 is_a: PO:0009013 ! portion of meristem tissue created_by: rwalls creation_date: 2010-11-15T09:10:22Z [Term] id: PO:0025128 name: phyllome primordium namespace: plant_anatomy def: "A primordium (PO:0025127) that develops from a phyllome anlagen (PO:0025430) and is part of a shoot apex (PO:0000037) and is committed to the development of a phyllome (PO:0006001)." [PMID:11572953, POC:curators] comment: The transition from phyllome primordium to phyllome occurs when the first non-meristematic tissue develops begins to develop. synonym: "phyllome primordia (exact, plural)" EXACT [] synonym: "portion of phyllome primordium tissue (exact)" EXACT [] synonym: "primordio del filoma (Spanish, exact)" EXACT Spanish [POC:Maria_Alejandra_Gandolfo] synonym: "フィロム原基（可視的） (Japanese, exact)" EXACT Japanese [NIG:Yukiko_Yamazaki] xref: PO_GIT:466 is_a: CARO:0000000 ! anatomical entity is_a: PO:0025127 ! primordium relationship: develops_from PO:0025430 ! phyllome anlagen relationship: part_of PO:0000037 ! shoot axis apex created_by: rwalls creation_date: 2010-11-15T09:27:11Z [Term] id: PO:0025131 name: plant anatomical entity namespace: plant_anatomy def: "An anatomical entity that is or was part of a plant." [BFO:0000004, CARO:0000000, POC:curators] comment: Includes both material entities such as plant structures and immaterial entities such as plant anatomical spaces. CARO:0000000 'anatomical entity' is defined as: A part of a cellular organism that is either an immaterial entity or a material entity with granularity aboove the level of a protein complex. Or, a substance produced by a cellular organism with granularity above the level of a protein complex. Refers to BFO:0000004 'independent continuant'. {xref="CAROC:Brownsville2014"} synonym: "entidad anatómica vegetal (Spanish, exact)" EXACT Spanish [POC:Maria_Alejandra_Gandolfo] synonym: "植物 解剖学（形態）的実体 (Japanese, exact)" EXACT Japanese [NIG:Yukiko_Yamazaki] xref: PO_GIT:224 is_a: BFO:0000040 ! material entity relationship: only_in_taxon NCBITaxon:33090 {source="cjm"} ! Viridiplantae created_by: rwalls creation_date: 2010-11-15T11:41:38Z [Term] id: PO:0025222 name: reproductive shoot apex namespace: plant_anatomy def: "A shoot apex that has as part a reproductive shoot apical meristem." [POC:Ramona_Walls] synonym: "ápice reproductivo del epiblasto (epiblastema) (Spanish, exact)" EXACT Spanish [POC:Maria_Alejandra_Gandolfo] synonym: "生殖シュート頂、茎頂 (Japanese, exact)" EXACT Japanese [NIG:Yukiko_Yamazaki] is_a: PO:0000037 ! shoot axis apex created_by: rwalls creation_date: 2010-12-20T08:47:03Z [Term] id: PO:0025233 name: portion of embryo plant tissue namespace: plant_anatomy def: "A portion of plant tissue (PO:0009007) that is part of a plant embryo (PO:0009009)." [POC:curators] comment: This class is for tissues that only occur as part of an embryo. synonym: "portion of embryo tissue (broad)" BROAD [] synonym: "portion of embryonic plant tissue (exact)" EXACT [] synonym: "tejido embriónico vegetal (Spanish, exact)" EXACT Spanish [POC:Maria_Alejandra_Gandolfo] synonym: "植物胚性組織 の一部 (Japanese, exact)" EXACT Japanese [NIG:Yukiko_Yamazaki] xref: PO_GIT:338 is_a: PO:0009007 ! portion of plant tissue is_a: PO:0025099 ! embryo plant structure intersection_of: PO:0009007 ! portion of plant tissue intersection_of: part_of PO:0009009 ! plant embryo created_by: rwalls creation_date: 2010-12-20T12:27:10Z [Term] id: PO:0025337 name: life of whole plant stage namespace: plant_structure_development_stage def: "A maximal whole plant development stage." [POC:curators] comment: There are only two types of life of whole plant. Every life of a whole plant is either a maximal gametophyte stage or a maximal sporophyte stage. synonym: "vida de la planta entera (Spanish, exact)" EXACT Spanish [POC:Maria_Alejandra_Gandolfo] synonym: "植物体の一生 (Japanese, exact)" EXACT Japanese [NIG:Yukiko_Yamazaki] xref: PO_GIT:230 is_a: PO:0007033 ! whole plant development stage created_by: rwalls creation_date: 2011-10-19T10:54:37Z [Term] id: PO:0025338 name: collective plant organ structure development stage namespace: plant_structure_development_stage def: "A plant structure development stage (PO:0009012) that has as primary participant a collective plant structure (PO:0025497)." [POC:curators] comment: Includes flower development stage (PO:0007615), corolla development stage (PO:0007604), and inflorescence development stage (PO:0001083). synonym: "etapa de desarrollo de una estructura colectiva de la planta (Spanish, exact)" EXACT Spanish [POC:Maria_Alejandra_Gandolfo] synonym: "集合的植物構造の発生過程 (Japanese, exact)" EXACT Japanese [NIG:Yukiko_Yamazaki] xref: PO_GIT:391 is_a: PO:0009012 ! plant structure development stage relationship: has_participant PO:0025007 ! collective plant organ structure created_by: rwalls creation_date: 2011-10-19T11:12:49Z [Term] id: PO:0025395 name: floral organ namespace: plant_anatomy def: "A plant organ (PO:0009008) that is part of a flower (PO:0009046)." [POC:curators] comment: Includes phyllomes such as anthers and petals, as well as shoot axes such as androphores and gynophores. synonym: "órgano floral (Spanish, exact)" EXACT Spanish [POC:Maria_Alejandra_Gandolfo] synonym: "flower organ (exact)" EXACT [] synonym: "花器官 (Japanese, exact)" EXACT Japanese [NIG:Yukiko_Yamazaki] xref: PO_GIT:423 is_a: CARO:0000000 ! anatomical entity is_a: PO:0009008 ! plant organ intersection_of: PO:0009008 ! plant organ intersection_of: part_of PO:0009046 ! flower relationship: part_of PO:0009046 ! flower created_by: rwalls creation_date: 2012-01-19T11:44:36Z [Term] id: PO:0025430 name: phyllome anlagen namespace: plant_anatomy def: "A portion of meristem tissue (PO:0009013) that is part of a peripheral zone (PO:0000225) of a shoot apical meristem (PO:0020148) and will give rise to a phyllome primordium (PO:0025128)." [POC:curators, POC:Laurel_Cooper] comment: The phyllome anlagen is only detectable by gene expression, not morphology. synonym: "phyllome meristem (broad)" BROAD [] synonym: "フィロム原基 (Japanese, exact)" EXACT Japanese [NIG:Yukiko_Yamazaki] xref: PO_GIT:427 is_a: PO:0009013 ! portion of meristem tissue relationship: part_of PO:0000225 ! peripheral zone created_by: Laurel_Cooper creation_date: 2012-02-07T08:20:10Z [Term] id: PO:0025433 name: root anlagen namespace: plant_anatomy def: "A portion of meristem tissue (PO:0009013) that is committed to the development of a root primordium (PO:0005029)." [POC:curators] comment: Only detectable by gene expression, not morphology. May arise in a pericycle (PO:0006203), as for lateral roots in most seed plants, an endodermis (PO:0000252), as for lateral roots in ferns, or from parenchyma cells (PO:0000074) that are part a shoot axis (PO:0025029), in the case of a basal root (PO:0025002) or shoot-borne root (PO:0000042). synonym: "precursor de raí (Spanish, exact)" EXACT Spanish [POC:Maria_Alejandra_Gandolfo] synonym: "根原基 (Japanese, exact)" EXACT Japanese [NIG:Yukiko_Yamazaki] xref: PO_GIT:427 is_a: PO:0009013 ! portion of meristem tissue created_by: Laurel_Cooper creation_date: 2012-02-08T01:00:56Z [Term] id: PO:0025477 name: floral organ primordium namespace: plant_anatomy def: "A primordium (PO:0025127) that is committed to the development of a floral organ (PO:0025395) and is part of a reproductive shoot apex (PO:0025222)." [POC:curators] comment: If annotating to a primordium of a floral structure, it is better to use the more specific term, such as petal primordium (PO:0000021) or anther primordium (PO:0006089). subset: Angiosperm synonym: "floral structure primordia (exact, plural)" EXACT [] synonym: "portion of floral structure primordium tissue (exact)" EXACT [] synonym: "primordio de organo floral (Spanish, exact)" EXACT Spanish [POC:Maria_Alejandra_Gandolfo] synonym: "花器官原基 (Japanese, exact)" EXACT Japanese [NIG:Yukiko_Yamazaki] xref: PO_GIT:465 is_a: PO:0025127 ! primordium relationship: part_of PO:0025222 ! reproductive shoot apex created_by: rwalls creation_date: 2012-04-26T03:57:09Z [Term] id: PO:0025496 name: multi-tissue plant structure namespace: plant_anatomy def: "A plant structure (PO:0009011) that has as parts two or more portions of plant tissue (PO:0009007) of at least two different types and which through specific morphogenetic processes forms a single structural unit demarcated by primarily bona-fide boundaries from other structural units of different types." [CARO:0000055, POC:curators] comment: Most multi-tissue plant structures have at least a small connection to other plant structures via a fiat boundary, such as where a leaf (PO:0025034) connects to a shoot axis (PO:0025029), a petal (PO:0009032) connects to a receptacle (PO:0009064), or a branch (PO:0025073) connects to a stem (PO:0009047). Refers to CARO:0000055 multi-tissue structure, def'n: Anatomical structure that has as parts two or more portions of tissue of at least two different types, and which through specific morphogenetic processes, form a single distinct structural unit demarcated by bona-fide boundries from other structural units of differnt types. synonym: "estructura vegetal con múltiples tejidos (Spanish, exact)" EXACT Spanish [POC:Maria_Alejandra_Gandolfo] synonym: "複数の組織からなる植物構造 (Japanese, exact)" EXACT Japanese [NIG:Yukiko_Yamazaki] xref: PO_GIT:480 is_a: PO:0009011 ! plant structure created_by: Laurel_Cooper creation_date: 2012-06-11T14:57:00Z [Term] id: PO:0025497 name: collective plant structure namespace: plant_anatomy def: "A plant structure (PO:0009011) that is a proper part of a whole plant (PO:0000003) and includes two or more adjacent plant organs (PO:0009008) or adjacent cardinal organ parts (PO:0025001), along with any associated portions of plant tissue (PO:0009007)." [POC:curators] comment: This is a parent term to describe both collective organ part structure (PO:0025269) (e.g. septum), as well as collective plant organ structure (PO:0025007) (which was formerly named collective plant structure), for example shoot system (PO:0009006). synonym: "estructura vegetal colectiva (Spanish, exact)" EXACT Spanish [POC:Maria_Alejandra_Gandolfo] synonym: "集合的植物構造 (Japanese, exact)" EXACT Japanese [NIG:Yukiko_Yamazaki] xref: PO_GIT:479 is_a: PO:0009011 ! plant structure created_by: Laurel_Cooper creation_date: 2012-06-11T15:09:20Z [Term] id: PO:0025527 name: shoot system development stage namespace: plant_structure_development_stage def: "A collective plant organ structure development stage (PO:0025338) that begins with the onset of the plant organ development stage (PO:0025339) and ends with either gametophyte senescent stage (PO:0025343) or sporophyte senescent stage (PO:0007017) or death." [POC:Laurel_Cooper] comment: The shoot system (PO:0009006) develops fron the shoot apical meristem (PO:0020148) in the plant embryo (PO:0009009) in vascular plants. In lower plants the gametophore (PO:0030018) arises from a gametophore meristematic apical cell (PO:0030019) in the protonema (PO:0030003). xref: PO_GIT:517 is_a: PO:0025338 ! collective plant organ structure development stage relationship: has_participant PO:0009006 ! shoot system created_by: Laurel_Cooper creation_date: 2012-12-13T18:21:19Z [Term] id: PO:0025530 name: reproductive shoot system development stage namespace: plant_structure_development_stage def: "A shoot system development stage (PO:0025527) that has as primary participant a reproductive shoot system (PO:0025082)." [POC:Laurel_Cooper] xref: PO_GIT:517 is_a: PO:0025527 ! shoot system development stage created_by: Laurel_Cooper creation_date: 2012-12-13T19:01:14Z [Term] id: PO:0025606 name: native plant cell namespace: plant_anatomy def: "A plant cell (PO:0009002) that is either part of a multicellular whole plant (PO:0000003) 'in vivo' or a unicellular organism 'in natura' (i.e. part of a natural environment)." [POC:Laurel_Cooper] comment: A native plant cell is one that is not grown or maintained in vitro, nor part of an in vitro plant structure (PO:0000004). xref: PO_GIT:586 is_a: PO:0009002 ! plant cell created_by: Laurel_Cooper creation_date: 2014-05-13T16:51:47Z [Term] id: PO:0028002 name: sporophyte development stage namespace: plant_structure_development_stage def: "A whole plant development stage (PO:0007033) that has as primary participant a whole plant (PO:0000003) during the interval between fertilization (or apogamy) and death." [POC:curators] comment: A whole plant (PO:0000003) in the sporophyte development stage usually has twice the chromosome complement of a plant in the gametophytic phase, but may not in the case of apogamy. Examples of apogamy include both naturally occurring instances (such as sporophytes arising form haploid cells as in bryophytes or ferns) as well as in vitro instances (such as haploid embryo culture or in vitro fusion of non-gamete cells or protoplasts). During the sporophyte development stage, a plant may produce meiospores by meiosis. subset: TraitNet synonym: "fase esporofítica (Spanish, exact)" EXACT Spanish [POC:Maria_Alejandra_Gandolfo] synonym: "sporophytic development stage (exact)" EXACT [] synonym: "sporophytic phase (exact)" EXACT [] synonym: "sporphyte phase (exact)" EXACT [] synonym: "胞子体発生過程 (Japanese, exact)" EXACT Japanese [NIG:Yukiko_Yamazaki] xref: PO_GIT:139 xref: PO_GIT:68 is_a: PO:0007033 ! whole plant development stage relationship: part_of PO:0025337 ! life of whole plant stage created_by: rwalls creation_date: 2010-07-15T02:56:11Z [Term] id: PR:000000001 name: protein namespace: protein def: "An amino acid chain that is produced de novo by ribosome-mediated translation of a genetically-encoded mRNA, and any derivatives thereof." [PRO:DAN, PRO:WCB] comment: The definition above excludes protein complexes, which some also consider a protein. Those who wish to refer to a class representing both senses of the word are directed to CHEBI:36080. Note that the definition allows for experimentally-manipulated genes, and allows for artifically-produced derivatives that mimic those found naturally. Proteins (in the sense defined here) that descended from a common ancestor can be classified into families and superfamilies composed of products of evolutionarily-related genes. The domain architecture of a protein is described by the order of its constituent domains. Proteins with the same domains in the same order are defined as homeomorphic [PRO:WCB]. synonym: "native protein" NARROW [IEDB:BP] synonym: "natural protein" EXACT [PRO:DAN] is_a: CHEBI:36080 ! protein intersection_of: PR:000018263 ! amino acid chain intersection_of: has_gene_template SO:0000704 ! gene intersection_of: output_of GO:0006412 ! translation [Term] id: PR:000001002 name: CD19 molecule namespace: protein def: "A protein that is a translation product of the human CD19 gene or a 1:1 ortholog thereof. It is composed of an N-terminal extracellular domain containing two Ig-like C2-type (immunoglobulin-like) domains, followed by a single-pass transmembrane segment and a cytoplasmic C-terminal tail. CD19 expression is restricted to members of the B cell lineage. It functions as a co-receptor for B-cell antigen receptor (BCR), regulating signal transduction." [PMID:15778510] comment: Category=gene. Requested by=CL. synonym: "B-lymphocyte surface antigen B4" EXACT [] synonym: "CD19" EXACT PRO-short-label [PRO:DNx] synonym: "differentiation antigen CD19" EXACT [] synonym: "T-cell surface antigen Leu-12" EXACT [] xref: IUPHARobj:2764 xref: PIRSF:PIRSF016630 is_a: CHEBI:36080 ! protein is_a: PR:000000001 ! protein [Term] id: PR:000001003 name: CD34 molecule namespace: protein def: "A protein that is a translation product of the human CD34 gene or a 1:1 ortholog thereof. It is a leukocyte membrane protein expressed specifically by lymphohematopoietic progenitor cells. It contains a single-pass transmembrane domain and that show distinct expression on early hematopoietic precursors and vascular-associated tissue. Acts as a scaffold that presents selectin carbohydrate ligands in a clustered, tissue specific manner to allow for higher avidity interactions between leukocytes and endothelial cells during the inflammatory process. In common with related sialomucins (endoglycan and podocalyxin), the extracellular region is dominated by an N-terminal mucin-like domain, which is densely substituted with sialylated O-linked carbohydrates. The mucin-like region is followed by a cysteine-containing and presumably globular domain. This domain may fold into an immunoglobulin-like structure as the positions of 2 of the cysteines are conserved in the C2 set of the immunoglobulin superfamily. The cytoplasmic domain is around 73-76 residues long and highly conserved." [PMID:16720896, PMID:8983065] comment: Category=gene. Requested by=CL. synonym: "CD34" EXACT PRO-short-label [PRO:DNx] synonym: "hematopoietic progenitor cell antigen CD34" EXACT [] xref: PIRSF:PIRSF028749 is_a: CHEBI:36080 ! protein is_a: PR:000000001 ! protein [Term] id: PR:000001004 name: CD4 molecule namespace: protein def: "A protein that is a translation product of the human CD4 gene or a 1:1 ortholog thereof. CD4 is an accessory protein for MHC class-II antigen/T-cell receptor interaction. It is the primary receptor for HIV-1. CD4 has four immunoglobulin-like domains in its extracellular region that share the same structure, but can differ in sequence." [PMID:15326605] comment: Category=gene. Requested by=CL. synonym: "CD4" EXACT PRO-short-label [PRO:DNx] synonym: "T-cell differentiation antigen L3T4" EXACT [] synonym: "T-cell surface antigen T4/Leu-3" EXACT [] synonym: "T-cell surface glycoprotein CD4" EXACT [] xref: PIRSF:PIRSF001977 is_a: CHEBI:36080 ! protein is_a: PR:000000001 ! protein [Term] id: PR:000001005 name: integrin alpha with A domain namespace: protein def: "An integrin alpha that contains an A domain. A hallmark of this class is the presence of a von Willebrand factor type A domain (Pfam:PF00092) (I-domain) of approximately 200 amino acid residues at the N terminus, which confers divalent cation binding properties. Unlike other integrin alpha proteins, they do not undergo proteolytic cleavage." [PIRSF:PIRSF002497] comment: Category=family. synonym: "integrin alpha with I domain" EXACT [] xref: PIRSF:PIRSF002497 is_a: PR:000025796 ! integrin alpha [Term] id: PR:000001012 name: integrin alpha-M namespace: protein def: "An integrin alpha with A domain that is a translation product of the human ITGAM gene or a 1:1 ortholog thereof. They constitute subunits of the integrin alpha-M/beta-2 receptor. This receptor is implicated in various adhesive interactions of monocytes, macrophages and granulocytes as well as in mediating the uptake of complement-coated particles. It is also a receptor for fibrinogen, factor X and ICAM1." [UniProtKB:P11215] comment: Category=gene. Requested by=CL. synonym: "CD11 antigen-like family member B" EXACT [] synonym: "CD11B" RELATED Gene-based [] synonym: "CD11b" EXACT [] synonym: "cell surface glycoprotein MAC-1 subunit alpha" EXACT [] synonym: "CR-3 alpha chain" EXACT [] synonym: "CR3A" RELATED Gene-based [] synonym: "ITGAM" EXACT PRO-short-label [PRO:DNx] synonym: "leukocyte adhesion receptor MO1" EXACT [] synonym: "neutrophil adherence receptor" EXACT [] xref: IUPHARobj:2452 is_a: PR:000001005 ! integrin alpha with A domain [Term] id: PR:000001018 name: CD3 subunit with immunoglobulin domain namespace: protein def: "A protein with a core domain composition consisting of an extracellular N-terminal domain that adopts an immunoglobulin fold, a transmembrane domain, and an intracellular C-terminal domain with a single copy of the Immunoreceptor tyrosine-based activation motif (Pfam:PF02189) (ITAM). It constitutes the invariant subunit of the T cell antigen receptor (TCR). TCR is a surface receptor on T cells responsible for recognizing MHC-restricted antigens and initiating the cellular immune response." [PMID:16473826, PMID:1724736] comment: Category=family. synonym: "CD3 subunit with Ig-like domain" EXACT [] xref: PIRSF:PIRSF001993 is_a: CHEBI:36080 ! protein is_a: PR:000000001 ! protein [Term] id: PR:000001020 name: CD3 epsilon namespace: protein def: "A CD3 subunit with immunoglobulin domain that is a translation product of the human CD3E gene or a 1:1 ortholog thereof." [PRO:CNA] comment: Category=gene. Requested by=CL. synonym: "CD3E" EXACT PRO-short-label [PRO:DNx] synonym: "CD3e" EXACT [] synonym: "T-cell surface antigen T3/Leu-4 epsilon chain" EXACT [] synonym: "T3E" RELATED Gene-based [] xref: IUPHARobj:2742 is_a: PR:000001018 ! CD3 subunit with immunoglobulin domain [Term] id: PR:000001022 name: neural cell adhesion molecule namespace: protein def: "A protein with a domain composition consisting of a large extracellular domain, including five Ig-like C2-type domains followed by two copies of the Fibronectin type-III domain (Pfam:PF00041), a single-pass transmembrane domain and a short cytoplasmic C-terminal domain." [PRO:CNA] comment: Category=family. xref: PIRSF:PIRSF002507 is_a: CHEBI:36080 ! protein is_a: PR:000000001 ! protein [Term] id: PR:000001023 name: neural cell adhesion molecule NCAM namespace: protein def: "A neural cell adhesion molecule that is involved in neuronal development, synaptic plasticity, and regeneration." [PMID:17975827] comment: Category=family. xref: PIRSF:PIRSF501037 is_a: PR:000001022 ! neural cell adhesion molecule [Term] id: PR:000001024 name: neural cell adhesion molecule 1 namespace: protein def: "A neural cell adhesion molecule NCAM that is a translation product of the human NCAM1 gene or a 1:1 ortholog thereof." [PRO:CNA] comment: Category=gene. Requested by=CL. synonym: "CD56" EXACT [] synonym: "N-CAM-1" EXACT [] synonym: "NCAM" RELATED Gene-based [] synonym: "NCAM-1" EXACT [] synonym: "NCAM1" EXACT PRO-short-label [PRO:DNx] xref: IUPHARobj:2769 is_a: PR:000001023 ! neural cell adhesion molecule NCAM [Term] id: PR:000001083 name: CD2 molecule namespace: protein def: "A protein that is a translation product of the human CD2 gene or a 1:1 ortholog thereof." [PRO:CNA] comment: Category=gene. Requested by=CL. synonym: "CD2" EXACT PRO-short-label [PRO:DNx] synonym: "erythrocyte receptor" EXACT [] synonym: "LFA-2" EXACT [] synonym: "LFA-3 receptor" EXACT [] synonym: "ly-37" EXACT [] synonym: "lymphocyte antigen 37" EXACT [] synonym: "rosette receptor" EXACT [] synonym: "SRBC" RELATED Gene-based [] synonym: "T-cell surface antigen CD2" EXACT [] synonym: "T-cell surface antigen T11/Leu-5" EXACT [] synonym: "T-cell surface glycoprotein CD2" EXACT [] xref: IUPHARobj:2600 xref: PIRSF:PIRSF001984 is_a: CHEBI:36080 ! protein is_a: PR:000000001 ! protein [Term] id: PR:000001084 name: T-cell surface glycoprotein CD8 alpha chain namespace: protein def: "A protein that is a translation product of the human CD8A gene or a 1:1 ortholog thereof. CD8 is a transmembrane that is a co-receptor for MHC class-I antigen/T-cell receptor interaction. The most common form of CD8 is composed of a CD8 alpha and a CD8 beta chain." [PMID:11114424, PRO:CNA, Wikipedia:CD8] comment: Category=gene. Requested by=CL. synonym: "CD8A" EXACT PRO-short-label [PRO:DNx] synonym: "CD8a" EXACT [] synonym: "Lyt-2" RELATED Gene-based [] synonym: "Lyt2" RELATED Gene-based [] synonym: "MAL" RELATED Gene-based [] synonym: "T-cell surface glycoprotein Lyt-2" EXACT [] synonym: "T-lymphocyte differentiation antigen T8/Leu-2" EXACT [] xref: PANTHER:PTHR10441\:SF1 is_a: CHEBI:36080 ! protein is_a: PR:000000001 ! protein [Term] id: PR:000001289 name: membrane-spanning 4-domains subfamily A member 1 namespace: protein def: "A protein that is a translation product of the human MS4A1 gene or a 1:1 ortholog thereof." [PRO:WCB] comment: Category=gene. Requested by=CL. synonym: "B-cell differentiation antigen Ly-44" EXACT [] synonym: "B-cell surface antigen CD20" EXACT [] synonym: "B-lymphocyte antigen CD20" EXACT [] synonym: "B-lymphocyte surface antigen B1" EXACT [] synonym: "Bp35" EXACT [] synonym: "CD20" RELATED Gene-based [] synonym: "leukocyte surface antigen Leu-16" EXACT [] synonym: "Ly-44" RELATED Gene-based [] synonym: "lymphocyte antigen 44" EXACT [] synonym: "MS4A1" EXACT PRO-short-label [PRO:DNx] synonym: "Ms4a2" RELATED Gene-based [] xref: IUPHARobj:2628 xref: PIRSF:PIRSF001995 is_a: CHEBI:36080 ! protein is_a: PR:000000001 ! protein [Term] id: PR:000001327 name: cadherin namespace: protein def: "A protein that has a core domain structure of signal sequence, propeptide, five Cadherin domains (Pfam:PF00028), a transmembrane region, and a Cadherin cytoplasmic region (Pfam:PF01049). Cadherins function as adhesion molecules that mediate Ca2+-dependent cell-cell adhesion in solid tissues." [PRO:WCB] comment: Category=family. xref: PIRSF:PIRSF002504 is_a: CHEBI:36080 ! protein is_a: PR:000000001 ! protein [Term] id: PR:000001444 name: cadherin-5 namespace: protein def: "A cadherin that is a translation product of the human CDH5 gene or a 1:1 ortholog thereof." [PRO:WCB] comment: Category=gene. Requested by=CL. synonym: "7B4 antigen" EXACT [] synonym: "CD144" EXACT [] synonym: "CDH5" EXACT PRO-short-label [PRO:DNx] synonym: "vascular endothelial cadherin" EXACT [] synonym: "VE-cadherin" EXACT [] is_a: PR:000001327 ! cadherin [Term] id: PR:000001839 name: T-cell surface glycoprotein CD5 namespace: protein def: "A protein that is a translation product of the human CD5 gene or a 1:1 ortholog thereof." [PRO:WCB] comment: Category=gene. Requested by=CL. synonym: "CD5" EXACT PRO-short-label [PRO:DNx] synonym: "LEU1" RELATED Gene-based [] synonym: "ly-1" EXACT [] synonym: "lymphocyte antigen 1" EXACT [] synonym: "lymphocyte antigen T1/Leu-1" EXACT [] synonym: "Lyt-1" EXACT [] xref: PANTHER:PTHR19331\:SF6 is_a: CHEBI:36080 ! protein is_a: PR:000000001 ! protein [Term] id: PR:000001869 name: interleukin-7 receptor subunit alpha namespace: protein def: "A protein that is a translation product of the human IL7R gene or a 1:1 ortholog thereof." [PRO:WCB] comment: Category=gene. Requested by=CL. synonym: "CD127" EXACT [] synonym: "CDw127" EXACT [] synonym: "IL-7 receptor subunit alpha" EXACT [] synonym: "IL-7R subunit alpha" EXACT [] synonym: "IL-7R-alpha" EXACT [] synonym: "IL-7RA" EXACT [] synonym: "IL7R" EXACT PRO-short-label [PRO:DNx] xref: IUPHARobj:1698 xref: PIRSF:PIRSF001960 is_a: CHEBI:36080 ! protein is_a: PR:000000001 ! protein [Term] id: PR:000001889 name: CD14 molecule namespace: protein def: "A protein that is a translation product of the human CD14 gene or a 1:1 ortholog thereof." [PRO:WCB] comment: Category=gene. Requested by=CL. synonym: "CD14" EXACT PRO-short-label [PRO:DNx] synonym: "monocyte differentiation antigen CD14" EXACT [] synonym: "myeloid cell-specific leucine-rich glycoprotein" EXACT [] xref: PIRSF:PIRSF002017 is_a: CHEBI:36080 ! protein is_a: PR:000000001 ! protein [Term] id: PR:000001945 name: transferrin receptor protein 1 namespace: protein def: "A protein that is a translation product of the human TFRC gene or a 1:1 ortholog thereof." [PRO:WCB] comment: Category=gene. Requested by=CL. synonym: "CD71" EXACT [] synonym: "p90" BROAD [PRO:DNx] synonym: "T9" EXACT [] synonym: "TfR" EXACT [] synonym: "TfR1" EXACT [] synonym: "TFRC" EXACT PRO-short-label [PRO:DNx] synonym: "TR" RELATED [] synonym: "Trfr" RELATED Gene-based [] is_a: CHEBI:36080 ! protein is_a: PR:000000001 ! protein [Term] id: PR:000001971 name: vascular endothelial growth factor receptor namespace: protein def: "A protein with core architecture consisting of a signal sequence, followed by 7 Ig-like domains (Pfam:PF00047, Pfam:PF07679, or Pfam:PF07686), a transmembrane region, and a cytoplasmic Protein tyrosine kinase domain." [PRO:WCB] comment: Category=family. xref: PIRSF:PIRSF038502 is_a: CHEBI:36080 ! protein is_a: PR:000000001 ! protein [Term] id: PR:000002112 name: vascular endothelial growth factor receptor 2 namespace: protein def: "A vascular endothelial growth factor receptor that is a translation product of the human KDR gene or a 1:1 ortholog thereof." [PRO:WCB] comment: Category=gene. Requested by=CL. synonym: "CD309" EXACT [] synonym: "fetal liver kinase 1" EXACT [] synonym: "FLK-1" EXACT [] synonym: "FLK1" RELATED Gene-based [] synonym: "KDR" EXACT PRO-short-label [PRO:DNx] synonym: "kinase insert domain receptor" EXACT [] synonym: "kinase NYK" EXACT [] synonym: "protein-tyrosine kinase receptor flk-1" EXACT [] synonym: "VEGFR-2" EXACT [] synonym: "VEGFR2" RELATED Gene-based [] xref: IUPHARobj:1813 is_a: PR:000001971 ! vascular endothelial growth factor receptor [Term] id: PR:000002976 name: Ly-6-like protein namespace: protein def: "A protein that is the translation product of any of the LY6 genes (LY6A-LY6I)." [PRO:CNA] comment: Category=family. xref: PIRSF:PIRSF002021 is_a: CHEBI:36080 ! protein is_a: PR:000000001 ! protein [Term] id: PR:000002978 name: lymphocyte antigen 6G namespace: protein def: "An Ly-6-like protein that is a translation product of the mouse Ly6g gene or a 1:1 ortholog thereof." [PRO:CNA] comment: Category=gene. Requested by=CL. synonym: "Ly-6G" EXACT [] synonym: "Ly-6G.1" EXACT [] synonym: "Ly6g" EXACT PRO-short-label [PRO:DNx] is_a: PR:000002976 ! Ly-6-like protein [Term] id: PR:000002981 name: lymphocyte antigen 76 (mouse) namespace: protein def: "A protein that is a translation product of the Ly76 gene in mouse." [PMID:10848813, PRO:DAN] comment: Category=organism-gene. Requested by=CL. synonym: "mLy76" EXACT PRO-short-label [PRO:DNx] synonym: "ter-119" EXACT [] synonym: "ter119" EXACT [] is_a: PR:000029032 ! Mus musculus protein [Term] id: PR:000007499 name: fibroblast growth factor 8 namespace: protein def: "A protein that is a translation product of the human FGF8 gene or a 1:1 ortholog thereof." [PRO:DNx] comment: Category=gene. synonym: "AIGF" RELATED Gene-based [] synonym: "androgen-induced growth factor" EXACT [] synonym: "FGF-8" EXACT [] synonym: "FGF8" EXACT PRO-short-label [PRO:DNx] synonym: "HBGF-8" RELATED [] synonym: "heparin-binding growth factor 8" RELATED [] is_a: CHEBI:36080 ! protein is_a: PR:000000001 ! protein [Term] id: PR:000014841 name: sonic hedgehog protein namespace: protein def: "A protein that is a translation product of the human SHH gene or a 1:1 ortholog thereof." [PRO:DNx] comment: Category=gene. synonym: "HHG-1" EXACT [] synonym: "Hhg1" RELATED Gene-based [] synonym: "SHH" EXACT PRO-short-label [PRO:DNx] synonym: "Shh unprocessed N-terminal signaling and C-terminal autoprocessing domains" EXACT [] synonym: "ShhNC" EXACT [] is_a: CHEBI:36080 ! protein is_a: PR:000000001 ! protein [Term] id: PR:000016043 name: T-cell acute lymphocytic leukemia protein 1 namespace: protein def: "A protein that is a translation product of the human TAL1 gene or a 1:1 ortholog thereof." [PRO:DNx] comment: Category=gene. Requested by=CL. synonym: "BHLHA17" RELATED Gene-based [] synonym: "bHLHa17" EXACT [] synonym: "class A basic helix-loop-helix protein 17" EXACT [] synonym: "SCL" RELATED Gene-based [] synonym: "stem cell protein" EXACT [] synonym: "T-cell leukemia/lymphoma protein 5" EXACT [] synonym: "TAL-1" EXACT [] synonym: "TAL1" EXACT PRO-short-label [PRO:DNx] synonym: "TCL5" RELATED Gene-based [] is_a: CHEBI:36080 ! protein is_a: PR:000000001 ! protein [Term] id: PR:000018263 name: amino acid chain namespace: protein def: "An organic amino compound that consists of amino acid residues (unmodified amino-acid residues and/or modified amino-acid residues) linked by peptide bonds or derivatives of such bonds." [PRO:DAN, PRO:JSG] comment: Category=external. synonym: "peptide" NARROW [PRO:DAN] synonym: "polypeptide" NARROW [PRO:DAN] is_a: CHEBI:50047 ! organic amino compound relationship: has_part CHEBI:33708 ! amino-acid residue [Term] id: PR:000025796 name: integrin alpha namespace: protein def: "A protein that is composed of a long N-terminal extracellular domain, a transmembrane domain and a short cytoplasmic C-terminal domain. The N-terminal domain contains beta-propeller repeats (interrupted by an A domain in a subset of integrins alpha), while the C-terminal domain contains a GFFxR motif." [PMID:19693543] comment: Category=family. Integrins are heterodimeric complexes of an alpha and a beta subunit. They are a structurally elaborate family of adhesion molecules that transmit signals bidirectionally across the plasma membrane by undergoing large-scale structural rearrangements. By regulating cell-cell and cell-matrix contacts, integrins participate in a wide-range of biological interactions including development, tissue repair, angiogenesis, inflammation and hemostasis. [PMID:10402956, PMID:11988479, PMID:9676575]. is_a: CHEBI:36080 ! protein is_a: PR:000000001 ! protein [Term] id: PR:000029032 name: Mus musculus protein namespace: protein def: "A protein that is encoded in the genome of Mus musculus." [PRO:DAN] synonym: "mouse protein" EXACT PRO-short-label [PRO:DAN] is_a: PR:000036194 ! eukaryotic protein intersection_of: PR:000000001 ! protein intersection_of: only_in_taxon NCBITaxon:10090 ! Mus musculus relationship: only_in_taxon NCBITaxon:10090 ! Mus musculus [Term] id: PR:000036194 name: eukaryotic protein namespace: protein def: "A protein that is encoded in the genome of some Eukaryota." [PRO:DAN] synonym: "Eukaryota protein" EXACT [PRO:DAN] is_a: CHEBI:36080 ! protein is_a: PR:000000001 ! protein intersection_of: PR:000000001 ! protein intersection_of: only_in_taxon NCBITaxon:2759 ! Eukaryota relationship: only_in_taxon NCBITaxon:2759 ! Eukaryota [Term] id: PR:P01731 name: T-cell surface glycoprotein CD8 alpha chain (mouse) namespace: protein def: "A T-cell surface glycoprotein CD8 alpha chain that is encoded in the genome of mouse." [OMA:P01731, PRO:DNx] comment: Category=organism-gene. synonym: "Cd8a" RELATED Gene-based [UniProtKB:P01731] synonym: "CD8a (mouse)" EXACT [UniProtKB:P01731] synonym: "Lyt-2" RELATED Gene-based [UniProtKB:P01731] synonym: "Lyt2" RELATED Gene-based [UniProtKB:P01731] synonym: "mCD8A" EXACT PRO-short-label [PRO:DNx] synonym: "T-cell surface glycoprotein Lyt-2 (mouse)" EXACT [UniProtKB:P01731] xref: UniProtKB:P01731 is_a: PR:000001084 ! T-cell surface glycoprotein CD8 alpha chain is_a: PR:000029032 ! Mus musculus protein intersection_of: PR:000001084 ! T-cell surface glycoprotein CD8 alpha chain intersection_of: only_in_taxon NCBITaxon:10090 ! Mus musculus [Term] id: PR:P05555 name: integrin alpha-M (mouse) namespace: protein def: "An integrin alpha-M that is encoded in the genome of mouse." [OMA:P05555, PRO:DNx] comment: Category=organism-gene. synonym: "CD11 antigen-like family member B (mouse)" EXACT [UniProtKB:P05555] synonym: "CD11b (mouse)" EXACT [UniProtKB:P05555] synonym: "cell surface glycoprotein MAC-1 subunit alpha (mouse)" EXACT [UniProtKB:P05555] synonym: "CR-3 alpha chain (mouse)" EXACT [UniProtKB:P05555] synonym: "Itgam" RELATED Gene-based [UniProtKB:P05555] synonym: "leukocyte adhesion receptor MO1 (mouse)" EXACT [UniProtKB:P05555] synonym: "mITGAM" EXACT PRO-short-label [PRO:DNx] xref: UniProtKB:P05555 is_a: PR:000001012 ! integrin alpha-M is_a: PR:000029032 ! Mus musculus protein intersection_of: PR:000001012 ! integrin alpha-M intersection_of: only_in_taxon NCBITaxon:10090 ! Mus musculus [Term] id: PR:P06332 name: T-cell surface glycoprotein CD4 (mouse) namespace: protein def: "A CD4 molecule that is encoded in the genome of mouse." [OMA:P06332, PRO:DNx] comment: Category=organism-gene. synonym: "Cd4" RELATED Gene-based [UniProtKB:P06332] synonym: "CD4 (mouse)" EXACT [UniProtKB:P06332] synonym: "mCD4" EXACT PRO-short-label [PRO:DNx] synonym: "T-cell differentiation antigen L3T4 (mouse)" EXACT [UniProtKB:P06332] synonym: "T-cell surface antigen T4/Leu-3 (mouse)" EXACT [UniProtKB:P06332] xref: UniProtKB:P06332 is_a: PR:000001004 ! CD4 molecule is_a: PR:000029032 ! Mus musculus protein intersection_of: PR:000001004 ! CD4 molecule intersection_of: only_in_taxon NCBITaxon:10090 ! Mus musculus [Term] id: PR:P08920 name: T-cell surface antigen CD2 (mouse) namespace: protein def: "A CD2 molecule that is encoded in the genome of mouse." [OMA:P08920, PRO:DNx] comment: Category=organism-gene. synonym: "Cd2" RELATED Gene-based [UniProtKB:P08920] synonym: "CD2 (mouse)" EXACT [UniProtKB:P08920] synonym: "LFA-2 (mouse)" EXACT [UniProtKB:P08920] synonym: "LFA-3 receptor (mouse)" EXACT [UniProtKB:P08920] synonym: "Ly-37" RELATED Gene-based [UniProtKB:P08920] synonym: "lymphocyte antigen 37 (mouse)" EXACT [UniProtKB:P08920] synonym: "mCD2" EXACT PRO-short-label [PRO:DNx] synonym: "T-cell surface antigen T11/Leu-5 (mouse)" EXACT [UniProtKB:P08920] xref: UniProtKB:P08920 is_a: PR:000001083 ! CD2 molecule is_a: PR:000029032 ! Mus musculus protein intersection_of: PR:000001083 ! CD2 molecule intersection_of: only_in_taxon NCBITaxon:10090 ! Mus musculus [Term] id: PR:P10810 name: monocyte differentiation antigen CD14 (mouse) namespace: protein def: "A CD14 molecule that is encoded in the genome of mouse." [OMA:P10810, PRO:WCB] comment: Category=organism-gene. synonym: "Cd14" RELATED Gene-based [UniProtKB:P10810] synonym: "CD14 (mouse)" EXACT [UniProtKB:P10810] synonym: "mCD14" EXACT PRO-short-label [PRO:DNx] synonym: "myeloid cell-specific leucine-rich glycoprotein (mouse)" EXACT [UniProtKB:P10810] xref: UniProtKB:P10810 is_a: PR:000001889 ! CD14 molecule is_a: PR:000029032 ! Mus musculus protein intersection_of: PR:000001889 ! CD14 molecule intersection_of: only_in_taxon NCBITaxon:10090 ! Mus musculus [Term] id: PR:P13379 name: T-cell surface glycoprotein CD5 (mouse) namespace: protein def: "A T-cell surface glycoprotein CD5 that is encoded in the genome of mouse." [OMA:P13379, PRO:DNx] comment: Category=organism-gene. synonym: "Cd5" RELATED Gene-based [UniProtKB:P13379] synonym: "CD5 (mouse)" EXACT [UniProtKB:P13379] synonym: "Ly-1" RELATED Gene-based [UniProtKB:P13379] synonym: "lymphocyte antigen 1 (mouse)" EXACT [UniProtKB:P13379] synonym: "Lyt-1 (mouse)" EXACT [UniProtKB:P13379] synonym: "mCD5" EXACT PRO-short-label [PRO:DNx] xref: UniProtKB:P13379 is_a: PR:000001839 ! T-cell surface glycoprotein CD5 is_a: PR:000029032 ! Mus musculus protein intersection_of: PR:000001839 ! T-cell surface glycoprotein CD5 intersection_of: only_in_taxon NCBITaxon:10090 ! Mus musculus [Term] id: PR:P13595 name: neural cell adhesion molecule 1 (mouse) namespace: protein def: "A neural cell adhesion molecule 1 that is encoded in the genome of mouse." [OMA:P13595, PRO:DNx] comment: Category=organism-gene. synonym: "CD56 (mouse)" EXACT [UniProtKB:P13595] synonym: "mNCAM1" EXACT PRO-short-label [PRO:DNx] synonym: "N-CAM-1 (mouse)" EXACT [UniProtKB:P13595] synonym: "Ncam" RELATED Gene-based [UniProtKB:P13595] synonym: "NCAM-1 (mouse)" EXACT [UniProtKB:P13595] synonym: "Ncam1" RELATED Gene-based [UniProtKB:P13595] xref: UniProtKB:P13595 is_a: PR:000001024 ! neural cell adhesion molecule 1 is_a: PR:000029032 ! Mus musculus protein intersection_of: PR:000001024 ! neural cell adhesion molecule 1 intersection_of: only_in_taxon NCBITaxon:10090 ! Mus musculus [Term] id: PR:P16872 name: interleukin-7 receptor subunit alpha (mouse) namespace: protein def: "An interleukin-7 receptor subunit alpha that is encoded in the genome of mouse." [OMA:P16872, PRO:DNx] comment: Category=organism-gene. synonym: "CD127 (mouse)" EXACT [UniProtKB:P16872] synonym: "IL-7 receptor subunit alpha (mouse)" EXACT [UniProtKB:P16872] synonym: "IL-7R subunit alpha (mouse)" EXACT [UniProtKB:P16872] synonym: "IL-7R-alpha (mouse)" EXACT [UniProtKB:P16872] synonym: "IL-7RA (mouse)" EXACT [UniProtKB:P16872] synonym: "Il7r" RELATED Gene-based [UniProtKB:P16872] synonym: "mIL7R" EXACT PRO-short-label [PRO:DNx] xref: UniProtKB:P16872 is_a: PR:000001869 ! interleukin-7 receptor subunit alpha is_a: PR:000029032 ! Mus musculus protein intersection_of: PR:000001869 ! interleukin-7 receptor subunit alpha intersection_of: only_in_taxon NCBITaxon:10090 ! Mus musculus [Term] id: PR:P19437 name: B-lymphocyte antigen CD20 (mouse) namespace: protein def: "A membrane-spanning 4-domains subfamily A member 1 that is encoded in the genome of mouse." [OMA:P19437, PRO:DNx] comment: Category=organism-gene. synonym: "B-cell differentiation antigen Ly-44 (mouse)" EXACT [UniProtKB:P19437] synonym: "Cd20" RELATED Gene-based [UniProtKB:P19437] synonym: "CD20 (mouse)" EXACT [UniProtKB:P19437] synonym: "Ly-44" RELATED Gene-based [UniProtKB:P19437] synonym: "lymphocyte antigen 44 (mouse)" EXACT [UniProtKB:P19437] synonym: "membrane-spanning 4-domains subfamily A member 1 (mouse)" EXACT [UniProtKB:P19437] synonym: "mMS4A1" EXACT PRO-short-label [PRO:DNx] synonym: "Ms4a1" RELATED Gene-based [UniProtKB:P19437] synonym: "Ms4a2" RELATED Gene-based [UniProtKB:P19437] xref: UniProtKB:P19437 is_a: PR:000001289 ! membrane-spanning 4-domains subfamily A member 1 is_a: PR:000029032 ! Mus musculus protein intersection_of: PR:000001289 ! membrane-spanning 4-domains subfamily A member 1 intersection_of: only_in_taxon NCBITaxon:10090 ! Mus musculus [Term] id: PR:P22091 name: T-cell acute lymphocytic leukemia protein 1 homolog (mouse) namespace: protein def: "A T-cell acute lymphocytic leukemia protein 1 that is encoded in the genome of mouse." [OMA:P22091, PRO:DNx] comment: Category=organism-gene. synonym: "mTAL1" EXACT PRO-short-label [PRO:DNx] synonym: "Scl" RELATED Gene-based [UniProtKB:P22091] synonym: "Stem cell protein (mouse)" EXACT [UniProtKB:P22091] synonym: "Tal-1" RELATED Gene-based [UniProtKB:P22091] synonym: "TAL-1 (mouse)" EXACT [UniProtKB:P22091] synonym: "Tal1" RELATED Gene-based [UniProtKB:P22091] xref: UniProtKB:P22091 is_a: PR:000016043 ! T-cell acute lymphocytic leukemia protein 1 is_a: PR:000029032 ! Mus musculus protein intersection_of: PR:000016043 ! T-cell acute lymphocytic leukemia protein 1 intersection_of: only_in_taxon NCBITaxon:10090 ! Mus musculus [Term] id: PR:P22646 name: T-cell surface glycoprotein CD3 epsilon chain (mouse) namespace: protein def: "A CD3 epsilon that is encoded in the genome of mouse." [OMA:P22646, PRO:DNx] comment: Category=organism-gene. synonym: "Cd3e" RELATED Gene-based [UniProtKB:P22646] synonym: "CD3e (mouse)" EXACT [UniProtKB:P22646] synonym: "mCD3E" EXACT PRO-short-label [PRO:DNx] synonym: "T-cell surface antigen T3/Leu-4 epsilon chain (mouse)" EXACT [UniProtKB:P22646] xref: UniProtKB:P22646 is_a: PR:000001020 ! CD3 epsilon is_a: PR:000029032 ! Mus musculus protein intersection_of: PR:000001020 ! CD3 epsilon intersection_of: only_in_taxon NCBITaxon:10090 ! Mus musculus [Term] id: PR:P25918 name: B-lymphocyte antigen CD19 (mouse) namespace: protein def: "A CD19 molecule that is encoded in the genome of mouse." [OMA:P25918, PRO:DNx] comment: Category=organism-gene. synonym: "Cd19" RELATED Gene-based [UniProtKB:P25918] synonym: "CD19 (mouse)" EXACT [UniProtKB:P25918] synonym: "differentiation antigen CD19 (mouse)" EXACT [UniProtKB:P25918] synonym: "mCD19" EXACT PRO-short-label [PRO:DNx] xref: UniProtKB:P25918 is_a: PR:000001002 ! CD19 molecule is_a: PR:000029032 ! Mus musculus protein intersection_of: PR:000001002 ! CD19 molecule intersection_of: only_in_taxon NCBITaxon:10090 ! Mus musculus [Term] id: PR:P35461 name: lymphocyte antigen 6G (mouse) namespace: protein def: "A lymphocyte antigen 6G that is encoded in the genome of mouse." [PRO:CNA, UniProtKB:P35461] comment: Category=organism-gene. synonym: "Ly-6G (mouse)" EXACT [UniProtKB:P35461] synonym: "Ly-6G.1 (mouse)" EXACT [UniProtKB:P35461] synonym: "Ly6g" RELATED Gene-based [UniProtKB:P35461] synonym: "mLy6g" EXACT PRO-short-label [PRO:DNx] xref: UniProtKB:P35461 is_a: PR:000002978 ! lymphocyte antigen 6G is_a: PR:000029032 ! Mus musculus protein intersection_of: PR:000002978 ! lymphocyte antigen 6G intersection_of: only_in_taxon NCBITaxon:10090 ! Mus musculus [Term] id: PR:P35918 name: vascular endothelial growth factor receptor 2 (mouse) namespace: protein def: "A vascular endothelial growth factor receptor 2 that is encoded in the genome of mouse." [OMA:P35918, PRO:DNx] comment: Category=organism-gene. synonym: "CD309 (mouse)" EXACT [UniProtKB:P35918] synonym: "fetal liver kinase 1 (mouse)" EXACT [UniProtKB:P35918] synonym: "Flk-1" RELATED Gene-based [UniProtKB:P35918] synonym: "FLK-1 (mouse)" EXACT [UniProtKB:P35918] synonym: "Flk1" RELATED Gene-based [UniProtKB:P35918] synonym: "Kdr" RELATED Gene-based [UniProtKB:P35918] synonym: "kinase NYK (mouse)" EXACT [UniProtKB:P35918] synonym: "mKDR" EXACT PRO-short-label [PRO:DNx] synonym: "protein-tyrosine kinase receptor flk-1 (mouse)" EXACT [UniProtKB:P35918] synonym: "VEGFR-2 (mouse)" EXACT [UniProtKB:P35918] xref: UniProtKB:P35918 is_a: PR:000002112 ! vascular endothelial growth factor receptor 2 is_a: PR:000029032 ! Mus musculus protein intersection_of: PR:000002112 ! vascular endothelial growth factor receptor 2 intersection_of: only_in_taxon NCBITaxon:10090 ! Mus musculus [Term] id: PR:P55284 name: cadherin-5 (mouse) namespace: protein def: "A cadherin-5 that is encoded in the genome of mouse." [OMA:P55284, PRO:DNx] comment: Category=organism-gene. synonym: "CD144 (mouse)" EXACT [UniProtKB:P55284] synonym: "Cdh5" RELATED Gene-based [UniProtKB:P55284] synonym: "mCDH5" EXACT PRO-short-label [PRO:DNx] synonym: "vascular endothelial cadherin (mouse)" EXACT [UniProtKB:P55284] synonym: "VE-cadherin (mouse)" EXACT [UniProtKB:P55284] xref: UniProtKB:P55284 is_a: PR:000001444 ! cadherin-5 is_a: PR:000029032 ! Mus musculus protein intersection_of: PR:000001444 ! cadherin-5 intersection_of: only_in_taxon NCBITaxon:10090 ! Mus musculus [Term] id: PR:Q62226 name: sonic hedgehog protein (mouse) namespace: protein def: "A sonic hedgehog protein that is encoded in the genome of mouse." [OMA:Q62226, PRO:DNx] comment: Category=organism-gene. synonym: "HHG-1 (mouse)" EXACT [UniProtKB:Q62226] synonym: "Hhg1" RELATED Gene-based [UniProtKB:Q62226] synonym: "mSHH" EXACT PRO-short-label [PRO:DNx] synonym: "Shh" RELATED Gene-based [UniProtKB:Q62226] synonym: "SHH (mouse)" EXACT [UniProtKB:Q62226] synonym: "Shh unprocessed N-terminal signaling and C-terminal autoprocessing domains (mouse)" EXACT [UniProtKB:Q62226] synonym: "ShhNC (mouse)" EXACT [UniProtKB:Q62226] xref: UniProtKB:Q62226 is_a: PR:000014841 ! sonic hedgehog protein is_a: PR:000029032 ! Mus musculus protein intersection_of: PR:000014841 ! sonic hedgehog protein intersection_of: only_in_taxon NCBITaxon:10090 ! Mus musculus [Term] id: PR:Q62351 name: transferrin receptor protein 1 (mouse) namespace: protein def: "A transferrin receptor protein 1 that is encoded in the genome of mouse." [OMA:Q62351, PRO:DNx] comment: Category=organism-gene. synonym: "CD71 (mouse)" EXACT [UniProtKB:Q62351] synonym: "mTFRC" EXACT PRO-short-label [PRO:DNx] synonym: "TfR (mouse)" EXACT [UniProtKB:Q62351] synonym: "TfR1 (mouse)" EXACT [UniProtKB:Q62351] synonym: "Tfrc" RELATED Gene-based [UniProtKB:Q62351] synonym: "TR (mouse)" RELATED [UniProtKB:Q62351] synonym: "Trfr" RELATED Gene-based [UniProtKB:Q62351] xref: UniProtKB:Q62351 is_a: PR:000001945 ! transferrin receptor protein 1 is_a: PR:000029032 ! Mus musculus protein intersection_of: PR:000001945 ! transferrin receptor protein 1 intersection_of: only_in_taxon NCBITaxon:10090 ! Mus musculus [Term] id: PR:Q64314 name: hematopoietic progenitor cell antigen CD34 (mouse) namespace: protein def: "A CD34 molecule that is encoded in the genome of mouse." [OMA:Q64314, PRO:DNx] comment: Category=organism-gene. synonym: "Cd34" RELATED Gene-based [UniProtKB:Q64314] synonym: "CD34 (mouse)" EXACT [UniProtKB:Q64314] synonym: "mCD34" EXACT PRO-short-label [PRO:DNx] xref: UniProtKB:Q64314 is_a: PR:000001003 ! CD34 molecule is_a: PR:000029032 ! Mus musculus protein intersection_of: PR:000001003 ! CD34 molecule intersection_of: only_in_taxon NCBITaxon:10090 ! Mus musculus [Term] id: RO:0002577 name: system def: "A material entity consisting of multiple components that are causally integrated." [] is_a: BFO:0000040 ! material entity property_value: editor_note "May be replaced by a BFO class, as discussed in http://www.jbiomedsem.com/content/4/1/43" xsd:string property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000119 http://www.jbiomedsem.com/content/4/1/43 xsd:string [Term] id: SO:0000110 name: sequence_feature namespace: sequence def: "An extent of biological sequence." [SO:ke] synonym: "located sequence feature" RELATED [] synonym: "located_sequence_feature" EXACT [] synonym: "sequence feature" EXACT [] [Term] id: SO:0000704 name: gene namespace: sequence def: "A region (or regions) that includes all of the sequence elements necessary to encode a functional transcript. A gene may include regulatory regions, transcribed regions and/or other functional sequence regions." [SO:immuno_workshop] is_a: SO:0000110 ! sequence_feature [Term] id: UBERON:0000000 name: processual entity namespace: uberon def: "An occurrent [span:Occurrent] that exists in time by occurring or happening, has temporal parts and always involves and depends on some entity." [span:ProcessualEntity] subset: upper_level is_a: BFO:0000003 ! occurrent disjoint_from: UBERON:0001062 ! anatomical entity [Term] id: UBERON:0000009 name: submucosa namespace: uberon def: "A layer of dense irregular connective tissue that lines organs and supports the mucosa, as well as joins the mucosa to the bulk of underlying smooth muscle. [WP,unvetted]." [Wikipedia:Submucosa] def: "A layer of dense irregular connective tissue that lines organs and supports the mucosa, as well as joins the mucosa to the bulk of underlying smooth muscle. [WP,unvetted]." [http://en.wikipedia.org/wiki/Submucosa] subset: pheno_slim subset: uberon_slim synonym: "organ submucosa" EXACT [FMA:85391] synonym: "region of submucosa" EXACT [FMA:85392] synonym: "submucosa of organ" EXACT [FMA:85391] synonym: "submucosa of region of organ" EXACT [FMA:85392] synonym: "submucous layer" RELATED [BTO:0002107] synonym: "tela submucosa" RELATED [BTO:0002107] synonym: "tunica submucosa" RELATED [] xref: BTO:0002107 xref: FMA:85391 xref: FMA:85392 xref: http://en.wikipedia.org/wiki/Submucosa xref: http://linkedlifedata.com/resource/umls/id/C0225344 xref: http://www.snomedbrowser.com/Codes/Details/68439008 xref: NCIT:C13167 xref: SCTID:68439008 xref: UMLS:C0225344 {source="ncithesaurus:Submucosa"} xref: Wikipedia:Submucosa is_a: UBERON:0004923 ! organ component layer relationship: composed_primarily_of UBERON:0002384 ! connective tissue relationship: has_part UBERON:0002384 ! connective tissue relationship: immediately_deep_to UBERON:0000344 ! mucosa relationship: only_in_taxon NCBITaxon:7711 ! Chordata property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/4/4e/Ens.png xsd:anyURI property_value: depicted:by http://upload.wikimedia.org/wikipedia/en/thumb/4/4e/Ens.png/200px-Ens.png xsd:anyURI property_value: UBPROP:0000007 "submucosal" xsd:string [Term] id: UBERON:0000010 name: peripheral nervous system namespace: uberon def: "A major division of the nervous system that contains nerves which connect the central nervous system (CNS) with sensory organs, other organs, muscles, blood vessels and glands." [GO:0007422] subset: cumbo subset: efo_slim subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "pars peripherica" EXACT LATIN [FMA:9903, FMA:TA, Wikipedia:Peripheral_nervous_system] synonym: "pars peripherica" EXACT LATIN [FMA:9903, FMA:TA, http://en.wikipedia.org/wiki/Peripheral_nervous_system] synonym: "PNS" BROAD ABBREVIATION [] synonym: "systema nervosum periphericum" EXACT LATIN [FMA:9903, FMA:TA, Wikipedia:Peripheral_nervous_system] synonym: "systema nervosum periphericum" EXACT LATIN [FMA:9903, FMA:TA, http://en.wikipedia.org/wiki/Peripheral_nervous_system] xref: AAO:0000429 xref: BAMS:PNS xref: BILA:0000081 xref: BIRNLEX:1111 xref: BTO:0001028 xref: CALOHA:TS-0808 xref: EFO:0000891 xref: EHDAA2:0001445 xref: EHDAA:2893 xref: EMAPA:16665 xref: EV:0100335 xref: FBbt:00005098 xref: FMA:9903 xref: GAID:715 xref: http://braininfo.rprc.washington.edu/centraldirectory.aspx?ID=3232 xref: http://en.wikipedia.org/wiki/Peripheral_nervous_system xref: http://linkedlifedata.com/resource/umls/id/C0206417 xref: http://linkedlifedata.com/resource/umls/id/C1305921 xref: http://www.snomedbrowser.com/Codes/Details/362292005 xref: MA:0000218 xref: MAT:0000338 xref: MESH:D017933 xref: MIAA:0000338 xref: NCIT:C12465 xref: SCTID:362292005 xref: TAO:0000142 xref: UMLS:C0206417 {source="ncithesaurus:Peripheral_Nervous_System"} xref: UMLS:C0206417 {source="BIRNLEX:1111"} xref: UMLS:C1305921 {source="BIRNLEX:1111"} xref: VHOG:0000399 xref: Wikipedia:Peripheral_nervous_system xref: XAO:0000178 xref: ZFA:0000142 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0011216 {source="cjm"} ! organ system subdivision relationship: part_of UBERON:0001016 ! nervous system property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/b/ba/Nervous_system_diagram.png xsd:anyURI property_value: RO:0002171 UBERON:0001017 {exceptions="ZFA", source="https://github.com/obophenotype/uberon/issues/378", status="pending"} property_value: UBPROP:0000001 "Nervous structures including ganglia outside of the central nervous system. Kimmel et al, 1995.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0000142", ontology="TAO", source="ZFIN:curator"} property_value: UBPROP:0000001 "Part of nervous system in which nerves extend throughout the body outside of the brain and spinal cord.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0000429", ontology="AAO", source="AAO:BJB"} property_value: UBPROP:0000001 "The peripheral nervous system (PNS) is the part of the nervous system connected to the CNS which contains cranial nerves III - XII, spinal, peripheral and autonomic nerves. (CUMBO)" xsd:string {source="http://neurolex.org/wiki/Cumbo_terms"} property_value: UBPROP:0000001 "The peripheral nervous system (PNS) is the part of the nervous system connected to the CNS which contains cranial nerves III - XII, spinal, peripheral and autonomic nerves. (CUMBO)" xsd:string {source="Cumbo:terms"} property_value: UBPROP:0000003 "(...) specific vertebrate traits within the chordate phylum such as skeletal tissues, PNS, and spectacular head and brain development, are linked to the NC (neural crest) and its derivatives.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000399", ontology="VHOG", source="DOI:10.1007/978-0-387-46954-6_6 Dupin E, Creuzet S, Le Douarin NM, The contribution of the neural crest to the vertebrate body. Advances in experimental medicine and biology (2006)", source="http://bgee.unil.ch/"} property_value: UBPROP:0000003 "(...) specific vertebrate traits within the chordate phylum such as skeletal tissues, PNS, and spectacular head and brain development, are linked to the NC (neural crest) and its derivatives.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000399", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1007/978-0-387-46954-6_6 Dupin E, Creuzet S, Le Douarin NM, The contribution of the neural crest to the vertebrate body. Advances in experimental medicine and biology (2006)"} [Term] id: UBERON:0000012 name: somatic nervous system namespace: uberon def: "Part of peripheral nervous system that includes the somatic parts of the cranial and spinal nerves and their ganglia and the peripheral sensory receptors." [NLXANAT:100301] subset: pheno_slim subset: uberon_slim synonym: "PNS - somatic" EXACT [] synonym: "somatic nervous system, somatic division" EXACT [NLXANAT:100301] synonym: "somatic part of peripheral nervous system" EXACT [UBERON:cjm] synonym: "somatic peripheral nervous system" EXACT [NLXANAT:100301] xref: EFO:0000892 xref: FMA:9904 xref: MA:0002850 xref: MAT:0000099 xref: MIAA:0000099 xref: NLXANAT:100301 xref: Wikipedia:Somatic_nervous_system is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0011216 {source="cjm"} ! organ system subdivision relationship: contributes_to_morphology_of UBERON:0001016 ! nervous system relationship: part_of UBERON:0000010 ! peripheral nervous system [Term] id: UBERON:0000013 name: sympathetic nervous system namespace: uberon def: "The sympathetic nervous system is one of the two divisions of the vertebrate autonomic nervous system (the other being the parasympathetic nervous system). The sympathetic preganglionic neurons have their cell bodies in the thoracic and lumbar regions of the spinal cord and connect to the paravertebral chain of sympathetic ganglia. Innervate heart and blood vessels, sweat glands, viscera and the adrenal medulla. Most sympathetic neurons, but not all, use noradrenaline as a post-ganglionic neurotransmitter [GO]." [GO:0048485] subset: efo_slim subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "pars sympathica divisionis autonomici systematis nervosi" EXACT LATIN [FMA:9906, FMA:TA] synonym: "pars sympathica divisionis autonomici systematis nervosi" RELATED LATIN [Wikipedia:Sympathetic_nervous_system] synonym: "sympathetic nervous system" EXACT [] synonym: "sympathetic part of autonomic division of nervous system" EXACT [] xref: AAO:0010487 xref: BIRNLEX:2516 xref: BTO:0001832 xref: CALOHA:TS-2050 xref: EFO:0000893 xref: EHDAA2:0001971 xref: EHDAA:3769 xref: EMAPA:16985 xref: FMA:9906 xref: GAID:710 xref: MA:0000225 xref: MESH:D013564 xref: MIAA:0000100 xref: NCIT:C12795 xref: SCTID:362484004 xref: TAO:0001576 xref: UMLS:C0039044 {source="ncithesaurus:Sympathetic_Nervous_System"} xref: UMLS:C0039044 {source="BIRNLEX:2516"} xref: UMLS:C1269646 {source="BIRNLEX:2516"} xref: VHOG:0000384 xref: Wikipedia:Sympathetic_nervous_system xref: ZFA:0001576 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0011216 {source="cjm"} ! organ system subdivision relationship: contributes_to_morphology_of UBERON:0002410 ! autonomic nervous system relationship: part_of UBERON:0002410 {source="FMA", source="MA", source="ZFA-modified-from-isa"} ! autonomic nervous system property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/7/77/Gray838.png xsd:anyURI property_value: UBPROP:0000001 "Part of the autonomic nervous system which has opposing physiological effects of the parasympathetic nervous system. Examples include increasing the heart rate or constricting the blood vessels.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0010487", ontology="AAO", source="AAO:BJB"} property_value: UBPROP:0000001 "The part of the autonomic nervous system which chiefly contains adrenergic fibres and tends to control and reduce secretions, decrease the contractility and hence the tone of smooth muscles and provoke the contraction of blood vessels. Essentially, it consists of preganglionic fibres from the thoracic and upper lumbar parts of the spinal cord. These fibres, by means of delicate rami communicantes, cross over to ganglia sited in a pair of ganglionated cords on each side of the vertebral column or to more peripheral ganglia. [Dorian_AF, Elsevier's_encyclopaedic_dictionary_of_medicine, Part_B:_Anatomy_(1988)_Amsterdam_etc.:_Elsevier][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000384", ontology="VHOG", source="http://bgee.unil.ch/"} property_value: UBPROP:0000003 "The autonomic nervous system is composed of three divisions: the sympathetic division, the parasympathetic division, and the enteric division. (...) In ray-finned teleost fishes, a sympathetic chain is present, and dual innervation of additional organs can be observed. A similar pattern can be found in amphibians (...). The evolution of the autonomic nervous system has been quite conservative, especially in the tetrapod lineage.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000384", ontology="VHOG", source="ISBN:978-0471210054 Butler AB and Hodos W, Comparative vertebrate neuroanatomy: Evolution and Adaptation (2005) p.461-463", source="http://bgee.unil.ch/"} property_value: UBPROP:0000011 "has developmental contribution from NC in verteberates (https://github.com/obophenotype/uberon/wiki/The-neural-crest)" xsd:string [Term] id: UBERON:0000014 name: zone of skin namespace: uberon def: "Any portion of the organ that covers that body and consists of a layer of epidermis and a layer of dermis." [http://orcid.org/0000-0002-6601-2165, Wikipedia:Skin] def: "Any portion of the organ that covers that body and consists of a layer of epidermis and a layer of dermis." [http://en.wikipedia.org/wiki/Skin, http://orcid.org/0000-0002-6601-2165] subset: pheno_slim synonym: "portion of skin" EXACT [] synonym: "region of skin" EXACT [] synonym: "skin" EXACT [MA:0000151] synonym: "skin region" EXACT [] synonym: "skin zone" EXACT [] xref: EHDAA2:0001844 xref: EHDAA:6530 xref: EMAPA:17525 xref: EV:0100152 xref: FMA:86166 xref: GAID:933 xref: http://en.wikipedia.org/wiki/Skin xref: http://www.snomedbrowser.com/Codes/Details/20795001 xref: MA:0000151 xref: MAT:0000284 xref: MESH:D012867 xref: MIAA:0000284 xref: OpenCyc:Mx4rvVjX3ZwpEbGdrcN5Y29ycA xref: SCTID:20795001 xref: VHOG:0000860 xref: Wikipedia:Skin is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0034944 {source="FMA"} ! zone of organ relationship: has_part UBERON:0001003 ! skin epidermis relationship: has_part UBERON:0002067 ! dermis relationship: part_of UBERON:0002097 ! skin of body property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/6/6d/Skin.svg xsd:anyURI property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/e/e8/HumanSkinDiagram.jpg xsd:anyURI property_value: IAO:0000232 "Note the distinction between the entire skin of the body, of which there is only 1 in an organism, and zones of skin, of which there can be many. Examples: skin of knee" xsd:string property_value: UBPROP:0000003 "(...) it is well-established that neural crest cells contribute to both the dermal skeleton (craniofacial bone, teeth, and the caudal fin rays of teleosts) and the integument, including craniofacial dermis and all pigment cells outside the retina (...).[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000860", ontology="VHOG", source="DOI:10.1111/j.1469-7580.2008.01043.x Vickaryous MK, Sire JY, The integumentary skeleton of tetrapods: origin, evolution, and development. J Anat (2009)", source="http://bgee.unil.ch/"} property_value: UBPROP:0000003 "(...) it is well-established that neural crest cells contribute to both the dermal skeleton (craniofacial bone, teeth, and the caudal fin rays of teleosts) and the integument, including craniofacial dermis and all pigment cells outside the retina (...).[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000860", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1111/j.1469-7580.2008.01043.x Vickaryous MK, Sire JY, The integumentary skeleton of tetrapods: origin, evolution, and development. J Anat (2009)"} property_value: UBPROP:0000012 "we assume that mouse, HOG and GAID all mean zone of skin when they say skin. We also choose skin as an exact synonym, as it is more intuitive" xsd:string [Term] id: UBERON:0000015 name: non-material anatomical boundary namespace: uberon def: "A non-material anatomical entity of two dimensions. Anatomical boundaries are contiguous structures." [CARO:0000010] comment: Except in the case of abstracted fiat boundaries such as the midline plane of an organism, all 2D anatomical entities have a 3 dimensional projection. For example, the surface of the shell of a muscle has a distinct shape that projects into the third dimension. Note that boundaries are 2D structures. They have no thickness - and so can not be sites of gene expression or gene product localisation. For this, use boundary region terms. subset: upper_level synonym: "anatomical boundary" EXACT [CARO:0000010] xref: AEO:0000192 xref: CARO:0000010 xref: FMA:50705 is_a: UBERON:0000466 {source="CARO"} ! immaterial anatomical entity [Term] id: UBERON:0000018 name: compound eye namespace: uberon def: "A light sensing organ composed of ommatidia." [FB:gg, Wikipedia:Compound_eye] subset: organ_slim subset: uberon_slim synonym: "adult compound eye" RELATED [] synonym: "faceted eye" RELATED [] synonym: "Facettenauge" RELATED [BTO:0001921] synonym: "insect eye" RELATED [] synonym: "Komplexauge" RELATED [BTO:0001921] synonym: "zusammengesetztes Auge" RELATED [BTO:0001921] xref: BTO:0001921 xref: FBbt:00004508 xref: HAO:0000217 xref: TGMA:0000024 xref: Wikipedia:Compound_eye is_a: UBERON:0015165 ! multi-unit eye intersection_of: UBERON:0000970 ! eye intersection_of: composed_primarily_of UBERON:0000971 ! ommatidium relationship: composed_primarily_of UBERON:0000971 ! ommatidium relationship: only_in_taxon NCBITaxon:6656 {source="PMID:21062451"} ! Arthropoda property_value: seeAlso https://github.com/obophenotype/uberon/issues/457 xsd:anyURI property_value: UBPROP:0000008 "The term compound eye is sometimes used for the multi-unit eyes of annelids, bivalves, echinoderms. We follow Richter et al and restrict this class to the arthropod structure for these structures" xsd:string {source="PMID:21062451"} [Term] id: UBERON:0000019 name: camera-type eye namespace: uberon def: "An organ of sight that includes the camera-type eyeball and supporting structures such as the lacrimal apparatus, the conjunctiva, the eyelid." [GO:0043010, https://orcid.org/0000-0002-6601-2165] subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "camera-type eye plus associated structures" RELATED [] synonym: "eye" BROAD [FMA:54448] synonym: "eyes" RELATED PLURAL [TAO:0000107] synonym: "orbital part of face" RELATED [FMA:54448] synonym: "orbital region" RELATED [FMA:54448] synonym: "regio orbitalis" EXACT LATIN [FMA:54448, FMA:TA] synonym: "vertebrate eye" NARROW [] xref: AAO:0010340 xref: BIRNLEX:1169 xref: BTO:0004688 xref: EHDAA2:0000484 xref: EHDAA:936 xref: EMAPA:16198 xref: FMA:54448 xref: http://linkedlifedata.com/resource/umls/id/C0015392 xref: http://linkedlifedata.com/resource/umls/id/C1280202 xref: http://www.snomedbrowser.com/Codes/Details/181143004 xref: MA:0000261 xref: NCIT:C12401 xref: OpenCyc:Mx8Ngx4rwKSh9pwpEbGdrcN5Y29ycB4rvVil5pwpEbGdrcN5Y29ycB4rvViTvpwpEbGdrcN5Y29ycA xref: SCTID:181143004 xref: TAO:0000107 xref: UMLS:C0015392 {source="BIRNLEX:1169"} xref: UMLS:C0015392 {source="ncithesaurus:Eye"} xref: UMLS:C1280202 {source="BIRNLEX:1169"} xref: VHOG:0000275 xref: XAO:0000179 xref: ZFA:0000107 is_a: UBERON:0000047 ! simple eye is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0010314 ! structure with developmental contribution from neural crest is_a: UBERON:0015212 ! lateral structure relationship: develops_from UBERON:0003072 {evidence="definitional"} ! optic cup relationship: existence_ends_during UBERON:0000066 ! fully formed stage relationship: has_part UBERON:0000965 ! lens of camera-type eye relationship: has_part UBERON:0000966 ! retina relationship: in_lateral_side_of UBERON:0000033 ! head relationship: part_of UBERON:0004088 ! orbital region property_value: UBPROP:0000001 "A cavitated compound organ that transduces light waves into neural signals.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0000107", ontology="TAO", source="TAO:wd"} property_value: UBPROP:0000003 "The eye of the adult lamprey is remarkably similar to our own, and it possesses numerous features (including the expression of opsin genes) that are very similar to those of the eyes of jawed vertebrates. The lamprey's camera-like eye has a lens, an iris and extra-ocular muscles (five of them, unlike the eyes of jawed vertebrates, which have six), although it lacks intra-ocular muscles. Its retina also has a structure very similar to that of the retinas of other vertebrates, with three nuclear layers comprised of the cell bodies of photoreceptors and bipolar, horizontal, amacrine and ganglion cells. The southern hemisphere lamprey, Geotria australis, possesses five morphological classes of retinal photoreceptor and five classes of opsin, each of which is closely related to the opsins of jawed vertebrates. Given these similarities, we reach the inescapable conclusion that the last common ancestor of jawless and jawed vertebrates already possessed an eye that was comparable to that of extant lampreys and gnathostomes. Accordingly, a vertebrate camera-like eye must have been present by the time that lampreys and gnathostomes diverged, around 500 Mya.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000275", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1038/nrn2283 Lamb TD, Collin SP and Pugh EN Jr, Evolution of the vertebrate eye: opsins, photoreceptors, retina and eye cup. Nature Reviews Neuroscience (2007)"} property_value: UBPROP:0000003 "The eye of the adult lamprey is remarkably similar to our own, and it possesses numerous features (including the expression of opsin genes) that are very similar to those of the eyes of jawed vertebrates. The lamprey's camera-like eye has a lens, an iris and extra-ocular muscles (five of them, unlike the eyes of jawed vertebrates, which have six), although it lacks intra-ocular muscles. Its retina also has a structure very similar to that of the retinas of other vertebrates, with three nuclear layers comprised of the cell bodies of photoreceptors and bipolar, horizontal, amacrine and ganglion cells. The southern hemisphere lamprey, Geotria australis, possesses five morphological classes of retinal photoreceptor and five classes of opsin, each of which is closely related to the opsins of jawed vertebrates. Given these similarities, we reach the inescapable conclusion that the last common ancestor of jawless and jawed vertebrates already possessed an eye that was comparable to that of extant lampreys and gnathostomes. Accordingly, a vertebrate camera-like eye must have been present by the time that lampreys and gnathostomes diverged, around 500 Mya.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000275", ontology="VHOG", source="DOI:10.1038/nrn2283 Lamb TD, Collin SP and Pugh EN Jr, Evolution of the vertebrate eye: opsins, photoreceptors, retina and eye cup. Nature Reviews Neuroscience (2007)", source="http://bgee.unil.ch/"} property_value: UBPROP:0000012 "FMA distinguishes Eye (subdivision of face) which has its parts an Eyeball (organ), as well as other structures, and the orbit of skull. MA includes eyelid, conjunctiva and lacrimal apparatus as part of MA:eye - consistent with FMA - so we can infer that MA:eye is more like FMA:eye than FMA:eyeball. For other AOs this distinction is less meaningful - e.g. ZFA has no eyelid; XAO has no eyelid, but it has conjuctiva, which is considered part of the xao:eye. GO considers eyelid development part of eye development. See also notes on optic nerve - XAO, AAO and BTO consider this part of the eye. MA considers the eye muscles part of the eye, whereas FMA has a class 'orbital content' for this" xsd:string {external_ontology="FMA"} [Term] id: UBERON:0000020 name: sense organ namespace: uberon def: "An organ that is capable of transducing sensory stimulus to the nervous system." [https://github.com/obophenotype/uberon/issues/549, https://orcid.org/0000-0002-6601-2165] subset: uberon_slim synonym: "organ of sense organ system" EXACT [OBOL:accepted] synonym: "organ of sensory organ system" EXACT [OBOL:accepted] synonym: "organ of sensory system" EXACT [OBOL:accepted] synonym: "sense organ system organ" EXACT [OBOL:automatic] synonym: "sensillum" NARROW [WBbt:0006929] synonym: "sensor" RELATED [] synonym: "sensory organ" EXACT [] synonym: "sensory organ system organ" EXACT [OBOL:automatic] synonym: "sensory system organ" EXACT [OBOL:accepted] synonym: "Sinnesorgan" RELATED [BTO:0000202] xref: AEO:0000094 xref: BSA:0000121 xref: BTO:0000202 xref: CALOHA:TS-2043 xref: EHDAA2:0001824 xref: EHDAA:500 xref: EMAPA:35955 xref: FBbt:00005155 xref: GAID:63 xref: HAO:0000930 xref: http://linkedlifedata.com/resource/umls/id/C0935626 xref: http://www.snomedbrowser.com/Codes/Details/244485009 xref: MA:0000017 xref: MESH:D012679 xref: NCIT:C33224 xref: SCTID:244485009 xref: UMLS:C0935626 {source="ncithesaurus:Organ_of_the_Special_Sense"} xref: VHOG:0001407 xref: WBbt:0006929 is_a: UBERON:0000062 ! organ intersection_of: UBERON:0000062 ! organ intersection_of: capable_of GO:0050906 ! detection of stimulus involved in sensory perception relationship: capable_of GO:0050906 ! detection of stimulus involved in sensory perception relationship: part_of UBERON:0001032 ! sensory system property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/c/c0/Gray722.png xsd:anyURI property_value: http://purl.org/dc/elements/1.1/contributor https://github.com/cmungall [Term] id: UBERON:0000025 name: tube namespace: uberon def: "Any hollow cylindrical anatomical structure containing a lumen through which substances are transported." [http://orcid.org/0000-0002-6601-2165] synonym: "anatomical tube" EXACT [] synonym: "duct" NARROW [] xref: galen:Tube is_a: UBERON:0004111 ! anatomical conduit intersection_of: UBERON:0004111 ! anatomical conduit intersection_of: has_quality PATO:0002299 ! tubular relationship: has_part UBERON:0013522 ! subdivision of tube relationship: has_quality PATO:0002299 ! tubular property_value: IAO:0000232 "not every anatomical conduit is a tube - for example, a bone foramen is an opening in the bone, and there is no distinct separate tube structure. Tubes may transport large mixed objects (for example, a bolus of food in the digestive tube) or they may transport the secretions of a single gland (for example, gland ducts)" xsd:string property_value: UBPROP:0000007 "tubular" xsd:string [Term] id: UBERON:0000026 name: appendage namespace: uberon def: "Major subdivision of an organism that protrudes from the body[DOS, CARO]." [CARO:DOS] subset: efo_slim subset: pheno_slim subset: uberon_slim synonym: "appendages" RELATED PLURAL [XAO:0000218] synonym: "extremitaet" RELATED [BTO:0001492] synonym: "extremity" RELATED [] synonym: "limbs/digits/tail" RELATED [MP:0000001] xref: AEO:0000193 xref: BILA:0000018 xref: BTO:0001492 xref: CARO:0010003 xref: EFO:0000799 xref: EHDAA2:0003193 xref: EMAPA:37283 {source="MA:th"} xref: EV:0100155 xref: FBbt:00007000 xref: HAO:0000144 xref: http://en.wikipedia.org/wiki/Appendage xref: http://linkedlifedata.com/resource/umls/id/C0598782 xref: MAT:0000023 xref: MESH:D005121 xref: MIAA:0000023 xref: NCIT:C61460 xref: OpenCyc:Mx4rvViC-JwpEbGdrcN5Y29ycA xref: UMLS:C0598782 {source="ncithesaurus:Appendage"} xref: VSAO:0000075 xref: Wikipedia:Appendage xref: XAO:0000218 is_a: UBERON:0000475 ! organism subdivision relationship: only_in_taxon NCBITaxon:6072 ! Eumetazoa property_value: UBPROP:0000001 "An appendage is an external body part, or natural prolongation, that protrudes from an organism's body, such as a vertebrate's limbs[BILA][BILA:0000018]." xsd:string {source="BILA:0000018"} property_value: UBPROP:0000001 "Organ or organ part that is attached to the body of an organism. For example a limb[GO, modified][GO:0048736]." xsd:string {source="GO:0048736"} property_value: UBPROP:0000007 "appendicular" xsd:string property_value: UBPROP:0000008 "this is currently a subtype of organism subdivision - which would exclude feathers" xsd:string [Term] id: UBERON:0000030 name: lamina propria namespace: uberon def: "A thin layer of loose connective tissue which lies beneath the epithelium and together with the epithelium constitutes the mucosa[WP]. The lamina propria contains capillaries and a central lacteal (lymph vessel) in the small intestine, as well as lymphoid tissue. Lamina propria also contains glands with the ducts opening on to the mucosal epithelium, that secrete mucus and serous secretions." [Wikipedia:Lamina_propria] def: "A thin layer of loose connective tissue which lies beneath the epithelium and together with the epithelium constitutes the mucosa[WP]. The lamina propria contains capillaries and a central lacteal (lymph vessel) in the small intestine, as well as lymphoid tissue. Lamina propria also contains glands with the ducts opening on to the mucosal epithelium, that secrete mucus and serous secretions." [http://en.wikipedia.org/wiki/Lamina_propria] subset: uberon_slim synonym: "lamina propria mucosa" EXACT [] synonym: "lamina propria mucosae" EXACT [] synonym: "tunica propria" RELATED [BTO:0002330] xref: BTO:0002330 xref: FMA:62517 xref: http://linkedlifedata.com/resource/umls/id/C1179187 xref: http://www.snomedbrowser.com/Codes/Details/298225002 xref: Lamina:propria xref: NCIT:C32918 xref: SCTID:298225002 xref: UMLS:C1179187 {source="ncithesaurus:Lamina_Propria"} xref: Wikipedia:Lamina_propria is_a: UBERON:0004923 ! organ component layer relationship: composed_primarily_of UBERON:0011825 ! loose connective tissue relationship: has_part UBERON:0011825 ! loose connective tissue relationship: immediately_deep_to UBERON:0000483 ! epithelium relationship: part_of UBERON:0000344 ! mucosa property_value: depicted:by GI:Organization.svg xsd:anyURI property_value: depicted:by https://upload.wikimedia.org/wikipedia/commons/f/fb/GI_Organization.svg xsd:anyURI [Term] id: UBERON:0000031 name: lamina propria of trachea namespace: uberon def: "A lamina propria that is part of a respiratory airway." [OBOL:automatic] synonym: "lamina propria mucosa of trachea" EXACT [OBOL:automatic] synonym: "lamina propria mucosa of windpipe" EXACT [OBOL:automatic] synonym: "lamina propria mucosae of trachea" EXACT [OBOL:automatic] synonym: "lamina propria mucosae of windpipe" EXACT [OBOL:automatic] synonym: "lamina propria of windpipe" EXACT [OBOL:automatic] synonym: "trachea lamina propria" EXACT [] synonym: "trachea lamina propria mucosa" EXACT [OBOL:automatic] synonym: "trachea lamina propria mucosae" EXACT [OBOL:automatic] synonym: "tracheal lamina propria" EXACT [] synonym: "windpipe lamina propria" EXACT [OBOL:automatic] synonym: "windpipe lamina propria mucosa" EXACT [OBOL:automatic] synonym: "windpipe lamina propria mucosae" EXACT [OBOL:automatic] xref: EMAPA:35877 xref: FMA:265157 xref: http://linkedlifedata.com/resource/umls/id/C1710457 xref: MA:0001858 xref: NCIT:C49305 xref: UMLS:C1710457 {source="ncithesaurus:Trachea_Lamina_Propria"} is_a: UBERON:0004779 ! respiratory system lamina propria intersection_of: UBERON:0000030 ! lamina propria intersection_of: part_of UBERON:0001005 ! respiratory airway relationship: part_of UBERON:0000379 {is_inferred="true", source="https://github.com/obophenotype/uberon/wiki/Inferring-part-of-relationships"} ! tracheal mucosa relationship: part_of UBERON:0000379 {is_inferred="true", source="https://github.com/obophenotype/uberon/wiki/Inferring-part-of-relationships"} ! tracheal mucosa [Term] id: UBERON:0000033 name: head namespace: uberon def: "The head is the anterior-most division of the body [GO]." [GO:0060322, Wikipedia:Head] def: "The head is the anterior-most division of the body [GO]." [GO:0060322, http://en.wikipedia.org/wiki/Head] subset: efo_slim subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "adult head" NARROW [] synonym: "cephalic area" RELATED [SPD:0000016] synonym: "head (volume)" EXACT [FMA:7154] xref: AAO:0010335 xref: AEO:0000106 xref: BILA:0000115 xref: BIRNLEX:1230 xref: BTO:0000282 xref: CALOHA:TS-0436 xref: EFO:0000964 xref: EHDAA2:0003106 xref: EMAPA:31858 xref: FBbt:00000004 xref: FMA:7154 xref: GAID:61 xref: galen:Head xref: HAO:0000397 xref: http://en.wikipedia.org/wiki/Head xref: http://linkedlifedata.com/resource/umls/id/C0018670 xref: http://www.snomedbrowser.com/Codes/Details/302548004 xref: MA:0000023 xref: MAT:0000294 xref: MESH:D006257 xref: MIAA:0000294 xref: NCIT:C12419 xref: OpenCyc:Mx4rEOLm4rgPEdmAAAACs6hRjg xref: OpenCyc:Mx4rvVi6YJwpEbGdrcN5Y29ycA xref: SCTID:302548004 xref: SPD:0000016 xref: TAO:0001114 xref: TGMA:0000002 xref: UMLS:C0018670 {source="BIRNLEX:1230"} xref: UMLS:C0018670 {source="ncithesaurus:Head"} xref: VHOG:0001644 xref: WBbt:0005739 xref: Wikipedia:Head xref: XAO:0003024 xref: ZFA:0001114 is_a: UBERON:0011676 ! subdivision of organism along main body axis relationship: has_skeleton UBERON:0003129 {gci_relation="part_of", gci_filler="NCBITaxon:7776"} ! skull relationship: only_in_taxon NCBITaxon:33213 ! Bilateria relationship: part_of UBERON:0007811 ! craniocervical region property_value: RO:0002171 UBERON:0000948 property_value: UBPROP:0000001 "Organism subdivision that is the part of the body consisting of the cranial and pharyngeal regions.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0010335", ontology="AAO", source="AAO:BJB"} property_value: UBPROP:0000001 "Organism subdivision which is the part of the body which consists of the cranial and pharygeal regions.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0001114", ontology="TAO", source="ZFIN:curator"} property_value: UBPROP:0000003 "Vertebrate evolution has been characterized by a fresh and vast array of cranial structures that collectively form the head.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001644", ontology="VHOG", source="ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.82", source="http://bgee.unil.ch/"} property_value: UBPROP:0000003 "Vertebrate evolution has been characterized by a fresh and vast array of cranial structures that collectively form the head.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001644", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.82"} [Term] id: UBERON:0000042 name: serous membrane namespace: uberon def: "Multi-tissue structure that is comprised of a secretory epithelial layer (mesothelium) and a connective tissue layer." [https://github.com/obophenotype/uberon/issues/86, Wikipedia:Serous_membrane] def: "Multi-tissue structure that is comprised of a secretory epithelial layer (mesothelium) and a connective tissue layer." [http://en.wikipedia.org/wiki/Serous_membrane, https://github.com/obophenotype/uberon/issues/86] def: "multi-tissue structure that is comprised of a secretory epithelial layer (mesothelium) and a connective tissue layer." [http://en.wikipedia.org/wiki/Serous_membrane, https://github.com/obophenotype/uberon/issues/86] subset: uberon_slim subset: vertebrate_core synonym: "serosa" RELATED [Wikipedia:Serous_membrane] synonym: "serosa" RELATED [http://en.wikipedia.org/wiki/Serous_membrane] synonym: "tunica serosa" EXACT LATIN [FMA:9581] synonym: "wall of serous sac" EXACT [FMA:9581] xref: FMA:9581 xref: GAID:19 xref: http://linkedlifedata.com/resource/umls/id/C0036760 xref: http://www.snomedbrowser.com/Codes/Details/362878009 xref: MESH:D012704 xref: NCIT:C13169 xref: SCTID:362878009 xref: Serous:membrane xref: TAO:0005425 xref: UMLS:C0036760 {source="ncithesaurus:Serosa"} xref: Wikipedia:Serous_membrane xref: ZFA:0005425 is_a: UBERON:0000481 ! multi-tissue structure is_a: UBERON:0004120 ! mesoderm-derived structure relationship: has_part UBERON:0001136 ! mesothelium relationship: has_part UBERON:0002384 ! connective tissue relationship: part_of UBERON:0000060 ! anatomical wall property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/4/4e/Ens.png xsd:anyURI property_value: depicted:by http://upload.wikimedia.org/wikipedia/en/thumb/4/4e/Ens.png/200px-Ens.png xsd:anyURI property_value: http://purl.org/dc/elements/1.1/contributor https://github.com/cmungall property_value: UBPROP:0000001 "A multi-tissue structure that is comprised of a secretory epithelial layer and a connective tissue layer.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0005425", ontology="TAO", source="Serous:membrane"} property_value: UBPROP:0000001 "A multi-tissue structure that is comprised of a secretory epithelial layer and a connective tissue layer.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0005425", ontology="TAO", source="Wikipedia:Serous_membrane"} property_value: UBPROP:0000001 "a smooth membrane consisting of a thin layer of cells which excrete serous fluid. Serous membranes line and enclose several body cavities, known as serous cavities, where they secrete a lubricating fluid which reduces friction from muscle movement. Serosa is not to be confused with adventitia, a connective tissue layer which binds together structures rather than reducing friction between them. Each serous membrane is composed of a secretory epithelial layer and a connective tissue layer underneath. The epithelial layer, known as mesothelium, consists of a single layer of avascular flat nucleated cells (cuboidal epithelium) which produce the lubricating serous fluid. This fluid has a consistency similar to thin mucus. These cells are bound tightly to the underlying connective tissue. The connective tissue layer provides the blood vessels and nerves for the overlying secretory cells, and also serves as the binding layer which allows the whole serous membrane to adhere to organs and other structures.[WP]" xsd:string {source="Serous:membrane"} property_value: UBPROP:0000001 "a smooth membrane consisting of a thin layer of cells which excrete serous fluid. Serous membranes line and enclose several body cavities, known as serous cavities, where they secrete a lubricating fluid which reduces friction from muscle movement. Serosa is not to be confused with adventitia, a connective tissue layer which binds together structures rather than reducing friction between them. Each serous membrane is composed of a secretory epithelial layer and a connective tissue layer underneath. The epithelial layer, known as mesothelium, consists of a single layer of avascular flat nucleated cells (cuboidal epithelium) which produce the lubricating serous fluid. This fluid has a consistency similar to thin mucus. These cells are bound tightly to the underlying connective tissue. The connective tissue layer provides the blood vessels and nerves for the overlying secretory cells, and also serves as the binding layer which allows the whole serous membrane to adhere to organs and other structures.[WP]" xsd:string {source="Wikipedia:Serous_membrane"} property_value: UBPROP:0000012 "in FMA, SM = mesothelium + connective tissue. It excludes the cavity. Serous sac = SM + cavity. Note that the SM is a subtype of wall in FMA." xsd:string {external_ontology="FMA"} [Term] id: UBERON:0000043 name: tendon namespace: uberon def: "Dense regular connective tissue that connects muscle to bone[VSAO]." [GO_REF:0000034, http://dx.plos.org/10.1371/journal.pone.0051070, VSAO:0000073, Wikipedia:Tendon] def: "Dense regular connective tissue that connects muscle to bone[VSAO]." [GO_REF:0000034, http://dx.plos.org/10.1371/journal.pone.0051070, http://en.wikipedia.org/wiki/Tendon, VSAO:0000073] subset: pheno_slim subset: uberon_slim synonym: "sinew" RELATED [http://en.wikipedia.org/wiki/Tendon] synonym: "sinew" RELATED [Wikipedia:Tendon] synonym: "tendo" RELATED LATIN [http://en.wikipedia.org/wiki/Tendon] synonym: "tendo" RELATED LATIN [Wikipedia:Tendon] xref: AEO:0000091 xref: BTO:0001356 xref: CALOHA:TS-1021 xref: EHDAA2:0003091 xref: EMAPA:35854 xref: EV:0100149 xref: FMA:9721 xref: GAID:276 xref: galen:Tendon xref: http://en.wikipedia.org/wiki/Tendon xref: http://linkedlifedata.com/resource/umls/id/C0039508 xref: http://www.snomedbrowser.com/Codes/Details/256667004 xref: MA:0000115 xref: MESH:D013710 xref: NCIT:C13045 xref: OpenCyc:Mx4rvVjefJwpEbGdrcN5Y29ycA xref: SCTID:256667004 xref: UMLS:C0039508 {source="ncithesaurus:Tendon"} xref: VHOG:0001286 xref: VSAO:0000073 xref: Wikipedia:Tendon xref: XAO:0000173 xref: ZFA:0005647 is_a: UBERON:0007846 {source="VSAO"} ! dense regular connective tissue relationship: connects UBERON:0001474 ! bone element relationship: connects UBERON:0001630 ! muscle organ relationship: has_part CL:0000327 {source="AEO"} ! extracellular matrix secreting cell relationship: only_in_taxon NCBITaxon:7742 ! Vertebrata relationship: part_of UBERON:0002204 {source="OG"} ! musculoskeletal system property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/3/3c/Achilles-tendon.jpg xsd:anyURI property_value: UBPROP:0000001 "Dense regular connective tissue that connects muscle to bone.[VSAO]" xsd:string {date_retrieved="2012-08-14", external_class="VSAO:0000073", ontology="VSAO", source="PSPUB:0000170"} property_value: UBPROP:0000003 "Phylogenetically, tendinous tissue first appears in the invertebrate chordate Branchiostoma as myosepta. This two-dimensional array of collagen fibers is highly organized, with fibers running along two primary axes. In hagfish the first linear tendons appear and the myosepta have developed specialized regions with unidirectional fiber orientation - a linear tendon within the flat sheet of myoseptum.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001286", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1016/S1095-6433(02)00241-6 Summers AP, Koob TJ, The evolution of tendon - morphology and material properties. Comparative Biochemistry and Physiology-Part A: Molecular and Integrative Physiology (2002)"} property_value: UBPROP:0000003 "Phylogenetically, tendinous tissue first appears in the invertebrate chordate Branchiostoma as myosepta. This two-dimensional array of collagen fibers is highly organized, with fibers running along two primary axes. In hagfish the first linear tendons appear and the myosepta have developed specialized regions with unidirectional fiber orientation - a linear tendon within the flat sheet of myoseptum.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001286", ontology="VHOG", source="DOI:10.1016/S1095-6433(02)00241-6 Summers AP, Koob TJ, The evolution of tendon - morphology and material properties. Comparative Biochemistry and Physiology-Part A: Molecular and Integrative Physiology (2002)", source="http://bgee.unil.ch/"} property_value: UBPROP:0000012 "in FMA, tendon is an organ component that with parts dense-irregular-connective-tissue of tendon and dense-irregular-connective-tissue of tendon sheath; we follow VSAO in making it a subtype of the former. In VSAO tendons connect muscle to bone; in WP the def states integument (e.g. auricular muscles) - but JB confirms this is not actually tendon but aponeurosis" xsd:string {external_ontology="FMA"} [Term] id: UBERON:0000045 name: ganglion namespace: uberon def: "A biological tissue mass, most commonly a mass of nerve cell bodies." [https://github.com/obophenotype/uberon/issues/300, Wikipedia:Ganglion] subset: efo_slim subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "ganglia" RELATED [] synonym: "neural ganglion" RELATED [BTO:0000497] xref: AAO:0010426 xref: AEO:0000135 xref: BAMS:G xref: BTO:0000497 xref: CALOHA:TS-0397 xref: EFO:0000899 xref: EHDAA2:0003135 xref: EHDAA:2897 xref: EHDAA:4662 xref: EHDAA:5621 xref: EHDAA:918 xref: EMAPA:32846 xref: EV:0100372 xref: FBbt:00005137 xref: FMA:5884 xref: MA:0002406 xref: MAT:0000207 xref: MAT:0000343 xref: MESH:D005724 xref: MIAA:0000207 xref: MIAA:0000343 xref: NCIT:C12719 xref: NLXANAT:100302 xref: TAO:0000190 xref: TGMA:0001016 xref: UMLS:C0017067 {source="ncithesaurus:Ganglion"} xref: VHOG:0000156 xref: WBbt:0005189 xref: Wikipedia:Ganglion xref: XAO:0000209 xref: ZFA:0000190 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0010001 {source="https://github.com/obophenotype/uberon/issues/702"} ! cell cluster organ relationship: composed_primarily_of UBERON:0003714 {source="EHDAA2"} ! neural tissue relationship: immediate_transformation_of UBERON:0003869 {source="Bgee:AN"} ! presumptive ganglion relationship: part_of UBERON:0001016 ! nervous system property_value: editor_note "TODO - check vert vs invert. Other species: Any of a number of aggregations of neurons, glial cells and their processes, surrounded by a glial cell and connective tissue sheath (plural: ganglia). // Subdivision of neural tree (organ) which primarily consists of cell bodies of neurons located outside the neuraxis (brain and spinal cord); together with a nucleus and its associated nerve, it constitutes a neural tree (organ). Examples: spinal ganglion, trigeminal ganglion, superior cervical ganglion, celiac ganglion, inferior hypogastric (pelvic) ganglion. // a cluster of nerve cells and associated glial cells (nuclear location) // Portion of tissue that contains cell bodies of neurons and is located outside the central nervous system." xsd:string property_value: UBPROP:0000001 "A ganglion is a cluster of neurons. It is part of a nervous system. It may include glial cells. The neurons are arranged in a specific constellation: neuronal somata are concentrated at the surface, thus forming a cell cortex, and neurites are concentrated in the centre of the ganglion to form the neuropil. A ganglion is a distinct unit but several ganglia may be anterio-posteriorly joined by connectives or transversally by commissures" xsd:string {source="PMID:21062451"} property_value: UBPROP:0000001 "Portion of tissue that contains cell bodies of neurons and is located outside the central nervous system.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0010426", ontology="AAO", source="AAO:EJS"} property_value: UBPROP:0000001 "Structures containing a collection of nerve cell bodies. (Source: BioGlossary, www.Biology-Text.com)[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0000190", ontology="TAO", source="ZFIN:curator"} property_value: UBPROP:0000001 "Subdivision of nervous system which primarily consists of cell bodies of neurons located outside the neuraxis (brain and spinal cord. Examples: spinal ganglion, trigeminal ganglion, superior cervical ganglion, celiac ganglion, inferior hypogastric (pelvic) ganglion (adapted from Foundational Model of Anatomy)[NLXANAT:100302]." xsd:string {source="NLXANAT:100302"} property_value: UBPROP:0000003 "Cranial sensory placodes are focused areas of the head ectoderm of vertebrates that contribute to the development of the cranial sense organs and their associated ganglia. Placodes have long been considered a key character of vertebrates, and their evolution is proposed to have been essential for the evolution of an active predatory lifestyle by early vertebrates.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000156", ontology="VHOG", source="DOI:10.1016/j.ydbio.2005.02.021 Mazet F, Hutt JA, Milloz J, Millard J, Graham A, Shimeld SM, Molecular evidence from Ciona intestinalis for the evolutionary origin of vertebrate sensory placodes. Developmental Biology (2005)", source="http://bgee.unil.ch/"} property_value: UBPROP:0000007 "ganglionic" xsd:string [Term] id: UBERON:0000047 name: simple eye namespace: uberon def: "An eye with one concave chamber. Note that 'simple' does not imply a reduced level of complexity or acuity." [http://en.wikipedia.org/wiki/Eye#Simple_eyes] def: "An eye with one concave chamber. Note that 'simple' does not imply a reduced level of complexity or acuity." [Wikipedia:Eye#Simple_eyes] subset: grouping_class subset: uberon_slim xref: Simple_eyes xref: TGMA:0000729 xref: Wikipedia:Eye#Simple_eyes is_a: UBERON:0000970 ! eye [Term] id: UBERON:0000055 name: vessel namespace: uberon def: "A tubular structure that contains, conveys body fluid, such as blood or lymph." [https://orcid.org/0000-0002-6601-2165] subset: grouping_class subset: pheno_slim is_a: UBERON:0004111 ! anatomical conduit relationship: channel_for UBERON:0006314 ! bodily fluid [Term] id: UBERON:0000058 name: duct namespace: uberon def: "A tubular structure that transports secreted or excreted substances." [http://orcid.org/0000-0002-6601-2165, http://www.siumed.edu/~dking2/intro/glands.htm#ducts] subset: grouping_class synonym: "anatomical duct" EXACT [] synonym: "ducts" RELATED PLURAL [XAO:0004000] synonym: "exocrine duct" NARROW [] synonym: "exocrine gland duct" NARROW [] xref: AAO:0011123 xref: Duct:(anatomy) xref: FBbt:00100314 xref: FMA:30320 xref: galen:Duct xref: http://linkedlifedata.com/resource/umls/id/C0687028 xref: http://www.snomedbrowser.com/Codes/Details/91726008 xref: NCIT:C12948 xref: SCTID:91726008 xref: TAO:0005171 xref: UMLS:C0687028 {source="ncithesaurus:Duct"} xref: Wikipedia:Duct_(anatomy) xref: XAO:0004000 xref: ZFA:0005171 is_a: UBERON:0000063 ! organ subunit relationship: conduit_for UBERON:0000463 ! organism substance relationship: has_part UBERON:0034969 ! epithelial layer of duct relationship: has_quality PATO:0002299 ! tubular property_value: UBPROP:0000001 "A tube shaped portion of tissue lined with epithelial cells that collects secretions and routes them to their destination[ZFA:0005171]." xsd:string {source="ZFA:0005171"} property_value: UBPROP:0000012 "Most ducts, but not all, are exocrine gland ducts. Some ontologies classify structures such as the oviduct here." xsd:string [Term] id: UBERON:0000060 name: anatomical wall namespace: uberon alt_id: UBERON:0009915 def: "Organ component adjacent to an organ cavity and which consists of a maximal aggregate of organ component layers." [FMA:82482] subset: upper_level synonym: "organ wall" RELATED [FMA:82482] synonym: "wall" BROAD [] synonym: "wall of organ" EXACT [FMA:82482] xref: EMAPA:25036 xref: FMA:82482 xref: galen:Wall is_a: UBERON:0000064 ! organ part relationship: adjacent_to UBERON:0002553 ! anatomical cavity relationship: has_part UBERON:0004923 ! organ component layer property_value: UBPROP:0000012 "in FMA, serosa is a wall" xsd:string {external_ontology="FMA"} [Term] id: UBERON:0000061 name: anatomical structure namespace: uberon def: "Material anatomical entity that is a single connected structure with inherent 3D shape generated by coordinated expression of the organism's own genome." [CARO:0000003] subset: upper_level synonym: "biological structure" EXACT [] synonym: "connected biological structure" EXACT [CARO:0000003] xref: AAO:0010825 xref: AEO:0000003 xref: BILA:0000003 xref: CARO:0000003 xref: EHDAA2:0003003 xref: EMAPA:0 xref: FBbt:00007001 xref: FMA:305751 xref: FMA:67135 xref: GAID:781 xref: HAO:0000003 xref: http://dbpedia.org/ontology/AnatomicalStructure xref: http://www.snomedbrowser.com/Codes/Details/362889002 xref: MA:0003000 xref: MESH:D000825 xref: SCTID:362889002 xref: TAO:0000037 xref: TGMA:0001823 xref: VHOG:0001759 xref: XAO:0003000 xref: ZFA:0000037 is_a: UBERON:0000465 ! material anatomical entity relationship: existence_ends_during_or_before UBERON:0000071 ! death stage relationship: existence_starts_during_or_after UBERON:0000106 ! zygote stage [Term] id: UBERON:0000062 name: organ namespace: uberon def: "Anatomical structure that performs a specific function or group of functions [WP]." [http://en.wikipedia.org/wiki/Organ_(anatomy)] def: "Anatomical structure that performs a specific function or group of functions [WP]." [Wikipedia:Organ_(anatomy)] subset: upper_level synonym: "anatomical unit" RELATED [] synonym: "body organ" RELATED [] synonym: "element" RELATED [http://orcid.org/0000-0002-6601-2165] xref: BIRNLEX:4 xref: CARO:0020004 xref: EFO:0000634 xref: EMAPA:35949 xref: ENVO:01000162 xref: FMA:67498 xref: http://linkedlifedata.com/resource/umls/id/C0178784 xref: http://www.snomedbrowser.com/Codes/Details/272625005 xref: MA:0003001 xref: NCIT:C13018 xref: OpenCyc:Mx4rv5XMb5wpEbGdrcN5Y29ycA xref: OpenCyc:Mx4rwP3iWpwpEbGdrcN5Y29ycA xref: Organ:(anatomy) xref: SCTID:272625005 xref: UMLS:C0178784 {source="ncithesaurus:Organ"} xref: WBbt:0003760 xref: Wikipedia:Organ_(anatomy) is_a: UBERON:0010000 ! multicellular anatomical structure disjoint_from: UBERON:0034921 ! multi organ part structure relationship: capable_of GO:0008150 ! biological_process relationship: existence_starts_during_or_after UBERON:0000111 ! organogenesis stage relationship: has_boundary UBERON:0006984 ! anatomical surface relationship: part_of UBERON:0000467 ! anatomical system property_value: RO:0002161 NCBITaxon:110815 {source="Wikipedia"} property_value: UBPROP:0000001 "Organs are commonly observed as visibly distinct structures, but may also exist as loosely associated clusters of cells that work together to perform a specific function or functions." xsd:string {source="GO:0048513"} property_value: UBPROP:0000012 "CARO v1 does not include a generic 'organ' class, only simple and compound organ. CARO v2 may include organ, see https://github.com/obophenotype/caro/issues/4" xsd:string [Term] id: UBERON:0000063 name: organ subunit namespace: uberon def: "A part of an organ that constitutes a distinct modular sub-unit. In some cases, the organ may also contain other sub-units of identical or similar types, in other cases this may be a distinct entity." [http://orcid.org/0000-0002-6601-2165] subset: upper_level synonym: "organ region with fixed fiat boundary" RELATED [FMA:86140] synonym: "organ segment" RELATED [FMA:86140] synonym: "segment of organ" RELATED [FMA:86140] xref: FMA:86140 is_a: UBERON:0000064 ! organ part property_value: editor_note "FMA distinguishes segment from zone by whether the fiat boundaries are fixed/anchored (segments) or floating (zone). It's not completely clear how to apply this distinction" xsd:string property_value: UBPROP:0000001 "Organ region with one or more anchored fiat boundaries. Examples: artery, trunk of nerve, cervical part of esophagus, pelvic part of vagina, horn of thyroid cartilage, anterior segment of eyeball." xsd:string {source="FMA:86140", version="3"} property_value: UBPROP:0000001 "Organ region with one or more fixed or anchored fiat boundaries. Examples: artery, trunk of nerve, cervical part of esophagus, pelvic part of vagina, horn of thyroid cartilage, anterior segment of eyebal." xsd:string {source="FMA:86140", version="1"} [Term] id: UBERON:0000064 name: organ part namespace: uberon def: "A multicellular structure that is a part of an organ." [http://orcid.org/0000-0002-6601-2165] subset: efo_slim subset: non_informative subset: upper_level synonym: "cardinal organ part" EXACT [FMA:82472] synonym: "regional part of organ" RELATED [BIRNLEX:16] xref: AAO:0011124 xref: BIRNLEX:16 xref: EFO:0000635 xref: FMA:82472 xref: http://www.snomedbrowser.com/Codes/Details/113343008 xref: http://www.snomedbrowser.com/Codes/Details/91717005 xref: SCTID:113343008 xref: SCTID:91717005 is_a: UBERON:0010000 ! multicellular anatomical structure relationship: part_of UBERON:0000062 ! organ property_value: IAO:0000232 "currently defined in a very broad sense, may be replaced by more specific classes in the future" xsd:string [Term] id: UBERON:0000065 name: respiratory tract namespace: uberon def: "Anatomical structure that is part of the respiratory system. In mammals consists of upper and lower tracts." [https://orcid.org/0000-0002-6601-2165] xref: EHDAA2:0001606 xref: EHDAA:1568 xref: EHDAA:2219 xref: EMAPA:16737 xref: FMA:265130 xref: http://www.snomedbrowser.com/Codes/Details/361110005 xref: OpenCyc:Mx4rvvM--pwpEbGdrcN5Y29ycA xref: SCTID:361110005 xref: VHOG:0000393 is_a: UBERON:0001005 ! respiratory airway is_a: UBERON:0004119 ! endoderm-derived structure relationship: develops_from UBERON:0007026 {source="NCBIBook:NBK10107"} ! presumptive gut relationship: develops_from UBERON:0008947 ! respiratory primordium [Term] id: UBERON:0000066 name: fully formed stage namespace: uberon def: "The stage of development at which the animal is fully formed, including immaturity and maturity. Includes both sexually immature stage, and adult stage." [https://orcid.org/0000-0002-6601-2165] subset: efo_slim synonym: "adult stage" BROAD [] synonym: "fully formed animal stage" EXACT [] synonym: "juvenile-adult stage" EXACT [] xref: BilaDO:0000004 xref: BTO:0001043 xref: EFO:0001272 xref: FBdv:00005369 xref: WBls:0000041 xref: XtroDO:0000084 is_a: UBERON:0000105 ! life cycle stage relationship: part_of UBERON:0000092 ! post-embryonic stage relationship: preceded_by UBERON:0000111 ! organogenesis stage relationship: precedes UBERON:0000071 ! death stage property_value: seeAlso https://github.com/obophenotype/uberon/issues/566 xsd:anyURI [Term] id: UBERON:0000068 name: embryo stage namespace: uberon def: "A life cycle stage that starts with fertilization and ends with the fully formed embryo." [http://orcid.org/0000-0002-6601-2165] synonym: "embryogenesis" RELATED [] synonym: "embryonic stage" EXACT [] xref: BilaDO:0000002 xref: EV:0300001 xref: FBdv:00005289 xref: FMA:72652 xref: HsapDv:0000002 xref: http://www.snomedbrowser.com/Codes/Details/296280003 xref: MmusDv:0000002 xref: OGES:000000 xref: OGES:000022 xref: SCTID:296280003 xref: WBls:0000003 xref: WBls:0000092 xref: WBls:0000102 xref: XAO:1000012 is_a: UBERON:0000105 ! life cycle stage disjoint_from: UBERON:0000092 ! post-embryonic stage relationship: part_of GO:0009790 ! embryo development relationship: precedes UBERON:0000066 ! fully formed stage relationship: precedes UBERON:0000092 ! post-embryonic stage relationship: simultaneous_with GO:0009790 ! embryo development [Term] id: UBERON:0000069 name: larval stage namespace: uberon def: "A distinct juvenile stage many animals undergo before metamorphosis into adults. Animals with indirect development such as insects, amphibians, or cnidarians typically have a larval phase of their life cycle." [http://en.wikipedia.org/wiki/Larva] subset: efo_slim synonym: "ammocoete" NARROW SENSU [http://en.wikipedia.org/wiki/Larva] synonym: "ammocoete stage" NARROW SENSU [http://en.wikipedia.org/wiki/Larva] synonym: "bipinnaria" NARROW SENSU [http://en.wikipedia.org/wiki/Larva] synonym: "bipinnaria stage" NARROW SENSU [http://en.wikipedia.org/wiki/Larva] synonym: "caterpillar" NARROW SENSU [http://en.wikipedia.org/wiki/Larva] synonym: "caterpillar stage" NARROW SENSU [http://en.wikipedia.org/wiki/Larva] synonym: "glochidium" NARROW SENSU [http://en.wikipedia.org/wiki/Larva] synonym: "glochidium stage" NARROW SENSU [http://en.wikipedia.org/wiki/Larva] synonym: "grub" NARROW SENSU [http://en.wikipedia.org/wiki/Larva] synonym: "grub stage" NARROW SENSU [http://en.wikipedia.org/wiki/Larva] synonym: "larva" RELATED [] synonym: "larva stage" EXACT [] synonym: "leptocephalus" NARROW SENSU [http://en.wikipedia.org/wiki/Larva] synonym: "leptocephalus stage" NARROW SENSU [http://en.wikipedia.org/wiki/Larva] synonym: "maggot" NARROW SENSU [http://en.wikipedia.org/wiki/Larva] synonym: "maggot stage" NARROW SENSU [http://en.wikipedia.org/wiki/Larva] synonym: "metacestode" NARROW SENSU [BTO:0000859] synonym: "naiad, nymph" NARROW SENSU [http://en.wikipedia.org/wiki/Larva] synonym: "naiad, nymph stage" NARROW SENSU [http://en.wikipedia.org/wiki/Larva] synonym: "nauplius" NARROW SENSU [http://en.wikipedia.org/wiki/Larva] synonym: "nauplius stage" NARROW SENSU [http://en.wikipedia.org/wiki/Larva] synonym: "nymph" NARROW SENSU [http://en.wikipedia.org/wiki/Larva] synonym: "nymph stage" NARROW SENSU [http://en.wikipedia.org/wiki/Larva] synonym: "planula" NARROW SENSU [http://en.wikipedia.org/wiki/Larva] synonym: "planula stage" NARROW SENSU [http://en.wikipedia.org/wiki/Larva] synonym: "tornaria" NARROW SENSU [NCBITaxon:10219] synonym: "trochophore" NARROW SENSU [http://en.wikipedia.org/wiki/Larva] synonym: "trochophore stage" NARROW SENSU [http://en.wikipedia.org/wiki/Larva] synonym: "veliger" NARROW SENSU [http://en.wikipedia.org/wiki/Larva] synonym: "veliger stage" NARROW SENSU [http://en.wikipedia.org/wiki/Larva] synonym: "wriggler" NARROW SENSU [http://en.wikipedia.org/wiki/Larva] synonym: "wriggler stage" NARROW SENSU [http://en.wikipedia.org/wiki/Larva] synonym: "zoea" NARROW SENSU [http://en.wikipedia.org/wiki/Larva] synonym: "zoea stage" NARROW SENSU [http://en.wikipedia.org/wiki/Larva] xref: BTO:0000915 xref: BTO:0000954 xref: EFO:0001303 xref: FBdv:00005336 xref: http://en.wikipedia.org/wiki/Larva xref: MIAA:0000400 xref: OGES:000008 xref: ZFS:0000048 is_a: UBERON:0000105 ! life cycle stage relationship: immediately_preceded_by UBERON:0000068 ! embryo stage relationship: part_of GO:0002164 ! larval development relationship: part_of UBERON:0000092 ! post-embryonic stage relationship: simultaneous_with GO:0002164 ! larval development property_value: IAO:0000232 "Uberon includes clade-specific subclasses, e.g. nematod larva" xsd:string property_value: RO:0002161 NCBITaxon:32524 property_value: UBPROP:0000008 "It is a misunderstanding that the larval form always reflects the group's evolutionary history. It could be the case, but often the larval stage has evolved secondarily, as in insects. In these cases the larval form might differ more from the group's common origin than the adult form" xsd:string {source="WP"} [Term] id: UBERON:0000071 name: death stage namespace: uberon def: "End of the life of an organism." [XAO:0000437] synonym: "death" RELATED [] xref: XAO:0000437 xref: XtroDO:0000085 is_a: UBERON:0000105 ! life cycle stage relationship: ends UBERON:0000104 ! life cycle property_value: UBPROP:0000012 "ncit:Death is an outcome" xsd:string {external_ontology="ncit"} [Term] id: UBERON:0000072 name: proximo-distal subdivision of respiratory tract namespace: uberon def: "An section of a respiratory tract." [http://orcid.org/0000-0002-6601-2165] subset: non_informative synonym: "respiratory tract" RELATED [MA:0000434] synonym: "subdivision of respiratory tract" RELATED [] xref: EMAPA:16737 xref: FMA:45660 xref: MA:0000434 is_a: UBERON:0004119 ! endoderm-derived structure is_a: UBERON:0013522 ! subdivision of tube intersection_of: UBERON:0013522 ! subdivision of tube intersection_of: part_of UBERON:0000065 ! respiratory tract relationship: part_of UBERON:0000065 ! respiratory tract property_value: UBPROP:0000012 "MA:0000434 has subclasses upper and lower, so it corresponds to a segment of the tract, rather than the tract as a whole" xsd:string {external_ontology="MA"} [Term] id: UBERON:0000073 name: regional part of nervous system namespace: uberon def: "Any part or collection of parts of the central or peripheral nervous system. Parts may span both CNS and PNS." [BIRNLEX:1157] subset: non_informative subset: upper_level synonym: "part of nervous system" EXACT [BIRNLEX:1157] xref: BIRNLEX:1157 xref: http://linkedlifedata.com/resource/umls/id/C1518256 xref: http://www.snomedbrowser.com/Codes/Details/25087005 xref: NCIT:C13040 xref: SCTID:25087005 xref: UMLS:C1518256 {source="ncithesaurus:Nervous_System_Part"} is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000481 ! multi-tissue structure intersection_of: UBERON:0000481 ! multi-tissue structure intersection_of: part_of UBERON:0001016 ! nervous system relationship: part_of UBERON:0001016 ! nervous system property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0001-9114-8737 created_by: Melissa Haendel creation_date: 2009-06-18T09:00:04Z [Term] id: UBERON:0000075 name: subdivision of skeletal system namespace: uberon alt_id: UBERON:0010322 def: "Anatomical cluster consisting of the skeletal elements and articular elements that are part of an individual subdivision of the organism." [https://orcid.org/0000-0002-6601-2165, UBERONREF:0000003] subset: non_informative synonym: "skeletal system part" RELATED [] synonym: "skeletal system subdivision" EXACT [FMA:85544] xref: FMA:85544 xref: galen:ComplexSkeletalStructure xref: http://linkedlifedata.com/resource/umls/id/C1519343 xref: http://www.snomedbrowser.com/Codes/Details/118966000 xref: NCIT:C34076 xref: SCTID:118966000 xref: UMLS:C1519343 {source="ncithesaurus:Skeletal_System_Part"} is_a: UBERON:0011216 {source="cjm"} ! organ system subdivision relationship: composed_primarily_of UBERON:0004765 ! skeletal element relationship: has_part UBERON:0004765 ! skeletal element relationship: only_in_taxon NCBITaxon:7711 ! Chordata relationship: part_of UBERON:0001434 ! skeletal system [Term] id: UBERON:0000076 name: external ectoderm namespace: uberon def: "The surface (external) layer of ectoderm which begins to proliferate shortly after separation from the neuroectoderm." [MGI:anna, MP:0012532] subset: pheno_slim synonym: "surface (external) ectoderm" EXACT [] synonym: "surface ectoderm" EXACT [MP:0012532] xref: EHDAA2:0001968 xref: EHDAA:1494 xref: EHDAA:350 xref: EHDAA:4784 xref: EHDAA:4790 xref: EHDAA:4796 xref: EHDAA:7860 xref: EMAPA:16096 xref: External:ectoderm xref: FMA:87656 xref: http://linkedlifedata.com/resource/umls/id/C1515087 xref: NCIT:C34309 xref: UMLS:C1515087 {source="ncithesaurus:Surface_Ectoderm"} xref: Wikipedia:External_ectoderm is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000490 {source="EHDAA2"} ! unilaminar epithelium is_a: UBERON:0005291 ! embryonic tissue relationship: part_of UBERON:0000924 {source="EHDAA2"} ! ectoderm property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/1/1d/Ectoderm.png xsd:anyURI property_value: editor_note "merge with non-neural. In vertebrates, the ectoderm has three parts: external ectoderm (also known as surface ectoderm), the neurectoderm (neural crest, and neural tube)" xsd:string property_value: RO:0002171 UBERON:0002346 property_value: UBPROP:0000011 "(or external ectoderm) forms the following structures: Skin Epithelium of the mouth and nasal cavity saliavary glands, and glands of mouth and nasal cavity Enamel - as a side note dentin and dental pulp are formed from ectomesenchyme which is derived from ectoderm Epithelium of pineal and pituitary glands Lens and cornea of the eye Apical ectodermal ridge inducing development of the limb buds of the embryo. Sensory receptors in epidermis" xsd:string [Term] id: UBERON:0000077 name: mixed endoderm/mesoderm-derived structure namespace: uberon def: "An anatomical structure that develops from the endoderm and the mesoderm." [https://orcid.org/0000-0002-6601-2165] subset: grouping_class is_a: UBERON:0004119 ! endoderm-derived structure is_a: UBERON:0004120 ! mesoderm-derived structure intersection_of: UBERON:0000061 ! anatomical structure intersection_of: develops_from UBERON:0000925 ! endoderm intersection_of: develops_from UBERON:0000926 ! mesoderm property_value: IAO:0000232 "Grouping term for query purposes. Notes that the developmental relationships are being refined such that most structures should develop in whole from at most one layer, but may have contributions from multiple" xsd:string [Term] id: UBERON:0000078 name: mixed ectoderm/mesoderm/endoderm-derived structure namespace: uberon def: "An anatomical structure that develops from the ectoderm, mesoderm and endoderm." [https://orcid.org/0000-0002-6601-2165] subset: grouping_class is_a: UBERON:0000077 ! mixed endoderm/mesoderm-derived structure is_a: UBERON:0004121 ! ectoderm-derived structure intersection_of: UBERON:0000061 ! anatomical structure intersection_of: develops_from UBERON:0000924 ! ectoderm intersection_of: develops_from UBERON:0000925 ! endoderm intersection_of: develops_from UBERON:0000926 ! mesoderm property_value: IAO:0000232 "Grouping term for query purposes. Notes that the developmental relationships are being refined such that most structures should develop in whole from at most one layer, but may have contributions from multiple" xsd:string [Term] id: UBERON:0000092 name: post-embryonic stage namespace: uberon def: "stage succeeding embryo, including mature structure" [https://orcid.org/0000-0002-6601-2165] def: "Stage succeeding embryo, including mature structure." [https://orcid.org/0000-0002-6601-2165] synonym: "post-hatching stage" NARROW [] synonym: "postembryonic" RELATED [] synonym: "postembryonic stage" EXACT [] xref: BilaDO:0000003 xref: OGES:000010 xref: OGES:000014 xref: OGES:000024 xref: WBls:0000022 xref: WBls:0000093 xref: WBls:0000103 is_a: UBERON:0000105 ! life cycle stage relationship: part_of GO:0009791 ! post-embryonic development relationship: preceded_by UBERON:0000068 ! embryo stage relationship: simultaneous_with GO:0009791 ! post-embryonic development property_value: seeAlso https://github.com/obophenotype/uberon/issues/344 xsd:anyURI property_value: UBPROP:0000008 "In birds, the postnatal stage begins when the beak penetrates the shell (i.e., external pipping) (Brown et al. 1997)" xsd:string [Term] id: UBERON:0000094 name: membrane organ namespace: uberon def: "Nonparenchymatous organ that primarily consists of dense connective tissue organized into a sheet which interconnects two or more organs, separates two or more body spaces from one another, or surrounds an organ or body part. Examples: interosseous membrane of forearm, obturator membrane, tympanic membrane, fibrous pericardium, fascia lata, dura mater. [FMA]" [FMA:7145] def: "Nonparenchymatous organ that primarily consists of dense connective tissue organized into a sheet which interconnects two or more organs, separates two or more body spaces from one another, or surrounds an organ or body part. Examples: interosseous membrane of forearm, obturator membrane, tympanic membrane, fibrous pericardium, fascia lata, dura mater. [FMA]." [FMA:7145] synonym: "membrane" BROAD [] synonym: "membrane of organ" EXACT [] xref: FMA:7145 is_a: UBERON:0000062 ! organ relationship: composed_primarily_of UBERON:0011823 {source="FMA-def"} ! dense connective tissue relationship: has_part UBERON:0011823 ! dense connective tissue property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0002-6601-2165 created_by: cjm creation_date: 2009-07-30T05:19:13Z [Term] id: UBERON:0000095 name: cardiac neural crest namespace: uberon def: "Portion of neural crest that develops from the dorsal neural tube. It overlaps the vagal neural crest and migrates to populate the pharyngeal arches 3, 4 and 6 (producing structures in the head) and to the heart, forming connective tissue that separates the great vessels of the heart. [Wikipedia]." [Wikipedia:Cardiac_neural_crest] def: "Portion of neural crest that develops from the dorsal neural tube. It overlaps the vagal neural crest and migrates to populate the pharyngeal arches 3, 4 and 6 (producing structures in the head) and to the heart, forming connective tissue that separates the great vessels of the heart. [Wikipedia]." [http://en.wikipedia.org/wiki/Cardiac_neural_crest] subset: vertebrate_core synonym: "cardiac neural crest complex" RELATED [Wikipedia:Cardiac_neural_crest] synonym: "cardiac neural crest complex" RELATED [http://en.wikipedia.org/wiki/Cardiac_neural_crest] synonym: "complexus cristae neuralis cardiacus" RELATED [http://en.wikipedia.org/wiki/Cardiac_neural_crest] synonym: "complexus cristae neuralis cardiacus" RELATED [Wikipedia:Cardiac_neural_crest] xref: http://en.wikipedia.org/wiki/Cardiac_neural_crest xref: TAO:0002173 xref: Wikipedia:Cardiac_neural_crest xref: XAO:0004190 xref: ZFA:0001648 is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0005291 ! embryonic tissue relationship: overlaps UBERON:0005428 {source="Wikipedia"} ! vagal neural crest relationship: part_of UBERON:0002342 ! neural crest property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0002-6601-2165 property_value: UBPROP:0000001 "A subpopulation of the cephalic neural crest that emerges from the otic level to the anterior limit of somite 4. It migrates to the heart and is essential for the septation of the outflow track[DOI:10.1242/dev.091751]." xsd:string {source="https://doi.org/10.1242/dev.091751"} property_value: UBPROP:0000001 "A subpopulation of the cephalic neural crest that emerges from the otic level to the anterior limit of somite 4. It migrates to the heart and is essential for the septation of the outflow track[DOI:10.1242/dev.091751]." xsd:string {source="DOI:10.1242/dev.091751"} property_value: UBPROP:0000012 "ZFA treats this as a subtype of NC." xsd:string {external_ontology="ZFA"} created_by: cjm creation_date: 2009-07-30T07:57:38Z [Term] id: UBERON:0000102 name: lung vasculature namespace: uberon def: "The lung vasculature is composed of the tubule structures that carry blood or lymph in the lungs[GO]." [GOC:GO] subset: pheno_slim synonym: "lung vascular network" EXACT [OBOL:automatic] synonym: "pulmonary vasculature" EXACT [FMA:73750] synonym: "vascular network of lung" EXACT [OBOL:automatic] synonym: "vasculature of lung" EXACT [OBOL:automatic] xref: FMA:73750 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0002201 ! vasculature of trunk is_a: UBERON:0006876 ! vasculature of organ intersection_of: UBERON:0002049 ! vasculature intersection_of: part_of UBERON:0002048 ! lung relationship: part_of UBERON:0002048 ! lung [Term] id: UBERON:0000104 name: life cycle namespace: uberon def: "An entire span of an organism's life, commencing with the zygote stage and ending in the death of the organism." [https://orcid.org/0000-0002-6601-2165] subset: upper_level synonym: "entire life cycle" EXACT [] synonym: "entire lifespan" EXACT [] synonym: "life" EXACT [] synonym: "lifespan" EXACT [] xref: FBdv:00000000 xref: HsapDv:0000001 xref: MmusDv:0000001 xref: ncithesaurus:Life xref: OGES:000011 is_a: UBERON:0000000 ! processual entity relationship: ends_with UBERON:0000071 ! death stage relationship: has_part UBERON:0000105 ! life cycle stage relationship: starts_with UBERON:0000106 ! zygote stage property_value: seeAlso https://github.com/obophenotype/uberon/issues/532 xsd:anyURI [Term] id: UBERON:0000105 name: life cycle stage namespace: uberon def: "A spatiotemporal region encompassing some part of the life cycle of an organism." [https://orcid.org/0000-0002-6601-2165] subset: efo_slim subset: upper_level synonym: "developmental stage" NARROW [] synonym: "stage" NARROW [] xref: BILS:0000105 xref: EFO:0000399 xref: FBdv:00007012 xref: FMA:24120 xref: HsapDv:0000000 xref: MmusDv:0000000 xref: ncithesaurus:Developmental_Stage xref: OlatDv:0000010 xref: PdumDv:0000090 xref: WBls:0000002 xref: XAO:1000000 xref: ZFS:0000000 xref: ZFS:0100000 is_a: UBERON:0000000 ! processual entity relationship: part_of UBERON:0000104 ! life cycle property_value: editor_note "this class represents a proper part of the life cycle of an organism. The class 'life cycle' should not be placed here" xsd:string property_value: UBPROP:0000012 "the WBls class 'all stages' belongs here as it is the superclass of other WBls stages" xsd:string property_value: UBPROP:0000012 "we map the ZFS unknown stage here as it is logically equivalent to saying *some* life cycle stage" xsd:string [Term] id: UBERON:0000106 name: zygote stage namespace: uberon def: "A stage at which the organism is a single cell produced by means of sexual reproduction." [http://en.wikipedia.org/wiki/Zygote] def: "A stage at which the organism is a single cell produced by means of sexual reproduction." [Wikipedia:Zygote] subset: efo_slim synonym: "1-cell stage" EXACT [] synonym: "fertilized egg stage" EXACT [BTO:0000854] synonym: "fertilized egg stage" RELATED [] synonym: "one cell stage" EXACT [] synonym: "one-cell stage" RELATED [VHOG:0000745] synonym: "zygote" RELATED [VHOG:0000745] synonym: "zygotum" RELATED LATIN [http://en.wikipedia.org/wiki/Zygote] synonym: "zygotum" RELATED LATIN [Wikipedia:Zygote] xref: BilaDO:0000005 xref: BILS:0000106 xref: EFO:0001322 xref: EHDAA:27 xref: FBdv:00005288 xref: http://en.wikipedia.org/wiki/Zygote xref: NCIT:C12601 xref: PdumDv:0000100 xref: VHOG:0000745 xref: Wikipedia:Zygote xref: XAO:1000001 xref: ZFS:0000001 is_a: UBERON:0000105 ! life cycle stage relationship: part_of UBERON:0000068 ! embryo stage relationship: starts UBERON:0000104 ! life cycle property_value: seeAlso EMAPA:16033 property_value: UBPROP:0000003 "As in all metazoans, eumetazoan development begins with a fertilized egg, or zygote.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000745", ontology="VHOG", source="ISBN:978-0030259821 Ruppert EE, Fox RS, Barnes RD, Invertebrate zoology: a functional evolutionary approach (2003) p.107", source="http://bgee.unil.ch/"} property_value: UBPROP:0000003 "As in all metazoans, eumetazoan development begins with a fertilized egg, or zygote.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000745", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0030259821 Ruppert EE, Fox RS, Barnes RD, Invertebrate zoology: a functional evolutionary approach (2003) p.107"} [Term] id: UBERON:0000107 name: cleavage stage namespace: uberon def: "The first few specialized divisions of an activated animal egg; Stage consisting of division of cells in the early embryo. The zygotes of many species undergo rapid cell cycles with no significant growth, producing a cluster of cells the same size as the original zygote. The different cells derived from cleavage are called blastomeres and form a compact mass called the morula. Cleavage ends with the formation of the blastula." [GO:0040016, http://en.wikipedia.org/wiki/Cleavage_(embryo)] def: "The first few specialized divisions of an activated animal egg; Stage consisting of division of cells in the early embryo. The zygotes of many species undergo rapid cell cycles with no significant growth, producing a cluster of cells the same size as the original zygote. The different cells derived from cleavage are called blastomeres and form a compact mass called the morula. Cleavage ends with the formation of the blastula." [GO:0040016, Wikipedia:Cleavage_(embryo)] subset: efo_slim xref: BilaDO:0000006 xref: BILS:0000107 xref: Cleavage:(embryo) xref: EFO:0001290 xref: FBdv:00000054 xref: MESH:A16.254.270 xref: MmusDv:0000004 xref: OGES:000015 xref: OGES:000020 xref: PdumDv:0000200 xref: Wikipedia:Cleavage_(embryo) xref: XAO:1000004 xref: ZFS:0000046 is_a: UBERON:0000105 ! life cycle stage intersection_of: UBERON:0000105 ! life cycle stage intersection_of: simultaneous_with GO:0040016 ! embryonic cleavage relationship: immediately_preceded_by UBERON:0000106 ! zygote stage relationship: part_of GO:0040016 ! embryonic cleavage relationship: part_of UBERON:0000068 ! embryo stage relationship: simultaneous_with GO:0040016 ! embryonic cleavage [Term] id: UBERON:0000108 name: blastula stage namespace: uberon def: "An early stage of embryonic development in animals. It is produced by cleavage of a fertilized ovum and consists of a spherical layer of around 128 cells surrounding a central fluid-filled cavity called the blastocoel. The blastula follows the morula and precedes the gastrula in the developmental sequence." [Wikipedia:Blastula] def: "An early stage of embryonic development in animals. It is produced by cleavage of a fertilized ovum and consists of a spherical layer of around 128 cells surrounding a central fluid-filled cavity called the blastocoel. The blastula follows the morula and precedes the gastrula in the developmental sequence." [http://en.wikipedia.org/wiki/Blastula] subset: efo_slim xref: BilaDO:0000007 xref: BILS:0000108 xref: EFO:0001282 xref: HsapDv:0000006 xref: http://en.wikipedia.org/wiki/Blastula xref: MmusDv:0000007 xref: OGES:000003 xref: OGES:000016 xref: OGES:000021 xref: OpenCyc:Mx4rEetFnKP2EdqAAAACs4vPlg xref: WBls:0000005 xref: Wikipedia:Blastula xref: XAO:1000003 xref: ZFS:0000045 is_a: UBERON:0000105 ! life cycle stage relationship: part_of UBERON:0000068 ! embryo stage relationship: preceded_by UBERON:0000107 ! cleavage stage property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/c/c6/Blastulation.png xsd:anyURI property_value: editor_note "consider adding a preceding stage 'morula stage' as part of cleavage" xsd:string [Term] id: UBERON:0000109 name: gastrula stage namespace: uberon def: "A stage defined by complex and coordinated series of cellular movements that occurs at the end of cleavage during embryonic development of most animals. The details of gastrulation vary from species to species, but usually result in the formation of the three primary germ layers, ectoderm, mesoderm and endoderm." [GO:0007369] subset: efo_slim synonym: "blastocystis trilaminaris stage" RELATED [https://orcid.org/0000-0002-6601-2165] synonym: "trilaminar blastocyst stage" RELATED [https://orcid.org/0000-0002-6601-2165] synonym: "trilaminar blastoderm stage" RELATED [https://orcid.org/0000-0002-6601-2165] synonym: "trilaminar disk stage" RELATED [https://orcid.org/0000-0002-6601-2165] synonym: "trilaminar germ stage" RELATED [https://orcid.org/0000-0002-6601-2165] synonym: "trilaminar stage" RELATED [https://orcid.org/0000-0002-6601-2165] xref: BilaDO:0000008 xref: BILS:0000109 xref: EFO:0001296 xref: FBdv:00005317 xref: HsapDv:0000010 xref: MmusDv:0000013 xref: OGES:000004 xref: OGES:000019 xref: WBls:0000010 xref: XAO:1000005 xref: ZFS:0000047 is_a: UBERON:0000105 ! life cycle stage relationship: only_in_taxon NCBITaxon:6072 ! Eumetazoa relationship: part_of GO:0007369 ! gastrulation relationship: part_of UBERON:0000068 ! embryo stage relationship: preceded_by UBERON:0000108 {source="BILS"} ! blastula stage relationship: simultaneous_with GO:0007369 ! gastrulation [Term] id: UBERON:0000110 name: neurula stage namespace: uberon def: "Staged defined by the formation of a tube from the flat layer of ectodermal cells known as the neural plate. This will give rise to the central nervous system." [GO:0001841] xref: BilaDO:0000009 xref: BILS:0000110 xref: HsapDv:0000012 xref: MmusDv:0000017 xref: XAO:1000006 is_a: UBERON:0000105 ! life cycle stage relationship: only_in_taxon NCBITaxon:6072 ! Eumetazoa relationship: part_of GO:0001841 ! neural tube formation relationship: part_of UBERON:0000068 ! embryo stage relationship: preceded_by UBERON:0000109 ! gastrula stage relationship: simultaneous_with GO:0001841 ! neural tube formation property_value: seeAlso https://github.com/obophenotype/uberon/issues/343 xsd:anyURI [Term] id: UBERON:0000111 name: organogenesis stage namespace: uberon def: "A stage at which the ectoderm, endoderm, and mesoderm develop into the internal organs of the organism." [http://en.wikipedia.org/wiki/Organogenesis] def: "A stage at which the ectoderm, endoderm, and mesoderm develop into the internal organs of the organism." [Wikipedia:Organogenesis] synonym: "segmentation stage" RELATED [] xref: BilaDO:0000010 xref: BILS:0000111 xref: HsapDv:0000015 xref: http://en.wikipedia.org/wiki/Organogenesis xref: MmusDv:0000018 xref: OGES:000005 xref: OGES:000032 xref: Wikipedia:Organogenesis is_a: UBERON:0000105 ! life cycle stage relationship: only_in_taxon NCBITaxon:6072 ! Eumetazoa relationship: part_of GO:0048513 ! animal organ development relationship: part_of UBERON:0000068 ! embryo stage relationship: preceded_by UBERON:0000110 ! neurula stage relationship: simultaneous_with GO:0048513 ! animal organ development property_value: seeAlso https://github.com/obophenotype/uberon/issues/533 xsd:anyURI [Term] id: UBERON:0000112 name: sexually immature stage namespace: uberon subset: efo_slim synonym: "immature stage" EXACT [VHOG:FB] synonym: "juvenile stage" NARROW [XAO:1000010] synonym: "subadult stage" RELATED [http://eol.org/schema/terms/subadult] xref: BILS:0000112 xref: BTO:0002168 xref: EFO:0001300 xref: EV:0300051 xref: MmusDv:0000043 xref: OGES:000009 xref: XAO:1000010 xref: XtroDO:0000083 xref: ZFS:0000051 is_a: UBERON:0000105 ! life cycle stage relationship: part_of UBERON:0000066 ! fully formed stage property_value: seeAlso https://github.com/obophenotype/uberon/issues/427 xsd:anyURI property_value: UBPROP:0000001 "The stage of being a sexually immature adult animal[XAO:1000010]." xsd:string {source="XAO:1000010"} property_value: UBPROP:0000008 "In mammals this would include infant (nourishment from lactation) and juvenile (prepubertal no longer dependent on mother)" xsd:string [Term] id: UBERON:0000113 name: post-juvenile adult stage namespace: uberon def: "The stage of being a sexually mature adult animal." [https://orcid.org/0000-0002-6601-2165] synonym: "adult stage" BROAD [] xref: BILS:0000113 xref: EV:0300064 xref: EV:0300070 xref: MIAA:0000403 xref: MmusDv:0000110 xref: OGES:000026 xref: OGES:000027 xref: XAO:1000093 xref: ZFS:0000044 is_a: UBERON:0000105 ! life cycle stage relationship: part_of UBERON:0000066 ! fully formed stage relationship: preceded_by UBERON:0000112 ! sexually immature stage property_value: seeAlso https://github.com/obophenotype/uberon/issues/345 xsd:anyURI property_value: seeAlso https://github.com/obophenotype/uberon/issues/499 xsd:anyURI [Term] id: UBERON:0000114 name: lung connective tissue namespace: uberon def: "The connective tissue located between the respiratory (airway and alveolar) epithelium, the capillary endothelium and pleural mesothelium; it contains basement membrane composed of collagen, elastin, proteoglycans, and fibronectin." [http://www.ncbi.nlm.nih.gov/pubmed/14635660, ISBN:0-683-40008-8, MGI:anna, MP:0002276] def: "The connective tissue located between the respiratory (airway and alveolar) epithelium, the capillary endothelium and pleural mesothelium; it contains basement membrane composed of collagen, elastin, proteoglycans, and fibronectin." [ISBN:0-683-40008-8, MGI:anna, MP:0002276, PMID:14635660] subset: pheno_slim synonym: "connective tissue of lung" EXACT [OBOL:automatic] synonym: "lung interstitial tissue" RELATED [MA:0001782] synonym: "lung interstitium" RELATED [] synonym: "pulmonary connective tissue" RELATED [EMAPA:35521] synonym: "pulmonary interstitial tissue" RELATED [] synonym: "pulmonary interstitium" EXACT [FMA:27533] xref: EMAPA:35521 xref: FMA:27533 xref: http://www.snomedbrowser.com/Codes/Details/201609008 xref: MA:0001782 xref: SCTID:201609008 is_a: UBERON:0000077 ! mixed endoderm/mesoderm-derived structure is_a: UBERON:0003580 ! lower respiratory tract connective tissue is_a: UBERON:0003837 ! thoracic segment connective tissue intersection_of: UBERON:0002384 ! connective tissue intersection_of: part_of UBERON:0002048 ! lung relationship: contributes_to_morphology_of UBERON:0002048 ! lung relationship: develops_from UBERON:0004883 ! lung mesenchyme relationship: part_of UBERON:0002048 ! lung relationship: transformation_of UBERON:0004883 ! lung mesenchyme property_value: UBPROP:0000009 "it functions in the mechanical behavior of the lung, and forms a barrier to regulate the flow of plasma constituents from the capillaries to the airway and alveolar spaces" xsd:string [Term] id: UBERON:0000115 name: lung epithelium namespace: uberon def: "The epithelial layer of the lung." [MP:0006382] subset: pheno_slim synonym: "epithelial tissue of lung" EXACT [OBOL:automatic] synonym: "epithelium of lung" EXACT [OBOL:automatic] synonym: "lung epithelial tissue" EXACT [OBOL:automatic] synonym: "pulmonary epithelium" RELATED [BTO:0001653] xref: BTO:0001653 xref: EMAPA:32860 xref: MA:0001783 is_a: UBERON:0004815 ! lower respiratory tract epithelium intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0002048 ! lung relationship: contributes_to_morphology_of UBERON:0002048 ! lung relationship: develops_from UBERON:0001041 ! foregut relationship: part_of UBERON:0002048 ! lung property_value: UBPROP:0000008 "A pseudostratified epithelium, containing basal cells, stem cells of the airway, submucosal glands and cartilage rings, is limited to the trachea and large lobar airways in the mouse (Morrisey and Hogan, 2010). This more complex epithelium extends to terminal bronchioles in the human[DOI:10.1242/dev.115469]" xsd:string [Term] id: UBERON:0000117 name: respiratory tube namespace: uberon def: "A tube in the respiratory system. Examples: bronchus, bronchiole, trachea." [GO:0030323, http://orcid.org/0000-0002-6601-2165] synonym: "airway" RELATED [] synonym: "respiratory conducting tube" NARROW [MP:0004391] synonym: "segment of tracheobronchial tree" EXACT [FMA:12224] synonym: "segment of tracheobronchial tree" NARROW [FMA:12224] synonym: "tracheobronchial tree segment" NARROW [FMA:12224] xref: EMAPA:37946 {source="MA:th"} xref: FMA:12224 is_a: UBERON:0000025 ! tube is_a: UBERON:0004119 ! endoderm-derived structure intersection_of: UBERON:0000025 ! tube intersection_of: part_of UBERON:0000065 ! respiratory tract relationship: has_part UBERON:0000483 ! epithelium relationship: part_of UBERON:0000065 ! respiratory tract property_value: UBPROP:0000012 "in GO lung development is part of respiratory tube development. This can lead to inconsistencies with other ontologies, e.g. VT. The GO structure may be better represented by a tree of tubes (see the FMA class)" xsd:string {external_ontology="GO"} [Term] id: UBERON:0000118 name: lung bud namespace: uberon def: "Structure derived from foregut that becomes a lung[GO]." [GO:0060431, http://en.wikipedia.org/wiki/Respiratory_bud] def: "Structure derived from foregut that becomes a lung[GO]." [GO:0060431, Wikipedia:Respiratory_bud] subset: pheno_slim synonym: "gemma pulmonalis" RELATED LATIN [Wikipedia:Lung_buds] synonym: "gemma pulmonalis" RELATED LATIN [http://en.wikipedia.org/wiki/Lung_buds] synonym: "gemma respiratoria" RELATED LATIN [Wikipedia:Lung_buds] synonym: "gemma respiratoria" RELATED LATIN [http://en.wikipedia.org/wiki/Lung_buds] synonym: "lung bud" RELATED PLURAL [] synonym: "primary lung bud" RELATED [GO:0060572] synonym: "respiratory diverticulum" RELATED [Wikipedia:Lung_buds] synonym: "respiratory diverticulum" RELATED [http://en.wikipedia.org/wiki/Lung_buds] xref: BTO:0001643 xref: EHDAA2:0004089 xref: http://linkedlifedata.com/resource/umls/id/C1514420 xref: http://linkedlifedata.com/resource/umls/id/C1514897 xref: http://www.snomedbrowser.com/Codes/Details/361427007 xref: NCIT:C34260 xref: NCIT:C34282 xref: Respiratory:bud xref: SCTID:361427007 xref: UMLS:C1514420 {source="ncithesaurus:Primary_Bronchial_Bud"} xref: UMLS:C1514897 {source="ncithesaurus:Respiratory_Diverticulum"} xref: Wikipedia:Respiratory_bud is_a: UBERON:0005153 {source="GO:0060441"} ! epithelial bud is_a: UBERON:0005911 ! endo-epithelium relationship: adjacent_to UBERON:0004872 ! splanchnic layer of lateral plate mesoderm relationship: develops_from UBERON:0005597 ! lung primordium relationship: develops_from UBERON:0008947 {source="EHDAA2"} ! respiratory primordium property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/7/71/Gray948.png xsd:anyURI property_value: editor_note "clarify successors - include bronchi?" xsd:string [Term] id: UBERON:0000122 name: neuron projection bundle namespace: uberon alt_id: UBERON:0005163 def: "A fasciculated bundle of neuron projections (GO:0043005), largely or completely lacking synapses." [CARO:0001001, FBbt:00005099, FBC:DOS] synonym: "funiculus" EXACT [] synonym: "nerve fiber bundle" EXACT [FBbt:00005099] synonym: "neural fiber bundle" EXACT [] xref: CARO:0001001 xref: FBbt:00005099 xref: NLX:147821 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0005162 ! multi cell part structure relationship: has_part GO:0043005 ! neuron projection relationship: part_of UBERON:0001016 ! nervous system [Term] id: UBERON:0000125 name: neural nucleus namespace: uberon def: "A spatially aggregated collection of nerve cell bodies in the CNS, consisting of one or more subpopulations that share cell type, chemical phenotype, and connections, and including nearby cells that share the same cell type, chemical phenotype, and connections. (CUMBO)." [NLX:28443] subset: cumbo synonym: "nervous system nucleus" EXACT [] synonym: "neuraxis nucleus" EXACT [FMA:83686] synonym: "neuronal nucleus" EXACT [AEO:0000136] synonym: "nucleus" BROAD [] synonym: "nucleus of CNS" EXACT [NLX:28443] synonym: "nucleus of neuraxis" RELATED [] xref: AEO:0000136 xref: FMA:83686 xref: NCIT:C13197 xref: NLX:28443 xref: Wikipedia:Nucleus_(neuroanatomy) is_a: UBERON:0011215 ! central nervous system cell part cluster relationship: composed_primarily_of UBERON:0002020 ! gray matter relationship: only_in_taxon NCBITaxon:7711 {notes="we limit this structure by definition to chordate and vertebrate nervous systems"} ! Chordata property_value: UBPROP:0000001 "Anatomical structure consisting of a discrete aggregate of neuronal soma[GO][GO_REF:0000021]." xsd:string {source="GO_REF:0000021"} property_value: UBPROP:0000012 "Proposed CUMBO def from MM: A subcortical part of the nervous system consisting of a relatively compact group of cells that is distinguishable histologically that share a commonality of cytoarchitecture, chemoarchitecturel and connectivity. (comments: I put in 'subcortical' because I don't think we consider either the cerebellar cortex or cerebral cortex to be nuclei. Some people distinguish between a nucleus and a laminar structure (see Wikipedia definition). However, there are structures identified as nuclei that are laminar, e.g., lateral geniculate nucleus, although they are not laminated in all species. Also, I put in 'relatively compact' and 'distiguishable by histology' because we have groups of cells, e.g., cholinergic cell groups, doparminergic cell groups that are related on the 3 criteria but which we don't tend to consider nuclei because they don't occupy an easily defined territory. But all is open to debate." xsd:string [Term] id: UBERON:0000126 name: cranial nerve nucleus namespace: uberon def: "Nucleus that receives projections from or contains neurons that send projections through one of the cranial nerves." [NLX:28532] synonym: "cranial neural nucleus" EXACT [FMA:54501] synonym: "nucleus nervi cranialis" RELATED LATIN [Wikipedia:Cranial_nerve_nucleus] synonym: "nucleus of cranial nerve" EXACT [] xref: EMAPA:37066 {source="MA:th"} xref: FMA:54501 xref: NLX:28532 xref: SCTID:280160003 xref: Wikipedia:Cranial_nerve_nucleus is_a: UBERON:0002308 ! nucleus of brain intersection_of: UBERON:0002308 ! nucleus of brain intersection_of: extends_fibers_into UBERON:0001785 ! cranial nerve relationship: extends_fibers_into UBERON:0001785 ! cranial nerve property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/3/30/Gray696.png xsd:anyURI [Term] id: UBERON:0000153 name: anterior region of body namespace: uberon is_a: UBERON:0000475 ! organism subdivision disjoint_from: UBERON:0000154 {source="lexical"} ! posterior region of body relationship: anterior_to UBERON:0000154 ! posterior region of body relationship: only_in_taxon NCBITaxon:33213 ! Bilateria [Term] id: UBERON:0000154 name: posterior region of body namespace: uberon is_a: UBERON:0000475 ! organism subdivision relationship: only_in_taxon NCBITaxon:33213 ! Bilateria [Term] id: UBERON:0000161 name: orifice namespace: uberon def: "Anatomical conduit that connects two adjacent body spaces (or a body space with the space surrounding the organism)[FMA,modified]." [FMA:3724] synonym: "anatomical orifice" EXACT [FMA:3724] synonym: "anatomical ostium" BROAD [FMA:3724] synonym: "hilum" NARROW [] synonym: "ostium" BROAD [] xref: FMA:3724 xref: http://www.snomedbrowser.com/Codes/Details/91837002 xref: SCTID:91837002 is_a: UBERON:0004111 ! anatomical conduit property_value: UBPROP:0000012 "in FMA, this is an anatomical conduit *space*, rather than anatomical conduit" xsd:string {external_ontology="FMA"} [Term] id: UBERON:0000165 name: mouth namespace: uberon def: "The proximal portion of the digestive tract, containing the oral cavity and bounded by the oral opening. In vertebrates, this extends to the pharynx and includes gums, lips, tongue and parts of the palate. Typically also includes the teeth, except where these occur elsewhere (e.g. pharyngeal jaws) or protrude from the mouth (tusks)." [https://github.com/obophenotype/uberon/wiki/The-digestive-tract, Wikipedia:Mouth] def: "The proximal portion of the digestive tract, containing the oral cavity and bounded by the oral opening. In vertebrates, this extends to the pharynx and includes gums, lips, tongue and parts of the palate. Typically also includes the teeth, except where these occur elsewhere (e.g. pharyngeal jaws) or protrude from the mouth (tusks)." [http://en.wikipedia.org/wiki/Mouth, https://github.com/obophenotype/uberon/wiki/The-digestive-tract] subset: efo_slim subset: major_organ subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "adult mouth" NARROW [] synonym: "cavital oralis" RELATED LATIN [Wikipedia:Mouth] synonym: "cavital oralis" RELATED LATIN [http://en.wikipedia.org/wiki/Mouth] synonym: "cavitas oris" RELATED [BTO:0001090] synonym: "cavum oris" RELATED [BTO:0001090] synonym: "mouth cavity" RELATED [BTO:0001090] synonym: "oral region" RELATED [EHDAA2:0001326] synonym: "oral vestibule" RELATED [BTO:0001090] synonym: "regio oralis" EXACT [BTO:0004698] synonym: "regio oralis" EXACT LATIN [FMA:49184, FMA:TA] synonym: "rima oris" RELATED [BTO:0001090] synonym: "stoma" RELATED [] synonym: "stomatodaeum" RELATED [VHOG:0000812] synonym: "trophic apparatus" RELATED [http://orcid.org/0000-0002-6601-2165] synonym: "vestibule of mouth" RELATED [BTO:0001090] synonym: "vestibulum oris" RELATED [BTO:0001090] xref: AAO:0010355 xref: BTO:0001090 xref: BTO:0004698 xref: CALOHA:TS-1315 xref: EFO:0000825 xref: EHDAA2:0001326 xref: EHDAA:542 xref: EMAPA:16262 xref: FBbt:00003126 xref: FMA:49184 xref: GAID:75 xref: galen:Mouth xref: http://en.wikipedia.org/wiki/Mouth xref: http://purl.obolibrary.org/obo/uberon/images/lamprey_sucker_rosava_3238889218.jpg xref: http://www.snomedbrowser.com/Codes/Details/21082005 xref: MA:0000341 xref: MA:0002474 xref: MAT:0000038 xref: MESH:D009055 xref: MIAA:0000038 xref: OpenCyc:Mx4rvVidh5wpEbGdrcN5Y29ycA xref: SCTID:21082005 xref: TADS:0000040 xref: TAO:0000547 xref: TAO:0000590 xref: TGMA:0000131 xref: VHOG:0000280 xref: VHOG:0000812 xref: Wikipedia:Mouth xref: XAO:0003029 xref: ZFA:0000547 xref: ZFA:0000590 is_a: UBERON:0004921 {notes="the mouth contains structures such as jaw skeleton that may not strictly be considered tract parts"} ! subdivision of digestive tract intersection_of: UBERON:0004921 ! subdivision of digestive tract intersection_of: proximalmost_part_of UBERON:0001555 ! digestive tract relationship: develops_from UBERON:0035804 ! future mouth relationship: only_in_taxon NCBITaxon:6072 ! Eumetazoa relationship: overlaps UBERON:0001004 {notes="exceptions in some taxa"} ! respiratory system relationship: part_of UBERON:0000033 ! head relationship: proximalmost_part_of UBERON:0001555 ! digestive tract property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/0/06/Mouth_illustration-Otis_Archives.jpg xsd:anyURI property_value: seeAlso https://github.com/obophenotype/uberon/issues/661 xsd:anyURI property_value: UBPROP:0000001 "Cavity in which food is initially ingested and generally contains teeth, tongue and glands.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0010355", ontology="AAO", source="AAO:BJB"} property_value: UBPROP:0000003 "Molecular and developmental cell lineage data suggest that the acoel mouth opening is homologous to the mouth of protostomes and deuterostomes and that the last common ancestor of the Bilateria (the 'urbilaterian') had only this single digestive opening.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000812", ontology="VHOG", source="DOI:10.1038/nature07309 Hejnol A, Martindale MQ, Acoel development indicates the independent evolution of the bilaterian mouth and anus. Nature (2008)", source="http://bgee.unil.ch/"} property_value: UBPROP:0000003 "Molecular and developmental cell lineage data suggest that the acoel mouth opening is homologous to the mouth of protostomes and deuterostomes and that the last common ancestor of the Bilateria (the 'urbilaterian') had only this single digestive opening.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000812", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1038/nature07309 Hejnol A, Martindale MQ, Acoel development indicates the independent evolution of the bilaterian mouth and anus. Nature (2008)"} property_value: UBPROP:0000007 "oral" xsd:string property_value: UBPROP:0000011 "some AOs place this as developing from the stomodeum but we weaken this to developmental contribution, as the mouth includes non-ectodermal derivatives" xsd:string property_value: UBPROP:0000012 "in FMA, the tongue, palate etc are part of the mouth which is itself a subdivision of the face. ZFA includes a separate class 'oral region' which is part of the mouth, but excludes tongue and lips" xsd:string {external_ontology="FMA"} [Term] id: UBERON:0000166 name: oral opening namespace: uberon def: "The orifice that connects the mouth to the exterior of the body." [https://github.com/obophenotype/uberon/wiki/The-digestive-tract] subset: uberon_slim subset: vertebrate_core synonym: "mouth" RELATED INCONSISTENT [] synonym: "oral fissure" EXACT [FMA:59806] synonym: "oral orifice" EXACT [FMA:59806] synonym: "oral part of face" RELATED [] xref: FMA:59806 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000161 {source="FMA"} ! orifice relationship: overlaps UBERON:0001004 {gci_relation="part_of", gci_filler="NCBITaxon:32523"} ! respiratory system relationship: part_of UBERON:0000165 ! mouth property_value: UBPROP:0000003 "(...) mouth development is very similar in protostomes and 'basal' deuterostomes, whereas the chordate mouth seems to develop at a new position. Recent data for echinoderms and hemichordates further suggest that this change in mouth position may result from change in the influence of a conserved ectodermal patterning system on mouth development. It has been suggested that the mouths of vertebrates and urochordates may constitute a 'new' mouth.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000280", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1016/j.semcdb.2007.06.002 Christiaen L, Jaszczyszyn Y, Kerfant M, Kanob S, Thermes V, Joly JS, Evolutionary modification of mouth position in deuterostomes. Seminars in Cell and Developmental Biology (2007)"} property_value: UBPROP:0000003 "(...) mouth development is very similar in protostomes and 'basal' deuterostomes, whereas the chordate mouth seems to develop at a new position. Recent data for echinoderms and hemichordates further suggest that this change in mouth position may result from change in the influence of a conserved ectodermal patterning system on mouth development. It has been suggested that the mouths of vertebrates and urochordates may constitute a 'new' mouth.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000280", ontology="VHOG", source="DOI:10.1016/j.semcdb.2007.06.002 Christiaen L, Jaszczyszyn Y, Kerfant M, Kanob S, Thermes V, Joly JS, Evolutionary modification of mouth position in deuterostomes. Seminars in Cell and Developmental Biology (2007)", source="http://bgee.unil.ch/"} [Term] id: UBERON:0000167 name: oral cavity namespace: uberon def: "Anatomical cavity at the start of the digestive tract that that is enclosed by the mouth. The boundaries and contents vary depending on the species. In vertebrates, the boundaries are the oral opening, the cheeks, the palate and (if present) the palatoglossal arch - if this is not present then the mouth and pharynx form the oropharyngeal cavity. The buccal cavity contains the teeth, tongue and palate (when present)" [https://github.com/obophenotype/uberon/wiki/The-digestive-tract, https://orcid.org/0000-0002-6601-2165, ISBN:0073040584] def: "Anatomical cavity at the start of the digestive tract that that is enclosed by the mouth. The boundaries and contents vary depending on the species. In vertebrates, the boundaries are the oral opening, the cheeks, the palate and (if present) the palatoglossal arch - if this is not present then the mouth and pharynx form the oropharyngeal cavity. The buccal cavity contains the teeth, tongue and palate (when present)." [https://github.com/obophenotype/uberon/wiki/The-digestive-tract, https://orcid.org/0000-0002-6601-2165, ISBN:0073040584] subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "bucca" RELATED [] synonym: "buccal cavity" EXACT [FMA:20292, ISBN:0073040584] synonym: "cavity of mouth" EXACT [] xref: AAO:0000053 xref: AAO:0000960 xref: BSA:0000107 xref: CALOHA:TS-1315 xref: EFO:0001975 xref: EHDAA2:0001324 xref: EHDAA:6970 xref: EMAPA:17411 xref: EMAPA:18399 xref: EV:0100057 xref: FMA:20292 xref: HAO:0000669 xref: http://linkedlifedata.com/resource/umls/id/C0226896 xref: http://www.snomedbrowser.com/Codes/Details/181220002 xref: NCIT:C12421 xref: SCTID:181220002 xref: TAO:0001027 xref: TGMA:0000102 xref: UMLS:C0226896 {source="ncithesaurus:Oral_Cavity"} xref: VHOG:0000188 xref: WBbt:0005255 xref: XAO:0000126 xref: ZFA:0001027 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0002553 ! anatomical cavity intersection_of: UBERON:0000464 ! anatomical space intersection_of: luminal_space_of UBERON:0000165 ! mouth relationship: contributes_to_morphology_of UBERON:0000165 ! mouth relationship: luminal_space_of UBERON:0000165 ! mouth relationship: part_of UBERON:0000165 ! mouth property_value: UBPROP:0000001 "Anatomical cavity bounded anteriorly by the mouth and posteriorly by the derivatives of the branchial arches.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0000960", ontology="AAO", source="AAO:EJS"} property_value: UBPROP:0000001 "The cavity of the mouth, bounded by the jaw bones and associated structures (muscles and mucosa). [TFD][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000188", ontology="VHOG", source="http://bgee.unil.ch/", source="http://medical-dictionary.thefreedictionary.com/oral+cavity"} property_value: UBPROP:0000001 "The cavity of the mouth, bounded by the jaw bones and associated structures (muscles and mucosa). [TFD][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000188", ontology="VHOG", source="http://bgee.unil.ch/", source="http://medical-dictionary.thefreedictionary.com/oral+cavity"} property_value: UBPROP:0000003 "Echinoderms, hemichordates, and chordates are called deuterostomes because the mouth arises not from the blastopore but from a second invagination at the anterior end of the larva that pushes in to connect with the archenteron.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000188", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.32"} property_value: UBPROP:0000003 "Echinoderms, hemichordates, and chordates are called deuterostomes because the mouth arises not from the blastopore but from a second invagination at the anterior end of the larva that pushes in to connect with the archenteron.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000188", ontology="VHOG", source="ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.32", source="http://bgee.unil.ch/"} [Term] id: UBERON:0000170 name: pair of lungs namespace: uberon def: "The pair of anatomical structures comprised of a left lung and right lung." [http://orcid.org/0000-0002-6601-2165] subset: pheno_slim synonym: "lungs" EXACT [] synonym: "lungs pair" EXACT [] synonym: "pulmones" EXACT LATIN [FMA:68877, FMA:TA] synonym: "set of lungs" EXACT [] xref: FMA:68877 xref: OpenCyc:Mx4rvVjKy5wpEbGdrcN5Y29ycA is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0034925 ! anatomical collection intersection_of: UBERON:0034925 ! anatomical collection intersection_of: has_member UBERON:0002167 ! right lung intersection_of: has_member UBERON:0002168 ! left lung relationship: has_member UBERON:0002167 ! right lung relationship: has_member UBERON:0002167 {cardinality="1"} ! right lung relationship: has_member UBERON:0002167 {minCardinality="1", maxCardinality="1"} ! right lung relationship: has_member UBERON:0002168 ! left lung relationship: has_member UBERON:0002168 {cardinality="1"} ! left lung relationship: has_member UBERON:0002168 {minCardinality="1", maxCardinality="1"} ! left lung relationship: located_in UBERON:0002224 ! thoracic cavity relationship: part_of UBERON:0001558 {source="FMA-abduced"} ! lower respiratory tract [Term] id: UBERON:0000171 name: respiration organ namespace: uberon def: "Organ that functions in gaseous exchange between an organism and its environment. In plants, microorganisms, and many small animals, air or water makes direct contact with the organism's cells or tissue fluids, and the processes of diffusion supply the organism with dioxygen (O2) and remove carbon dioxide (CO2). In larger animals the efficiency of gaseous exchange is improved by specialized respiratory organs, such as lungs and gills, which are ventilated by breathing mechanisms." [GO:0007585] subset: functional_classification subset: organ_slim synonym: "apparatus respiratorius organ" EXACT [OBOL:automatic] synonym: "breathing organ" EXACT [] synonym: "gas exchange organ" RELATED [] synonym: "organ of apparatus respiratorius" EXACT [OBOL:automatic] synonym: "organ of respiratory system" EXACT [OBOL:automatic] synonym: "respiratory organ" EXACT [] synonym: "respiratory system organ" EXACT [OBOL:automatic] xref: EMAPA:17607 xref: http://www.snomedbrowser.com/Codes/Details/272626006 xref: SCTID:272626006 xref: SPD:0000428 xref: TGMA:0001247 is_a: UBERON:0000062 ! organ intersection_of: UBERON:0000062 ! organ intersection_of: capable_of GO:0007585 ! respiratory gaseous exchange by respiratory system relationship: capable_of GO:0007585 ! respiratory gaseous exchange by respiratory system relationship: part_of UBERON:0001004 ! respiratory system [Term] id: UBERON:0000178 name: blood namespace: uberon def: "A fluid that is composed of blood plasma and erythrocytes." [FMA:9670, http://en.wikipedia.org/wiki/Blood, http://orcid.org/0000-0002-6601-2165, https://github.com/obophenotype/uberon/issues/9] def: "A fluid that is composed of blood plasma and erythrocytes." [FMA:9670, http://orcid.org/0000-0002-6601-2165, https://github.com/obophenotype/uberon/issues/9, Wikipedia:Blood] subset: efo_slim subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "portion of blood" EXACT [] synonym: "vertebrate blood" EXACT [] synonym: "whole blood" RELATED [BTO:0000089] xref: AAO:0000046 xref: BTO:0000089 xref: CALOHA:TS-0079 xref: EFO:0000296 xref: EHDAA2:0000176 xref: EHDAA:418 xref: EMAPA:16332 xref: ENVO:02000027 xref: EV:0100047 xref: FMA:9670 xref: GAID:965 xref: galen:Blood xref: http://en.wikipedia.org/wiki/Blood xref: http://linkedlifedata.com/resource/umls/id/C0005767 xref: MA:0000059 xref: MESH:D001769 xref: MIAA:0000315 xref: NCIT:C12434 xref: OpenCyc:Mx4rvVjI8JwpEbGdrcN5Y29ycA xref: TAO:0000007 xref: UMLS:C0005767 {source="ncithesaurus:Blood"} xref: VHOG:0000224 xref: Wikipedia:Blood xref: XAO:0000124 xref: ZFA:0000007 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000179 ! haemolymphatic fluid relationship: develops_from UBERON:0006596 ! presumptive blood relationship: has_part CL:0000232 {source="CL:tm"} ! erythrocyte relationship: has_part UBERON:0001969 ! blood plasma relationship: immediate_transformation_of UBERON:0006596 {source="Bgee:AN"} ! presumptive blood relationship: located_in UBERON:0002049 {source="https://github.com/obophenotype/uberon/issues/1330"} ! vasculature relationship: located_in UBERON:0002049 {source="https://github.com/obophenotype/uberon/issues/1330"} ! vasculature relationship: part_of UBERON:0002390 ! hematopoietic system property_value: http://purl.org/dc/elements/1.1/contributor https://github.com/cmungall property_value: http://purl.org/dc/elements/1.1/contributor https://github.com/tmeehan property_value: IAO:0000232 "This class excludes blood analogues, such as the insect analog of blood. See UBERON:0000179 haemolymphatic fluid." xsd:string property_value: UBPROP:0000001 "A complex mixture of cells suspended in a liquid matrix that delivers nutrients to cells and removes wastes. (Source: BioGlossary, www.Biology-Text.com)[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0000007", ontology="TAO", source="ZFIN:curator"} property_value: UBPROP:0000001 "Highly specialized circulating tissue consisting of several types of cells suspended in a fluid medium known as plasma.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0000046", ontology="AAO", source="AAO:LAP"} property_value: UBPROP:0000002 "relationship loss: subclass specialized connective tissue (AAO:0000571)[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0000046", ontology="AAO"} property_value: UBPROP:0000003 "Recent findings strongly suggest that the molecular pathways involved in the development and function of blood cells are highly conserved among vertebrates and various invertebrates phyla. (...) There is now good reason to believe that, in vertebrates and invertebrates alike, blood cell lineages diverge from a common type of progenitor cell, the hemocytoblast.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000224", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1146/annurev.cellbio.22.010605.093317 Hartenstein V, Blood cells and blood cell development in the animal kingdom. Annual review of cell and developmental biology (2006) "} property_value: UBPROP:0000003 "Recent findings strongly suggest that the molecular pathways involved in the development and function of blood cells are highly conserved among vertebrates and various invertebrates phyla. (...) There is now good reason to believe that, in vertebrates and invertebrates alike, blood cell lineages diverge from a common type of progenitor cell, the hemocytoblast.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000224", ontology="VHOG", source="DOI:10.1146/annurev.cellbio.22.010605.093317 Hartenstein V, Blood cells and blood cell development in the animal kingdom. Annual review of cell and developmental biology (2006) ", source="http://bgee.unil.ch/"} [Term] id: UBERON:0000179 name: haemolymphatic fluid namespace: uberon def: "Circulating fluid that is part of the hemolymphoid system. Blood, lymph, interstitial fluid or its analogs." [http://orcid.org/0000-0002-6601-2165] synonym: "blood or blood analog" RELATED [] synonym: "circulating fluid" RELATED [] xref: CARO:0000081 is_a: UBERON:0006314 ! bodily fluid intersection_of: UBERON:0000463 ! organism substance intersection_of: part_of UBERON:0002193 ! hemolymphoid system relationship: only_in_taxon NCBITaxon:6072 ! Eumetazoa relationship: part_of UBERON:0002193 ! hemolymphoid system property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0002-6601-2165 created_by: cjm creation_date: 2009-04-08T04:38:19Z [Term] id: UBERON:0000304 name: tendon sheath namespace: uberon def: "A layer of membrane around a tendon. It has 2 layers: synovial sheath + fibrous tendon sheath." [Wikipedia:Tendon_sheath] def: "A layer of membrane around a tendon. It has 2 layers: synovial sheath + fibrous tendon sheath." [http://en.wikipedia.org/wiki/Tendon_sheath] synonym: "synovial tendon sheath" EXACT [FMA:45087] synonym: "vagina tendinis" RELATED LATIN [http://en.wikipedia.org/wiki/Tendon_sheath] synonym: "vagina tendinis" RELATED LATIN [Wikipedia:Tendon_sheath] xref: BTO:0000051 xref: FMA:45087 xref: FMA:76715 xref: http://linkedlifedata.com/resource/umls/id/C0224856 xref: http://www.snomedbrowser.com/Codes/Details/361885006 xref: NCIT:C96299 xref: SCTID:361885006 xref: Tendon:sheath xref: UMLS:C0224856 {source="ncithesaurus:Tendon_Sheath"} xref: Wikipedia:Tendon_sheath is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0004923 ! organ component layer intersection_of: UBERON:0004923 ! organ component layer intersection_of: bounding_layer_of UBERON:0000043 ! tendon relationship: bounding_layer_of UBERON:0000043 ! tendon relationship: has_part UBERON:0011233 ! synovial membrane of synovial tendon sheath relationship: has_part UBERON:0011234 ! fibrous membrane of synovial tendon sheath relationship: part_of UBERON:0000043 ! tendon property_value: editor_note "TODO - add layer relations. 'tendon sheath' GAT in FMA." xsd:string [Term] id: UBERON:0000307 name: blastula namespace: uberon alt_id: UBERON:0007011 def: "Organism at the blastula stage - an early stage of embryonic development in animals. It is produced by cleavage of a fertilized ovum and consists of a spherical layer of around 128 cells surrounding a central fluid-filled cavity called the blastocoel. The blastula follows the morula and precedes the gastrula in the developmental sequence." [Wikipedia:Blastula] def: "Organism at the blastula stage - an early stage of embryonic development in animals. It is produced by cleavage of a fertilized ovum and consists of a spherical layer of around 128 cells surrounding a central fluid-filled cavity called the blastocoel. The blastula follows the morula and precedes the gastrula in the developmental sequence." [http://en.wikipedia.org/wiki/Blastula] subset: inconsistent_with_fma synonym: "blastosphere" RELATED [http://en.wikipedia.org/wiki/Blastula] synonym: "blastosphere" RELATED [Wikipedia:Blastula] synonym: "blastula embryo" EXACT [BILA:0000059] xref: BILA:0000059 xref: BTO:0000128 xref: GAID:1294 xref: http://en.wikipedia.org/wiki/Blastula xref: MESH:A16.254.270.274 xref: OGEM:000006 xref: OpenCyc:Mx4rEetFnKP2EdqAAAACs4vPlg xref: Wikipedia:Blastula is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000922 ! embryo intersection_of: UBERON:0000468 ! multicellular organism intersection_of: existence_starts_and_ends_during UBERON:0000108 ! blastula stage relationship: develops_from UBERON:0007010 ! cleaving embryo relationship: existence_starts_and_ends_during UBERON:0000108 ! blastula stage property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/c/c6/Blastulation.png xsd:anyURI property_value: editor_note "TODO - check relationship with epiblast. Note in FMA this is not a subclass of embryo, but in uberon embryo is the whole organism from zygote onwards and thus includes the blastula" xsd:string [Term] id: UBERON:0000325 name: gastric gland namespace: uberon def: "The branched tubular glands found in the mucosa of the fundus and body of the stomach which contain parietal cells that secrete hydrochloric acid and zymogenic cells that produce pepsin." [MGI:anna] subset: organ_slim subset: pheno_slim xref: BTO:0000503 xref: EMAPA:27181 xref: FMA:14919 is_a: UBERON:0002365 {source="cjm"} ! exocrine gland is_a: UBERON:0003294 ! gland of foregut relationship: part_of UBERON:0006924 {source="ISBN:0073040584"} ! stomach glandular epithelium [Term] id: UBERON:0000328 name: gut wall namespace: uberon def: "The wall of the digestive tract. This encompasses all parts of the digestive tract with the exception of the lumen (cavity)." [http://orcid.org/0000-0002-6601-2165] synonym: "digestive tract wall" EXACT [] synonym: "wall of alimentary tract" RELATED [] synonym: "wall of digestive tract" EXACT [] synonym: "wall of gut" EXACT [FMA:45653] xref: BTO:0000547 xref: FMA:45653 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000060 ! anatomical wall intersection_of: UBERON:0000060 ! anatomical wall intersection_of: part_of UBERON:0001555 ! digestive tract relationship: part_of UBERON:0001555 ! digestive tract property_value: IAO:0000232 "We model the digestive tract as consisting of two parts: the wall and the lumen." xsd:string [Term] id: UBERON:0000332 name: yellow bone marrow namespace: uberon def: "Bone marrow in which the fat cells predominate in the meshes of the reticular network." [http://medical-dictionary.thefreedictionary.com/Yellow+Marrow] synonym: "fat marrow" RELATED [BTO:0000635] synonym: "medulla ossium flava" EXACT LATIN [BTO:0000635] synonym: "yellow marrow" EXACT [BTO:0000635] xref: BTO:0000635 xref: FMA:74596 xref: http://www.snomedbrowser.com/Codes/Details/328639002 xref: http://www.snomedbrowser.com/Codes/Details/5023006 xref: SCTID:328639002 xref: SCTID:5023006 is_a: UBERON:0002371 ! bone marrow intersection_of: UBERON:0002371 ! bone marrow intersection_of: composed_primarily_of CL:0000136 ! fat cell relationship: composed_primarily_of CL:0000136 ! fat cell relationship: part_of UBERON:0007195 ! stroma of bone marrow [Term] id: UBERON:0000344 name: mucosa namespace: uberon def: "A lining of mostly endodermal origin, covered in epithelium, which is involved in absorption and secretion. They line various body cavities that are exposed to the external environment and internal organs. It is at several places continuous with skin: at the nostrils, the lips, the ears, the genital area, and the anus. The sticky, thick fluid secreted by the mucous membranes and gland is termed mucus. The term mucous membrane refers to where they are found in the body and not every mucous membrane secretes mucus[WP]" [http://en.wikipedia.org/wiki/Mucous_membrane] def: "A lining of mostly endodermal origin, covered in epithelium, which is involved in absorption and secretion. They line various body cavities that are exposed to the external environment and internal organs. It is at several places continuous with skin: at the nostrils, the lips, the ears, the genital area, and the anus. The sticky, thick fluid secreted by the mucous membranes and gland is termed mucus. The term mucous membrane refers to where they are found in the body and not every mucous membrane secretes mucus[WP]." [Wikipedia:Mucous_membrane] def: "A lining of mostly endodermal origin, covered in epithelium, which is involved in absorption and secretion. They line various body cavities that are exposed to the external environment and internal organs. It is at several places continuous with skin: at the nostrils, the lips, the ears, the genital area, and the anus. The sticky, thick fluid secreted by the mucous membranes and gland is termed mucus. The term mucous membrane refers to where they are found in the body and not every mucous membrane secretes mucus[WP]." [http://en.wikipedia.org/wiki/Mucous_membrane] subset: pheno_slim synonym: "mucosa of organ" EXACT [FMA:85355] synonym: "mucosa of organ part" EXACT [FMA:85358] synonym: "mucosal region" EXACT [FMA:85358] synonym: "mucous membrane" EXACT [FMA:85355] synonym: "organ mucosa" EXACT [FMA:85355] synonym: "region of mucosa" RELATED [FMA:85358] synonym: "tunica mucosa" RELATED LATIN [Wikipedia:Mucous_membrane] synonym: "tunica mucosa" RELATED LATIN [http://en.wikipedia.org/wiki/Mucous_membrane] synonym: "tunica mucosa" RELATED [BTO:0000886] xref: AEO:0000199 xref: BTO:0000886 xref: CALOHA:TS-2031 xref: EHDAA2_RETIRED:0003234 xref: EV:0100382 xref: FMA:85355 xref: FMA:85358 xref: GAID:297 xref: galen:Mucosa xref: http://linkedlifedata.com/resource/umls/id/C0026724 xref: http://www.snomedbrowser.com/Codes/Details/361693009 xref: MESH:D009092 xref: Mucous:membrane xref: NCIT:C13166 xref: OpenCyc:Mx4rvmKNOpwpEbGdrcN5Y29ycA xref: SCTID:361693009 xref: UMLS:C0026724 {source="ncithesaurus:Mucosa"} xref: Wikipedia:Mucous_membrane is_a: UBERON:0004923 ! organ component layer relationship: has_part UBERON:0000483 ! epithelium relationship: has_part UBERON:0002384 ! connective tissue relationship: only_in_taxon NCBITaxon:7711 ! Chordata property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/4/4e/Ens.png xsd:anyURI property_value: depicted:by http://upload.wikimedia.org/wikipedia/en/thumb/4/4e/Ens.png/200px-Ens.png xsd:anyURI property_value: RO:0002171 UBERON:0000009 property_value: UBPROP:0000007 "mucosal" xsd:string property_value: UBPROP:0000012 "FMA has mucosa vs region of mucosa; these are subtypes of Mucosa: Mucosa of gallbladder, tongue, .... The following are subtypes of Region of mucosa: Mucosa of zone of stomach, trachea, bronchus, dorsum of tongue.... Depends on whether the covered area is an organ or organ component. Uberon does not regard organ vs organ component as crucial distinction and thus collapses these into a single class deliberately" xsd:string {external_ontology="FMA"} [Term] id: UBERON:0000353 name: parenchyma namespace: uberon def: "Functional part of an organ in the body. This is in contrast to the stroma, which refers to the structural tissue of organs, being exactly, connective tissues." [Wikipedia:Parenchyma] xref: EHDAA:3015 xref: EHDAA:3905 xref: EHDAA:3999 xref: EHDAA:4005 xref: EHDAA:6899 xref: EHDAA:6903 xref: EHDAA:6994 xref: EHDAA:8086 xref: EHDAA:9182 xref: EHDAA:9190 xref: EHDAA:9196 xref: EHDAA:9202 xref: FMA:45732 xref: NCIT:C74601 xref: UMLS:C0933845 {source="ncithesaurus:Parenchyma"} xref: Wikipedia:Parenchyma is_a: UBERON:0000064 ! organ part disjoint_from: UBERON:0003891 ! stroma relationship: capable_of GO:0032501 ! multicellular organismal process relationship: only_in_taxon NCBITaxon:6072 ! Eumetazoa property_value: UBPROP:0000007 "parenchymal" xsd:string property_value: UBPROP:0000011 "Early in development the mammalian embryo has three distinct layers: ectoderm (external layer), endoderm (internal layer) and in between those two layers the middle layer or mesoderm. The parenchyma of most organs is of ectodermal (brain, skin) or endodermal origin (lungs, gastrointestinal tract, liver, pancreas). The parenchyma of a few organs (spleen, kidneys, heart) is of mesodermal origin. The stroma of all organs is of mesodermal origin" xsd:string {source="WP"} property_value: UBPROP:0000012 "the FMA definition is more restrictive, and limits this to solid organs. This would seem to cause problems for the lung parenchyma, except FMA classifies Lung as solid rather than cavitated" xsd:string {external_ontology="FMA"} [Term] id: UBERON:0000355 name: pharyngeal mucosa namespace: uberon alt_id: UBERON:0003344 def: "A mucosa that is part of a pharynx [Automatically generated definition]." [OBOL:automatic] synonym: "mucosa of organ of pharynx" EXACT [OBOL:automatic] synonym: "mucosa of pharynx" EXACT [OBOL:automatic] synonym: "mucous membrane of pharynx" EXACT [OBOL:automatic] synonym: "mucous membrane of pharynx" EXACT [FMA:55031] synonym: "mucous membrane of the pharynx" RELATED [BTO:0001047] synonym: "organ mucosa of pharynx" EXACT [OBOL:automatic] synonym: "pharynx mucosa" EXACT [OBOL:automatic] synonym: "pharynx mucosa of organ" EXACT [OBOL:automatic] synonym: "pharynx mucous membrane" EXACT [OBOL:automatic] synonym: "pharynx organ mucosa" EXACT [OBOL:automatic] synonym: "tunica mucosa pharyngea" EXACT LATIN [FMA:55031, FMA:TA] synonym: "tunica mucosa pharyngis" EXACT [] xref: BTO:0001047 xref: EMAPA:26957 xref: FMA:55031 xref: http://www.snomedbrowser.com/Codes/Details/362121003 xref: MA:0003143 xref: SCTID:362121003 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0004785 ! respiratory system mucosa intersection_of: UBERON:0000344 ! mucosa intersection_of: part_of UBERON:0001042 ! chordate pharynx relationship: part_of UBERON:0001042 ! chordate pharynx [Term] id: UBERON:0000361 name: red bone marrow namespace: uberon def: "The red vascular substance consisting of connective tissue and blood vessels, containing primitive blood cells, macrophages, megakaryocytes, and fat cells. Red marrow is found in the cavities of many bones. It manufactures and releases leukocytes and erythrocytes into the bloodstream." [http://medical-dictionary.thefreedictionary.com/red+marrow] synonym: "medulla ossium rubra" EXACT LATIN [BTO:0001160] synonym: "parenchyma of none marrow marrow" RELATED [http://orcid.org/0000-0002-6601-2165] synonym: "parenchymal red marrow" EXACT [http://orcid.org/0000-0002-6601-2165] synonym: "red marrow" EXACT [BTO:0001160] xref: BTO:0001160 xref: FMA:74595 xref: http://www.snomedbrowser.com/Codes/Details/328538003 xref: http://www.snomedbrowser.com/Codes/Details/75330005 xref: SCTID:328538003 xref: SCTID:75330005 is_a: UBERON:0002371 ! bone marrow intersection_of: UBERON:0002371 ! bone marrow intersection_of: composed_primarily_of CL:0000988 ! hematopoietic cell relationship: composed_primarily_of CL:0000988 ! hematopoietic cell relationship: part_of UBERON:0012429 ! hematopoietic tissue [Term] id: UBERON:0000377 name: maxillary nerve namespace: uberon def: "The sensory nerve subdivision of the trigeminal nerve that transmits sensory information from the palate, upper teeth and gingiva, the skin between the palpebral fissure and the mouth, and from the nasal cavity and maxillary sinuses." [MP:0009799, Wikipedia:Maxillary_nerve] subset: pheno_slim synonym: "maxillary division [V2]" EXACT [FMA:52724] synonym: "maxillary division [Vb]" EXACT [FMA:52724] synonym: "maxillary division of fifth cranial nerve" EXACT [FMA:52724] synonym: "maxillary division of trigeminal nerve (Vb; V2)" EXACT [FMA:52724] synonym: "maxillary nerve [V2]" EXACT [FMA:52724] synonym: "maxillary nerve [Vb]" EXACT [FMA:52724] synonym: "n. maxillaris" RELATED LATIN [Wikipedia:Maxillary_nerve] synonym: "nervus maxillaris" RELATED [BTO:0001378] synonym: "nervus maxillaris (Vb; V2)" EXACT [FMA:52724] synonym: "nervus maxillaris [v2]" EXACT LATIN [FMA:52724, FMA:TA] synonym: "nervus maxillaris [vb]" EXACT LATIN [FMA:52724, FMA:TA] synonym: "ramus maxillaris (ramus V2)" EXACT [AAO:0010670] synonym: "second division of fifth cranial nerve" EXACT [FMA:52724] synonym: "second division of trigeminal nerve" EXACT [FMA:52724] synonym: "trigeminal nerve maxillary division" RELATED [EMAPA:17799] synonym: "trigeminal V nerve maxillary division" EXACT [MA:0001103] xref: AAO:0010670 xref: BTO:0001378 xref: EHDAA2:0002087 xref: EMAPA:17799 xref: FMA:52724 xref: GAID:836 xref: MA:0001103 xref: MESH:D008442 xref: OpenCyc:Mx4rvWNU9JwpEbGdrcN5Y29ycA xref: SCTID:280211001 xref: VHOG:0001346 xref: Wikipedia:Maxillary_nerve is_a: UBERON:0011779 ! nerve of head region relationship: branching_part_of UBERON:0001645 ! trigeminal nerve property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/a/a9/Gray779.png xsd:anyURI property_value: UBPROP:0000001 "Medial ramus (sensory) of the trigeminal nerve.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0010670", ontology="AAO", source="AAO:EJS"} property_value: UBPROP:0000002 "relationship loss: part_of trunk maxillary-mandibularis (AAO:0010669)[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0010670", ontology="AAO"} [Term] id: UBERON:0000379 name: tracheal mucosa namespace: uberon def: "A mucosa that is part of a respiratory airway." [OBOL:automatic] synonym: "mucosa of organ of trachea" EXACT [OBOL:automatic] synonym: "mucosa of organ of windpipe" EXACT [OBOL:automatic] synonym: "mucosa of trachea" EXACT [OBOL:automatic] synonym: "mucosa of windpipe" EXACT [OBOL:automatic] synonym: "mucous membrane of trachea" EXACT [FMA:7471] synonym: "mucous membrane of trachea" EXACT [OBOL:automatic] synonym: "mucous membrane of windpipe" EXACT [OBOL:automatic] synonym: "organ mucosa of trachea" EXACT [OBOL:automatic] synonym: "organ mucosa of windpipe" EXACT [OBOL:automatic] synonym: "trachea mucosa" EXACT [OBOL:automatic] synonym: "trachea mucosa of organ" EXACT [OBOL:automatic] synonym: "trachea mucous membrane" EXACT [OBOL:automatic] synonym: "trachea organ mucosa" EXACT [OBOL:automatic] synonym: "tracheal mucous membrane" EXACT [FMA:7471] synonym: "tunica mucosa (tracheae)" EXACT [FMA:7471] synonym: "tunica mucosa tracheae" EXACT LATIN [FMA:7471, FMA:TA] synonym: "windpipe mucosa" EXACT [OBOL:automatic] synonym: "windpipe mucosa of organ" EXACT [OBOL:automatic] synonym: "windpipe mucous membrane" EXACT [OBOL:automatic] synonym: "windpipe organ mucosa" EXACT [OBOL:automatic] xref: BTO:0001390 xref: FMA:7471 xref: http://www.snomedbrowser.com/Codes/Details/660006 xref: SCTID:660006 is_a: UBERON:0004785 ! respiratory system mucosa intersection_of: UBERON:0000344 ! mucosa intersection_of: part_of UBERON:0001005 ! respiratory airway relationship: part_of UBERON:0001005 ! respiratory airway [Term] id: UBERON:0000383 name: musculature of body namespace: uberon def: "The subdivision of the musculoskeletal system that consists of all the muscles of the body[VSAO, modified]." [VSAO:0000033] subset: efo_slim subset: pheno_slim synonym: "muscle system" EXACT [] synonym: "muscle system of body" EXACT [] synonym: "muscular system" EXACT [FMA:72954] synonym: "musculature system" EXACT [BILA:0000088] synonym: "muskelsystem" RELATED [BTO:0001485] synonym: "set of all muscles" EXACT [FMA:72954] synonym: "set of muscles of body" EXACT [FMA:72954] synonym: "vertebrate muscular system" EXACT [BTO:0001369] xref: AAO:0000307 xref: BILA:0000088 xref: BTO:0001369 xref: BTO:0001485 xref: EFO:0000801 xref: EMAPA:35578 xref: FBbt:00005069 xref: FMA:72954 xref: MA:0002888 xref: MAT:0000025 xref: MIAA:0000025 xref: VSAO:0000033 xref: XAO:0004042 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0011216 ! organ system subdivision intersection_of: UBERON:0011216 ! organ system subdivision intersection_of: composed_primarily_of UBERON:0001015 ! musculature relationship: capable_of GO:0003012 ! muscle system process relationship: composed_primarily_of UBERON:0001015 ! musculature relationship: has_part UBERON:0001015 ! musculature relationship: only_in_taxon NCBITaxon:6072 ! Eumetazoa relationship: part_of UBERON:0002204 ! musculoskeletal system property_value: editor_note "consider whether this should be restricted to skeletal musculature. See https://github.com/obophenotype/uberon/issues/77" xsd:string property_value: RO:0002161 NCBITaxon:6040 property_value: UBPROP:0000001 "Anatomical system that consists of the muscles of the body.[VSAO]" xsd:string {date_retrieved="2012-08-14", external_class="VSAO:0000033", ontology="VSAO", source="VSAO:curator"} property_value: UBPROP:0000012 "we place the MA term musculature here, rather than under uberon:musculature, as this seems more appropriate given the structure of MA" xsd:string {external_ontology="MA"} [Term] id: UBERON:0000389 name: lens cortex namespace: uberon def: "Tissue that surrounds the lens nucleus" [http://www.thefreedictionary.com/lens+cortex] def: "Tissue that surrounds the lens nucleus." [http://www.thefreedictionary.com/lens+cortex] synonym: "cortex of lens" EXACT [FMA:58970] xref: BTO:0001632 xref: CALOHA:TS-0542 xref: FMA:58970 xref: http://www.snomedbrowser.com/Codes/Details/280626006 xref: MESH:A09.371.509.225 xref: SCTID:280626006 is_a: UBERON:0000479 ! tissue is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0010314 ! structure with developmental contribution from neural crest intersection_of: UBERON:0000479 ! tissue intersection_of: surrounds UBERON:0000390 ! lens nucleus relationship: develops_from UBERON:0005614 ! lens anterior epithelium relationship: part_of UBERON:0000965 ! lens of camera-type eye relationship: surrounds UBERON:0000390 ! lens nucleus [Term] id: UBERON:0000390 name: lens nucleus namespace: uberon def: "The core of the crystalline lens, surrounded by the cortex." [BTO:0001633] synonym: "nucleus of lens" EXACT [FMA:58971] xref: BTO:0001633 xref: FMA:58971 xref: http://www.snomedbrowser.com/Codes/Details/280628007 xref: MESH:A09.371.509.670 xref: SCTID:280628007 is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0010314 ! structure with developmental contribution from neural crest is_a: UBERON:0034944 ! zone of organ intersection_of: UBERON:0034944 ! zone of organ intersection_of: surrounded_by UBERON:0000389 ! lens cortex relationship: develops_from UBERON:0005614 ! lens anterior epithelium relationship: part_of UBERON:0000965 ! lens of camera-type eye relationship: surrounded_by UBERON:0000389 ! lens cortex [Term] id: UBERON:0000409 name: serous gland namespace: uberon def: "A gland in which the principal secretory cells are serous secreting cells." [http://orcid.org/0000-0002-6601-2165, http://www.siumed.edu/~dking2/intro/glands.htm] subset: organ_slim subset: pheno_slim xref: BTO:0001837 xref: EMAPA:37950 {source="MA:th"} xref: FMA:62889 xref: Serous:gland xref: Wikipedia:Serous_gland is_a: UBERON:0002365 ! exocrine gland intersection_of: UBERON:0002365 ! exocrine gland intersection_of: has_part CL:0000313 ! serous secreting cell relationship: has_part CL:0000313 ! serous secreting cell relationship: has_part UBERON:0013232 ! serous acinus relationship: produces UBERON:0007794 ! secretion of serous gland property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/c/c0/Gray1021.png xsd:anyURI property_value: UBPROP:0000001 "glands that secrete watery albuminous material that often contains enzymes[MP:0008052]." xsd:string {source="MP:0008052"} [Term] id: UBERON:0000415 name: artery wall namespace: uberon def: "An anatomical wall that is part of an artery [Automatically generated definition]." [OBOL:automatic] synonym: "arterial wall" EXACT [FMA:14155] synonym: "wall of artery" EXACT [FMA:14155] xref: BTO:0002009 xref: FMA:14155 xref: galen:ArterialWall is_a: UBERON:0035965 ! wall of blood vessel intersection_of: UBERON:0000060 ! anatomical wall intersection_of: part_of UBERON:0001637 ! artery relationship: part_of UBERON:0001637 ! artery [Term] id: UBERON:0000456 name: secretion of exocrine gland namespace: uberon alt_id: UBERON:0006540 def: "A portion of organism substance that is produced by exocrine glands." [http://orcid.org/0000-0002-6601-2165] synonym: "bodily secretion" EXACT [MESH:D012634] synonym: "exocrine gland fluid" RELATED [] synonym: "exocrine gland fluid or secretion" RELATED [] synonym: "exocrine gland fluid/secretion" EXACT [MA:0002504] synonym: "exocrine gland secretion" RELATED [] synonym: "external secretion" RELATED [BTO:0002977] synonym: "secreted substance" EXACT [] synonym: "secretion" BROAD [FMA:9675] xref: AEO:0001005 xref: BTO:0002977 xref: BTO:0002979 xref: EMAPA:36535 xref: FMA:9675 xref: galen:Secretion xref: http://linkedlifedata.com/resource/umls/id/C1516992 xref: MA:0002504 xref: MESH:D012634 xref: NCIT:C34062 xref: UMLS:C1516992 {source="ncithesaurus:Exocrine_Gland_Fluid_or_Secretion"} is_a: UBERON:0000463 ! organism substance intersection_of: UBERON:0000463 ! organism substance intersection_of: produced_by UBERON:0002365 ! exocrine gland relationship: produced_by UBERON:0002365 ! exocrine gland property_value: UBPROP:0000012 "BTO has two distunct classes, with exocrine glandular secretion a subtype of secretion - however, all examples in BTO directly under secretion appear to be exocrine gland secretions" xsd:string {external_ontology="BTO"} [Term] id: UBERON:0000463 name: organism substance namespace: uberon def: "Material anatomical entity in a gaseous, liquid, semisolid or solid state; produced by anatomical structures or derived from inhaled and ingested substances that have been modified by anatomical structures as they pass through the body." [http://orcid.org/0000-0001-9114-8737] subset: pheno_slim subset: upper_level synonym: "body fluid or substance" EXACT [MA:0002450] synonym: "body substance" EXACT [FMA:9669] synonym: "organism substance" EXACT [CARO:0000004] synonym: "portion of body substance" EXACT [FMA:9669] synonym: "portion of organism substance" EXACT [ZFA:0001487] xref: AAO:0010839 xref: AEO:0000004 xref: BILA:0000004 xref: CALOHA:TS-2101 xref: CARO:0000004 xref: EHDAA2:0003004 xref: EMAPA:35178 xref: FBbt:00007019 xref: FMA:9669 xref: galen:BodySubstance xref: HAO:0000004 xref: MA:0002450 xref: NCIT:C13236 xref: SPD:0000008 xref: TAO:0001487 xref: TGMA:0001824 xref: VHOG:0001726 xref: XAO:0004001 xref: ZFA:0001487 is_a: UBERON:0000465 ! material anatomical entity relationship: has_quality PATO:0002198 ! quality of a substance relationship: part_of UBERON:0000468 {notes="this relationship may be too strong and may be weakened in future"} ! multicellular organism [Term] id: UBERON:0000464 name: anatomical space namespace: uberon def: "Non-material anatomical entity of three dimensions, that is generated by morphogenetic or other physiologic processes; is surrounded by one or more anatomical structures; contains one or more organism substances or anatomical structures." [http://orcid.org/0000-0001-9114-8737] subset: upper_level synonym: "anatomical spaces" RELATED PLURAL [ZFA:0001643] synonym: "lumen" BROAD [] synonym: "lumen space" EXACT [] synonym: "space" BROAD [] xref: AAO:0010110 xref: AEO:0000005 xref: BILA:0000005 xref: CARO:0000005 xref: EHDAA2:0003005 xref: FBbt:00007017 xref: FMA:5897 xref: HAO:0000005 xref: http://linkedlifedata.com/resource/umls/id/C0524461 xref: NCIT:C94478 xref: TAO:0001668 xref: TGMA:0001825 xref: UMLS:C0524461 {source="ncithesaurus:Lumen_Space"} xref: VHOG:0001728 xref: XAO:0003190 xref: ZFA:0001643 is_a: UBERON:0000466 ! immaterial anatomical entity relationship: surrounded_by UBERON:0000061 ! anatomical structure [Term] id: UBERON:0000465 name: material anatomical entity namespace: uberon def: "Anatomical entity that has mass." [http://orcid.org/0000-0001-9114-8737] subset: upper_level xref: AAO:0010264 xref: AEO:0000006 xref: BILA:0000006 xref: CARO:0000006 xref: EHDAA2:0003006 xref: FBbt:00007016 xref: FMA:67165 xref: HAO:0000006 xref: TAO:0001836 xref: TGMA:0001826 xref: VHOG:0001721 is_a: BFO:0000040 ! material entity is_a: UBERON:0001062 ! anatomical entity [Term] id: UBERON:0000466 name: immaterial anatomical entity namespace: uberon def: "Anatomical entity that has no mass." [http://orcid.org/0000-0001-9114-8737] subset: upper_level synonym: "immaterial physical anatomical entity" EXACT [FMA:67112] xref: AAO:0010265 xref: AEO:0000007 xref: BILA:0000007 xref: CARO:0000007 xref: EHDAA2:0003007 xref: FBbt:00007015 xref: FMA:67112 xref: HAO:0000007 xref: TAO:0001835 xref: TGMA:0001827 xref: VHOG:0001727 is_a: BFO:0000141 ! immaterial entity is_a: UBERON:0001062 ! anatomical entity [Term] id: UBERON:0000467 name: anatomical system namespace: uberon def: "Multicellular, connected anatomical structure that has multiple organs as parts and whose parts work together to achieve some shared function." [CARO:0000011] subset: pheno_slim subset: uberon_slim subset: upper_level synonym: "anatomical systems" RELATED PLURAL [ZFA:0001439] synonym: "body system" EXACT [BIRNLEX:14] synonym: "connected anatomical system" EXACT [CARO:0000011] synonym: "organ system" EXACT [] synonym: "system" BROAD [GO:0048731] xref: AAO:0000007 xref: AEO:0000011 xref: BILA:0000011 xref: BIRNLEX:14 xref: BSA:0000049 xref: CALOHA:TS-2088 xref: CARO:0000011 xref: EHDAA2:0003011 xref: EHDAA:392 xref: EMAPA:16103 xref: EV:0100000 xref: FBbt:00004856 xref: FMA:7149 xref: galen:AnatomicalSystem xref: HAO:0000011 xref: http://linkedlifedata.com/resource/umls/id/C0460002 xref: http://www.snomedbrowser.com/Codes/Details/278195005 xref: MA:0000003 xref: NCIT:C12919 xref: OpenCyc:Mx4rCWM0QCtDEdyAAADggVbxzQ xref: Organ:system xref: SCTID:278195005 xref: TAO:0001439 xref: TGMA:0001831 xref: UMLS:C0460002 {source="ncithesaurus:Organ_System"} xref: VHOG:0001725 xref: WBbt:0005746 xref: WBbt:0005763 xref: Wikipedia:Organ_system xref: XAO:0003002 xref: ZFA:0001439 is_a: UBERON:0000061 ! anatomical structure relationship: existence_starts_during_or_after UBERON:0000111 ! organogenesis stage relationship: has_part UBERON:0000062 ! organ relationship: part_of UBERON:0000468 ! multicellular organism property_value: seeAlso EHDAA2:0001330 [Term] id: UBERON:0000468 name: multicellular organism namespace: uberon def: "Anatomical structure that is an individual member of a species and consists of more than one cell." [CARO:0000012, http://en.wikipedia.org/wiki/Multi-cellular_organism, http://orcid.org/0000-0001-9114-8737] def: "Anatomical structure that is an individual member of a species and consists of more than one cell." [CARO:0000012, http://orcid.org/0000-0001-9114-8737, Wikipedia:Multi-cellular_organism] subset: efo_slim subset: pheno_slim subset: uberon_slim subset: upper_level synonym: "animal" NARROW [BTO:0000042] synonym: "body" RELATED [AEO:0000103, BIRNLEX:18, FMA:256135, NCIT:C13041] synonym: "Koerper" RELATED [BTO:0001489] synonym: "multi-cellular organism" EXACT [CARO:0000012] synonym: "organism" BROAD [FBbt:00000001, VHOG:0000671, WBbt:0007833] synonym: "whole body" RELATED [BTO:0001489] synonym: "whole organism" RELATED [FBbt:00000001] xref: AAO:0010026 xref: AEO:0000191 xref: BILA:0000012 xref: BIRNLEX:18 xref: BSA:0000038 xref: BTO:0000042 xref: CARO:0000012 xref: EFO:0002906 xref: EHDAA2:0003103 xref: EHDAA2:0003191 xref: EHDAA:1 xref: EMAPA:25765 xref: EV:0100016 xref: FBbt:00000001 xref: FMA:256135 xref: galen:Organism xref: HAO:0000012 xref: http://www.snomedbrowser.com/Codes/Details/243928005 xref: Multi-cellular:organism xref: NCIT:C13041 xref: ncithesaurus:Whole_Organism xref: SCTID:243928005 xref: TADS:0000001 xref: TAO:0001094 xref: TGMA:0001832 xref: VHOG:0000671 xref: WBbt:0007833 xref: Wikipedia:Multi-cellular_organism xref: XAO:0003004 xref: ZFA:0001094 is_a: UBERON:0010000 ! multicellular anatomical structure property_value: editor_note "TODO - split body and mc organism? body continues after death stage" xsd:string property_value: UBPROP:0000007 "organismal" xsd:string [Term] id: UBERON:0000474 name: female reproductive system namespace: uberon def: "The organs and associated structures associated with bearing offspring in a female animal." [http://orcid.org/0000-0002-6601-2165, MP:0001119, Wikipedia:Female_genitalia] def: "The organs and associated structures associated with bearing offspring in a female animal." [http://en.wikipedia.org/wiki/Female_genitalia, http://orcid.org/0000-0002-6601-2165, MP:0001119] subset: efo_slim subset: pheno_slim subset: uberon_slim synonym: "female genital system" RELATED [] synonym: "female genital tract" RELATED [] synonym: "female genitalia" RELATED [] synonym: "female genitals" RELATED PLURAL [XAO:0000156] synonym: "female organism genitalia" EXACT [OBOL:automatic] synonym: "female organism reproductive system" EXACT [OBOL:automatic] synonym: "female reproductive tract" RELATED [MA:0000381] synonym: "genitalia of female organism" EXACT [OBOL:automatic] synonym: "gynaecological tissue" RELATED [BTO:0000083] synonym: "reproductive system of female organism" EXACT [OBOL:automatic] synonym: "systema genitale femininum" RELATED [BTO:0000083] xref: BTO:0000083 xref: CALOHA:TS-1303 xref: EFO:0000969 xref: EHDAA2:0000506 xref: EHDAA:8116 xref: EMAPA:17959 xref: EV:0100110 xref: FBbt:00004864 xref: Female:genitalia xref: FMA:45663 xref: GAID:364 xref: HAO:0000324 xref: http://linkedlifedata.com/resource/umls/id/C0700038 xref: http://www.snomedbrowser.com/Codes/Details/361386004 xref: MA:0000381 xref: MESH:D005836 xref: MIAA:0000028 xref: NCIT:C12402 xref: OpenCyc:Mx4rvVipTZwpEbGdrcN5Y29ycA xref: SCTID:361386004 xref: TGMA:0000635 xref: UMLS:C0700038 {source="ncithesaurus:Female_Reproductive_System"} xref: VHOG:0000726 xref: Wikipedia:Female_genitalia xref: WikipediaCategory:Female_reproductive_system xref: XAO:0000156 is_a: UBERON:0000990 ! reproductive system intersection_of: UBERON:0000990 ! reproductive system intersection_of: part_of UBERON:0003100 ! female organism relationship: part_of UBERON:0003100 ! female organism property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/6/68/Scheme_female_reproductive_system-en.svg xsd:anyURI property_value: UBPROP:0000003 "By far, sexual reproduction is the more common pattern among living vertebrate forms and its widespread occurrence suggests that it is the plesiomorphic, or primitive, reproductive mode among the vertebrates.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000726", ontology="VHOG", source="ISBN:978-0792383369 Lombardi J, Comparative vertebrate reproduction (1998) p.43", source="http://bgee.unil.ch/"} property_value: UBPROP:0000003 "By far, sexual reproduction is the more common pattern among living vertebrate forms and its widespread occurrence suggests that it is the plesiomorphic, or primitive, reproductive mode among the vertebrates.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000726", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0792383369 Lombardi J, Comparative vertebrate reproduction (1998) p.43"} [Term] id: UBERON:0000475 name: organism subdivision namespace: uberon def: "Anatomical structure which is a subdivision of a whole organism, consisting of components of multiple anatomical systems, largely surrounded by a contiguous region of integument." [CARO:0000032, CARO:DOS, http://orcid.org/0000-0001-9114-8737] subset: efo_slim subset: pheno_slim subset: uberon_slim subset: upper_level synonym: "anatomic region" EXACT [MA:0002433] synonym: "body part" RELATED [] synonym: "body region" RELATED [FMA:7153] synonym: "cardinal body part" RELATED [FMA:7153] xref: AAO:0010053 xref: AEO:0000032 xref: BILA:0000032 xref: BIRNLEX:7 xref: Body:part xref: CALOHA:TS-2084 xref: CARO:0000032 xref: EFO:0000808 xref: EHDAA2:0003032 xref: EMAPA:36031 xref: FBbt:00007009 xref: FMA:7153 xref: galen:BodyPart xref: HAO:0000032 xref: http://linkedlifedata.com/resource/umls/id/C0229962 xref: MA:0002433 xref: MAT:0000293 xref: MESH:D001829 xref: MIAA:0000293 xref: NCIT:C32221 xref: OpenCyc:Mx4rvViAHJwpEbGdrcN5Y29ycA xref: TAO:0001308 xref: TGMA:0001840 xref: UMLS:C0229962 {source="ncithesaurus:Body_Part"} xref: VHOG:0001758 xref: Wikipedia:Body_part xref: XAO:0003013 xref: ZFA:0001308 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0010000 {source="CARO"} ! multicellular anatomical structure relationship: has_part UBERON:0000075 {gci_relation="part_of", gci_filler="NCBITaxon:7742"} ! subdivision of skeletal system relationship: has_part UBERON:0034929 {gci_relation="part_of", gci_filler="NCBITaxon:7742"} ! external soft tissue zone relationship: overlaps UBERON:0001009 ! circulatory system relationship: overlaps UBERON:0001015 ! musculature relationship: overlaps UBERON:0001016 ! nervous system relationship: overlaps UBERON:0001434 ! skeletal system relationship: overlaps UBERON:0002416 ! integumental system relationship: part_of UBERON:0000468 ! multicellular organism property_value: editor_note "Reflects CARO2. todo - check the inclusion of FMA 'cardinal body part here', and check child terms for consistency" xsd:string [Term] id: UBERON:0000476 name: acellular anatomical structure namespace: uberon def: "Anatomical structure that consists of cell parts and cell substances and together does not constitute a cell or a tissue." [http://orcid.org/0000-0001-9114-8737] subset: vertebrate_core synonym: "acellular anatomical structures" RELATED PLURAL [ZFA:0000382] xref: AAO:0010268 xref: AEO:0000040 xref: BILA:0000040 xref: CARO:0000040 xref: EHDAA2:0003040 xref: FBbt:00007013 xref: FMA:63863 xref: HAO:0000040 xref: TAO:0000382 xref: TGMA:0001841 xref: XAO:0003162 xref: ZFA:0000382 is_a: UBERON:0000061 ! anatomical structure disjoint_from: UBERON:0010000 {source="CARO"} ! multicellular anatomical structure [Term] id: UBERON:0000477 name: anatomical cluster namespace: uberon def: "Anatomical group that has its parts adjacent to one another." [http://orcid.org/0000-0001-9114-8737] subset: upper_level xref: AAO:0010009 xref: AEO:0000041 xref: BILA:0000041 xref: CARO:0000041 xref: EHDAA2:0003041 xref: FBbt:00007277 xref: FMA:49443 xref: HAO:0000041 xref: TADS:0000605 xref: TAO:0001478 xref: TGMA:0001842 xref: VHOG:0001737 xref: XAO:0003160 xref: ZFA:0001478 is_a: UBERON:0001062 ! anatomical entity property_value: editor_note "Will be obsoleted in CARO v2 [https://github.com/obophenotype/caro/issues/3]" xsd:string [Term] id: UBERON:0000478 name: extraembryonic structure namespace: uberon def: "A multicellular anatomical structure that is associated with an embryo and derived from the zygote from which it develops, but which does not contribute to the embryo proper or to structures that are part of the same organism after embryogenesis." [CARO:DOS, http://orcid.org/0000-0001-9114-8737, https://cedar.bio.indiana.edu/trac/env/ontologies/ticket/279] comment: see also conceptus extraembryonic component in EHDAA2. subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "extra-embryonic structure" EXACT [] synonym: "extraembryonic structures" RELATED PLURAL [ZFA:0000020] synonym: "extraembryonic tissue" RELATED [] xref: AAO:0010020 xref: AEO:0000042 xref: BILA:0000042 xref: CALOHA:TS-2119 xref: CARO:0000042 xref: EHDAA2:0003042 xref: EHDAA:46 xref: FBbt:00005835 xref: FMA:85537 xref: HAO:0000042 xref: http://linkedlifedata.com/resource/umls/id/C1282438 xref: http://www.snomedbrowser.com/Codes/Details/314908006 xref: NCIT:C34055 xref: SCTID:314908006 xref: TAO:0000020 xref: TGMA:0001843 xref: UMLS:C1282438 {source="ncithesaurus:Extraembryonic_Structure"} xref: VHOG:0000292 xref: XAO:0004005 xref: ZFA:0000020 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0005423 ! developing anatomical structure intersection_of: UBERON:0005423 ! developing anatomical structure intersection_of: part_of UBERON:0016887 ! entire extraembryonic component relationship: existence_starts_and_ends_during UBERON:0000068 ! embryo stage relationship: part_of UBERON:0016887 ! entire extraembryonic component [Term] id: UBERON:0000479 name: tissue namespace: uberon def: "Multicellular anatomical structure that consists of many cells of one or a few types, arranged in an extracellular matrix such that their long-range organisation is at least partly a repetition of their short-range organisation." [CARO:0000043] subset: pheno_slim subset: upper_level synonym: "portion of tissue" EXACT [CARO:0000043] synonym: "simple tissue" NARROW [AEO:0000043] synonym: "tissue portion" EXACT [] xref: AAO:0000607 xref: AAO:0010054 xref: AEO:0000043 xref: BILA:0000043 xref: BIRNLEX:19 xref: CALOHA:TS-2090 xref: CARO:0000043 xref: EHDAA2:0003043 xref: EMAPA:35868 xref: FBbt:00007003 xref: FMA:9637 xref: galen:Tissue xref: HAO:0000043 xref: http://linkedlifedata.com/resource/umls/id/C0040300 xref: MA:0003002 xref: MESH:D014024 xref: NCIT:C12801 xref: TAO:0001477 xref: TGMA:0001844 xref: UMLS:C0040300 {source="ncithesaurus:Tissue"} xref: VHOG:0001757 xref: WBbt:0005729 xref: XAO:0003040 xref: ZFA:0001477 is_a: UBERON:0010000 {source="CARO"} ! multicellular anatomical structure relationship: has_part GO:0031012 ! extracellular matrix relationship: part_of UBERON:0000468 ! multicellular organism property_value: editor_note "changed label and definition to reflect CARO2" xsd:string [Term] id: UBERON:0000481 name: multi-tissue structure namespace: uberon def: "Anatomical structure that has as its parts two or more portions of tissue of at least two different types and which through specific morphogenetic processes forms a single distinct structural unit demarcated by bona-fide boundaries from other distinct structural units of different types." [CARO:0000055, http://orcid.org/0000-0001-9114-8737] subset: upper_level synonym: "multi-tissue structures" RELATED PLURAL [ZFA:0001488] xref: AAO:0010048 xref: AEO:0000055 xref: BILA:0000055 xref: CARO:0000055 xref: EHDAA2:0003055 xref: FBbt:00007010 xref: HAO:0000055 xref: TAO:0001488 xref: TGMA:0001847 xref: VHOG:0001762 xref: XAO:0003037 xref: ZFA:0001488 is_a: UBERON:0010000 {source="CARO"} ! multicellular anatomical structure relationship: has_part UBERON:0000479 ! tissue relationship: part_of NCBITaxon:6072 ! Eumetazoa [Term] id: UBERON:0000483 name: epithelium namespace: uberon def: "Portion of tissue, that consists of one or more layers of epithelial cells connected to each other by cell junctions and which is underlain by a basal lamina. Examples: simple squamous epithelium, glandular cuboidal epithelium, transitional epithelium, myoepithelium[CARO]." [http://en.wikipedia.org/wiki/Epithelium, http://orcid.org/0000-0001-9114-8737] def: "Portion of tissue, that consists of one or more layers of epithelial cells connected to each other by cell junctions and which is underlain by a basal lamina. Examples: simple squamous epithelium, glandular cuboidal epithelium, transitional epithelium, myoepithelium[CARO]." [http://orcid.org/0000-0001-9114-8737, Wikipedia:Epithelium] comment: Editor note: surface epithelium may contain non-epithelial cells, such as melanocytes, lymphocytes and dendritic cells, within the sheet of epithelial cells. Do we consider these part of the epithelium, or located-in it? subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "epithelial tissue" EXACT [] synonym: "portion of epithelium" EXACT [FMA:9639] xref: AAO:0000144 xref: AAO:0010055 xref: AEO:0000066 xref: BILA:0000066 xref: BTO:0000416 xref: CALOHA:TS-0288 xref: CARO:0000066 xref: EHDAA2:0003066 xref: EMAPA:32738 xref: FBbt:00007005 xref: FMA:9639 xref: GAID:402 xref: HAO:0000066 xref: http://en.wikipedia.org/wiki/Epithelium xref: http://linkedlifedata.com/resource/umls/id/C0014609 xref: http://www.snomedbrowser.com/Codes/Details/31610004 xref: MA:0003060 xref: MESH:D004848 xref: NCIT:C12710 xref: SCTID:31610004 xref: TAO:0001486 xref: UMLS:C0014609 {source="ncithesaurus:Epithelium"} xref: VHOG:0000387 xref: Wikipedia:Epithelium xref: XAO:0003045 xref: ZFA:0001486 is_a: UBERON:0000479 ! tissue intersection_of: UBERON:0000479 ! tissue intersection_of: composed_primarily_of CL:0000066 ! epithelial cell union_of: UBERON:0000486 ! multilaminar epithelium union_of: UBERON:0000490 ! unilaminar epithelium relationship: composed_primarily_of CL:0000066 ! epithelial cell relationship: has_part GO:0005911 ! cell-cell junction relationship: has_part UBERON:0005769 ! basement membrane of epithelium relationship: only_in_taxon NCBITaxon:6072 ! Eumetazoa property_value: depicted:by https://upload.wikimedia.org/wikipedia/commons/8/8f/Illu_epithelium.jpg xsd:anyURI property_value: depicted:by Tkanka:nablonkowa.png xsd:anyURI property_value: UBPROP:0000003 "The two basic types of metazoan tissue are epithelial and connective. The simplest metazoans, and developmental stages of many primitive invertebrates, consist solely of these two layers. Thus, epithelial and connective tissues may be the primary (original) tissues of metazoans, and both are important in the functional organization of animals.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000387", ontology="VHOG", source="ISBN:978-0030259821 Ruppert EE, Fox RS, Barnes RD, Invertebrate zoology: a functional evolutionary approach (2003) p.59", source="http://bgee.unil.ch/"} property_value: UBPROP:0000003 "The two basic types of metazoan tissue are epithelial and connective. The simplest metazoans, and developmental stages of many primitive invertebrates, consist solely of these two layers. Thus, epithelial and connective tissues may be the primary (original) tissues of metazoans, and both are important in the functional organization of animals.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000387", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0030259821 Ruppert EE, Fox RS, Barnes RD, Invertebrate zoology: a functional evolutionary approach (2003) p.59"} property_value: UBPROP:0000007 "epithelial" xsd:string [Term] id: UBERON:0000484 name: simple cuboidal epithelium namespace: uberon def: "Unilaminar epithelium that consists of a single layer of cuboidal cells." [http://en.wikipedia.org/wiki/Simple_cuboidal_epithelium, http://orcid.org/0000-0001-9114-8737] def: "Unilaminar epithelium that consists of a single layer of cuboidal cells." [http://orcid.org/0000-0001-9114-8737, Wikipedia:Simple_cuboidal_epithelium] subset: uberon_slim subset: vertebrate_core synonym: "epithelium simplex cuboideum" EXACT [] synonym: "simple cuboidal epithelia" RELATED PLURAL [ZFA:0001497] xref: AAO:0010064 xref: AEO:0000067 xref: BILA:0000067 xref: CARO:0000067 xref: EHDAA2:0003067 xref: FMA:45566 xref: HAO:0000067 xref: http://en.wikipedia.org/wiki/Simple_cuboidal_epithelium xref: http://linkedlifedata.com/resource/umls/id/C0836134 xref: NCIT:C33553 xref: TAO:0001497 xref: UMLS:C0836134 {source="ncithesaurus:Simple_Cuboidal_Epithelium"} xref: Wikipedia:Simple_cuboidal_epithelium xref: XAO:0004009 xref: ZFA:0001497 is_a: UBERON:0000490 ! unilaminar epithelium is_a: UBERON:0010077 ! cuboidal epithelium property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/d/d0/Gray1133.png xsd:anyURI property_value: editor_note "needs to be synchronized with CL - there is no distinct cuboidal cell in CL" xsd:string [Term] id: UBERON:0000485 name: simple columnar epithelium namespace: uberon def: "Unilaminar epithelium, which consists of a single layer of columnar cells. Examples: ciliated columnar epithelium, gastric epithelium, microvillus columnar epithelium.[FMA]." [FMA:FMA, http://en.wikipedia.org/wiki/Simple_columnar_epithelium, http://orcid.org/0000-0001-9114-8737] def: "Unilaminar epithelium, which consists of a single layer of columnar cells. Examples: ciliated columnar epithelium, gastric epithelium, microvillus columnar epithelium.[FMA]." [FMA:FMA, http://orcid.org/0000-0001-9114-8737, Wikipedia:Simple_columnar_epithelium] subset: uberon_slim subset: vertebrate_core synonym: "columnar epithelium" BROAD [EHDAA2:0003068] synonym: "columnar epithlium" BROAD [AEO:0000068] synonym: "epithelium simplex columnare" EXACT [] synonym: "simple columnar epithelia" RELATED PLURAL [ZFA:0001496] synonym: "simple columnar epithelium" EXACT [] xref: AAO:0010063 xref: AEO:0000068 xref: BILA:0000068 xref: CARO:0000068 xref: EHDAA2_RETIRED:0003068 xref: FBbt:00007027 xref: FMA:45567 xref: HAO:0000068 xref: http://en.wikipedia.org/wiki/Simple_columnar_epithelium xref: http://linkedlifedata.com/resource/umls/id/C0836135 xref: http://www.snomedbrowser.com/Codes/Details/32210007 xref: NCIT:C33552 xref: SCTID:32210007 xref: TAO:0001496 xref: UMLS:C0836135 {source="ncithesaurus:Simple_Columnar_Epithelium"} xref: Wikipedia:Simple_columnar_epithelium xref: XAO:0004008 xref: ZFA:0001496 is_a: UBERON:0000490 ! unilaminar epithelium is_a: UBERON:0012274 ! columnar epithelium property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/8/8b/Gray1059.png xsd:anyURI [Term] id: UBERON:0000486 name: multilaminar epithelium namespace: uberon def: "Epithelium which consists of more than one layer of epithelial cells that may or may not be in contact with a basement membrane. Examples: keratinized stratified squamous epithelium, ciliated stratified columnar epithelium.[FMA]" [FMA:FMA, http://en.wikipedia.org/wiki/Stratified_epithelium, http://orcid.org/0000-0001-9114-8737] def: "Epithelium which consists of more than one layer of epithelial cells that may or may not be in contact with a basement membrane. Examples: keratinized stratified squamous epithelium, ciliated stratified columnar epithelium.[FMA]." [FMA:FMA, http://en.wikipedia.org/wiki/Stratified_epithelium, http://orcid.org/0000-0001-9114-8737] def: "Epithelium which consists of more than one layer of epithelial cells that may or may not be in contact with a basement membrane. Examples: keratinized stratified squamous epithelium, ciliated stratified columnar epithelium.[FMA]." [FMA:FMA, http://orcid.org/0000-0001-9114-8737, Wikipedia:Stratified_epithelium] subset: uberon_slim subset: vertebrate_core synonym: "laminated epithelium" RELATED [BTO:0002074] synonym: "stratified epithelium" EXACT [] xref: AAO:0010059 xref: AEO:0000069 xref: BILA:0000069 xref: BTO:0002074 xref: CARO:0000069 xref: EHDAA2:0003069 xref: FMA:45562 xref: HAO:0000069 xref: http://linkedlifedata.com/resource/umls/id/C0682575 xref: http://www.snomedbrowser.com/Codes/Details/309044005 xref: NCIT:C33622 xref: SCTID:309044005 xref: Stratified:epithelium xref: TAO:0001494 xref: UMLS:C0682575 {source="ncithesaurus:Stratified_Epithelium"} xref: Wikipedia:Stratified_epithelium xref: XAO:0004006 xref: ZFA:0001494 is_a: UBERON:0000483 ! epithelium property_value: UBPROP:0000001 "Epithelium that consists of more than one layer of epithelial cells.[CARO]" xsd:string {date_retrieved="2012-06-20", external_class="CARO:0000069", ontology="CARO", source="FMA:45562", source="http://orcid.org/0000-0001-9114-8737"} property_value: UBPROP:0000001 "Epithelium that consists of more than one layer of epithelial cells.[CARO]" xsd:string {date_retrieved="2012-06-20", external_class="CARO:0000069", ontology="CARO", source="http://orcid.org/0000-0001-9114-8737", source="FMA:45562"} [Term] id: UBERON:0000487 name: simple squamous epithelium namespace: uberon def: "Unilaminar epithelium which consists of a single layer of squamous cells. Examples: pulmonary alveolar epithelium, endothelium.[FMA]" [FMA:45565, http://en.wikipedia.org/wiki/Simple_squamous_epithelium, http://orcid.org/0000-0001-9114-8737] def: "Unilaminar epithelium which consists of a single layer of squamous cells. Examples: pulmonary alveolar epithelium, endothelium.[FMA]." [FMA:45565, http://en.wikipedia.org/wiki/Simple_squamous_epithelium, http://orcid.org/0000-0001-9114-8737] def: "Unilaminar epithelium which consists of a single layer of squamous cells. Examples: pulmonary alveolar epithelium, endothelium.[FMA]." [FMA:45565, http://orcid.org/0000-0001-9114-8737, Wikipedia:Simple_squamous_epithelium] subset: uberon_slim subset: vertebrate_core synonym: "epithelium simplex squamosum" EXACT [] synonym: "simple squamous epithelia" RELATED PLURAL [ZFA:0001498] xref: AAO:0010066 xref: AEO:0000070 xref: BILA:0000070 xref: BTO:0002073 xref: CARO:0000070 xref: EHDAA2:0003070 xref: FMA:45565 xref: HAO:0000070 xref: http://en.wikipedia.org/wiki/Simple_squamous_epithelium xref: http://linkedlifedata.com/resource/umls/id/C0836133 xref: NCIT:C13178 xref: TAO:0001498 xref: UMLS:C0836133 {source="ncithesaurus:Simple_Squamous_Epithelium"} xref: Wikipedia:Simple_squamous_epithelium xref: XAO:0004010 xref: ZFA:0001498 is_a: UBERON:0000490 ! unilaminar epithelium is_a: UBERON:0006914 ! squamous epithelium intersection_of: UBERON:0000490 ! unilaminar epithelium intersection_of: has_part CL:0000076 ! squamous epithelial cell property_value: depicted:by https://upload.wikimedia.org/wikipedia/commons/8/8f/Illu_epithelium.jpg xsd:anyURI property_value: depicted:by Illu:epithelium.jpg xsd:anyURI property_value: UBPROP:0000001 "Unilaminar epithelium that consists of a single layer of squamous cells.[CARO]" xsd:string {date_retrieved="2012-06-20", external_class="CARO:0000070", ontology="CARO", source="http://orcid.org/0000-0001-9114-8737", source="FMA:45565"} property_value: UBPROP:0000001 "Unilaminar epithelium that consists of a single layer of squamous cells.[CARO]" xsd:string {date_retrieved="2012-06-20", external_class="CARO:0000070", ontology="CARO", source="FMA:45565", source="http://orcid.org/0000-0001-9114-8737"} [Term] id: UBERON:0000488 name: atypical epithelium namespace: uberon def: "Epithelium that consists of epithelial cells not arranged in one ore more layers." [http://orcid.org/0000-0001-9114-8737] subset: vertebrate_core synonym: "atypical epithelia" RELATED PLURAL [ZFA:0001493] synonym: "heterogenous epithelium" EXACT [] xref: AAO:0010057 xref: AEO:0000071 xref: BILA:0000071 xref: CARO:0000071 xref: EHDAA2:0003071 xref: FMA:61741 xref: HAO:0000071 xref: TAO:0001493 xref: XAO:0004004 xref: ZFA:0001493 is_a: UBERON:0000483 ! epithelium [Term] id: UBERON:0000489 name: cavitated compound organ namespace: uberon def: "Compound organ that contains one or more macroscopic anatomical spaces." [http://orcid.org/0000-0001-9114-8737] subset: organ_slim subset: upper_level synonym: "cavitated compound organs" RELATED PLURAL [ZFA:0001490] synonym: "cavitated organ" EXACT [FMA:55671] xref: AAO:0010016 xref: AEO:0000072 xref: BILA:0000072 xref: CARO:0000072 xref: EHDAA2:0003072 xref: FMA:55671 xref: HAO:0000072 xref: TAO:0001490 xref: TGMA:0001857 xref: VHOG:0001730 xref: XAO:0003165 xref: ZFA:0001490 is_a: UBERON:0003103 ! compound organ intersection_of: UBERON:0003103 ! compound organ intersection_of: has_part UBERON:0002553 ! anatomical cavity relationship: has_part UBERON:0002553 ! anatomical cavity property_value: IAO:0000232 "this class was introduced for consistency with CARO, however, it has yet to be used in this or other ontologies. It may be retired in the future" xsd:string [Term] id: UBERON:0000490 name: unilaminar epithelium namespace: uberon def: "Epithelium which consists of a single layer of epithelial cells. Examples: endothelium, mesothelium, glandular squamous epithelium.[FMA]" [FMA:45561, http://orcid.org/0000-0001-9114-8737] def: "Epithelium which consists of a single layer of epithelial cells. Examples: endothelium, mesothelium, glandular squamous epithelium.[FMA]." [FMA:45561, http://orcid.org/0000-0001-9114-8737] subset: vertebrate_core synonym: "simple epithelium" EXACT [FMA:45561] synonym: "unilaminar epithelia" RELATED PLURAL [ZFA:0001495] xref: AAO:0010062 xref: AEO:0000073 xref: BILA:0000073 xref: BTO:0002073 xref: CARO:0000073 xref: EHDAA2:0003073 xref: FMA:45561 xref: HAO:0000073 xref: http://linkedlifedata.com/resource/umls/id/C0682574 xref: http://www.snomedbrowser.com/Codes/Details/309043004 xref: NCIT:C33554 xref: SCTID:309043004 xref: TAO:0001495 xref: UMLS:C0682574 {source="ncithesaurus:Simple_Epithelium"} xref: XAO:0004007 xref: ZFA:0001495 is_a: UBERON:0000483 ! epithelium property_value: editor_note "consider adding disjointness axiom between unilaminar and multilaminar - but note that this will render EHDAA2:0003244 (chorionic trophoblast) unsatisfiable" xsd:string property_value: UBPROP:0000001 "Epithelium that consists of a single layer of epithelial cells.[CARO]" xsd:string {date_retrieved="2012-06-20", external_class="CARO:0000073", ontology="CARO", source="FMA:45561", source="http://orcid.org/0000-0001-9114-8737"} property_value: UBPROP:0000001 "Epithelium that consists of a single layer of epithelial cells.[CARO]" xsd:string {date_retrieved="2012-06-20", external_class="CARO:0000073", ontology="CARO", source="http://orcid.org/0000-0001-9114-8737", source="FMA:45561"} [Term] id: UBERON:0000915 name: thoracic segment of trunk namespace: uberon def: "Subdivision of trunk that lies between the head and the abdomen." [http://orcid.org/0000-0002-6601-2165] subset: uberon_slim synonym: "anterior subdivision of trunk" RELATED [] synonym: "thorax" EXACT [MA:0000022] synonym: "upper body" RELATED [] synonym: "upper trunk" RELATED [FMA:259209] xref: EMAPA:35862 xref: FMA:259209 xref: http://en.wikipedia.org/wiki/Thorax xref: http://www.snomedbrowser.com/Codes/Details/302551006 xref: MA:0000022 xref: SCTID:302551006 xref: Wikipedia:Thorax is_a: CARO:0000003 ! connected anatomical structure is_a: UBERON:0009569 {source="FMA"} ! subdivision of trunk is_a: UBERON:0011676 ! subdivision of organism along main body axis intersection_of: UBERON:0011676 ! subdivision of organism along main body axis intersection_of: has_skeleton UBERON:0014477 ! thoracic skeleton relationship: has_part UBERON:0014477 ! thoracic skeleton relationship: has_skeleton UBERON:0014477 ! thoracic skeleton property_value: IAO:0000232 "note that we use the slightly verbose term 'thoracic segment of trunk' to avoid confusuon with insect thorax. todo - taxonomic constraints. Also, in FMA 'thorax' is a synonym for chest" xsd:string property_value: RO:0002171 UBERON:0000026 property_value: RO:0002171 UBERON:0000033 property_value: RO:0002171 UBERON:0002417 [Term] id: UBERON:0000916 name: abdomen namespace: uberon def: "The subdivision of the vertebrate body between the thorax and pelvis. The ventral part of the abdomen contains the abdominal cavity and visceral organs. The dorsal part includes the abdominal section of the vertebral column." [http://orcid.org/0000-0002-6601-2165] subset: efo_slim subset: pheno_slim subset: uberon_slim synonym: "abdominopelvic region" EXACT [FMA:9577] synonym: "abdominopelvis" EXACT [FMA:9577] synonym: "adult abdomen" RELATED [] synonym: "belly" RELATED [] synonym: "celiac region" RELATED [] xref: BTO:0000020 xref: CALOHA:TS-0001 xref: EFO:0000968 xref: EMAPA:35102 xref: EV:0100011 xref: FMA:9577 xref: GAID:16 xref: galen:Abdomen xref: http://en.wikipedia.org/wiki/Abdomen xref: http://www.snomedbrowser.com/Codes/Details/302553009 xref: MA:0000029 xref: MAT:0000298 xref: MESH:A01.047 xref: MIAA:0000298 xref: OpenCyc:Mx4rvVjgyZwpEbGdrcN5Y29ycA xref: SCTID:302553009 xref: Wikipedia:Abdomen is_a: UBERON:0009569 ! subdivision of trunk relationship: only_in_taxon NCBITaxon:7742 ! Vertebrata relationship: part_of UBERON:0002417 {source="MA"} ! abdominal segment of trunk property_value: editor_note "Vertebrate specific. In arthropods 'abdomen' is the most distal section of the body which lies behind the thorax or cephalothorax. If need be we can introduce some grouping class" xsd:string property_value: UBPROP:0000007 "abdominal" xsd:string property_value: UBPROP:0000007 "celiac" xsd:string [Term] id: UBERON:0000922 name: embryo namespace: uberon def: "Anatomical entity that comprises the organism in the early stages of growth and differentiation that are characterized by cleavage, the laying down of fundamental tissues, and the formation of primitive organs and organ systems. For example, for mammals, the process would begin with zygote formation and end with birth. For insects, the process would begin at zygote formation and end with larval hatching. For plant zygotic embryos, this would be from zygote formation to the end of seed dormancy. For plant vegetative embryos, this would be from the initial determination of the cell or group of cells to form an embryo until the point when the embryo becomes independent of the parent plant." [BTO:0000379, FB:FBrf0039741, FB:FBrf0041814, GO:0009790, Wikipedia:Embryo] def: "Anatomical entity that comprises the organism in the early stages of growth and differentiation that are characterized by cleavage, the laying down of fundamental tissues, and the formation of primitive organs and organ systems. For example, for mammals, the process would begin with zygote formation and end with birth. For insects, the process would begin at zygote formation and end with larval hatching. For plant zygotic embryos, this would be from zygote formation to the end of seed dormancy. For plant vegetative embryos, this would be from the initial determination of the cell or group of cells to form an embryo until the point when the embryo becomes independent of the parent plant." [BTO:0000379, FB:FBrf0039741, FB:FBrf0041814, GO:0009790, http://en.wikipedia.org/wiki/Embryo] subset: efo_slim subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "developing organism" RELATED [BILA:0000056] synonym: "developmental tissue" RELATED [] synonym: "embryonic organism" EXACT [BILA:0000056] xref: AAO:0011035 xref: AEO:0000169 xref: BILA:0000056 xref: BSA:0000039 xref: BTO:0000379 xref: CALOHA:TS-0229 xref: Category:Embryonic\:organism xref: EFO:0001367 xref: EHDAA2:0000002 xref: EHDAA2_RETIRED:0003236 xref: EHDAA:38 xref: EMAPA:16039 xref: FBbt:00000052 xref: FMA:69068 xref: GAID:963 xref: http://en.wikipedia.org/wiki/Embryo xref: http://linkedlifedata.com/resource/umls/id/C0013935 xref: http://neurolex.org/wiki/Category\:Embryonic_organism xref: http://www.snomedbrowser.com/Codes/Details/57991002 xref: MAT:0000226 xref: MESH:D004622 xref: MIAA:0000019 xref: NCIT:C28147 xref: OGEM:000001 xref: OpenCyc:Mx4rwP1ceZwpEbGdrcN5Y29ycA xref: SCTID:57991002 xref: UMLS:C0013935 {source="ncithesaurus:Embryo"} xref: VHOG:0001766 xref: Wikipedia:Embryo xref: XAO:0000113 xref: ZFA:0000103 is_a: UBERON:0000468 ! multicellular organism intersection_of: UBERON:0000468 ! multicellular organism intersection_of: existence_ends_with UBERON:0000068 ! embryo stage intersection_of: existence_starts_with UBERON:0000068 ! embryo stage relationship: existence_ends_with UBERON:0000068 ! embryo stage relationship: existence_starts_with UBERON:0000068 ! embryo stage property_value: depicted:by https://upload.wikimedia.org/wikipedia/commons/2/2d/Wrinkledfrog_embryos.jpg xsd:anyURI property_value: depicted:by Wrinkledfrog:embryos.jpg xsd:anyURI property_value: seeAlso https://github.com/obophenotype/uberon/issues/503 xsd:anyURI property_value: UBPROP:0000007 "embryonic" xsd:string property_value: UBPROP:0000012 "Obsoleted in ZFA. Note that embryo is not classified as an embryonic structure - an embryonic structure is only the parts of an embryo" xsd:string {external_ontology="ZFA"} [Term] id: UBERON:0000923 name: germ layer namespace: uberon def: "A layer of cells produced during the process of gastrulation during the early development of the animal embryo, which is distinct from other such layers of cells, as an early step of cell differentiation. The three types of germ layers are the endoderm, ectoderm, and mesoderm." [http://en.wikipedia.org/wiki/Germ_layer, https://github.com/obophenotype/uberon/issues/203] def: "A layer of cells produced during the process of gastrulation during the early development of the animal embryo, which is distinct from other such layers of cells, as an early step of cell differentiation. The three types of germ layers are the endoderm, ectoderm, and mesoderm." [https://github.com/obophenotype/uberon/issues/203, Wikipedia:Germ_layer] comment: Classically the germ layers are ectoderm, mesoderm and endoderm. Alternatively: primary = ectoderm, endoderm; secondary=mesoderm; tertiary=dorsal mesoderm, NC[https://github.com/obophenotype/uberon/wiki/The-neural-crest] subset: uberon_slim subset: vertebrate_core synonym: "embryonic germ layer" RELATED [] synonym: "embryonic germ layers" RELATED [] synonym: "embryonic tissue" BROAD [FMA:69069] synonym: "germinal layer" EXACT [ncithesaurus:Germinal_Layer] synonym: "primary germ layer" NARROW [GO:0001704, ZFA:0001122] xref: AAO:0000480 xref: BILA:0000035 xref: BTO:0000556 xref: EMAPA:36033 xref: FBbt:00000110 xref: FMA:69069 xref: GAID:1303 xref: Germ:layer xref: http://linkedlifedata.com/resource/umls/id/C0920502 xref: http://linkedlifedata.com/resource/umls/id/C1708239 xref: MESH:A16.254.425 xref: NCIT:C12950 xref: NCIT:C54105 xref: TAO:0001122 xref: UMLS:C0920502 {source="ncithesaurus:Embryonic_Tissue"} xref: UMLS:C1708239 {source="ncithesaurus:Germinal_Layer"} xref: VHOG:0001223 xref: Wikipedia:Germ_layer xref: XAO:0003011 xref: ZFA:0001122 is_a: UBERON:0010316 ! germ layer / neural crest relationship: only_in_taxon NCBITaxon:6072 ! Eumetazoa property_value: UBPROP:0000003 "The Bilateria are triploblastic (with true endoderm, mesoderm, and ectoderm) (...).[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001223", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0878932504 Gilbert SF, Developmental Biology (2006) Limb development and evolution, p.722"} property_value: UBPROP:0000003 "The Bilateria are triploblastic (with true endoderm, mesoderm, and ectoderm) (...).[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001223", ontology="VHOG", source="ISBN:978-0878932504 Gilbert SF, Developmental Biology (2006) Limb development and evolution, p.722", source="http://bgee.unil.ch/"} [Term] id: UBERON:0000924 name: ectoderm namespace: uberon def: "Primary germ layer that is the outer of the embryo's three germ layers and gives rise to epidermis and neural tissue." [http://en.wikipedia.org/wiki/Ectoderm] def: "Primary germ layer that is the outer of the embryo's three germ layers and gives rise to epidermis and neural tissue." [Wikipedia:Ectoderm] subset: efo_slim subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "embryonic ectoderm" EXACT [VHOG:0000153] xref: AAO:0000137 xref: BILA:0000036 xref: BTO:0000315 xref: CALOHA:TS-0216 xref: EFO:0000414 xref: EHDAA2:0000428 xref: EMAPA:16069 xref: EV:0100003 xref: FBbt:00000111 xref: FMA:69070 xref: GAID:1304 xref: http://en.wikipedia.org/wiki/Ectoderm xref: http://linkedlifedata.com/resource/umls/id/C0013574 xref: http://www.snomedbrowser.com/Codes/Details/362851007 xref: MAT:0000155 xref: MAT:0000173 xref: MESH:A16.254.425.273 xref: MIAA:0000173 xref: NCIT:C12703 xref: SCTID:362851007 xref: TAO:0000016 xref: UMLS:C0013574 {source="ncithesaurus:Ectoderm"} xref: VHOG:0000153 xref: Wikipedia:Ectoderm xref: XAO:0000001 xref: ZFA:0000016 is_a: UBERON:0000923 ! germ layer relationship: develops_from UBERON:0006601 ! presumptive ectoderm relationship: has_part CL:0000221 ! ectodermal cell relationship: immediate_transformation_of UBERON:0006601 {source="Bgee:AN"} ! presumptive ectoderm property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/1/19/Gray32.png xsd:anyURI property_value: UBPROP:0000001 "Primary germ layer that is the outer of the embryonic germ layers and gives rise to epidermis and neural tissue.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0000137", ontology="AAO", source="AAO:EJS"} property_value: UBPROP:0000003 "The Bilateria are triploblastic (with true endoderm, mesoderm, and ectoderm) (...).[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000153", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0878932504 Gilbert SF, Developmental Biology (2006) Limb development and evolution, p.722"} property_value: UBPROP:0000003 "The Bilateria are triploblastic (with true endoderm, mesoderm, and ectoderm) (...).[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000153", ontology="VHOG", source="ISBN:978-0878932504 Gilbert SF, Developmental Biology (2006) Limb development and evolution, p.722", source="http://bgee.unil.ch/"} property_value: UBPROP:0000007 "ectodermal" xsd:string [Term] id: UBERON:0000925 name: endoderm namespace: uberon def: "Primary germ layer that lies remote from the surface of the embryo and gives rise to internal tissues such as gut." [http://en.wikipedia.org/wiki/Endoderm] def: "Primary germ layer that lies remote from the surface of the embryo and gives rise to internal tissues such as gut." [Wikipedia:Endoderm] subset: efo_slim subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "entoderm" RELATED DEPRECATED [https://doi.org/10.5962/bhl.title.1013] synonym: "entoderm" RELATED DEPRECATED [DOI:10.5962/bhl.title.1013] xref: AAO:0000139 xref: BILA:0000038 xref: BTO:0000800 xref: CALOHA:TS-0273 xref: EFO:0002545 xref: EHDAA2:0000436 xref: EMAPA:16062 xref: EV:0100005 xref: FBbt:00000125 xref: FMA:69071 xref: GAID:1305 xref: http://en.wikipedia.org/wiki/Endoderm xref: http://linkedlifedata.com/resource/umls/id/C0014144 xref: http://www.snomedbrowser.com/Codes/Details/362855003 xref: MAT:0000175 xref: MESH:A16.254.425.407 xref: MIAA:0000175 xref: NCIT:C12706 xref: SCTID:362855003 xref: TAO:0000017 xref: UMLS:C0014144 {source="ncithesaurus:Endoderm"} xref: VHOG:0000154 xref: Wikipedia:Endoderm xref: XAO:0000090 xref: ZFA:0000017 is_a: UBERON:0000923 ! germ layer relationship: develops_from UBERON:0006595 ! presumptive endoderm relationship: has_part CL:0000223 ! endodermal cell relationship: immediate_transformation_of UBERON:0006595 {source="Bgee:AN"} ! presumptive endoderm property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/c/c0/Endoderm2.png xsd:anyURI property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/d/df/Gray10.png xsd:anyURI property_value: UBPROP:0000003 "The Bilateria are triploblastic (with true endoderm, mesoderm, and ectoderm) (...).[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000154", ontology="VHOG", source="ISBN:978-0878932504 Gilbert SF, Developmental Biology (2006) Limb development and evolution, p.722", source="http://bgee.unil.ch/"} property_value: UBPROP:0000003 "The Bilateria are triploblastic (with true endoderm, mesoderm, and ectoderm) (...).[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000154", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0878932504 Gilbert SF, Developmental Biology (2006) Limb development and evolution, p.722"} property_value: UBPROP:0000007 "endodermal" xsd:string [Term] id: UBERON:0000926 name: mesoderm namespace: uberon alt_id: UBERON:0003263 def: "The middle germ layer of the embryo, between the endoderm and ectoderm." [Wikipedia:Mesoderm] def: "The middle germ layer of the embryo, between the endoderm and ectoderm." [http://en.wikipedia.org/wiki/Mesoderm] subset: efo_slim subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "embryonic mesoderm" RELATED [VHOG:0000152] synonym: "entire mesoderm" RELATED [https://orcid.org/0000-0002-6601-2165, SCTID:362854004] synonym: "entire mesoderm" RELATED [http://www.snomedbrowser.com/Codes/Details/362854004, https://orcid.org/0000-0002-6601-2165] synonym: "mesodermal mantle" RELATED [] xref: AAO:0000304 xref: BILA:0000037 xref: BTO:0000839 xref: CALOHA:TS-0623 xref: EFO:0001981 xref: EHDAA2:0001128 xref: EHDAA:124 xref: EHDAA:160 xref: EHDAA:183 xref: EMAPA:16083 xref: EV:0100006 xref: FBbt:00000126 xref: FMA:69072 xref: GAID:522 xref: http://en.wikipedia.org/wiki/Mesoderm xref: http://linkedlifedata.com/resource/umls/id/C0025485 xref: http://www.snomedbrowser.com/Codes/Details/362854004 xref: MAT:0000174 xref: MESH:A16.254.425.660 xref: MIAA:0000174 xref: NCIT:C12750 xref: SCTID:362854004 xref: TAO:0000041 xref: UMLS:C0025485 {source="ncithesaurus:Mesoderm"} xref: VHOG:0000152 xref: Wikipedia:Mesoderm xref: XAO:0000050 xref: ZFA:0000041 is_a: UBERON:0000923 {notes="sometimes not considered primary"} ! germ layer relationship: develops_from UBERON:0006603 ! presumptive mesoderm relationship: has_part CL:0000222 ! mesodermal cell relationship: immediate_transformation_of UBERON:0006603 {source="Bgee:AN"} ! presumptive mesoderm property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/e/e8/Mesoderm.png xsd:anyURI property_value: RO:0002161 NCBITaxon:6040 property_value: UBPROP:0000001 "Primary germ layer that is the middle of the embryonic germ layers.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0000304", ontology="AAO", source="AAO:EJS"} property_value: UBPROP:0000003 "The Bilateria are triploblastic (with true endoderm, mesoderm, and ectoderm) (...).[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000152", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0878932504 Gilbert SF, Developmental Biology (2006) Limb development and evolution, p.722"} property_value: UBPROP:0000003 "The Bilateria are triploblastic (with true endoderm, mesoderm, and ectoderm) (...).[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000152", ontology="VHOG", source="ISBN:978-0878932504 Gilbert SF, Developmental Biology (2006) Limb development and evolution, p.722", source="http://bgee.unil.ch/"} property_value: UBPROP:0000007 "mesodermal" xsd:string property_value: UBPROP:0000008 "sponges do not seem to have a mesoderm and accordingly Amphimedon lacks transcription factors involved in mesoderm development (Fkh, Gsc, Twist, Snail)[http://www.nature.com/nature/journal/v466/n7307/full/nature09201.html]. Mesoderm may not be homologous across verteberates" xsd:string {source="https://github.com/obophenotype/uberon/wiki/The-neural-crest"} property_value: UBPROP:0000008 "sponges do not seem to have a mesoderm and accordingly Amphimedon lacks transcription factors involved in mesoderm development (Fkh, Gsc, Twist, Snail)[http://www.nature.com/nature/journal/v466/n7307/full/nature09201.html]. Mesoderm may not be homologous across verteberates" xsd:string {source="https://github.com/obophenotype/uberon/wiki/The-neural-crest"} [Term] id: UBERON:0000930 name: stomodeum namespace: uberon def: "Anterior part of the embryonic digestive tract that develops into a mouth. The stomodeum includes as parts an invagination of the ectoderm and the stomodeal cavity." [http://orcid.org/0000-0002-6601-2165, https://github.com/obophenotype/uberon/issues/326, Wikipedia:Stomodeum] def: "Anterior part of the embryonic digestive tract that develops into a mouth. The stomodeum includes as parts an invagination of the ectoderm and the stomodeal cavity." [http://en.wikipedia.org/wiki/Stomodeum, http://orcid.org/0000-0002-6601-2165, https://github.com/obophenotype/uberon/issues/326] subset: grouping_class subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "mouth pit" RELATED [EMAPA:16263] synonym: "mouth primordium" EXACT [XAO:0000269] synonym: "oral ectoderm" RELATED [ZFA:0001290, ZFIN:ZDB-PUB-100726-23] synonym: "oral pit" RELATED [EMAPA:16263] synonym: "primitive oral cavity" EXACT [https://orcid.org/0000-0002-6601-2165] synonym: "stomatodeum" EXACT [http://en.wikipedia.org/wiki/Stomodeum] synonym: "stomatodeum" EXACT [Wikipedia:Stomodeum] synonym: "stomodaeum" EXACT [] synonym: "stomodeal-hypophyseal primordium" BROAD [XAO:0000269] xref: BTO:0004224 xref: EHDAA2:0001929 xref: EMAPA:16263 xref: FBbt:00000439 xref: FMA:295846 xref: http://en.wikipedia.org/wiki/Stomodeum xref: http://linkedlifedata.com/resource/umls/id/C1514977 xref: NCIT:C34306 xref: TAO:0001290 xref: TGMA:0000135 xref: UMLS:C1514977 {source="ncithesaurus:Stomodeum"} xref: Wikipedia:Stomodeum xref: XAO:0000269 xref: ZFA:0001290 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0013522 ! subdivision of tube relationship: only_in_taxon NCBITaxon:6072 ! Eumetazoa relationship: part_of UBERON:0000924 ! ectoderm relationship: part_of UBERON:0035804 ! future mouth property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/9/93/Gray977.png xsd:anyURI property_value: editor_note "consider indicating location. e.g. anterior. Note some AOs place this as part of oral opening, but it's not clear when this structure comes into existence" xsd:string property_value: UBPROP:0000001 "Anterior part of the embryonic alimentary canal formed as an invagination of the ectoderm; the future mouth.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0001290", ontology="TAO", source="ZFIN:curator"} property_value: UBPROP:0000001 "the primordial mouth region of the developing head, initially a midline ectodermal depression between the forebrain bulge (cranially) and the heart bulge (caudally) and between the maxillary and mandibular components of the first pharyngeal arch; the stomodeum is separated from the anterior end of the foregut by the buccopharyngeal membrane; the mouth is developed partly from the stomodeum, and partly from the floor of the anterior portion of the foregut; the lips, teeth, and gums are formed from the walls of the stomodeum, but the tongue is developed in the floor of the pharynx" xsd:string {source="MP:0012522", taxon="NCBITaxon:40674"} property_value: UBPROP:0000007 "stomodeal" xsd:string property_value: UBPROP:0000008 "This class groups together disparate structures as all being the anterior part of the early metazoan digestive tract and precursor of the mouth. However, the developmental processes vary, so this class may be split in future. E.g. in mammals it is a rostral depression surrounded by prominences. Outgrowth of the prominences produces a stomodeal cavity." xsd:string [Term] id: UBERON:0000945 name: stomach namespace: uberon def: "An expanded region of the vertebrate alimentary tract that serves as a food storage compartment and digestive organ. A stomach is lined, in whole or in part by a glandular epithelium." [https://orcid.org/0000-0002-6601-2165, ISBN:0073040584, Wikipedia:Stomach] subset: efo_slim subset: major_organ subset: organ_slim subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "anterior intestine" RELATED [] synonym: "gaster" RELATED [BTO:0001307] synonym: "mesenteron" RELATED [] synonym: "stomach chamber" NARROW [] synonym: "ventriculus" RELATED LATIN [Wikipedia:Stomach] xref: AAO:0000579 xref: ANISEED:1235297 xref: BTO:0001307 xref: CALOHA:TS-0980 xref: EFO:0000837 xref: EHDAA2:0001915 xref: EHDAA:2993 xref: EMAPA:17021 xref: EV:0100070 xref: FMA:7148 xref: GAID:293 xref: galen:Stomach xref: MA:0000353 xref: MAT:0000051 xref: MESH:A03.492.766 xref: MIAA:0000051 xref: NCIT:C12391 xref: OpenCyc:Mx4rvVjlqpwpEbGdrcN5Y29ycA xref: SCTID:181246003 xref: TAO:0002121 xref: UMLS:C0038351 {source="ncithesaurus:Stomach"} xref: VHOG:0000408 xref: Wikipedia:Stomach xref: XAO:0000128 is_a: UBERON:0004921 {source="cjm"} ! subdivision of digestive tract is_a: UBERON:0010039 {source="cjm"} ! food storage organ relationship: capable_of GO:0001696 {evidence="ISBN:0486692132"} ! gastric acid secretion relationship: contributes_to_morphology_of UBERON:0001007 ! digestive system relationship: only_in_taxon NCBITaxon:7776 {notes="absent in lampreys and hagfishes", source="ISBN:0073040584"} ! Gnathostomata relationship: part_of UBERON:0001041 ! foregut property_value: depicted:by Stomach:diagram.svg xsd:anyURI property_value: RO:0002161 NCBITaxon:7864 {source="Wikipedia"} property_value: RO:0002161 NCBITaxon:7878 {source="Wikipedia"} property_value: RO:0002161 NCBITaxon:7955 {source="ZFA"} property_value: RO:0002161 NCBITaxon:9259 {source="Wikipedia"} property_value: UBPROP:0000001 "Portion of alimentary canal with increased circular and longitudinal smooth muscle. Bounded posteriorly by the pyloric sphincter. Mucosal lining has increased folding.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0000579", ontology="AAO", source="AAO:EJS"} property_value: UBPROP:0000003 "It appears that the stomach has an ancient origin. The stomach first appears in the fish lineage. The prevertebrate chordates do not have a true stomach, whereas the cartilaginous and bony fish do. Although most fish do have a true stomach, some fish species appear to have lost the stomach secondarily. The remaining vertebrate lineages do have a true stomach (at least in the adult animal), although there is great variation in the size and shape of the stomach.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000408", ontology="VHOG", source="DOI:10.1046/j.1525-142x.2000.00076.x Smith DM, Grasty RC, Theodosiou NA, Tabin CJ, Nascone-Yoder NM, Evolutionary relationships between the amphibian, avian, and mammalian stomachs. Evolution and development (2000)", source="http://bgee.unil.ch/"} property_value: UBPROP:0000008 "We restrict this to the vertebrate specific structure - see the grouping class 'food storage organ' for analogous structures in other species. Teleosts: Zebrafish is functionally stomach-less, but may retain ontogenic footprint. Although the precise shape and size of the stomach varies widely among different vertebrates, the relative positions of the oesophageal and duodenal openings remain relatively constant. As a result, the organ always curves somewhat to the left before curving back to meet the pyloric sphincter. However, lampreys, hagfishes, chimaeras, lungfishes, and some teleost fish have no stomach at all, with the oesophagus opening directly into the intestine. The gastric lining is usually divided into two regions, an anterior portion lined by fundic glands, and a posterior with pyloric glands. Cardiac glands are unique to mammals, and even then are absent in a number of species. The distributions of these glands vary between species, and do not always correspond with the same regions as in man. Furthermore, in many non-human mammals, a portion of the stomach anterior to the cardiac glands is lined with epithelium essentially identical to that of the oesophagus. Ruminants, in particular, have a complex stomach, the first three chambers of which are all lined with oesophageal mucosa" xsd:string {source="WP:Stomach#In_other_animals"} [Term] id: UBERON:0000947 name: aorta namespace: uberon def: "The main trunk of the systemic arterial system that carries blood from the heart to all the organs and other structures of the body, bringing oxygenated blood to all parts of the body in the systemic circulation." [http://en.wikipedia.org/wiki/Aorta, http://orcid.org/0000-0002-6601-2165, ISBN:0-683-40008-8, MESH:A07.231.114.056, MP:0000272] def: "The main trunk of the systemic arterial system that carries blood from the heart to all the organs and other structures of the body, bringing oxygenated blood to all parts of the body in the systemic circulation." [http://orcid.org/0000-0002-6601-2165, ISBN:0-683-40008-8, MESH:A07.231.114.056, MP:0000272, Wikipedia:Aorta] subset: efo_slim subset: grouping_class subset: pheno_slim subset: uberon_slim synonym: "arteria maxima" RELATED LATIN [Wikipedia:Aorta] synonym: "arteria maxima" RELATED LATIN [http://en.wikipedia.org/wiki/Aorta] synonym: "dorsal aorta" NARROW SENSU [Wikipedia:Aorta#In_other_animals, ZFA:0000014] synonym: "dorsal aorta" NARROW SENSU [http://en.wikipedia.org/wiki/Aorta#In_other_animals, ZFA:0000014] synonym: "trunk of aortic tree" EXACT [] synonym: "trunk of systemic arterial tree" EXACT [] xref: AAO:0010213 xref: BTO:0000135 xref: CALOHA:TS-0046 xref: EFO:0000265 xref: EMAPA:18601 xref: EV:0100027 xref: FMA:3734 xref: GAID:469 xref: galen:Aorta xref: http://en.wikipedia.org/wiki/Aorta xref: http://linkedlifedata.com/resource/umls/id/C0003483 xref: http://www.snomedbrowser.com/Codes/Details/181298001 xref: MA:0000062 xref: MAT:0000035 xref: MESH:D001011 xref: MIAA:0000035 xref: NCIT:C12669 xref: OpenCyc:Mx4rvVjvTpwpEbGdrcN5Y29ycA xref: SCTID:181298001 xref: UMLS:C0003483 {source="ncithesaurus:Aorta"} xref: VHOG:0001523 xref: Wikipedia:Aorta xref: XAO:0003010 is_a: UBERON:0003509 {source="MA"} ! arterial blood vessel is_a: UBERON:0003519 ! thoracic cavity blood vessel is_a: UBERON:0013768 ! great vessel of heart relationship: connected_to UBERON:0002084 {subset="human_reference_atlas"} ! heart left ventricle relationship: part_of RO:0002577 ! system relationship: part_of UBERON:0010191 {source="EHDAA2"} ! aortic system property_value: depicted:by Aorta:scheme.jpg xsd:anyURI property_value: depicted:by https://upload.wikimedia.org/wikipedia/commons/9/91/Aorta_scheme.jpg xsd:anyURI property_value: editor_note "This class is currently a mixed bag, encompassing (1) the entirety of the mammalian aorta together with (2) the developmental and phylogenetic homologs of its segments: the ventral aorta and dorsal aortae." xsd:string {source="WP"} property_value: UBPROP:0000001 "The main artery of the circulatory system which carries oxygenated blood from the heart to all the arteries of the body except those of the lungs.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0010213", ontology="AAO", source="AAO:BJB"} property_value: UBPROP:0000003 "When vertebrates first appeared, they must have possessed a ventral and dorsal aorta with aortic arches between them.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001523", ontology="VHOG", source="ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.620", source="http://bgee.unil.ch/"} property_value: UBPROP:0000003 "When vertebrates first appeared, they must have possessed a ventral and dorsal aorta with aortic arches between them.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001523", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.620"} property_value: UBPROP:0000007 "aortic" xsd:string property_value: UBPROP:0000008 "All amniotes have a broadly similar arrangement to that of humans, albeit with a number of individual variations. In fish, however, there are two separate vessels referred to as aortas. The ventral aorta carries de-oxygenated blood from the heart to the gills; part of this vessel forms the ascending aorta in tetrapods (the remainder forms the pulmonary artery). A second, dorsal aorta carries oxygenated blood from the gills to the rest of the body, and is homologous with the descending aorta of tetrapods. The two aortas are connected by a number of vessels, one passing through each of the gills. Amphibians also retain the fifth connecting vessel, so that the aorta has two parallel arches" xsd:string [Term] id: UBERON:0000948 name: heart namespace: uberon def: "A myogenic muscular circulatory organ found in the vertebrate cardiovascular system composed of chambers of cardiac muscle. It is the primary circulatory organ." [http://en.wikipedia.org/wiki/Heart, http://orcid.org/0000-0002-6601-2165] def: "A myogenic muscular circulatory organ found in the vertebrate cardiovascular system composed of chambers of cardiac muscle. It is the primary circulatory organ." [http://orcid.org/0000-0002-6601-2165, Wikipedia:Heart] comment: Taxon notes:" the ascidian tube-like heart lacks chambers....The ascidian heart is formed after metamorphosis as a simple tube-like structure with a single-layered myoepithelium that is continuous with a single-layered pericar- dial wall. It lacks chambers and endocardium.... The innovation of the chambered heart was a key event in vertebrate evolution, because the chambered heart generates one-way blood flow with high pressure, a critical requirement for the efficient blood supply of large-body vertebrates... all extant vertebrates have hearts with two or more chambers (Moorman and Christoffels 2003)" DOI:10.1101/gad.1485706 subset: efo_slim subset: major_organ subset: organ_slim subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "branchial heart" NARROW SENSU [] synonym: "cardium" RELATED [EMAPA:16105] synonym: "chambered heart" EXACT [https://orcid.org/0000-0002-6601-2165] synonym: "Herz@de" RELATED [BTO:0000562] synonym: "vertebrate heart" EXACT [] xref: AAO:0010210 xref: BILA:0000020 xref: BTO:0000562 xref: CALOHA:TS-0445 xref: EFO:0000815 xref: EHDAA2:0000738 xref: EHDAA:420 xref: EMAPA:16105 xref: EV:0100018 xref: FMA:7088 xref: GAID:174 xref: galen:Heart xref: http://en.wikipedia.org/wiki/Heart xref: http://linkedlifedata.com/resource/umls/id/C0018787 xref: http://www.snomedbrowser.com/Codes/Details/302509004 xref: MA:0000072 xref: MAT:0000036 xref: MESH:D006321 xref: MIAA:0000036 xref: NCIT:C12727 xref: OpenCyc:Mx4rvVjvDpwpEbGdrcN5Y29ycA xref: SCTID:302509004 xref: TAO:0000114 xref: UMLS:C0018787 {source="ncithesaurus:Heart"} xref: VHOG:0000276 xref: Wikipedia:Heart xref: XAO:0000064 xref: ZFA:0000114 is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0005181 ! thoracic segment organ is_a: UBERON:0007100 ! primary circulatory organ is_a: UBERON:0010314 ! structure with developmental contribution from neural crest intersection_of: UBERON:0007100 ! primary circulatory organ intersection_of: has_part UBERON:0004151 ! cardiac chamber relationship: contributes_to_morphology_of UBERON:0004535 ! cardiovascular system relationship: develops_from UBERON:0004141 ! heart tube relationship: has_part UBERON:0004151 ! cardiac chamber relationship: only_in_taxon NCBITaxon:7742 ! Vertebrata relationship: part_of UBERON:0015410 {source="MA"} ! heart plus pericardium property_value: RO:0002161 NCBITaxon:6239 property_value: RO:0002161 NCBITaxon:7227 property_value: UBPROP:0000001 "Blood pumping organ composed of four chambers: sinus venosus, atrium, cardiac ventricle and bulbus arteriosus.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0000114", ontology="TAO", source="ZFIN:curator"} property_value: UBPROP:0000001 "Part of the circulatory system responsible for pumping blood; composed of three chambers--two atria and one ventricle.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0010210", ontology="AAO", source="AAO:BJB"} property_value: UBPROP:0000002 "relationship type change: differentiates_from lateral plate mesoderm (AAO:0010574) CHANGED TO: develops_from lateral plate mesoderm (UBERON:0003081)[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0010210", ontology="AAO"} property_value: UBPROP:0000003 "As noted, the hearts of birds and mammals have four chambers that arises from the two chambers (atrium and ventricle) of the fish heart.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000276", ontology="VHOG", source="ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.481", source="http://bgee.unil.ch/"} property_value: UBPROP:0000003 "As noted, the hearts of birds and mammals have four chambers that arises from the two chambers (atrium and ventricle) of the fish heart.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000276", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.481"} property_value: UBPROP:0000007 "cardiac" xsd:string [Term] id: UBERON:0000949 name: endocrine system namespace: uberon def: "Anatomical system that consists of the glands and parts of glands that produce endocrine secretions and help to integrate and control bodily metabolic activity." [NLM:endocrine+system, Wikipedia:Endocrine_system] subset: efo_slim subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "endocrine glandular system" EXACT [EHDAA2:0002224] synonym: "endocrine system" EXACT [] synonym: "systema endocrinum" EXACT [] xref: AAO:0010279 xref: CALOHA:TS-1301 xref: EFO:0002969 xref: EHDAA2:0002224 xref: EMAPA:35306 xref: EV:0100128 xref: FBbt:00005068 xref: FMA:9668 xref: GAID:439 xref: MA:0000012 xref: MESH:D004703 xref: NCIT:C12705 xref: SCTID:278876000 xref: TAO:0001158 xref: UMLS:C0014136 {source="ncithesaurus:Endocrine_System"} xref: VHOG:0000098 xref: Wikipedia:Endocrine_system xref: XAO:0000158 xref: ZFA:0001158 is_a: UBERON:0000467 ! anatomical system intersection_of: UBERON:0000467 ! anatomical system intersection_of: capable_of GO:0050886 ! endocrine process disjoint_from: UBERON:0000990 ! reproductive system disjoint_from: UBERON:0001004 ! respiratory system disjoint_from: UBERON:0001007 ! digestive system disjoint_from: UBERON:0001009 ! circulatory system disjoint_from: UBERON:0001016 ! nervous system disjoint_from: UBERON:0001434 ! skeletal system disjoint_from: UBERON:0002204 ! musculoskeletal system disjoint_from: UBERON:0002330 ! exocrine system disjoint_from: UBERON:0002390 ! hematopoietic system disjoint_from: UBERON:0002405 ! immune system disjoint_from: UBERON:0002416 ! integumental system disjoint_from: UBERON:0004456 ! entire sense organ system relationship: capable_of GO:0050886 ! endocrine process relationship: composed_primarily_of UBERON:0002368 ! endocrine gland relationship: existence_ends_during UBERON:0000066 ! fully formed stage relationship: only_in_taxon NCBITaxon:6072 ! Eumetazoa property_value: UBPROP:0000001 "Anatomical system containing glands which regulates bodily functions though the secretion of hormones.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0010279", ontology="AAO", source="AAO:BJB"} property_value: UBPROP:0000003 "Multicellular organisms have complex endocrine systems, allowing responses to environmental stimuli, regulation of development, reproduction, and homeostasis. Nuclear receptors (NRs), a metazoan-specific family of ligand-activated transcription factors, play central roles in endocrine responses, as intermediates between signaling molecules and target genes. The NR family includes ligand-bound and orphan receptors, that is, receptors with no known ligand or for which there is no ligand Pocket. Understanding NR evolution has been further improved by comparison of several completed genomes, particularly those of deuterostomes and ecdysozoans. In contrast, evolution of NR ligands is still much debated. One hypothesis proposes that several independent gains and losses of ligand-binding ability in NRs occurred in protostomes and deuterostomes. A second hypothesis, pertaining to the NR3 subfamily (vertebrate steroid hormone receptors and estrogen related receptor), proposes that before the divergence of protostomes and deuterostomes, there was an ancestral steroid receptor (AncSR) that was ligand-activated and that orphan receptors secondarily lost the ability to bind a ligand. (...) Our analysis reveals that steroidogenesis has been independently elaborated in the 3 main bilaterian lineages (...).[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000098", ontology="VHOG", source="DOI:10.1073/pnas.0812138106 Markov GV, Tavares R, Dauphin-Villemant C, Demeneix BA, Baker ME, Laudet V, Independent elaboration of steroid hormone signaling pathways in metazoans. PNAS (2009)", source="http://bgee.unil.ch/"} property_value: UBPROP:0000007 "endocrine" xsd:string [Term] id: UBERON:0000955 name: brain namespace: uberon def: "The brain is the center of the nervous system in all vertebrate, and most invertebrate, animals. Some primitive animals such as jellyfish and starfish have a decentralized nervous system without a brain, while sponges lack any nervous system at all. In vertebrates, the brain is located in the head, protected by the skull and close to the primary sensory apparatus of vision, hearing, balance, taste, and smell[WP]." [https://github.com/obophenotype/uberon/issues/300, Wikipedia:Brain] def: "The brain is the center of the nervous system in all vertebrate, and most invertebrate, animals. Some primitive animals such as jellyfish and starfish have a decentralized nervous system without a brain, while sponges lack any nervous system at all. In vertebrates, the brain is located in the head, protected by the skull and close to the primary sensory apparatus of vision, hearing, balance, taste, and smell[WP]." [http://en.wikipedia.org/wiki/Brain, https://github.com/obophenotype/uberon/issues/300] subset: cumbo subset: efo_slim subset: major_organ subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "encephalon" RELATED [BTO:0000142] synonym: "suprasegmental levels of nervous system" RELATED [NeuroNames:21] synonym: "suprasegmental structures" RELATED [NeuroNames:21] synonym: "synganglion" RELATED [] synonym: "the brain" RELATED [NeuroNames:21] xref: AAO:0010478 xref: ABA:Brain xref: BAMS:Br xref: BAMS:Brain xref: BILA:0000135 xref: BIRNLEX:796 xref: BTO:0000142 xref: CALOHA:TS-0095 xref: DHBA:10155 xref: EFO:0000302 xref: EHDAA2:0000183 xref: EHDAA:2641 xref: EHDAA:6485 xref: EMAPA:16894 xref: EV:0100164 xref: FBbt:00005095 xref: FMA:50801 xref: GAID:571 xref: galen:Brain xref: HBA:4005 xref: http://braininfo.rprc.washington.edu/centraldirectory.aspx?ID=21 xref: http://braininfo.rprc.washington.edu/centraldirectory.aspx?ID=21 {source="BIRNLEX:796"} xref: http://en.wikipedia.org/wiki/Brain xref: http://linkedlifedata.com/resource/umls/id/C0006104 xref: http://linkedlifedata.com/resource/umls/id/C1269537 xref: http://www.snomedbrowser.com/Codes/Details/258335003 xref: MA:0000168 xref: MAT:0000098 xref: MBA:8 xref: MBA:997 xref: MESH:D001921 xref: MIAA:0000098 xref: NCIT:C12439 xref: OpenCyc:Mx4rvVjT65wpEbGdrcN5Y29ycA xref: PBA:3999 xref: SCTID:258335003 xref: TAO:0000008 xref: UMLS:C0006104 {source="ncithesaurus:Brain"} xref: UMLS:C0006104 {source="BIRNLEX:796"} xref: UMLS:C1269537 {source="BIRNLEX:796"} xref: VHOG:0000157 xref: Wikipedia:Brain xref: XAO:0000010 xref: ZFA:0000008 is_a: UBERON:0000062 {source="GO"} ! organ is_a: UBERON:0004121 ! ectoderm-derived structure relationship: composed_primarily_of CL:0002319 ! neural cell relationship: contributes_to_morphology_of UBERON:0001016 ! nervous system relationship: develops_from UBERON:0001049 {gci_relation="part_of", gci_filler="NCBITaxon:7711"} ! neural tube relationship: develops_from UBERON:0006238 ! future brain relationship: existence_ends_during UBERON:0000066 ! fully formed stage relationship: immediate_transformation_of UBERON:0006238 {source="Bgee:AN"} ! future brain relationship: in_anterior_side_of UBERON:0000468 ! multicellular organism relationship: part_of UBERON:0001017 {source="FMA"} ! central nervous system property_value: editor_note "requires review for applicability to invertebrate structures, e.g. synganglion" xsd:string property_value: http://purl.org/dc/elements/1.1/contributor https://github.com/cmungall property_value: UBPROP:0000001 "Cavitated compound organ which is comprised of gray and white matter and surrounds the cerebral ventricular system.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0000008", ontology="TAO", source="ZFIN:curator"} property_value: UBPROP:0000001 "Part of the central nervous system situated within the cranium and composed of both nerve cell bodies and nerve fibers.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0010478", ontology="AAO", source="AAO:BJB"} property_value: UBPROP:0000001 "The part of the central nervous system contained within the cranium, comprising the forebrain, midbrain, hindbrain, and metencephalon. It is derived from the anterior part of the embryonic neural tube (or the encephalon). Does not include retina. (CUMBO)" xsd:string {source="Cumbo:terms"} property_value: UBPROP:0000001 "The part of the central nervous system contained within the cranium, comprising the forebrain, midbrain, hindbrain, and metencephalon. It is derived from the anterior part of the embryonic neural tube (or the encephalon). Does not include retina. (CUMBO)" xsd:string {source="http://neurolex.org/wiki/Cumbo_terms"} property_value: UBPROP:0000003 "(...) at some stage of its development, every chordate exhibits five uniquely derived characters or synapomorphies of the group: (...) (4) a single, tubular nerve cord that is located dorsal to the notochord (...) (reference 1); The neural tube is destined to differentiate into the brain and spinal cord (the central nervous system) (reference 2).[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000157", ontology="VHOG", source="ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.28, ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.165", source="http://bgee.unil.ch/"} property_value: UBPROP:0000003 "(...) at some stage of its development, every chordate exhibits five uniquely derived characters or synapomorphies of the group: (...) (4) a single, tubular nerve cord that is located dorsal to the notochord (...) (reference 1); The neural tube is destined to differentiate into the brain and spinal cord (the central nervous system) (reference 2).[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000157", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.28, ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.165"} [Term] id: UBERON:0000957 name: lamina namespace: uberon def: "Any thin layer or plate." [http://en.wikipedia.org/wiki/Lamina_of_the_vertebral_arch] def: "Any thin layer or plate." [Wikipedia:Lamina_of_the_vertebral_arch] subset: non_informative subset: uberon_slim subset: upper_level synonym: "laminar tissue" EXACT [] xref: http://en.wikipedia.org/wiki/Lamina_of_the_vertebral_arch xref: Wikipedia:Lamina_of_the_vertebral_arch is_a: UBERON:0000479 ! tissue intersection_of: UBERON:0000479 ! tissue intersection_of: has_quality PATO:0002124 ! laminar relationship: has_quality PATO:0002124 ! laminar property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/8/80/Laminaarcusvertebrae.png xsd:anyURI property_value: editor_note "TODO - merge with cell layer?" xsd:string property_value: UBPROP:0000007 "laminar" xsd:string [Term] id: UBERON:0000962 name: nerve of cervical vertebra namespace: uberon def: "The cervical nerves are the spinal nerves from the cervical vertebrae. Although there are seven cervical vertebrae (C1-C7), there are eight cervical nerves (C1-C8). All nerves except C8 emerge above their corresponding vertebrae, while the C8 nerve emerges below the C7 vertebra. (In the other portions of the spine, the nerve emerges below the vertebra with the same name. Dorsal (posterior) distribution includes the greater occipital (C2) and third occipital (C3). Ventral (anterior) distribution includes the cervical plexus (C1-C4) and brachial plexus (C5-C8) [WP,unvetted]." [Wikipedia:Cervical_nerves] comment: Innervates: sternohyoid muscle, sternothyroid muscle, omohyoid muscle[WP] subset: uberon_slim synonym: "cervical nerve" EXACT [FMA:5859] synonym: "cervical nerve tree" EXACT [] synonym: "cervical spinal nerve" EXACT [] synonym: "nervus cervicalis" EXACT LATIN [FMA:5859, FMA:TA] xref: BAMS:cern xref: FMA:5859 xref: http://braininfo.rprc.washington.edu/centraldirectory.aspx?ID=2351 xref: NCIT:C32299 xref: NLXANAT:20090207 xref: SCTID:360497008 xref: UMLS:C0228815 {source="ncithesaurus:Cervical_Nerve"} xref: Wikipedia:Cervical_nerves is_a: UBERON:0001780 ! spinal nerve intersection_of: UBERON:0001780 ! spinal nerve intersection_of: extends_fibers_into UBERON:0002726 ! cervical spinal cord relationship: extends_fibers_into UBERON:0002726 ! cervical spinal cord property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/e/e6/Gray795.png xsd:anyURI [Term] id: UBERON:0000963 name: head sensillum namespace: uberon xref: FBbt:00004114 xref: MAT:0000204 xref: MIAA:0000204 is_a: UBERON:0002536 ! arthropod sensillum intersection_of: UBERON:0002536 ! arthropod sensillum intersection_of: part_of UBERON:0000033 ! head relationship: part_of UBERON:0000033 ! head property_value: editor_note "this term should be ceded to the arthropod anatomy ontology" xsd:string [Term] id: UBERON:0000964 name: cornea namespace: uberon def: "the transparent anterior portion of the fibrous coat of the eye that serves as the chief refractory structure" [ISBN:0-683-40008-8, MESH:A09.371.060.217, MP:0001312] def: "The transparent anterior portion of the fibrous coat of the eye that serves as the chief refractory structure." [ISBN:0-683-40008-8, MESH:A09.371.060.217, MP:0001312] subset: efo_slim subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "cornea of camera-type eye" EXACT [GO:0061303] synonym: "corneas" RELATED PLURAL [ZFA:0000640] synonym: "tunica cornea" RELATED [] xref: AAO:0010344 xref: BTO:0000286 xref: CALOHA:TS-0171 xref: EFO:0000377 xref: EHDAA2:0000316 xref: EHDAA:10199 xref: EMAPA:17161 xref: EV:0100341 xref: FMA:58238 xref: GAID:892 xref: http://en.wikipedia.org/wiki/Cornea xref: http://linkedlifedata.com/resource/umls/id/C0010031 xref: http://www.snomedbrowser.com/Codes/Details/181162001 xref: MA:0000266 xref: MESH:D003315 xref: NCIT:C12342 xref: OpenCyc:Mx4rvViBa5wpEbGdrcN5Y29ycA xref: SCTID:181162001 xref: TAO:0000640 xref: UMLS:C0010031 {source="ncithesaurus:Cornea"} xref: VHOG:0000164 xref: Wikipedia:Cornea xref: XAO:0000180 xref: ZFA:0000640 is_a: CARO:0000003 ! connected anatomical structure is_a: UBERON:0003102 {source="XAO"} ! surface structure is_a: UBERON:0010000 ! multicellular anatomical structure is_a: UBERON:0010313 ! neural crest-derived structure relationship: continuous_with UBERON:0001773 ! sclera relationship: contributes_to_morphology_of UBERON:0001801 ! anterior segment of eyeball relationship: developmentally_induced_by UBERON:0005426 ! lens vesicle relationship: develops_from UBERON:0004348 {evidence="definitional"} ! optic eminence relationship: develops_from UBERON:0005427 ! corneal primordium relationship: has_part UBERON:0001772 ! corneal epithelium relationship: has_part UBERON:0004370 ! anterior limiting lamina of cornea relationship: has_quality PATO:0000964 ! transparent relationship: part_of UBERON:0001801 {source="MA"} ! anterior segment of eyeball relationship: part_of UBERON:0010409 {source="MA"} ! ocular surface region relationship: part_of UBERON:0012430 {source="FMA-isa"} ! tunica fibrosa of eyeball property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/1/1e/Schematic_diagram_of_the_human_eye_en.svg xsd:anyURI property_value: UBPROP:0000007 "corneal" xsd:string property_value: UBPROP:0000008 "Compared to terrestial animals, the cornea of zebrafish is relatively flat. It consists of nonpigmented, stratified squamous nonkeratinizing epithelial cells, attached to a thick basement membrane that is considered to be analogous to the Bowman's membrane in mammals. In fish, and aquatic vertebrates in general, the cornea plays no role in focusing light, since it has virtually the same refractive index as water" xsd:string [Term] id: UBERON:0000965 name: lens of camera-type eye namespace: uberon def: "Transparent part of camera-type eye that helps to refract light to be focused on the retina." [http://en.wikipedia.org/wiki/Lens_(anatomy), http://orcid.org/0000-0002-6601-2165] def: "Transparent part of camera-type eye that helps to refract light to be focused on the retina." [http://orcid.org/0000-0002-6601-2165, Wikipedia:Lens_(anatomy)] comment: The lens is avascular and nourished by diffusion from the aqueous and vitreous subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "camera-type eye lens" EXACT [GO:0002088] synonym: "crystalline lens" RELATED [BTO:0000723] synonym: "eye lens" EXACT SENSU [] synonym: "lens" EXACT SENSU [] synonym: "lens crystallina" EXACT [http://en.wikipedia.org/wiki/Lens_(anatomy)] synonym: "lens crystallina" EXACT [Wikipedia:Lens_(anatomy)] synonym: "lenses" RELATED PLURAL [ZFA:0000035] synonym: "ocular lens" RELATED [BTO:0000723] xref: AAO:0010348 xref: BTO:0000723 xref: CALOHA:TS-0545 xref: EHDAA:9057 xref: EMAPA:17838 xref: EV:0100343 xref: FMA:58241 xref: http://linkedlifedata.com/resource/umls/id/C0023317 xref: http://www.snomedbrowser.com/Codes/Details/181169005 xref: Lens:(anatomy) xref: MA:0000275 xref: MAT:0000141 xref: MESH:A09.371.509 xref: MIAA:0000141 xref: NCIT:C12743 xref: OpenCyc:Mx4rvVj0fZwpEbGdrcN5Y29ycA xref: RETIRED_EHDAA2:0000975 xref: SCTID:181169005 xref: TAO:0000035 xref: UMLS:C0023317 {source="ncithesaurus:Crystalline_Lens"} xref: VHOG:0000169 xref: Wikipedia:Lens_(anatomy) xref: XAO:0000008 xref: ZFA:0000035 is_a: CARO:0000003 ! connected anatomical structure is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0005389 ! transparent eye structure relationship: contributes_to_morphology_of UBERON:0001801 ! anterior segment of eyeball relationship: developmentally_induced_by UBERON:0003902 ! retinal neural layer relationship: develops_from UBERON:0005426 ! lens vesicle relationship: part_of UBERON:0001801 ! anterior segment of eyeball property_value: RO:0002171 UBERON:0002049 property_value: UBPROP:0000003 "The eye of the adult lamprey is remarkably similar to our own, and it possesses numerous features (including the expression of opsin genes) that are very similar to those of the eyes of jawed vertebrates. The lamprey's camera-like eye has a lens, an iris and extra-ocular muscles (five of them, unlike the eyes of jawed vertebrates, which have six), although it lacks intra-ocular muscles. Its retina also has a structure very similar to that of the retinas of other vertebrates, with three nuclear layers comprised of the cell bodies of photoreceptors and bipolar, horizontal, amacrine and ganglion cells. The southern hemisphere lamprey, Geotria australis, possesses five morphological classes of retinal photoreceptor and five classes of opsin, each of which is closely related to the opsins of jawed vertebrates. Given these similarities, we reach the inescapable conclusion that the last common ancestor of jawless and jawed vertebrates already possessed an eye that was comparable to that of extant lampreys and gnathostomes. Accordingly, a vertebrate camera-like eye must have been present by the time that lampreys and gnathostomes diverged, around 500 Mya.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000169", ontology="VHOG", source="DOI:10.1038/nrn2283 Lamb TD, Collin SP and Pugh EN Jr, Evolution of the vertebrate eye: opsins, photoreceptors, retina and eye cup. Nature Reviews Neuroscience (2007)", source="http://bgee.unil.ch/"} property_value: UBPROP:0000003 "The eye of the adult lamprey is remarkably similar to our own, and it possesses numerous features (including the expression of opsin genes) that are very similar to those of the eyes of jawed vertebrates. The lamprey's camera-like eye has a lens, an iris and extra-ocular muscles (five of them, unlike the eyes of jawed vertebrates, which have six), although it lacks intra-ocular muscles. Its retina also has a structure very similar to that of the retinas of other vertebrates, with three nuclear layers comprised of the cell bodies of photoreceptors and bipolar, horizontal, amacrine and ganglion cells. The southern hemisphere lamprey, Geotria australis, possesses five morphological classes of retinal photoreceptor and five classes of opsin, each of which is closely related to the opsins of jawed vertebrates. Given these similarities, we reach the inescapable conclusion that the last common ancestor of jawless and jawed vertebrates already possessed an eye that was comparable to that of extant lampreys and gnathostomes. Accordingly, a vertebrate camera-like eye must have been present by the time that lampreys and gnathostomes diverged, around 500 Mya.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000169", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1038/nrn2283 Lamb TD, Collin SP and Pugh EN Jr, Evolution of the vertebrate eye: opsins, photoreceptors, retina and eye cup. Nature Reviews Neuroscience (2007)"} property_value: UBPROP:0000008 "This class excludes compound eye corneal lenses." xsd:string [Term] id: UBERON:0000966 name: retina namespace: uberon def: "The retina is the innermost layer or coating at the back of the eyeball, which is sensitive to light and in which the optic nerve terminates." [Wikipedia:Retina, ZFIN:curator] def: "The retina is the innermost layer or coating at the back of the eyeball, which is sensitive to light and in which the optic nerve terminates." [http://en.wikipedia.org/wiki/Retina, ZFIN:curator] comment: Currently this class encompasses only verteberate AOs but could in theory also include cephalopod - we may want to make a more specific class for vertebrate retina. note that this class excludes ommatidial retinas, as the retina must be part of an eyeball. Use the parent class photoreceptor array / light-sensitive tissue for arthropods subset: efo_slim subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "inner layer of eyeball" EXACT [] synonym: "Netzhaut" RELATED [BTO:0001175] synonym: "retina of camera-type eye" EXACT [GO:0060041] synonym: "retinas" RELATED PLURAL [ZFA:0000152] synonym: "tunica interna of eyeball" EXACT [] xref: AAO:0010352 xref: BAMS:R xref: BIRNLEX:1153 xref: BTO:0001175 xref: CALOHA:TS-0865 xref: EFO:0000832 xref: EHDAA2:0001627 xref: EHDAA:4757 xref: EMAPA:17168 xref: EV:0100348 xref: FMA:58301 xref: GAID:755 xref: http://braininfo.rprc.washington.edu/centraldirectory.aspx?ID=1862 xref: http://en.wikipedia.org/wiki/Retina xref: http://linkedlifedata.com/resource/umls/id/C0035298 xref: http://linkedlifedata.com/resource/umls/id/C1278894 xref: http://www.snomedbrowser.com/Codes/Details/181171005 xref: MA:0000276 xref: MAT:0000142 xref: MBA:304325711 xref: MESH:D012160 xref: MIAA:0000142 xref: NCIT:C12343 xref: NIFSTD_RETIRED:birnlex_1156 xref: OpenCyc:Mx4rvViTfpwpEbGdrcN5Y29ycA xref: SCTID:181171005 xref: TAO:0000152 xref: UMLS:C0035298 {source="BIRNLEX:1153"} xref: UMLS:C0035298 {source="ncithesaurus:Retina"} xref: UMLS:C1278894 {source="BIRNLEX:1153"} xref: VHOG:0000229 xref: Wikipedia:Retina xref: XAO:0000009 xref: ZFA:0000152 is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0005388 ! photoreceptor array relationship: develops_from UBERON:0003072 {source="EHDAA2"} ! optic cup relationship: has_part CL:0000573 {source="FMA"} ! retinal cone cell relationship: has_part CL:0000604 {source="FMA"} ! retinal rod cell relationship: has_part CL:0000740 {source="FMA"} ! retinal ganglion cell relationship: part_of UBERON:0001802 ! posterior segment of eyeball relationship: part_of UBERON:0019207 ! chorioretinal region property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/e/ed/Human_eye_cross-sectional_view_grayscale.png xsd:anyURI property_value: RO:0002161 NCBITaxon:6656 property_value: UBPROP:0000001 "The portion of the eye developing from the optic primordium and including the neural retina and the retinal pigment layer. Kimmel et al, 1995.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0000152", ontology="TAO", source="ZFIN:curator"} property_value: UBPROP:0000003 "The eye of the adult lamprey is remarkably similar to our own, and it possesses numerous features (including the expression of opsin genes) that are very similar to those of the eyes of jawed vertebrates. The lamprey's camera-like eye has a lens, an iris and extra-ocular muscles (five of them, unlike the eyes of jawed vertebrates, which have six), although it lacks intra-ocular muscles. Its retina also has a structure very similar to that of the retinas of other vertebrates, with three nuclear layers comprised of the cell bodies of photoreceptors and bipolar, horizontal, amacrine and ganglion cells. The southern hemisphere lamprey, Geotria australis, possesses five morphological classes of retinal photoreceptor and five classes of opsin, each of which is closely related to the opsins of jawed vertebrates. Given these similarities, we reach the inescapable conclusion that the last common ancestor of jawless and jawed vertebrates already possessed an eye that was comparable to that of extant lampreys and gnathostomes. Accordingly, a vertebrate camera-like eye must have been present by the time that lampreys and gnathostomes diverged, around 500 Mya.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000229", ontology="VHOG", source="DOI:10.1038/nrn2283 Lamb TD, Collin SP and Pugh EN Jr, Evolution of the vertebrate eye: opsins, photoreceptors, retina and eye cup. Nature Reviews Neuroscience (2007)", source="http://bgee.unil.ch/"} property_value: UBPROP:0000003 "The eye of the adult lamprey is remarkably similar to our own, and it possesses numerous features (including the expression of opsin genes) that are very similar to those of the eyes of jawed vertebrates. The lamprey's camera-like eye has a lens, an iris and extra-ocular muscles (five of them, unlike the eyes of jawed vertebrates, which have six), although it lacks intra-ocular muscles. Its retina also has a structure very similar to that of the retinas of other vertebrates, with three nuclear layers comprised of the cell bodies of photoreceptors and bipolar, horizontal, amacrine and ganglion cells. The southern hemisphere lamprey, Geotria australis, possesses five morphological classes of retinal photoreceptor and five classes of opsin, each of which is closely related to the opsins of jawed vertebrates. Given these similarities, we reach the inescapable conclusion that the last common ancestor of jawless and jawed vertebrates already possessed an eye that was comparable to that of extant lampreys and gnathostomes. Accordingly, a vertebrate camera-like eye must have been present by the time that lampreys and gnathostomes diverged, around 500 Mya.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000229", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1038/nrn2283 Lamb TD, Collin SP and Pugh EN Jr, Evolution of the vertebrate eye: opsins, photoreceptors, retina and eye cup. Nature Reviews Neuroscience (2007)"} property_value: UBPROP:0000007 "retinal" xsd:string [Term] id: UBERON:0000970 name: eye namespace: uberon def: "An organ that detects light." [https://orcid.org/0000-0002-6601-2165] subset: efo_slim subset: functional_classification subset: major_organ subset: organ_slim subset: uberon_slim synonym: "light-detecting organ" RELATED [] synonym: "visual apparatus" RELATED [EV:0100336] xref: BILA:0000017 xref: BTO:0000439 xref: CALOHA:TS-0309 xref: EFO:0000827 xref: EV:0100336 xref: FBbt:00005162 xref: GAID:69 xref: http://en.wikipedia.org/wiki/Eye xref: MAT:0000140 xref: MESH:D005123 xref: MIAA:0000140 xref: OpenCyc:Mx4rvViTvpwpEbGdrcN5Y29ycA xref: Wikipedia:Eye is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000020 ! sense organ relationship: capable_of GO:0009584 ! detection of visible light relationship: has_part CL:0000149 {source="http://www.ncbi.nlm.nih.gov/pubmed/21062451"} ! visual pigment cell relationship: has_part CL:0000149 {source="PMID:21062451"} ! visual pigment cell relationship: has_part CL:0000210 {source="http://www.ncbi.nlm.nih.gov/pubmed/21062451"} ! photoreceptor cell relationship: has_part CL:0000210 {source="PMID:21062451"} ! photoreceptor cell relationship: part_of UBERON:0002104 ! visual system property_value: IAO:0000232 "This class encompasses a variety of light-detecting structures from different phyla with no implication of homology, from the compound insect eye to the vertebrate camera-type eye (distinct classes are provided for each)" xsd:string property_value: UBPROP:0000007 "ocular" xsd:string property_value: UBPROP:0000007 "optic" xsd:string property_value: UBPROP:0000010 "Note that whilst this is classified as an organ, it is in fact more of a unit composed of different structures: in Drosophila, it includes the interommatidial bristle as a part; we consider here the vertebrate eye to include the eyeball/eye proper as a part, with the eye having as parts (when present): eyelids, conjuctiva," xsd:string [Term] id: UBERON:0000971 name: ommatidium namespace: uberon def: "The smallest morphological and functional unit of the compound eye that consists of a usually limited and often constant number of rhabdomeric photoreceptor cells, cornea-secreting epithelial cells, and interommatidial pigment cells, and may additionally contain crystalline cone cells." [PMID:21062451] subset: uberon_slim synonym: "omatidia" RELATED PLURAL [] synonym: "omatidium" EXACT [] xref: BTO:0001922 xref: FBbt:00004510 xref: HAO:0000666 xref: MAT:0000143 xref: MIAA:0000143 xref: Wikipedia:Ommatidium is_a: UBERON:0000970 {source="PMID:21062451"} ! eye is_a: UBERON:0002536 ! arthropod sensillum relationship: part_of UBERON:0000018 ! compound eye property_value: UBPROP:0000007 "ommatidial" xsd:string [Term] id: UBERON:0000974 name: neck namespace: uberon def: "An organism subdivision that extends from the head to the pectoral girdle, encompassing the cervical vertebral column." [http://orcid.org/0000-0002-6601-2165] subset: efo_slim subset: pheno_slim subset: uberon_slim synonym: "collum" RELATED LATIN [http://en.wikipedia.org/wiki/Neck] synonym: "collum" RELATED LATIN [Wikipedia:Neck] synonym: "neck (volume)" RELATED [FMA:7155] xref: AEO:0000108 xref: BTO:0000420 xref: CALOHA:TS-2045 xref: EFO:0000967 xref: EHDAA2:0003108 xref: EMAPA:35587 xref: FMA:7155 xref: GAID:86 xref: galen:Neck xref: http://en.wikipedia.org/wiki/Neck xref: http://linkedlifedata.com/resource/umls/id/C0027530 xref: http://www.snomedbrowser.com/Codes/Details/302550007 xref: MA:0000024 xref: MAT:0000297 xref: MESH:D009333 xref: MIAA:0000297 xref: NCIT:C13063 xref: OpenCyc:Mx4rvVjLF5wpEbGdrcN5Y29ycA xref: SCTID:302550007 xref: UMLS:C0027530 {source="ncithesaurus:Neck"} xref: Wikipedia:Neck is_a: UBERON:0000475 ! organism subdivision relationship: anteriorly_connected_to UBERON:0000033 ! head relationship: only_in_taxon NCBITaxon:8287 ! Sarcopterygii relationship: part_of RO:0002577 ! system relationship: part_of UBERON:0007811 ! craniocervical region relationship: posteriorly_connected_to UBERON:0002100 ! trunk property_value: depicted:by Female:neck.jpg xsd:anyURI property_value: depicted:by https://upload.wikimedia.org/wikipedia/commons/9/99/Female_neck.jpg xsd:anyURI property_value: IAO:0000232 "true necks are considered to be present when the pectoral girdle is separate from the skull - Tiktaalik is the earliest known fish to have a true neck." xsd:string property_value: RO:0002174 NCBITaxon:32443 {source="ISBN:9780674021839"} property_value: UBPROP:0000007 "cervical" xsd:string [Term] id: UBERON:0000977 name: pleura namespace: uberon def: "The invaginated serous membrane that surrounds the lungs (the visceral portion) and lines the walls of the pleural cavity (parietal portion)." [https://github.com/obophenotype/uberon/issues/1231, ISBN:0-683-40008-8, MP:0010820, UBERON:cjm, Wikipedia:Pulmonary_pleurae] subset: efo_slim subset: pheno_slim subset: uberon_slim synonym: "pleura" RELATED [] synonym: "pleural tissue" RELATED [BTO:0001791, NCIT:C12469] synonym: "wall of pleural sac" EXACT [] xref: BTO:0001791 xref: CALOHA:TS-2081 xref: EFO:0001980 xref: EMAPA:16775 xref: EV:0100044 xref: FMA:9583 xref: GAID:360 xref: MA:0000433 xref: MESH:D010994 xref: NCIT:C12469 xref: OpenCyc:Mx4rv3zwLZwpEbGdrcN5Y29ycA xref: SCTID:181609007 xref: UMLS:C0032225 {source="ncithesaurus:Pleural_Tissue"} xref: VHOG:0000394 xref: Wikipedia:Pleura is_a: UBERON:0000042 ! serous membrane is_a: UBERON:0000077 ! mixed endoderm/mesoderm-derived structure intersection_of: UBERON:0000042 ! serous membrane intersection_of: has_part UBERON:0002400 ! parietal pleura intersection_of: has_part UBERON:0002401 ! visceral pleura intersection_of: part_of UBERON:0009778 ! pleural sac relationship: contributes_to_morphology_of UBERON:0001004 ! respiratory system relationship: develops_from UBERON:0003081 ! lateral plate mesoderm relationship: has_part UBERON:0002400 ! parietal pleura relationship: has_part UBERON:0002401 ! visceral pleura relationship: has_quality PATO:0001748 ! invaginated relationship: only_in_taxon NCBITaxon:32524 ! Amniota relationship: part_of UBERON:0009778 {source="https://github.com/obophenotype/uberon/issues/86"} ! pleural sac property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/a/ab/Gray965.png xsd:anyURI property_value: RO:0002175 NCBITaxon:8782 {source="BGEE:AN", source="ISBN:978-0030223693"} property_value: UBPROP:0000001 "The serous membrane that covers the lungs and lines the pleural cavity. [Kaufman_MH_and_Bard_JBL, The_anatomical_basis_of_mouse_development_(1999)_San_Diego:_Academic_Press, p.264][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000394", ontology="VHOG", source="ISBN:0124020607", source="http://bgee.unil.ch/"} property_value: UBPROP:0000007 "pleural" xsd:string property_value: UBPROP:0000012 "In MA, is_a cavity lining (which we equate to parietal). In FMA, is_a (viscous) serous membrane (which includes mesothelium plus connective tissue). Note the MA structure should probably be associated with the mesothelium of pleura in FMA. JB/EHDAA2 argues the term 'pleura' is best used for the mesothelial lining (thus excluding connective tissue). See https://github.com/obophenotype/uberon/issues/86" xsd:string [Term] id: UBERON:0000982 name: skeletal joint namespace: uberon def: "Anatomical cluster that consists of two or more adjacent skeletal structures, which may be interconnected by various types of tissue[VSAO]." [GO_REF:0000034, http://dx.plos.org/10.1371/journal.pone.0051070, http://en.wikipedia.org/wiki/Joint, VSAO:0000101] def: "Anatomical cluster that consists of two or more adjacent skeletal structures, which may be interconnected by various types of tissue[VSAO]." [GO_REF:0000034, http://dx.plos.org/10.1371/journal.pone.0051070, VSAO:0000101, Wikipedia:Joint] subset: efo_slim subset: organ_slim subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "articular joint" RELATED [BTO:0001686] synonym: "articulation" BROAD [VSAO:0000101] synonym: "joint" BROAD [FMA:7490, VSAO:0000101] synonym: "joints" RELATED PLURAL [ZFA:0001596] xref: AEO:0000182 xref: BTO:0001686 xref: CALOHA:TS-2023 xref: EFO:0000948 xref: EMAPA:35456 xref: FMA:7490 xref: GAID:102 xref: galen:Joint xref: http://en.wikipedia.org/wiki/Joint xref: http://linkedlifedata.com/resource/umls/id/C0022417 xref: http://www.snomedbrowser.com/Codes/Details/302536002 xref: MA:0000319 xref: MAT:0000188 xref: MESH:D007596 xref: MIAA:0000188 xref: NCIT:C13044 xref: OpenCyc:Mx4rvVjjdpwpEbGdrcN5Y29ycA xref: RETIRED_EHDAA2:0003182 xref: SCTID:302536002 xref: TAO:0000367 xref: UMLS:C0022417 {source="ncithesaurus:Joint"} xref: VHOG:0001276 xref: VSAO:0000101 xref: Wikipedia:Joint xref: XAO:0000171 xref: ZFA:0001596 is_a: UBERON:0004905 ! articulation union_of: UBERON:0002217 ! synovial joint union_of: UBERON:0011134 ! nonsynovial joint disjoint_from: UBERON:0001474 ! bone element relationship: connects UBERON:0004765 ! skeletal element relationship: contributes_to_morphology_of UBERON:0001434 ! skeletal system property_value: UBPROP:0000001 "Anatomical cluster that consists of two or more adjacent bones or cartilages, which may be interconnected by various types of tissue.[VSAO]" xsd:string {date_retrieved="2012-08-14", external_class="VSAO:0000101", ontology="VSAO", source="PSPUB:0000170"} property_value: UBPROP:0000001 "Anatomical cluster which consists of two or more adjacent bones or cartilages, which may be interconnected by various types of tissue.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0000367", ontology="TAO", source="TAO:pem"} [Term] id: UBERON:0000988 name: pons namespace: uberon def: "The part of the central nervous system lying between the medulla oblongata and the midbrain, ventral to the cerebellum." [VHOG:0001176] subset: efo_slim subset: pheno_slim subset: uberon_slim synonym: "pons cerebri" RELATED LATIN [NeuroNames:547] synonym: "pons of Varolius" EXACT [] synonym: "pons Varolii" EXACT [ncithesaurus:Pons_Varolii] xref: BAMS:PONS xref: BAMS:Pons xref: BIRNLEX:733 xref: BM:Pons xref: BTO:0001101 xref: CALOHA:TS-0813 xref: DHBA:10661 xref: EFO:0001394 xref: EHDAA2:0004394 xref: EMAPA:17563 xref: EV:0100253 xref: FMA:67943 xref: GAID:578 xref: HBA:9131 xref: http://braininfo.rprc.washington.edu/centraldirectory.aspx?ID=547 {source="BIRNLEX:733"} xref: MA:0000204 xref: MAT:0000115 xref: MBA:771 xref: MESH:D011149 xref: MIAA:0000115 xref: NCIT:C12511 xref: SCTID:279103004 xref: UMLS:C0032639 {source="BIRNLEX:733"} xref: UMLS:C0032639 {source="ncithesaurus:Pons_Varolii"} xref: UMLS:C1280999 {source="BIRNLEX:733"} xref: VHOG:0001176 xref: Wikipedia:Pons is_a: UBERON:0002616 ! regional part of brain is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: contributes_to_morphology_of UBERON:0001895 ! metencephalon relationship: contributes_to_morphology_of UBERON:0002298 ! brainstem relationship: only_in_taxon NCBITaxon:7742 ! Vertebrata relationship: part_of UBERON:0001895 {source="neuronames"} ! metencephalon relationship: part_of UBERON:0002298 ! brainstem property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/3/36/Gray768.png xsd:anyURI property_value: editor_note "The pons is not present in zebrafish. In this ontology we currently have some structures which are applicable to zebrafish appearing as parts of the pons. Currently we only include the weaker dubious_for_taxon relationship ubtil this is resolved" xsd:string property_value: RO:0002174 NCBITaxon:7955 property_value: UBPROP:0000001 "The part of the central nervous system lying between the medulla oblongata and the midbrain, ventral to the cerebellum. [TFD][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001176", ontology="VHOG", source="http://bgee.unil.ch/", source="http://medical-dictionary.thefreedictionary.com/pons"} property_value: UBPROP:0000003 "During the embryonic development of birds and mammals, neuroblasts migrate from the cerebellum into the ventral part of the rhombencephalon and differentiate into pontine and other nuclei, which relay information from between the cerebrum and cerebellum, and a conspicuous band of transverse fibers. This region is known as the pons. A pons does not differentiate in reptiles and anamniotes (...).[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001176", ontology="VHOG", source="ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.474", source="http://bgee.unil.ch/"} [Term] id: UBERON:0000990 name: reproductive system namespace: uberon def: "Anatomical system that has as its parts the organs concerned with reproduction." [http://en.wikipedia.org/wiki/Reproductive_system] def: "Anatomical system that has as its parts the organs concerned with reproduction." [Wikipedia:Reproductive_system] subset: efo_slim subset: functional_classification subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "animal reproductive system" RELATED [BTO:0000081] synonym: "genital system" RELATED [] synonym: "genital tract" RELATED [] synonym: "genitalia" RELATED PLURAL [] synonym: "Geschlechtsorgan" RELATED [BTO:0000081] synonym: "organa genitalia" RELATED [BTO:0000081] synonym: "reproductive tissue" RELATED [BTO:0000081] synonym: "reproductive tract" RELATED [] synonym: "systemata genitalia" RELATED LATIN [http://en.wikipedia.org/wiki/Reproductive_system] synonym: "systemata genitalia" RELATED LATIN [Wikipedia:Reproductive_system] xref: AAO:0010258 xref: BILA:0000103 xref: BTO:0000081 xref: CALOHA:TS-1318 xref: EFO:0000809 xref: EHDAA2:0001603 xref: EHDAA:5923 xref: EMAPA:17381 xref: EV:0100100 xref: FBbt:00004857 xref: FMA:7160 xref: GAID:363 xref: HAO:0000374 xref: HAO:0000895 xref: http://linkedlifedata.com/resource/umls/id/C1261210 xref: http://www.snomedbrowser.com/Codes/Details/278875001 xref: MA:0000326 xref: MIAA:0000305 xref: NCIT:C12841 xref: OpenCyc:Mx4rvVja4ZwpEbGdrcN5Y29ycA xref: Reproductive:system xref: SCTID:278875001 xref: TAO:0000632 xref: UMLS:C1261210 {source="ncithesaurus:Reproductive_System"} xref: VHOG:0000182 xref: WBbt:0005747 xref: Wikipedia:Reproductive_system xref: XAO:0000142 xref: ZFA:0000632 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000467 ! anatomical system intersection_of: UBERON:0000467 ! anatomical system intersection_of: capable_of_part_of GO:0000003 ! reproduction disjoint_from: UBERON:0001004 ! respiratory system disjoint_from: UBERON:0001007 ! digestive system disjoint_from: UBERON:0001009 ! circulatory system disjoint_from: UBERON:0001016 ! nervous system disjoint_from: UBERON:0001434 ! skeletal system disjoint_from: UBERON:0002204 ! musculoskeletal system disjoint_from: UBERON:0002330 ! exocrine system disjoint_from: UBERON:0002390 ! hematopoietic system disjoint_from: UBERON:0002405 ! immune system disjoint_from: UBERON:0002416 ! integumental system disjoint_from: UBERON:0004456 ! entire sense organ system relationship: capable_of_part_of GO:0000003 ! reproduction relationship: existence_ends_during UBERON:0000066 ! fully formed stage relationship: has_part UBERON:0000991 ! gonad property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/5/52/Penis.svg xsd:anyURI property_value: editor_note "consider splitting genitalia from reproductive system" xsd:string property_value: UBPROP:0000001 "Anatomical system which consists of organs and tissues associated with sexual reproduction of the organism.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0010258", ontology="AAO", source="AAO:BJB"} property_value: UBPROP:0000003 "Arguably, one of the most important aspects of urbilaterian organogenesis would have been gonadogenesis, since Urbilateria must have successfully generated gametes and developed a strategy for extrusion and fertilization, in order to be the ancestor of all living Bilateria.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000182", ontology="VHOG", source="http://bgee.unil.ch/", source="PMID:21672850 Extavour CGM, Gray anatomy: phylogenetic patterns of somatic gonad structures and reproductive strategies across Bilateria. Integrative and Comparative Biology (2007)"} property_value: UBPROP:0000003 "Arguably, one of the most important aspects of urbilaterian organogenesis would have been gonadogenesis, since Urbilateria must have successfully generated gametes and developed a strategy for extrusion and fertilization, in order to be the ancestor of all living Bilateria.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000182", ontology="VHOG", source="PMID:21672850 Extavour CGM, Gray anatomy: phylogenetic patterns of somatic gonad structures and reproductive strategies across Bilateria. Integrative and Comparative Biology (2007)", source="http://bgee.unil.ch/"} property_value: UBPROP:0000202 FMA:75572 [Term] id: UBERON:0000991 name: gonad namespace: uberon def: "Reproductive organ that produces and releases eggs (ovary) or sperm (testis)." [ISBN:0140512888, Wikipedia:Gonad, ZFA:0000413, ZFIN:curator] def: "Reproductive organ that produces and releases eggs (ovary) or sperm (testis)." [http://en.wikipedia.org/wiki/Gonad, ISBN:0140512888, ZFA:0000413, ZFIN:curator] subset: major_organ subset: organ_slim subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "gonada" EXACT [] synonym: "gonads" RELATED PLURAL [ZFA:0000413] xref: AAO:0000213 xref: BILA:0000123 xref: BSA:0000079 xref: BTO:0000534 xref: EMAPA:17383 xref: FBbt:00004858 xref: FMA:18250 xref: GAID:368 xref: HAO:0000379 xref: http://en.wikipedia.org/wiki/Gonad xref: http://linkedlifedata.com/resource/umls/id/C0018067 xref: http://www.snomedbrowser.com/Codes/Details/304623008 xref: MA:0002420 xref: MESH:D006066 xref: NCIT:C12725 xref: OpenCyc:Mx4rwQvdiZwpEbGdrcN5Y29ycA xref: SCTID:304623008 xref: TAO:0000413 xref: UMLS:C0018067 {source="ncithesaurus:Gonad"} xref: VHOG:0000397 xref: WBbt:0005175 xref: Wikipedia:Gonad xref: XAO:0003146 xref: ZFA:0000413 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0003133 ! reproductive organ intersection_of: UBERON:0003133 ! reproductive organ intersection_of: has_part CL:0000586 ! germ cell relationship: contains_process GO:0007276 ! gamete generation relationship: develops_from UBERON:0005564 ! gonad primordium relationship: has_part CL:0000586 ! germ cell property_value: UBPROP:0000001 "Anatomical structure which produces gametes as well as certain sex hormones controlled by the pituitary gonadotropins.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0000213", ontology="AAO", source="AAO:BJB"} property_value: UBPROP:0000001 "The part of the reproductive system that produces and releases eggs (ovary) or sperm (testis).[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0000413", ontology="TAO", source="ZFIN:curator"} property_value: UBPROP:0000003 "Examination of different vertebrate species shows that the adult gonad is remarkably similar in its morphology across different phylogenetic classes. Surprisingly, however, the cellular and molecular programs employed to create similar organs are not evolutionarily conserved.[uncertain][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000397", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1146/annurev.cellbio.042308.13350 DeFalco T, Capel B, Gonad morphogenesis in vertebrates: divergent means to a convergent end. Annual review of cell and developmental biology (2009)"} property_value: UBPROP:0000003 "Examination of different vertebrate species shows that the adult gonad is remarkably similar in its morphology across different phylogenetic classes. Surprisingly, however, the cellular and molecular programs employed to create similar organs are not evolutionarily conserved.[uncertain][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000397", ontology="VHOG", source="DOI:10.1146/annurev.cellbio.042308.13350 DeFalco T, Capel B, Gonad morphogenesis in vertebrates: divergent means to a convergent end. Annual review of cell and developmental biology (2009)", source="http://bgee.unil.ch/"} property_value: UBPROP:0000007 "gonadal" xsd:string property_value: UBPROP:0000012 "FMA xref is a 'general anatomical term'" xsd:string {external_ontology="FMA"} [Term] id: UBERON:0000992 name: ovary namespace: uberon def: "The gonad of a female organism which contains germ cells." [ISBN:0-683-40008-8, MP:0001126, Wikipedia:Ovary] def: "The gonad of a female organism which contains germ cells." [http://en.wikipedia.org/wiki/Ovary, ISBN:0-683-40008-8, MP:0001126] subset: efo_slim subset: organ_slim subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "animal ovary" EXACT [EFO:0000973] synonym: "female gonad" EXACT [] synonym: "female organism genitalia gonad" EXACT [OBOL:automatic] synonym: "female organism genitalia gonada" EXACT [OBOL:automatic] synonym: "female organism reproductive system gonad" EXACT [OBOL:automatic] synonym: "female organism reproductive system gonada" EXACT [OBOL:automatic] synonym: "female reproductive system gonad" EXACT [OBOL:automatic] synonym: "female reproductive system gonada" EXACT [OBOL:automatic] synonym: "genitalia of female organism gonad" EXACT [OBOL:automatic] synonym: "genitalia of female organism gonada" EXACT [OBOL:automatic] synonym: "gonad of female organism genitalia" EXACT [OBOL:automatic] synonym: "gonad of female organism reproductive system" EXACT [OBOL:automatic] synonym: "gonad of female reproductive system" EXACT [OBOL:automatic] synonym: "gonad of genitalia of female organism" EXACT [OBOL:automatic] synonym: "gonad of reproductive system of female organism" EXACT [OBOL:automatic] synonym: "gonada of female organism genitalia" EXACT [OBOL:automatic] synonym: "gonada of female organism reproductive system" EXACT [OBOL:automatic] synonym: "gonada of female reproductive system" EXACT [OBOL:automatic] synonym: "gonada of genitalia of female organism" EXACT [OBOL:automatic] synonym: "gonada of reproductive system of female organism" EXACT [OBOL:automatic] synonym: "ovaries" RELATED PLURAL [] synonym: "ovarium" RELATED LATIN [http://en.wikipedia.org/wiki/Ovary] synonym: "ovarium" RELATED LATIN [Wikipedia:Ovary] synonym: "ovum-producing ovary" EXACT SENSU [GO:0061039] synonym: "reproductive system of female organism gonad" EXACT [OBOL:automatic] synonym: "reproductive system of female organism gonada" EXACT [OBOL:automatic] xref: AAO:0000371 xref: BILA:0000125 xref: BSA:0000080 xref: BTO:0000975 xref: CALOHA:TS-0730 xref: EFO:0000973 xref: EHDAA2:0001360 xref: EHDAA:8124 xref: EMAPA:17962 xref: EV:0100111 xref: FBbt:00004865 xref: FMA:7209 xref: GAID:367 xref: http://en.wikipedia.org/wiki/Ovary xref: http://linkedlifedata.com/resource/umls/id/C0029939 xref: http://www.snomedbrowser.com/Codes/Details/181464007 xref: MA:0000384 xref: MESH:D010053 xref: MIAA:0000125 xref: NCIT:C12404 xref: OpenCyc:Mx4rvVi9QJwpEbGdrcN5Y29ycA xref: SCTID:181464007 xref: TAO:0000403 xref: UMLS:C0029939 {source="ncithesaurus:Ovary"} xref: VHOG:0000251 xref: Wikipedia:Ovary xref: XAO:0000258 xref: ZFA:0000403 is_a: UBERON:0000991 ! gonad is_a: UBERON:0003134 ! female reproductive organ intersection_of: UBERON:0000991 ! gonad intersection_of: part_of UBERON:0000474 ! female reproductive system disjoint_from: UBERON:0009117 ! indifferent gonad relationship: develops_from UBERON:0009117 ! indifferent gonad relationship: in_lateral_side_of UBERON:0003975 {gci_relation="part_of", gci_filler="NCBITaxon:40674", source="FMA-abduced-lr"} ! internal female genitalia relationship: only_in_taxon NCBITaxon:33208 ! Metazoa property_value: depicted:by Female:anatomy.png xsd:anyURI property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/d/d4/Gray589.png xsd:anyURI property_value: depicted:by https://upload.wikimedia.org/wikipedia/commons/c/cb/Female_anatomy.png xsd:anyURI property_value: UBPROP:0000001 "Either of paired female reproductive organs involved in production of ova and female sex hormones.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0000371", ontology="AAO", source="AAO:BJB"} property_value: UBPROP:0000001 "Female reproductive organ.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0000403", ontology="TAO", source="ZFIN:curator"} property_value: UBPROP:0000003 "(...) while it is likely that Urbilateria lacked a complex somatic reproductive system, it is at present impossible to speculate on whether or not it possessed a true gonad, let alone any other somatic adaptations for reproduction (reference 1); Examination of different vertebrate species shows that the adult gonad is remarkably similar in its morphology across different phylogenetic classes. Surprisingly, however, the cellular and molecular programs employed to create similar organs are not evolutionarily conserved (reference 2).[uncertain][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000251", ontology="VHOG", source="DOI:10.1093/icb/icm052 Extavour CGM, Gray anatomy: phylogenetic patterns of somatic gonad structures and reproductive strategies across the Bilateria. Integrative and Comparative Biology (2007), DOI:10.1146/annurev.cellbio.042308.13350 DeFalco T and Capel B, Gonad morphogenesis in vertebrates: divergent means to a convergent end. Annual review of cell and developmental biology (2009)", source="http://bgee.unil.ch/"} property_value: UBPROP:0000003 "(...) while it is likely that Urbilateria lacked a complex somatic reproductive system, it is at present impossible to speculate on whether or not it possessed a true gonad, let alone any other somatic adaptations for reproduction (reference 1); Examination of different vertebrate species shows that the adult gonad is remarkably similar in its morphology across different phylogenetic classes. Surprisingly, however, the cellular and molecular programs employed to create similar organs are not evolutionarily conserved (reference 2).[uncertain][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000251", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1093/icb/icm052 Extavour CGM, Gray anatomy: phylogenetic patterns of somatic gonad structures and reproductive strategies across the Bilateria. Integrative and Comparative Biology (2007), DOI:10.1146/annurev.cellbio.042308.13350 DeFalco T and Capel B, Gonad morphogenesis in vertebrates: divergent means to a convergent end. Annual review of cell and developmental biology (2009)"} property_value: UBPROP:0000007 "ovarian" xsd:string property_value: UBPROP:0000008 "Ovaries of some kind are found in the female reproductive system of many animals that employ sexual reproduction, including invertebrates. However, they develop in a very different way in most invertebrates than they do in vertebrates, and are not truly homologous. Many of the features found in human ovaries are common to all vertebrates, including the presence of follicular cells, tunica albuginea, and so on. However, many species produce a far greater number of eggs during their lifetime than do humans, so that, in fish and amphibians, there may be hundreds, or even millions of fertile eggs present in the ovary at any given time. In these species, fresh eggs may be developing from the germinal epithelium throughout life. Corpora lutea are found only in mammals, and in some elasmobranch fish; in other species, the remnants of the follicle are quickly resorbed by the ovary. In birds, reptiles, and monotremes, the egg is relatively large, filling the follicle, and distorting the shape of the ovary at maturity. Amphibians and reptiles have no ovarian medulla; the central part of the ovary is a hollow, lymph-filled space. The ovary of teleosts is also often hollow, but in this case, the eggs are shed into the cavity, which opens into the oviduct. Although most normal female vertebrates have two ovaries, this is not the case in all species. In birds and platypuses, the right ovary never matures, so that only the left is functional. In some elasmobranchs, the reverse is true, with only the right ovary fully developing. In the primitive jawless fish, and some teleosts, there is only one ovary, formed by the fusion of the paired organs in the embryo" xsd:string {source="WP"} [Term] id: UBERON:0001003 name: skin epidermis namespace: uberon def: "The outer epithelial layer of the skin that is superficial to the dermis." [http://orcid.org/0000-0002-6601-2165, ISBN:0073040584] subset: efo_slim subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "epidermis" BROAD [] synonym: "skin" BROAD [] synonym: "vertebrate epidermis" EXACT [] xref: AAO:0000143 xref: BTO:0000404 xref: CALOHA:TS-0283 xref: EFO:0000954 xref: EMAPA:17528 xref: Epidermis:(skin) xref: EV:0100153 xref: FMA:70596 xref: GAID:932 xref: http://linkedlifedata.com/resource/umls/id/C0014520 xref: http://www.snomedbrowser.com/Codes/Details/361694003 xref: MA:0000153 xref: MAT:0000154 xref: MESH:D004817 xref: MIAA:0000154 xref: NCIT:C12708 xref: SCTID:361694003 xref: TAO:0000105 xref: UMLS:C0014520 {source="ncithesaurus:Epidermis"} xref: VHOG:0000077 xref: Wikipedia:Epidermis_(skin) xref: XAO:0000028 xref: ZFA:0000105 is_a: UBERON:0007376 ! outer epithelium is_a: UBERON:3000961 ! external integument structure intersection_of: UBERON:0007376 ! outer epithelium intersection_of: part_of UBERON:0002097 ! skin of body relationship: adjacent_to UBERON:0002067 ! dermis relationship: developmentally_replaces UBERON:0003055 ! periderm relationship: part_of UBERON:0002097 ! skin of body property_value: UBPROP:0000001 "A cellular, multilayered epithelium derived from the ectoderm. Zebrafish epidermis consists only of living cells unlike terrestrial vertebrates in which dead, keratinized cells are present. Le Guellec et al, 2004.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0000105", ontology="TAO", source="ZFIN:curator"} property_value: UBPROP:0000001 "The outer epithelial layer of the external integument of the body that is derived from the embryonic epiblast.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0000143", ontology="AAO", source="AAO:BJB"} property_value: UBPROP:0000002 "relationship loss: subclass external integument structures (AAO:0000961)[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0000143", ontology="AAO"} property_value: UBPROP:0000003 "(...) outer epithelia in all metazoan animals are homologous. (...) The ancestor of all metazoans likely had an epidermis with a basal extracellular matrix (ECM), an apical extracellular glycocalyx, and one cilium with a striated rootlet per cell.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000077", ontology="VHOG", source="ISBN:978-0198566694 Schmidt-Rhaesa A, The evolution of organ systems (2007) p.71-72", source="http://bgee.unil.ch/"} property_value: UBPROP:0000003 "(...) outer epithelia in all metazoan animals are homologous. (...) The ancestor of all metazoans likely had an epidermis with a basal extracellular matrix (ECM), an apical extracellular glycocalyx, and one cilium with a striated rootlet per cell.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000077", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0198566694 Schmidt-Rhaesa A, The evolution of organ systems (2007) p.71-72"} property_value: UBPROP:0000007 "epidermal" xsd:string property_value: UBPROP:0000008 "Zebrafish epidermis consists only of living cells unlike terrestrial vertebrates in which dead, keratinized cells are present. In terrestrial vertebrates the epidermis often forms an outer keratinized or cornified layer, the stratum corneum. Interaction between the epideris and dermis gives rise to feathers (birds), hair and mammary glands (mammals), teeth and scales (placoid: chondrichthyans; cosmoids, ganoid, cycloid in bony fishes)." xsd:string [Term] id: UBERON:0001004 name: respiratory system namespace: uberon def: "Functional system which consists of structures involved in respiration." [http://en.wikipedia.org/wiki/Respiratory_system, http://orcid.org/0000-0002-6601-2165] def: "Functional system which consists of structures involved in respiration." [http://orcid.org/0000-0002-6601-2165, Wikipedia:Respiratory_system] subset: efo_slim subset: functional_classification subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "apparatus respiratorius" EXACT [] synonym: "apparatus respiratorius" RELATED [BTO:0000203] synonym: "Atmungssystem" RELATED [BTO:0000203] synonym: "respiratory system" EXACT [] synonym: "systema respiratorium" RELATED LATIN [Wikipedia:Respiratory_system] synonym: "systema respiratorium" RELATED LATIN [http://en.wikipedia.org/wiki/Respiratory_system] xref: AAO:0000541 xref: BTO:0000203 xref: CALOHA:TS-1319 xref: EFO:0000804 xref: EHDAA2:0001604 xref: EHDAA:2203 xref: EMAPA:16727 xref: EV:0100036 xref: FMA:7158 xref: GAID:78 xref: http://linkedlifedata.com/resource/umls/id/C0035237 xref: http://www.snomedbrowser.com/Codes/Details/278197002 xref: MA:0000327 xref: MAT:0000030 xref: MESH:D012137 xref: MIAA:0000030 xref: NCIT:C12779 xref: OpenCyc:Mx4rvVjzFJwpEbGdrcN5Y29ycA xref: Respiratory:system xref: SCTID:278197002 xref: TAO:0000272 xref: UMLS:C0035237 {source="ncithesaurus:Respiratory_System"} xref: VHOG:0000202 xref: Wikipedia:Respiratory_system xref: XAO:0000117 xref: ZFA:0000272 is_a: UBERON:0000467 ! anatomical system intersection_of: UBERON:0000467 ! anatomical system intersection_of: capable_of GO:0007585 ! respiratory gaseous exchange by respiratory system disjoint_from: UBERON:0001007 ! digestive system disjoint_from: UBERON:0001009 ! circulatory system disjoint_from: UBERON:0001016 ! nervous system disjoint_from: UBERON:0001434 ! skeletal system disjoint_from: UBERON:0002204 ! musculoskeletal system disjoint_from: UBERON:0002330 ! exocrine system disjoint_from: UBERON:0002390 ! hematopoietic system disjoint_from: UBERON:0002405 ! immune system disjoint_from: UBERON:0002416 ! integumental system disjoint_from: UBERON:0004456 ! entire sense organ system relationship: capable_of GO:0003016 ! respiratory system process relationship: capable_of GO:0007585 ! respiratory gaseous exchange by respiratory system relationship: existence_ends_during UBERON:0000066 ! fully formed stage relationship: only_in_taxon NCBITaxon:33213 ! Bilateria property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/5/5e/Respiratory_system_complete_en.svg xsd:anyURI property_value: RO:0002161 NCBITaxon:147099 {source="http://en.wikipedia.org/wiki/Acoelomorpha"} property_value: RO:0002161 NCBITaxon:147099 {source="Wikipedia:Acoelomorpha"} property_value: UBPROP:0000001 "The anatomical system in which the exchange of oxygen and carbon dioxide between the organism and its environment.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0000541", ontology="AAO", source="AAO:BJB"} property_value: UBPROP:0000003 "There is no doubt that the primitive pattern of vertebrate air-breathing is the buccal pulse pump found in actinopterygian fishes.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000202", ontology="VHOG", source="ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.599 and Figure 18-23", source="http://bgee.unil.ch/"} property_value: UBPROP:0000003 "There is no doubt that the primitive pattern of vertebrate air-breathing is the buccal pulse pump found in actinopterygian fishes.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000202", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.599 and Figure 18-23"} [Term] id: UBERON:0001005 name: respiratory airway namespace: uberon def: "An airway through which respiratory air passes in organisms." [Wikipedia:Trachea] def: "An airway through which respiratory air passes in organisms." [http://en.wikipedia.org/wiki/Trachea] subset: grouping_class subset: uberon_slim synonym: "airway" BROAD [http://orcid.org/0000-0002-6601-2165] synonym: "airways" BROAD PLURAL [http://orcid.org/0000-0002-6601-2165] xref: FMA:265130 xref: http://en.wikipedia.org/wiki/Trachea xref: http://www.snomedbrowser.com/Codes/Details/361380005 xref: SCTID:361380005 xref: Wikipedia:Trachea is_a: UBERON:0003103 ! compound organ is_a: UBERON:0004111 ! anatomical conduit relationship: channel_for UBERON:0034874 ! air in respiratory system relationship: part_of UBERON:0001004 ! respiratory system property_value: IAO:0000232 "This class generically groups trachea and analagous structures throughout metazoa. Consider renaming, as the term could be taken to mean lumen of tracheal system (e.g. in SNOMED). As a grouping class this is quite vague, as it is not clear where the airway begins and ends" xsd:string [Term] id: UBERON:0001007 name: digestive system namespace: uberon def: "Anatomical system that has as its parts the organs devoted to the ingestion, digestion, and assimilation of food and the discharge of residual wastes." [FB:gg, NLM:alimentary+system, Wikipedia:Digestive_system] def: "Anatomical system that has as its parts the organs devoted to the ingestion, digestion, and assimilation of food and the discharge of residual wastes." [FB:gg, http://en.wikipedia.org/wiki/Digestive_system, NLM:alimentary+system] subset: efo_slim subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "alimentary system" RELATED [] synonym: "alimentary tract" RELATED [] synonym: "gastrointestinal system" RELATED [] synonym: "gut" RELATED [] xref: AAO:0000129 xref: BILA:0000082 xref: BTO:0000058 xref: CALOHA:TS-1293 xref: Digestive:system xref: EFO:0000793 xref: EV:0100056 xref: FBbt:00005055 xref: FMA:7152 xref: GAID:278 xref: galen:DigestiveSystem xref: http://www.snomedbrowser.com/Codes/Details/278859004 xref: MA:0002431 xref: MAT:0000018 xref: MESH:D004064 xref: MIAA:0000018 xref: ncithesaurus:Digestive_System xref: SCTID:278859004 xref: TADS:0000170 xref: TAO:0000339 xref: WBbt:0005748 xref: Wikipedia:Digestive_system xref: XAO:0000125 xref: ZFA:0000339 is_a: UBERON:0000467 ! anatomical system intersection_of: UBERON:0000467 ! anatomical system intersection_of: capable_of GO:0022600 ! digestive system process disjoint_from: UBERON:0001009 ! circulatory system disjoint_from: UBERON:0001016 ! nervous system disjoint_from: UBERON:0001434 ! skeletal system disjoint_from: UBERON:0002204 ! musculoskeletal system disjoint_from: UBERON:0002330 ! exocrine system disjoint_from: UBERON:0002390 ! hematopoietic system disjoint_from: UBERON:0002405 ! immune system disjoint_from: UBERON:0002416 ! integumental system disjoint_from: UBERON:0004456 ! entire sense organ system relationship: capable_of GO:0022600 ! digestive system process relationship: existence_ends_during UBERON:0000066 ! fully formed stage property_value: UBPROP:0000001 "An anatomical system consisting of the alimentary canal and digestive glands responsible for intake, absorption, digestion and excretion of food.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0000129", ontology="AAO", source="AAO:BJB"} property_value: UBPROP:0000007 "digestive" xsd:string property_value: UBPROP:0000012 "many anatomy ontologies consider gastrointestinal system synonymous with digestive system. here we follow MA in dividing digestive system into gastrointestinal and hepatobiliary. hepatobiliary includes the liver and biliary tract. species-specific AO classes are categorized according to whether liver is included. For example, XAO includes liver as part of XAO:0000125 alimentary system, so we assume this class is the more generic class" xsd:string {external_ontology="MA"} [Term] id: UBERON:0001009 name: circulatory system namespace: uberon def: "Organ system that passes nutrients (such as amino acids and electrolytes), gases, hormones, blood cells, etc. to and from cells in the body to help fight diseases and help stabilize body temperature and pH to maintain homeostasis[WP]." [http://en.wikipedia.org/wiki/Circulatory_system] def: "Organ system that passes nutrients (such as amino acids and electrolytes), gases, hormones, blood cells, etc. to and from cells in the body to help fight diseases and help stabilize body temperature and pH to maintain homeostasis[WP]." [Wikipedia:Circulatory_system] def: "organ system that passes nutrients (such as amino acids and electrolytes), gases, hormones, blood cells, etc. to and from cells in the body to help fight diseases and help stabilize body temperature and pH to maintain homeostasis[WP]." [http://en.wikipedia.org/wiki/Circulatory_system] subset: uberon_slim synonym: "systema cardiovasculare" RELATED LATIN [http://en.wikipedia.org/wiki/Circulatory_system] synonym: "systema cardiovasculare" RELATED LATIN [Wikipedia:Circulatory_system] xref: AAO:0000959 xref: CALOHA:TS-2103 xref: Circulatory:system xref: FBbt:00005057 xref: OpenCyc:Mx4rvVjzG5wpEbGdrcN5Y29ycA xref: VHOG:0001248 xref: Wikipedia:Circulatory_system is_a: UBERON:0000467 ! anatomical system disjoint_from: UBERON:0001016 ! nervous system disjoint_from: UBERON:0001434 ! skeletal system disjoint_from: UBERON:0002204 ! musculoskeletal system disjoint_from: UBERON:0002330 ! exocrine system disjoint_from: UBERON:0002390 ! hematopoietic system disjoint_from: UBERON:0002405 ! immune system disjoint_from: UBERON:0002416 ! integumental system disjoint_from: UBERON:0004456 ! entire sense organ system relationship: capable_of GO:0003013 ! circulatory system process relationship: existence_ends_during UBERON:0000066 ! fully formed stage relationship: only_in_taxon NCBITaxon:33213 ! Bilateria property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/2/29/Circulatory_System_en.svg xsd:anyURI property_value: IAO:0000232 "the cardiovascular system and the lymphatic system are parts of the circulatory system" xsd:string property_value: RO:0002161 NCBITaxon:147099 {source="Wikipedia:Acoelomorpha"} property_value: RO:0002161 NCBITaxon:147099 {source="http://en.wikipedia.org/wiki/Acoelomorpha"} property_value: RO:0002161 NCBITaxon:6073 property_value: RO:0002161 NCBITaxon:6157 property_value: RO:0002174 NCBITaxon:6231 {notes="WBbt coelomocyte currently classified as circulating cell"} property_value: UBPROP:0000001 "Anatomical system of ion binding, a pumping mechanism, and an efficient vascular system; consisting of the blood, heart, and blood and lymph vessels, respectively.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0000959", ontology="AAO", source="AAO:BJB"} property_value: UBPROP:0000003 "We should divest ourselves of the view that earlier vertebrate groups were 'on their way' to becoming mammals, as clearly they were not such visionaries. Neither were their systems 'imperfect' as earlier anatomists thought. Instead, their circulatory systems served them well to address the ecological demands arising from their lifestyles.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001248", ontology="VHOG", source="ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.493", source="http://bgee.unil.ch/"} property_value: UBPROP:0000003 "We should divest ourselves of the view that earlier vertebrate groups were 'on their way' to becoming mammals, as clearly they were not such visionaries. Neither were their systems 'imperfect' as earlier anatomists thought. Instead, their circulatory systems served them well to address the ecological demands arising from their lifestyles.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001248", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.493"} [Term] id: UBERON:0001013 name: adipose tissue namespace: uberon def: "Portion of connective tissue composed of adipocytes enmeshed in areolar tissue" [http://en.wikipedia.org/wiki/Adipose_tissue, http://orcid.org/0000-0002-6601-2165, MESH:A10.165.114, MGI:cwg, MP:0000003] def: "Portion of connective tissue composed of adipocytes enmeshed in areolar tissue." [http://orcid.org/0000-0002-6601-2165, MESH:A10.165.114, MGI:cwg, MP:0000003, Wikipedia:Adipose_tissue] def: "Portion of connective tissue composed of adipocytes enmeshed in areolar tissue." [http://en.wikipedia.org/wiki/Adipose_tissue, http://orcid.org/0000-0002-6601-2165, MESH:A10.165.114, MGI:cwg, MP:0000003] subset: efo_slim subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "adipose" RELATED [BTO:0001487] synonym: "bodyfat" RELATED [BTO:0001487] synonym: "fat" EXACT [MA:0000009] synonym: "fat tissue" EXACT [] synonym: "fatty depot" RELATED [] synonym: "fatty tissue" EXACT [] xref: AAO:0000001 xref: Adipose:tissue xref: AEO:000020 xref: BTO:0001487 xref: CALOHA:TS-0013 xref: EFO:0000790 xref: EHDAA2:0003120 xref: EMAPA:35112 xref: EV:0100381 xref: FMA:20110 xref: GAID:920 xref: galen:FattyTissue xref: http://linkedlifedata.com/resource/umls/id/C0001527 xref: http://www.snomedbrowser.com/Codes/Details/55603005 xref: MA:0000009 xref: MAT:0000015 xref: MESH:D000273 xref: MIAA:0000015 xref: NCIT:C12472 xref: OpenCyc:Mx4rvVjc_ZwpEbGdrcN5Y29ycA xref: SCTID:55603005 xref: TAO:0002134 xref: UMLS:C0001527 {source="ncithesaurus:Adipose_Tissue"} xref: VHOG:0001284 xref: Wikipedia:Adipose_tissue xref: XAO:0003049 xref: ZFA:0005345 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0011822 {source="FMA"} ! dense irregular connective tissue intersection_of: UBERON:0002384 ! connective tissue intersection_of: composed_primarily_of CL:0000136 ! fat cell disjoint_from: UBERON:0003714 ! neural tissue relationship: composed_primarily_of CL:0000136 ! fat cell property_value: UBPROP:0000001 "Connective tissue in which fat is stored.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0002134", ontology="TAO", source="ZFIN:curator"} property_value: UBPROP:0000001 "Tissue that contains adipocytes, used for cushioning, thermal insulation, lubrication (primarily in the pericardium) and energy storage.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0000001", ontology="AAO", source="AAO:LAP"} property_value: UBPROP:0000002 "relationship loss: subclass connective tissue proper (AAO:0000099)[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0000001", ontology="AAO"} property_value: UBPROP:0000003 "Adipose tissue is unique to vertebrates. It is found in mostmammals, birds, reptiles and amphibians, and a variety is found in some species of fish. Furthermore, in insects the fat body found in larvae as well as in adults shares some homology with adipose tissue.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001284", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1017/S0029665107005423 Haugen F, Drevon CA, The interplay between nutrients and the adipose tissue. The Proceedings of the Nutrition Society (2007)"} property_value: UBPROP:0000003 "Adipose tissue is unique to vertebrates. It is found in mostmammals, birds, reptiles and amphibians, and a variety is found in some species of fish. Furthermore, in insects the fat body found in larvae as well as in adults shares some homology with adipose tissue.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001284", ontology="VHOG", source="DOI:10.1017/S0029665107005423 Haugen F, Drevon CA, The interplay between nutrients and the adipose tissue. The Proceedings of the Nutrition Society (2007)", source="http://bgee.unil.ch/"} property_value: UBPROP:0000007 "adipose" xsd:string property_value: UBPROP:0000008 "In humans, adipose tissue is located beneath the skin (subcutaneous fat), around internal organs (visceral fat), in bone marrow (yellow bone marrow) and in breast tissue. Adipose tissue is found in specific locations, which are referred to as adipose depots. Adipose tissue contains several cell types, with the highest percentage of cells being adipocytes, which contain fat droplets. Other cell types include fibroblasts, macrophages, and endothelial cells. Adipose tissue contains many small blood vessels.; Mice have eight major adipose depots, four of which are within the abdominal cavity. The paired gonadal depots are attached to the uterus and ovaries in females and the epididymis and testes in males; the paired retroperitoneal depots are found along the dorsal wall of the abdomen, surrounding the kidney, and, when massive, extend into the pelvis. The mesenteric depot forms a glue-like web that supports the intestines, and the omental depot, which originates near the stomach and spleen, and, when massive, extends into the ventral abdomen." xsd:string property_value: UBPROP:0000012 "in FMA this is dense irregular connective tissue" xsd:string {external_ontology="FMA"} [Term] id: UBERON:0001015 name: musculature namespace: uberon def: "A subdivision of the muscular system corresponding to a subdisivision of an organism." [https://orcid.org/0000-0002-6601-2165, Wikipedia:Muscular_system] def: "A subdivision of the muscular system corresponding to a subdisivision of an organism." [http://en.wikipedia.org/wiki/Muscular_system, https://orcid.org/0000-0002-6601-2165] subset: efo_slim subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "muscle group" EXACT [] synonym: "muscle system" RELATED [] synonym: "muscles" RELATED [] synonym: "muscles set" EXACT [] synonym: "musculature" EXACT [] synonym: "musculature system" RELATED [] synonym: "musculi" EXACT LATIN [FMA:32558, FMA:TA] synonym: "set of muscles" EXACT [FMA:32558] synonym: "set of skeletal muscles" EXACT [MA:0000165] xref: AAO:0011066 xref: BTO:0000887 xref: EFO:0001949 xref: EMAPA:32715 xref: EMAPA:35577 xref: FMA:32558 xref: http://linkedlifedata.com/resource/umls/id/C0026845 xref: MA:0000165 xref: Muscular:system xref: NCIT:C13056 xref: OpenCyc:Mx4rvVjmr5wpEbGdrcN5Y29ycA xref: TAO:0000548 xref: UMLS:C0026845 {source="ncithesaurus:Muscle"} xref: VSAO:0005038 xref: WBbt:0005737 xref: Wikipedia:Muscular_system xref: ZFA:0000548 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0011216 ! organ system subdivision relationship: composed_primarily_of UBERON:0001630 ! muscle organ relationship: has_part UBERON:0001630 ! muscle organ relationship: part_of UBERON:0000383 ! musculature of body property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/e/e5/Muscles_anterior_labeled.png xsd:anyURI property_value: RO:0002171 UBERON:0001474 property_value: UBPROP:0000012 "In FMA this is classified as a set of organs. ZFA musculature system has subtypes, so it is classified here. WBbt muscular system has subtypes so it goes here. Note that we use the MA term set of skeletal muscles here as it seems most appropriate (*not* MA:musculature). AAO is generally confused here." xsd:string {external_ontology="FMA"} [Term] id: UBERON:0001016 name: nervous system namespace: uberon def: "The nervous system is an organ system containing predominantly neuron and glial cells. In bilaterally symmetrical organism, it is arranged in a network of tree-like structures connected to a central body. The main functions of the nervous system are to regulate and control body functions, and to receive sensory input, process this information, and generate behavior [CUMBO]." [BIRNLEX:844, ISBN:0-14-051288-8, ISBN:3110148986, NLM:nervous+system, WB:rynl, Wikipedia:Nervous_system, ZFIN:curator] def: "The nervous system is an organ system containing predominantly neuron and glial cells. In bilaterally symmetrical organism, it is arranged in a network of tree-like structures connected to a central body. The main functions of the nervous system are to regulate and control body functions, and to receive sensory input, process this information, and generate behavior [CUMBO]." [BIRNLEX:844, http://en.wikipedia.org/wiki/Nervous_system, ISBN:0-14-051288-8, ISBN:3110148986, NLM:nervous+system, WB:rynl, ZFIN:curator] subset: cumbo subset: efo_slim subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "nerve net" NARROW [http://en.wikipedia.org/wiki/Nerve_net] synonym: "nerve net" NARROW [Wikipedia:Nerve_net] synonym: "neurological system" EXACT [GO:0050877] synonym: "systema nervosum" RELATED LATIN [Wikipedia:Nervous_system] synonym: "systema nervosum" RELATED LATIN [http://en.wikipedia.org/wiki/Nervous_system] xref: AAO:0000324 xref: BILA:0000079 xref: BIRNLEX:844 xref: BTO:0001484 xref: CALOHA:TS-1313 xref: EFO:0000802 xref: EHDAA2:0001246 xref: EHDAA:826 xref: EMAPA:16469 xref: EV:0100162 xref: FBbt:00005093 xref: FMA:7157 xref: GAID:466 xref: http://braininfo.rprc.washington.edu/centraldirectory.aspx?ID=3236 xref: http://linkedlifedata.com/resource/umls/id/C0027763 xref: http://www.snomedbrowser.com/Codes/Details/278196006 xref: MA:0000016 xref: MAT:0000026 xref: MESH:D009420 xref: MIAA:0000026 xref: NCIT:C12755 xref: Nervous:system xref: OpenCyc:Mx4rvViT_pwpEbGdrcN5Y29ycA xref: SCTID:278196006 xref: TAO:0000396 xref: UMLS:C0027763 {source="ncithesaurus:Nervous_System"} xref: VHOG:0000402 xref: WBbt:0005735 xref: Wikipedia:Nervous_system xref: XAO:0000177 xref: ZFA:0000396 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000467 ! anatomical system disjoint_from: UBERON:0001434 ! skeletal system disjoint_from: UBERON:0002204 ! musculoskeletal system disjoint_from: UBERON:0002330 ! exocrine system disjoint_from: UBERON:0002390 ! hematopoietic system disjoint_from: UBERON:0002405 ! immune system disjoint_from: UBERON:0002416 ! integumental system disjoint_from: UBERON:0004456 ! entire sense organ system relationship: capable_of GO:0050877 ! nervous system process relationship: composed_primarily_of CL:0002319 ! neural cell relationship: develops_from UBERON:0016880 ! future nervous system relationship: existence_ends_during UBERON:0000066 ! fully formed stage relationship: has_part CL:0000540 ! neuron relationship: immediate_transformation_of UBERON:0016880 {source="Bgee:AN"} ! future nervous system relationship: only_in_taxon NCBITaxon:6072 ! Eumetazoa property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/b/b2/TE-Nervous_system_diagram.svg xsd:anyURI property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/b/ba/Nervous_system_diagram.png xsd:anyURI property_value: RO:0002161 NCBITaxon:6040 property_value: UBPROP:0000001 "A regulatory system of the body that consists of neurons and neuroglial cells. The nervous system is divided into two parts, the central nervous system (CNS) and the peripheral nervous system (PNS). (Source: BioGlossary, www.Biology-Text.com)[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0000396", ontology="TAO", source="ZFIN:curator"} property_value: UBPROP:0000001 "Anatomical system consisting of nerve bodies and nerve fibers which regulate the response of the body to external and internal stimuli.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0000324", ontology="AAO", source="AAO:BJB"} property_value: UBPROP:0000003 "Nervous systems evolved in the ancestor of Eumetazoa.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000402", ontology="VHOG", source="ISBN:978-0198566694 Schmidt-Rhaesa A, The evolution of organ systems (2007) p.117", source="http://bgee.unil.ch/"} property_value: UBPROP:0000003 "Nervous systems evolved in the ancestor of Eumetazoa.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000402", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0198566694 Schmidt-Rhaesa A, The evolution of organ systems (2007) p.117"} property_value: UBPROP:0000007 "nervous" xsd:string property_value: UBPROP:0000007 "neural" xsd:string [Term] id: UBERON:0001017 name: central nervous system namespace: uberon def: "The central nervous system is the core nervous system that serves an integrating and coordinating function. In vertebrates it consists of the neural tube derivatives: the brain and spinal cord. In invertebrates it includes central ganglia plus nerve cord." [GO:0021551, http://www.frontiersinzoology.com/content/7/1/29, https://sourceforge.net/p/geneontology/ontology-requests/11422/] subset: cumbo subset: efo_slim subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "cerebrospinal axis" NARROW [FMA:55675] synonym: "CNS" EXACT ABBREVIATION [] synonym: "neuraxis" RELATED [FMA:55675] synonym: "systema nervosum centrale" EXACT LATIN [FMA:55675, FMA:TA] xref: AAO:0000090 xref: BAMS:CNS xref: BILA:0000080 xref: BIRNLEX:1099 xref: BTO:0000227 xref: CALOHA:TS-0150 xref: EFO:0000908 xref: EHDAA2:0000225 xref: EHDAA:828 xref: EMAPA:16470 xref: EMAPA:16754 xref: EV:0100163 xref: FBbt:00005094 xref: FMA:55675 xref: GAID:570 xref: http://braininfo.rprc.washington.edu/centraldirectory.aspx?ID=854 xref: http://en.wikipedia.org/wiki/Central_nervous_system xref: http://linkedlifedata.com/resource/umls/id/C0927232 xref: http://www.snomedbrowser.com/Codes/Details/278199004 xref: MA:0000167 xref: MAT:0000457 xref: MESH:D002490 xref: NCIT:C12438 xref: OpenCyc:Mx4rvzYt3pwpEbGdrcN5Y29ycA xref: SCTID:278199004 xref: TAO:0000012 xref: UMLS:C0927232 {source="BIRNLEX:1099"} xref: UMLS:C0927232 {source="ncithesaurus:Central_Nervous_System"} xref: VHOG:0000293 xref: Wikipedia:Central_nervous_system xref: XAO:0000215 xref: ZFA:0000012 is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0011216 {source="FBbt", source="cjm"} ! organ system subdivision relationship: develops_from UBERON:0001049 {gci_relation="part_of", gci_filler="NCBITaxon:7742", evidence="definitional"} ! neural tube relationship: develops_from UBERON:0016879 ! future central nervous system relationship: immediate_transformation_of UBERON:0016879 {source="Bgee:AN"} ! future central nervous system relationship: only_in_taxon NCBITaxon:33213 ! Bilateria relationship: part_of UBERON:0001016 ! nervous system property_value: RO:0002161 NCBITaxon:147099 {source="Wikipedia:Acoelomorpha"} property_value: RO:0002161 NCBITaxon:147099 {source="http://en.wikipedia.org/wiki/Acoelomorpha"} property_value: UBPROP:0000001 "Part of the nervous system which includes the brain and spinal cord.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0000090", ontology="AAO", source="AAO:BJB"} property_value: UBPROP:0000001 "The brain and spinal cord. Kimmel et al, 1995.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0000012", ontology="TAO", source="ZFIN:curator"} property_value: UBPROP:0000001 "The central nervous system (CNS) is the part of the nervous system which includes the brain, spinal cord, and nerve cell layer of the retina (CUMBO)." xsd:string {source="BIRNLEX:1099"} property_value: UBPROP:0000003 "(...) at some stage of its development, every chordate exhibits five uniquely derived characters or synapomorphies of the group: (...) (4) a single, tubular nerve cord that is located dorsal to the notochord (...) (reference 1); The neural tube is destined to differentiate into the brain and spinal cord (the central nervous system) (reference 2); Taken together, our data make a very strong case that the complex molecular mediolateral architecture of the developing trunk CNS (central nervous system), as shared between Platynereis and vertebrates, was already present in their last common ancestor, Urbilateria. The concept of bilaterian nervous system centralization implies that neuron types concentrate on one side of the trunk, as is the case in vertebrates and many invertebrates including Platynereis, where they segregate and become spatially organized (as opposed to a diffuse nerve net). Our data reveal that a large part of the spatial organization of the annelid and vertebrate CNS was already present in their last common ancestor, which implies that Urbilateria had already possessed a CNS (reference 3).[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000293", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.28 (reference 1), ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.165 (reference 2), DOI:10.1016/j.cell.2007.02.040 Denes AS, Jekely G, Steinmetz PRH, Raible F, Snyman H, Prud'homme B, Ferrier DEK, Balavoine G and Arendt D, Molecular architecture of annelid nerve cord supports common origin of nervous system centralization in Bilateria. Cell (2007) (reference 3)"} property_value: UBPROP:0000003 "(...) at some stage of its development, every chordate exhibits five uniquely derived characters or synapomorphies of the group: (...) (4) a single, tubular nerve cord that is located dorsal to the notochord (...) (reference 1); The neural tube is destined to differentiate into the brain and spinal cord (the central nervous system) (reference 2); Taken together, our data make a very strong case that the complex molecular mediolateral architecture of the developing trunk CNS (central nervous system), as shared between Platynereis and vertebrates, was already present in their last common ancestor, Urbilateria. The concept of bilaterian nervous system centralization implies that neuron types concentrate on one side of the trunk, as is the case in vertebrates and many invertebrates including Platynereis, where they segregate and become spatially organized (as opposed to a diffuse nerve net). Our data reveal that a large part of the spatial organization of the annelid and vertebrate CNS was already present in their last common ancestor, which implies that Urbilateria had already possessed a CNS (reference 3).[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000293", ontology="VHOG", source="ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.28 (reference 1), ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.165 (reference 2), DOI:10.1016/j.cell.2007.02.040 Denes AS, Jekely G, Steinmetz PRH, Raible F, Snyman H, Prud'homme B, Ferrier DEK, Balavoine G and Arendt D, Molecular architecture of annelid nerve cord supports common origin of nervous system centralization in Bilateria. Cell (2007) (reference 3)", source="http://bgee.unil.ch/"} [Term] id: UBERON:0001021 name: nerve namespace: uberon def: "An enclosed, cable-like bundle of axons in the peripheral nervous system originating in a nerve root in the central nervous system (or a condensed nervous structure) connecting with peripheral structures." [FBbt:00005105, http://orcid.org/0000-0002-6601-2165] subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "nerves" EXACT PLURAL [TAO:0007009] synonym: "neural subtree" RELATED [FMA:65132] synonym: "peripheral nerve" EXACT [http://orcid.org/0000-0002-6601-2165] xref: AAO:0011070 xref: AEO:0000137 xref: BAMS:n xref: BIRNLEX:1615 xref: BSA:0000098 xref: BTO:0000925 xref: BTO:0001027 xref: CALOHA:TS-0772 xref: EHDAA2:0003137 xref: EHDAA:2851 xref: EHDAA:3776 xref: EHDAA:4657 xref: EMAPA:32808 xref: EMAPA:32815 xref: EV:0100371 xref: FBbt:00005105 xref: FMA:65132 xref: FMA:65239 xref: GAID:747 xref: GAID:758 xref: galen:Nerve xref: http://linkedlifedata.com/resource/umls/id/C0027740 xref: http://linkedlifedata.com/resource/umls/id/C0031119 xref: http://www.snomedbrowser.com/Codes/Details/244457007 xref: http://www.snomedbrowser.com/Codes/Details/256864008 xref: MA:0000217 xref: MA:0000228 xref: MESH:D010525 xref: NCIT:C12466 xref: NCIT:C12768 xref: Nervous:system xref: NLX:147826 xref: OpenCyc:Mx4rwP3lkpwpEbGdrcN5Y29ycA xref: SCTID:244457007 xref: SCTID:256864008 xref: TAO:0007009 xref: UMLS:C0027740 {source="ncithesaurus:Nerve"} xref: UMLS:C0031119 {source="ncithesaurus:Peripheral_Nerve"} xref: VHOG:0000901 xref: Wikipedia:Nervous_system xref: XAO:0000204 xref: XAO:0003047 xref: ZFA:0007009 is_a: UBERON:0000122 {source="FBbt"} ! neuron projection bundle relationship: has_developmental_contribution_from UBERON:0002342 {gci_relation="part_of", gci_filler="NCBITaxon:7742", source="https://github.com/obophenotype/uberon/wiki/The-neural-crest"} ! neural crest relationship: has_developmental_contribution_from UBERON:0002342 {gci_relation="part_of", gci_filler="NCBITaxon:7742", source="https://github.com/obophenotype/uberon/wiki/The-neural-crest"} ! neural crest relationship: has_quality PATO:0002045 ! dendritic relationship: part_of UBERON:0000010 ! peripheral nervous system property_value: UBPROP:0000001 "A portion of tissue which is a fasiculated group of axons.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0007009", ontology="TAO", source="ZFIN:curator"} property_value: UBPROP:0000007 "nervous" xsd:string [Term] id: UBERON:0001027 name: sensory nerve namespace: uberon def: "A nerve that transmits from sensory receptors on the surface of the body to the central nervous system." [UBERON:cjm, Wikipedia:Sensory_nerve] subset: pheno_slim subset: uberon_slim synonym: "afferent nerve" RELATED [] synonym: "nervus sensorius" EXACT LATIN [Wikipedia:Sensory_nerve] xref: AEO:0000201 xref: EHDAA2:0003200 xref: FBbt:00005136 xref: FMA:5868 xref: OpenCyc:Mx4rv0GdXpwpEbGdrcN5Y29ycA xref: Wikipedia:Sensory_nerve is_a: UBERON:0001021 ! nerve relationship: has_part CL:0000526 {source="AEO"} ! afferent neuron [Term] id: UBERON:0001032 name: sensory system namespace: uberon def: "Anatomical system that overlaps the nervous system and is responsible for receiving and processing sensory information." [http://en.wikipedia.org/wiki/Sensory_system] def: "Anatomical system that overlaps the nervous system and is responsible for receiving and processing sensory information." [Wikipedia:Sensory_system] subset: efo_slim subset: uberon_slim subset: vertebrate_core synonym: "organa sensuum" EXACT LATIN [FMA:75259, FMA:TA] synonym: "organa sensuum" RELATED LATIN [http://en.wikipedia.org/wiki/Sensory_system] synonym: "organa sensuum" RELATED LATIN [Wikipedia:Sensory_system] synonym: "sense organ subsystem" EXACT [] synonym: "sense organs" EXACT [FMA:75259] synonym: "sense organs set" EXACT [FMA:75259] synonym: "sensory organ system" RELATED [] synonym: "sensory subsystem" EXACT [] synonym: "sensory systems" EXACT PLURAL [TAO:0000282] synonym: "set of sense organs" RELATED [FMA:75259] xref: AAO:0000555 xref: BAMS:SEN xref: BILA:0000099 xref: EFO:0000805 xref: EHDAA2:0003094 xref: EMAPA:16192 xref: FBbt:00007692 xref: FMA:75259 xref: MA:0002442 xref: MAT:0000031 xref: MIAA:0000031 xref: NLXANAT:090816 xref: Sensory:system xref: TAO:0000282 xref: VHOG:0001674 xref: Wikipedia:Sensory_system xref: XAO:0003194 xref: ZFA:0000282 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000467 ! anatomical system relationship: capable_of_part_of GO:0007600 ! sensory perception relationship: overlaps UBERON:0001016 ! nervous system relationship: part_of UBERON:0004456 ! entire sense organ system property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/c/c0/Gray722.png xsd:anyURI property_value: UBPROP:0000003 "An early step in the evolution of neural crest, therefore, may have been the origin of a specific dorsal neural cell population contributing to sensory processing; this would predate the divergence of the amphioxus and vertebrate lineages.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001674", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1073/pnas.97.9.4449 Shimeld SM and Holland PW. Vertebrate innovations. PNAS (2000)"} property_value: UBPROP:0000003 "An early step in the evolution of neural crest, therefore, may have been the origin of a specific dorsal neural cell population contributing to sensory processing; this would predate the divergence of the amphioxus and vertebrate lineages.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001674", ontology="VHOG", source="DOI:10.1073/pnas.97.9.4449 Shimeld SM and Holland PW. Vertebrate innovations. PNAS (2000)", source="http://bgee.unil.ch/"} property_value: UBPROP:0000012 "note the distinct between entire sensory system and individual system. this reconciles is_a and part_of distinctions between ssAOs" xsd:string [Term] id: UBERON:0001041 name: foregut namespace: uberon def: "Anterior subdivision of a digestive tract." [http://orcid.org/0000-0002-6601-2165] subset: developmental_classification subset: pheno_slim subset: uberon_slim synonym: "praeenteron" RELATED LATIN [Wikipedia:Foregut] synonym: "praeenteron" RELATED LATIN [http://en.wikipedia.org/wiki/Foregut] synonym: "proenteron" RELATED LATIN [Wikipedia:Foregut] synonym: "proenteron" RELATED LATIN [http://en.wikipedia.org/wiki/Foregut] xref: AAO:0011042 xref: BILA:0000085 xref: BTO:0000507 xref: EHDAA2:0000557 xref: EHDAA:520 xref: EMAPA:16548 xref: FBbt:00005379 xref: FMA:45616 xref: http://en.wikipedia.org/wiki/Foregut xref: http://linkedlifedata.com/resource/umls/id/C0231051 xref: http://www.snomedbrowser.com/Codes/Details/361409009 xref: MA:0001526 xref: NCIT:C34180 xref: SCTID:361409009 xref: TGMA:0001014 xref: UMLS:C0231051 {source="ncithesaurus:Foregut"} xref: VHOG:0000285 xref: Wikipedia:Foregut xref: XAO:0000232 is_a: UBERON:0004921 ! subdivision of digestive tract property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/9/9a/Gray27.png xsd:anyURI property_value: editor_note "Note we define this generically to include invertebrates (partly for consistency with GO), but the class may be split in future. In vertebrates the term may refer to a developmental structure" xsd:string property_value: UBPROP:0000001 "The anterior portion of the primitive digestive tube of the embryo that lies cephalic to the junction of the yolk stalk, consists of endodermal tissue, and gives rise to the the pharynx, lower respiratory system, esophagus, stomach, duodenum proximal to the biliary tract, liver, pancreas, biliary tract, and gall bladder." xsd:string {source="MP:0000474"} property_value: UBPROP:0000003 "The bilaterian gut is typically a complete tube that opens to the exterior at both ends. It consists of mouth, foregut, midgut, hindgut, and anus (reference 1); Although all vertebrates have a digestive tract and accessory glands, various parts of this system are not necessarily homologous, analogous, or even present in all species. Therefore, broad comparisons can be best made under the listings of headgut, foregut, midgut, pancreas and biliary system, hindgut (reference 2).[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000285", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0030259821 Ruppert EE, Fox RS, Barnes RD, Invertebrate zoology: a functional evolutionary approach (2003) p.203, ISBN:978-0521617147 Stevens CE and Hume ID, Comparative physiology of the vertebrate digestive system (2004) p.11"} property_value: UBPROP:0000003 "The bilaterian gut is typically a complete tube that opens to the exterior at both ends. It consists of mouth, foregut, midgut, hindgut, and anus (reference 1); Although all vertebrates have a digestive tract and accessory glands, various parts of this system are not necessarily homologous, analogous, or even present in all species. Therefore, broad comparisons can be best made under the listings of headgut, foregut, midgut, pancreas and biliary system, hindgut (reference 2).[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000285", ontology="VHOG", source="ISBN:978-0030259821 Ruppert EE, Fox RS, Barnes RD, Invertebrate zoology: a functional evolutionary approach (2003) p.203, ISBN:978-0521617147 Stevens CE and Hume ID, Comparative physiology of the vertebrate digestive system (2004) p.11", source="http://bgee.unil.ch/"} [Term] id: UBERON:0001042 name: chordate pharynx namespace: uberon def: "A portion of the respiratory and digestive tracts; its distal limit is the superior part of the esophagus and it connects the nasal and oral cavities with the esophagus and larynx; it contains the valleculae and the pyriform recesses; its upper limits are the nasal cavity and cranial base.[FEED]." [http://www.feedexp.org] comment: Consider generalizing to deuterostome pharynx subset: efo_slim subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "pharynx" BROAD SENSU [FMA:46688] xref: AAO:0000967 xref: BTO:0001049 xref: CALOHA:TS-0785 xref: EFO:0000836 xref: EHDAA2:0001458 xref: EHDAA:2947 xref: EMAPA:16706 xref: EV:0100065 xref: FMA:46688 xref: GAID:155 xref: galen:Pharynx xref: http://en.wikipedia.org/wiki/Pharynx xref: http://linkedlifedata.com/resource/umls/id/C0031354 xref: http://www.snomedbrowser.com/Codes/Details/181211006 xref: MA:0000432 xref: MESH:A03.867 xref: NCIT:C12425 xref: OpenCyc:Mx4rvViv7ZwpEbGdrcN5Y29ycA xref: SCTID:181211006 xref: TAO:0000056 xref: UMLS:C0031354 {source="ncithesaurus:Pharynx"} xref: VHOG:0000462 xref: Wikipedia:Pharynx xref: XAO:0003227 xref: ZFA:0000056 is_a: UBERON:0006562 ! pharynx relationship: continuous_with UBERON:0001043 {gci_relation="part_of", gci_filler="NCBITaxon:7742"} ! esophagus relationship: develops_from UBERON:0009145 {source="EHDAA2"} ! pharyngeal region of foregut relationship: distally_connected_to UBERON:0001043 {gci_relation="part_of", gci_filler="NCBITaxon:7742"} ! esophagus relationship: has_skeleton UBERON:0008895 {gci_relation="part_of", gci_filler="NCBITaxon:89593"} ! splanchnocranium relationship: only_in_taxon NCBITaxon:7711 ! Chordata relationship: part_of UBERON:0001004 ! respiratory system property_value: UBPROP:0000001 "A funnel-shaped fibromuscular tube that conducts food to the ESOPHAGUS, and air to the LARYNYX and LUNGS. It is located posterior to the NASAL CAVITY; ORAL CAVITY; and LARYNX, and extends from the SKULL BASE to the inferior border of the CRICOID CARTILAGE anteriorly and to the inferior border of the C6 vertebra posteriorly. It is divided into the NASOPHARYNX; OROPHARYNX; and HYPOPHARYNX (laryngopharynx)[MESH:A03.867]." xsd:string {source="MESH:A03.867"} property_value: UBPROP:0000001 "Anatomical cavity bounded by the derivatives of the branchial arches.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0000967", ontology="AAO", source="AAO:EJS"} property_value: UBPROP:0000001 "Swollen region of the anterior foregut, posterior to the mouth and anterior to the liver; its walls form the jaws and gills. Kimmel et al, 1995.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0000056", ontology="TAO", source="ZFIN:curator"} property_value: UBPROP:0000001 "Swollen region of the anterior foregut, posterior to the mouth and anterior to the liver; its walls form the jaws and gills[ZFA:0000056, ZFIN:ZDB-PUB-961014-576]." xsd:string {source="ZFIN:ZDB-PUB-961014-576"} property_value: UBPROP:0000001 "The portion of the alimentary canal between the mouth and the oesophagus. [Dorian_AF, Elsevier's_encyclopaedic_dictionary_of_medicine, Part_B:_Anatomy_(1988)_Amsterdam_etc.:_Elsevier][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000462", ontology="VHOG", source="http://bgee.unil.ch/"} property_value: UBPROP:0000001 "The portion of the alimentary canal between the mouth and the oesophagus. [Dorian_AF, Elsevier's_encyclopaedic_dictionary_of_medicine, Part_B:_Anatomy_(1988)_Amsterdam_etc.:_Elsevier][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000462", ontology="VHOG", source="http://bgee.unil.ch/"} property_value: UBPROP:0000002 "relationship type change: part_of_proxy respiratory system (AAO:0000541) CHANGED TO: develops_from respiratory system (UBERON:0001004)[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0000967", ontology="AAO"} property_value: UBPROP:0000002 "relationship type change: part_of_proxy respiratory system (AAO:0000541) CHANGED TO: part_of respiratory system (UBERON:0001004)[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0000967", ontology="AAO"} property_value: UBPROP:0000003 "(...) the earliest vertebrates possessed unjointed internal and external branchial arches, and musculature encircling the pharynx.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000462", ontology="VHOG", source="ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) Box essay 13.1 and Box figure I, p.502-503", source="http://bgee.unil.ch/"} property_value: UBPROP:0000003 "(...) the earliest vertebrates possessed unjointed internal and external branchial arches, and musculature encircling the pharynx.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000462", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) Box essay 13.1 and Box figure I, p.502-503"} property_value: UBPROP:0000012 "MA/FMA pharynx not part of digestive/alimentary system, we are consistent with this scheme" xsd:string {external_ontology="MA"} [Term] id: UBERON:0001043 name: esophagus namespace: uberon def: "Tube that connects the pharynx to the stomach. In mammals, the oesophagus connects the buccal cavity with the stomach. The stratified squamous non-keratinised epithelium lining the buccal cavity is continued through the pharynx down into the oesophagus. The lowest part of the oesophagus (ca. 2 cm) is lined with gastric mucosa and covered by peritoneum. The main body of the oesophagus is lined with small, simple mucous glands. Each gland opens into the lumen by a long duct which pierces the muscularis mucosae (Wilson and Washington, 1989). A sphincter is situated at the point where the oesophagus enters the stomach to prevent gastro-oesophageal reflux, i.e. to prevent acidic gastric contents from reaching stratified epithelia of the oesophagus, where they can cause inflammation and irritation (Wilson and Washington, 1989; Brown et al., 1993)." [http://www.rivm.nl/interspeciesinfo/inter/oesophagus/, Wikipedia:Esophagus] def: "Tube that connects the pharynx to the stomach. In mammals, the oesophagus connects the buccal cavity with the stomach. The stratified squamous non-keratinised epithelium lining the buccal cavity is continued through the pharynx down into the oesophagus. The lowest part of the oesophagus (ca. 2 cm) is lined with gastric mucosa and covered by peritoneum. The main body of the oesophagus is lined with small, simple mucous glands. Each gland opens into the lumen by a long duct which pierces the muscularis mucosae (Wilson and Washington, 1989). A sphincter is situated at the point where the oesophagus enters the stomach to prevent gastro-oesophageal reflux, i.e. to prevent acidic gastric contents from reaching stratified epithelia of the oesophagus, where they can cause inflammation and irritation (Wilson and Washington, 1989; Brown et al., 1993)." [http://en.wikipedia.org/wiki/Esophagus, http://www.rivm.nl/interspeciesinfo/inter/oesophagus/] subset: efo_slim subset: major_organ subset: organ_slim subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "gullet" EXACT [] synonym: "oesophagus" EXACT [] xref: AAO:0000145 xref: ANISEED:1235301 xref: BTO:0000959 xref: CALOHA:TS-0700 xref: EFO:0000835 xref: EHDAA2:0001285 xref: EHDAA:2937 xref: EMAPA:16833 xref: EV:0100069 xref: FMA:7131 xref: GAID:291 xref: galen:Esophagus xref: http://en.wikipedia.org/wiki/Esophagus xref: http://linkedlifedata.com/resource/umls/id/C0014876 xref: http://www.snomedbrowser.com/Codes/Details/181245004 xref: MA:0000352 xref: MAT:0000048 xref: MESH:A03.365 xref: MIAA:0000048 xref: NCIT:C12389 xref: OpenCyc:Mx4rvVj9Q5wpEbGdrcN5Y29ycA xref: SCTID:181245004 xref: TAO:0000204 xref: UMLS:C0014876 {source="ncithesaurus:Esophagus"} xref: VHOG:0000450 xref: Wikipedia:Esophagus xref: XAO:0000127 xref: ZFA:0000204 is_a: UBERON:0004921 ! subdivision of digestive tract is_a: UBERON:0005178 ! thoracic cavity element is_a: UBERON:0013765 ! digestive system element relationship: develops_from UBERON:0001041 ! foregut relationship: distally_connected_to UBERON:0000945 {gci_relation="part_of", gci_filler="NCBITaxon:40674", notes="only in species that have a stomach"} ! stomach relationship: part_of RO:0002577 ! system relationship: part_of UBERON:0004908 ! upper digestive tract relationship: proximally_connected_to UBERON:0001042 ! chordate pharynx property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/d/d4/Illu01_head_neck.jpg xsd:anyURI property_value: UBPROP:0000001 "Anterior end of the alimentary canal lined with smooth muscle. Bounded anteriorly by a constriction in the pharynx. Bounded posteriorly by and increase in circular and/or longitudinal smooth muscle associated with the stomach.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0000145", ontology="AAO", source="AAO:EJS"} property_value: UBPROP:0000003 "The few structural specializations in (adult lampreys) pharynx include complex valves on the external gill openings that direct the tidal flow, and the division of the ancestral pharynx into an oesophagus and a respiratory pharynx.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000450", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1111/j.1096-3642.1996.tb01658.x Mallatt J, Ventilation and the origin of jawed vertebrates: a new mouth. Zoological Journal of the Linnean Society (1996)"} property_value: UBPROP:0000003 "The few structural specializations in (adult lampreys) pharynx include complex valves on the external gill openings that direct the tidal flow, and the division of the ancestral pharynx into an oesophagus and a respiratory pharynx.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000450", ontology="VHOG", source="DOI:10.1111/j.1096-3642.1996.tb01658.x Mallatt J, Ventilation and the origin of jawed vertebrates: a new mouth. Zoological Journal of the Linnean Society (1996)", source="http://bgee.unil.ch/"} property_value: UBPROP:0000007 "esophageal" xsd:string property_value: UBPROP:0000012 "esophagus NOT part of gut in MA. part of gut in ZFA. part_of gut (via UGIT) in FMA. Consider splitting. Interspecies: The human oesophagus is 25 cm long and has a diameter of ca. 2 cm. Only little information was found on the oesophagus in rat, rabbit and pig. The oesophagus of rat (75 x 2 mm) and rabbit has no mucous glands and the cardia of the stomach has a well-developed sphincter, which prevents them from vomiting (Hebel and Stromberg, 1988; Manning et al., 1994). Morphologically the oesophagus is similar in man and pig; both are omnivores and have a non-keratinised epithelium, submucous glands and similar membrane enzymes. Like in humans, pigs can suffer from reflux oesophagitis and stress ulceration of the oesophagus. The pig oesophagus may therefore be a good model for investigation compared to the human oesophagus (Christie et al., 1995)" xsd:string {external_ontology="MA"} [Term] id: UBERON:0001048 name: primordium namespace: uberon def: "Primordia are populations of contiguous cells that are morphologically distinct and already correspond in extent to a later organ/tissue[FBbt, Hartenstein, V. (2004)]." [BTO:0001886, FB:DJS, FB:FBrf0089570, http://flybase.org/reports/FBrf0178740.html] subset: efo_slim subset: pheno_slim subset: uberon_slim synonym: "bud" RELATED [] synonym: "future organ" RELATED [] synonym: "placode" RELATED [FBbt:00005495] synonym: "primordia" RELATED PLURAL [XAO:0003043] synonym: "rudiment" RELATED [] xref: AEO:0000171 xref: BTO:0001886 xref: EFO:0001652 xref: EHDAA2:0003171 xref: FBbt:00005495 xref: FMA:86589 xref: http://en.wikipedia.org/wiki/Primordium xref: http://linkedlifedata.com/resource/umls/id/C0678727 xref: MAT:0000482 xref: NCIT:C34275 xref: UMLS:C0678727 {source="ncithesaurus:Primordium"} xref: Wikipedia:Primordium xref: XAO:0003043 is_a: UBERON:0005423 {source="EHDAA2"} ! developing anatomical structure relationship: part_of UBERON:0000468 ! multicellular organism [Term] id: UBERON:0001049 name: neural tube namespace: uberon def: "In the developing vertebrate, the neural tube is the embryo's precursor to the central nervous system, which comprises the brain and spinal cord. The neural groove gradually deepens as the neural folds become elevated, and ultimately the folds meet and coalesce in the middle line and convert the groove into a closed tube, the neural tube or neural canal (which strictly speaking is the center of the neural tube), the ectodermal wall of which forms the rudiment of the nervous system. [WP,unvetted]." [http://en.wikipedia.org/wiki/Neural_tube] def: "In the developing vertebrate, the neural tube is the embryo's precursor to the central nervous system, which comprises the brain and spinal cord. The neural groove gradually deepens as the neural folds become elevated, and ultimately the folds meet and coalesce in the middle line and convert the groove into a closed tube, the neural tube or neural canal (which strictly speaking is the center of the neural tube), the ectodermal wall of which forms the rudiment of the nervous system. [WP,unvetted]." [Wikipedia:Neural_tube] subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "neural primordium" RELATED [] synonym: "presumptive central nervous system" RELATED [] synonym: "tubus neuralis" RELATED LATIN [http://en.wikipedia.org/wiki/Neural_tube] synonym: "tubus neuralis" RELATED LATIN [Wikipedia:Neural_tube] xref: AAO:0010617 xref: BTO:0001057 xref: CALOHA:TS-2371 xref: DHBA:10154 xref: EHDAA2:0001254 xref: EHDAA:2869 xref: EHDAA:908 xref: EMAPA:16164 xref: EMAPA:16757 xref: FMA:293882 xref: http://braininfo.rprc.washington.edu/centraldirectory.aspx?ID=1365 xref: http://linkedlifedata.com/resource/umls/id/C0231024 xref: http://www.snomedbrowser.com/Codes/Details/362852000 xref: MAT:0000069 xref: MIAA:0000069 xref: NCIT:C34226 xref: Neural:tube xref: SCTID:362852000 xref: TAO:0001135 xref: UMLS:C0231024 {source="ncithesaurus:Neural_Tube"} xref: VHOG:0000307 xref: Wikipedia:Neural_tube xref: XAO:0003204 xref: ZFA:0001135 is_a: UBERON:0003914 {source="EHDAA2"} ! epithelial tube is_a: UBERON:0005291 ! embryonic tissue is_a: UBERON:0010371 ! ecto-epithelium is_a: UBERON:0016879 ! future central nervous system relationship: develops_from UBERON:0005068 ! neural rod property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/6/64/Gray19_with_color.png xsd:anyURI property_value: UBPROP:0000001 "Hollow epithelial tube on dorsal side of the embryo that develops into the central nervous system.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0010617", ontology="AAO", source="AAO:JOR"} property_value: UBPROP:0000001 "The dorsal tubular structure in the vertebrate embryo that develops into the brain and spinal cord. [TFD][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000307", ontology="VHOG", source="http://bgee.unil.ch/", source="http://medical-dictionary.thefreedictionary.com/neural+tube"} property_value: UBPROP:0000001 "The dorsal tubular structure in the vertebrate embryo that develops into the brain and spinal cord. [TFD][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000307", ontology="VHOG", source="http://bgee.unil.ch/", source="http://medical-dictionary.thefreedictionary.com/neural+tube"} property_value: UBPROP:0000003 "(...) at some stage of its development, every chordate exhibits five uniquely derived characters or synapomorphies of the group: (...) (4) a single, tubular nerve cord that is located dorsal to the notochord (...).[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000307", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.28"} property_value: UBPROP:0000003 "(...) at some stage of its development, every chordate exhibits five uniquely derived characters or synapomorphies of the group: (...) (4) a single, tubular nerve cord that is located dorsal to the notochord (...).[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000307", ontology="VHOG", source="ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.28", source="http://bgee.unil.ch/"} property_value: UBPROP:0000011 "The mature structure of the neural tube exists when the tube has been segmented into the forebrain, midbrain, hindbrain and spinal cord regions. In addition neural crest has budded away from the epithelium" xsd:string {source="GO:0021915"} [Term] id: UBERON:0001062 name: anatomical entity namespace: uberon def: "Biological entity that is either an individual member of a biological species or constitutes the structural organization of an individual member of a biological species." [FMA:62955, http://orcid.org/0000-0001-9114-8737] subset: upper_level xref: AAO:0010841 xref: AEO:0000000 xref: BILA:0000000 xref: BIRNLEX:6 xref: CARO:0000000 xref: EHDAA2:0002229 xref: FBbt:10000000 xref: FBbt_root:00000000 xref: FMA:62955 xref: HAO:0000000 xref: http://linkedlifedata.com/resource/umls/id/C1515976 xref: MA:0000001 xref: NCIT:C12219 xref: TAO:0100000 xref: TGMA:0001822 xref: UMLS:C1515976 {source="ncithesaurus:Anatomic_Structure_System_or_Substance"} xref: WBbt:0000100 xref: XAO:0000000 xref: ZFA:0100000 is_a: BFO:0000004 ! independent continuant [Term] id: UBERON:0001068 name: skin of back namespace: uberon def: "A zone of skin that is part of a back [Automatically generated definition]." [OBOL:automatic] subset: pheno_slim synonym: "back skin" EXACT [] synonym: "back zone of skin" EXACT [OBOL:automatic] synonym: "skin, dorsal region" EXACT [https://orcid.org/0000-0002-6601-2165] synonym: "zone of skin of back" EXACT [OBOL:automatic] xref: EMAPA:36392 xref: FMA:10462 xref: FMA:22985 xref: http://www.snomedbrowser.com/Codes/Details/181492002 xref: MA:0000498 xref: SCTID:181492002 is_a: UBERON:0001085 {source="MA"} ! skin of trunk intersection_of: UBERON:0000014 ! zone of skin intersection_of: part_of UBERON:0001137 ! dorsum relationship: part_of UBERON:0011270 {source="MA"} ! dorsal trunk property_value: editor_note "TODO - distinguish between entire skin of region and arbitrary zone of skin on region" xsd:string [Term] id: UBERON:0001070 name: external carotid artery namespace: uberon def: "A terminal branch of the left or right common carotid artery which supplies oxygenated blood to to the throat, neck glands, tongue, face, mouth, ear, scalp and dura mater of the meninges[MP]." [MGI:anna] subset: efo_slim subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "arteria carotis externa" RELATED LATIN [Wikipedia:External_carotid_artery] synonym: "arteria carotis externa" RELATED LATIN [http://en.wikipedia.org/wiki/External_carotid_artery] synonym: "external carotid" EXACT [AAO:0010218] xref: AAO:0010218 xref: AAO:0010416 xref: BTO:0004696 xref: EFO:0001953 xref: EHDAA2:0000461 xref: EMAPA:18611 xref: FMA:10635 xref: GAID:480 xref: http://en.wikipedia.org/wiki/External_carotid_artery xref: http://linkedlifedata.com/resource/umls/id/C0007275 xref: http://www.snomedbrowser.com/Codes/Details/362044002 xref: MA:0001929 xref: MESH:D002342 xref: NCIT:C32551 xref: OpenCyc:Mx4rwVJkPZwpEbGdrcN5Y29ycA xref: SCTID:362044002 xref: UMLS:C0007275 {source="ncithesaurus:External_Carotid_Artery"} xref: VHOG:0000265 xref: Wikipedia:External_carotid_artery xref: XAO:0000345 is_a: UBERON:0005396 {source="MA"} ! carotid artery segment is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: branching_part_of UBERON:0001530 {source="FMA"} ! common carotid artery plus branches relationship: develops_from UBERON:0001530 {source="EHDAA2"} ! common carotid artery plus branches relationship: part_of UBERON:0001530 {source="FMA"} ! common carotid artery plus branches property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/1/13/External_carotid_a.gif xsd:anyURI property_value: seeAlso https://sourceforge.net/tracker/?func=detail&aid=3486863&group_id=76834&atid=1127722 xsd:anyURI property_value: UBPROP:0000008 "not homologous to the external carotid of zebrafish (Goodrich, 1958) - http://zfish.nichd.nih.gov/zfatlas/Intro%20Page/comparative.html; check XAO" xsd:string [Term] id: UBERON:0001071 name: superficial cervical artery namespace: uberon def: "It ascends beneath the anterior margin of the trapezius, distributing branches to it, and to the neighboring muscles and lymph glands in the neck, and anastomosing with the superficial branch of the descending branch of the occipital artery." [http://en.wikipedia.org/wiki/Superficial_part_of_transverse_cervical_artery] def: "It ascends beneath the anterior margin of the trapezius, distributing branches to it, and to the neighboring muscles and lymph glands in the neck, and anastomosing with the superficial branch of the descending branch of the occipital artery." [Wikipedia:Superficial_part_of_transverse_cervical_artery] comment: The transverse cervical artery splits into two branches, a superficial one and a deep one[WP] subset: uberon_slim synonym: "superficial branch of transverse cervical artery" EXACT [http://en.wikipedia.org/wiki/Superficial_part_of_transverse_cervical_artery] synonym: "superficial branch of transverse cervical artery" EXACT [Wikipedia:Superficial_part_of_transverse_cervical_artery] xref: EMAPA:37117 {source="MA:th"} xref: FMA:10665 xref: http://en.wikipedia.org/wiki/Superficial_part_of_transverse_cervical_artery xref: http://linkedlifedata.com/resource/umls/id/C0226271 xref: http://www.snomedbrowser.com/Codes/Details/161746006 xref: MA:0002052 xref: NCIT:C53005 xref: SCTID:161746006 xref: UMLS:C0226271 {source="ncithesaurus:Superficial_Cervical_Artery"} xref: Wikipedia:Superficial_part_of_transverse_cervical_artery is_a: UBERON:0012320 ! cervical artery intersection_of: UBERON:0012320 ! cervical artery intersection_of: part_of UBERON:0035549 ! vasculature of integument relationship: connected_to UBERON:0012324 {subset="human_reference_atlas"} ! transverse cervical artery relationship: part_of UBERON:0035549 ! vasculature of integument [Term] id: UBERON:0001072 name: posterior vena cava namespace: uberon def: "A vein that carries deoxygenated blood from the lower half of the body into the right atrium of the heart." [http://en.wikipedia.org/wiki/Inferior_vena_cava, http://orcid.org/0000-0002-6601-2165] subset: pheno_slim subset: uberon_slim synonym: "caudal vena cava" RELATED [VHOG:0001194] synonym: "inferior caval vein" EXACT [http://orcid.org/0000-0002-6601-2165] synonym: "inferior vena cava" EXACT [http://en.wikipedia.org/wiki/Venae_cavae] synonym: "postcava" RELATED [] synonym: "posterior vena cava" EXACT [http://en.wikipedia.org/wiki/Venae_cavae] synonym: "vena cava inferior" RELATED LATIN [http://en.wikipedia.org/wiki/Inferior_vena_cava] synonym: "vena cava inferior" RELATED [BTO:0002682] xref: AAO:0011083 xref: BTO:0002682 xref: EHDAA2:0000611 xref: EMAPA:18416 xref: FMA:10951 xref: GAID:548 xref: galen:InferiorVenaCava xref: http://en.wikipedia.org/wiki/Inferior_vena_cava xref: http://linkedlifedata.com/resource/umls/id/C0042458 xref: http://www.snomedbrowser.com/Codes/Details/181369003 xref: MA:0000480 xref: MESH:D014682 xref: NCIT:C12815 xref: UMLS:C0042458 {source="ncithesaurus:Inferior_Vena_Cava"} xref: VHOG:0001194 xref: XAO:0000388 is_a: UBERON:0004087 ! vena cava intersection_of: UBERON:0004087 ! vena cava intersection_of: drains UBERON:0000154 ! posterior region of body disjoint_from: UBERON:0001585 {source="lexical"} ! anterior vena cava relationship: connected_to UBERON:0002078 {subset="human_reference_atlas"} ! right cardiac atrium relationship: drains UBERON:0000154 ! posterior region of body relationship: part_of RO:0002577 ! system property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/4/4d/Gray577.png xsd:anyURI property_value: UBPROP:0000001 "Trunk of systemic vein which is formed by the union of the right common iliac vein and the left common iliac vein and terminates in the right atrium[FMA]." xsd:string {source="FMA:10951"} property_value: UBPROP:0000003 "Phylogenetic modifications within this basic pattern of arteries and veins are largely correlated with functional changes. In the transition from water to land, gills gave way to lungs, accompanied by the establishment of a pulmonary circulation. In some fishes and certainly in tetrapods, the cardinal veins become less involved in blood return. Instead, the composite, prominent postcava (posterior vena cava) arose to drain the posterior part of the body and the precava (anterior vena cava) developed to drain the anterior part of the body.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001194", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.454-455"} [Term] id: UBERON:0001074 name: pericardial cavity namespace: uberon def: "A potential space between the visceral and parietal layers of the pericardium." [http://en.wikipedia.org/wiki/Pericardium] def: "A potential space between the visceral and parietal layers of the pericardium." [Wikipedia:Pericardium] subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "cavitas pericardiaca" RELATED LATIN [Wikipedia:Pericardial_cavity] synonym: "cavitas pericardiaca" RELATED LATIN [http://en.wikipedia.org/wiki/Pericardial_cavity] synonym: "cavity of pericardial sac" EXACT [] synonym: "pericardial space" EXACT [Wikipedia:Pericardial_cavity] synonym: "pericardial space" EXACT [http://en.wikipedia.org/wiki/Pericardial_cavity] xref: BSA:0000091 xref: EHDAA2:0001434 xref: EMAPA:16131 xref: EMAPA:16132 xref: FMA:11350 xref: galen:PericardialSpace xref: http://linkedlifedata.com/resource/umls/id/C0225972 xref: http://www.snomedbrowser.com/Codes/Details/362027001 xref: MA:0000053 xref: NCIT:C38662 xref: Pericardial:cavity xref: SCTID:362027001 xref: TAO:0002220 xref: UMLS:C0225972 {source="ncithesaurus:Pericardial_Cavity"} xref: VHOG:0000556 xref: Wikipedia:Pericardial_cavity xref: ZFA:0001655 is_a: UBERON:0002323 {source="MA"} ! coelemic cavity lumen is_a: UBERON:0035809 ! serous cavity intersection_of: UBERON:0002553 ! anatomical cavity intersection_of: luminal_space_of UBERON:0002406 ! pericardial sac relationship: contains UBERON:0002409 ! pericardial fluid relationship: develops_from UBERON:0003887 {source="Wikipedia"} ! intraembryonic coelom relationship: luminal_space_of UBERON:0002406 ! pericardial sac relationship: part_of UBERON:0002406 {source="FMA"} ! pericardial sac relationship: surrounded_by UBERON:0002357 ! serous pericardium property_value: RO:0002175 NCBITaxon:7718 {source="PMID:20959416"} property_value: RO:0002175 NCBITaxon:7718 {source="http://www.ncbi.nlm.nih.gov/pubmed/20959416"} property_value: UBPROP:0000001 "Anatomical space in which the heart is located and is surrounded by the pericardium.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0002220", ontology="TAO", source="ZFIN:curator"} property_value: UBPROP:0000003 "In hagfishes a transverse septum extends upward from the ventral body wall posterior to the heart, partly separating an anterior pericardial cavity from a larger peritoneal cavity. (...) These basic relationships have not been modified by urodeles. The small pericardial cavity remains far forward where it is separated by a transverse septum from the principal coelom, which may now be called a pleuroperitoneal cavity because slender lungs are present. (...) The heart (of other tetrapods) is separated from the lungs (and liver if present) by more or less horizontal partitions that have their origin in the embryo as folds on the serous membrane of the right and left lateral body walls. These grow out to join in the midline of the body. They are called lateral mesocardia (birds) or pleuropericardial membranes. Posteriorly they join the transverse septum to form the adult pericardial membrane, or pericardium. (...) In their partitioning of their coelom, embryonic mammals resemble first early fishes (incomplete partition, posterior to heart, consisting of the transverse septum) and then reptiles (pericardium derived from transverse septum and pleuropericardial membranes). Mammals then separate paired pleural cavities from the peritoneal cavity by a diaphragm. The ventral portion of this organ comes from the transverse septum. The dorsal portion is derived from the dorsal mesentery and from still another pair of outgrowths from the lateral body wall, the pleuroperitoneal membranes.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000556", ontology="VHOG", source="ISBN:978-0471090588 Hildebrand M, Analysis of vertebrate structure (1983) p.205-206", source="http://bgee.unil.ch/"} property_value: UBPROP:0000003 "In hagfishes a transverse septum extends upward from the ventral body wall posterior to the heart, partly separating an anterior pericardial cavity from a larger peritoneal cavity. (...) These basic relationships have not been modified by urodeles. The small pericardial cavity remains far forward where it is separated by a transverse septum from the principal coelom, which may now be called a pleuroperitoneal cavity because slender lungs are present. (...) The heart (of other tetrapods) is separated from the lungs (and liver if present) by more or less horizontal partitions that have their origin in the embryo as folds on the serous membrane of the right and left lateral body walls. These grow out to join in the midline of the body. They are called lateral mesocardia (birds) or pleuropericardial membranes. Posteriorly they join the transverse septum to form the adult pericardial membrane, or pericardium. (...) In their partitioning of their coelom, embryonic mammals resemble first early fishes (incomplete partition, posterior to heart, consisting of the transverse septum) and then reptiles (pericardium derived from transverse septum and pleuropericardial membranes). Mammals then separate paired pleural cavities from the peritoneal cavity by a diaphragm. The ventral portion of this organ comes from the transverse septum. The dorsal portion is derived from the dorsal mesentery and from still another pair of outgrowths from the lateral body wall, the pleuroperitoneal membranes.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000556", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0471090588 Hildebrand M, Analysis of vertebrate structure (1983) p.205-206"} property_value: UBPROP:0000012 "check ZFA, should actually be thoracic cavity. Note that Hyman defines the cavity as the space between the heart and the sac (but defines the sac as parietal)" xsd:string {external_ontology="ZFA"} [Term] id: UBERON:0001081 name: endocardium of ventricle namespace: uberon def: "Endocardium that is part of the cardiac ventricle." [ZFIN:curator] subset: pheno_slim subset: vertebrate_core synonym: "cardiac ventricle endocardium" EXACT [OBOL:automatic] synonym: "endocardium of cardiac ventricle" EXACT [OBOL:automatic] synonym: "endocardium of heart ventricle" EXACT [OBOL:automatic] synonym: "endocardium of lower chamber of heart" EXACT [OBOL:automatic] synonym: "endocardium of ventricle of heart" EXACT [OBOL:automatic] synonym: "heart ventricle endocardium" EXACT [OBOL:automatic] synonym: "lower chamber of heart endocardium" EXACT [OBOL:automatic] synonym: "ventricle endocardial tissue" RELATED [VHOG:0000607] synonym: "ventricle endocardium" EXACT [] synonym: "ventricle of heart endocardium" EXACT [OBOL:automatic] synonym: "ventricular endocardium" EXACT [] xref: EMAPA:32747 xref: FMA:12148 xref: http://www.snomedbrowser.com/Codes/Details/192172004 xref: MA:0000079 xref: SCTID:192172004 xref: TAO:0002247 xref: VHOG:0000607 xref: ZFA:0001615 is_a: UBERON:0000487 ! simple squamous epithelium is_a: UBERON:0002165 ! endocardium is_a: UBERON:0012275 ! meso-epithelium intersection_of: UBERON:0002165 ! endocardium intersection_of: part_of UBERON:0002082 ! cardiac ventricle relationship: contributes_to_morphology_of UBERON:0002082 ! cardiac ventricle relationship: part_of UBERON:0004784 {source="https://github.com/obophenotype/uberon/wiki/Inferring-part-of-relationships"} ! heart ventricle wall relationship: part_of UBERON:0004784 {source="https://github.com/obophenotype/uberon/wiki/Inferring-part-of-relationships"} ! heart ventricle wall [Term] id: UBERON:0001082 name: epicardium of ventricle namespace: uberon def: "An epicardial layer that lines a cardiac ventricle" [http://orcid.org/0000-0002-6601-2165] def: "An epicardial layer that lines a cardiac ventricle." [http://orcid.org/0000-0002-6601-2165] subset: vertebrate_core synonym: "cardiac ventricle epicardium" EXACT [OBOL:automatic] synonym: "ventricular epicardium" EXACT [] xref: FMA:12150 xref: TAO:0005058 xref: ZFA:0005058 is_a: UBERON:0002348 ! epicardium intersection_of: UBERON:0002348 ! epicardium intersection_of: part_of UBERON:0002082 ! cardiac ventricle relationship: part_of UBERON:0002082 ! cardiac ventricle property_value: UBPROP:0000001 "The external layer of the ventricle bounding the ventricular myocardium. It is formed by a single layer of mesothelial cells supported by a basal lamina, and imbricated with collagen, fibroblasts, and vascular structures in the subepicardial space. Hu et al. 2001.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0005058", ontology="TAO", source="ZFIN:curator"} [Term] id: UBERON:0001083 name: myocardium of ventricle namespace: uberon def: "Muscular layer of the cardiac ventricle composed of a compact myocardial layer surrounding the trabecular layer." [ZFIN:curator] subset: efo_slim subset: pheno_slim subset: vertebrate_core synonym: "ventricle cardiac muscle" RELATED [VHOG:0000604] synonym: "ventricle myocardium" EXACT [] synonym: "ventricular myocardium" EXACT [] xref: EFO:0003088 xref: EMAPA:32748 xref: FMA:12151 xref: http://www.snomedbrowser.com/Codes/Details/192084000 xref: MA:0000082 xref: SCTID:192084000 xref: TAO:0005061 xref: VHOG:0000604 xref: ZFA:0005061 is_a: UBERON:0002349 ! myocardium intersection_of: UBERON:0002349 ! myocardium intersection_of: part_of UBERON:0002082 ! cardiac ventricle relationship: contributes_to_morphology_of UBERON:0002082 ! cardiac ventricle relationship: part_of UBERON:0004784 {source="https://github.com/obophenotype/uberon/wiki/Inferring-part-of-relationships"} ! heart ventricle wall relationship: part_of UBERON:0004784 {source="https://github.com/obophenotype/uberon/wiki/Inferring-part-of-relationships"} ! heart ventricle wall property_value: UBPROP:0000001 "Muscular layer of the cardiac ventricle composed of a compact myocardial layer surrounding the trabecular layer Hu et al. 2001.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0005061", ontology="TAO", source="ZFIN:curator"} property_value: UBPROP:0000003 "As noted, the hearts of birds and mammals have four chambers that arises from the two chambers (atrium and ventricle) of the fish heart.[uncertain][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000604", ontology="VHOG", source="ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.481", source="http://bgee.unil.ch/"} property_value: UBPROP:0000003 "As noted, the hearts of birds and mammals have four chambers that arises from the two chambers (atrium and ventricle) of the fish heart.[uncertain][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000604", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.481"} [Term] id: UBERON:0001084 name: skin of head namespace: uberon def: "A zone of skin that is part of a head [Automatically generated definition]." [OBOL:automatic] synonym: "adult head zone of skin" EXACT [OBOL:automatic] synonym: "head skin" EXACT [] synonym: "head zone of skin" EXACT [OBOL:automatic] synonym: "zone of skin of adult head" EXACT [OBOL:automatic] synonym: "zone of skin of head" EXACT [OBOL:automatic] xref: FMA:12166 xref: FMA:24756 xref: http://linkedlifedata.com/resource/umls/id/C0205029 xref: http://www.snomedbrowser.com/Codes/Details/181484006 xref: MA:0000582 xref: NCIT:C52757 xref: SCTID:181484006 xref: UMLS:C0205029 {source="ncithesaurus:Head_Skin"} is_a: UBERON:0012180 ! head or neck skin intersection_of: UBERON:0000014 ! zone of skin intersection_of: part_of UBERON:0000033 ! head relationship: part_of UBERON:0000033 ! head property_value: editor_note "TODO - distinguish between entire skin of region and arbitrary zone of skin on region" xsd:string [Term] id: UBERON:0001085 name: skin of trunk namespace: uberon def: "A zone of skin that is part of a trunk [Automatically generated definition]." [OBOL:automatic] synonym: "torso zone of skin" EXACT [OBOL:automatic] synonym: "trunk skin" EXACT [] synonym: "trunk zone of skin" EXACT [OBOL:automatic] synonym: "zone of skin of torso" EXACT [OBOL:automatic] synonym: "zone of skin of trunk" EXACT [OBOL:automatic] xref: EMAPA:37278 {source="MA:th"} xref: FMA:12167 xref: FMA:23093 xref: http://linkedlifedata.com/resource/umls/id/C0205031 xref: http://www.snomedbrowser.com/Codes/Details/181489001 xref: MA:0000517 xref: NCIT:C12295 xref: SCTID:181489001 xref: UMLS:C0205031 {source="ncithesaurus:Skin_of_the_Trunk"} is_a: UBERON:0000014 ! zone of skin intersection_of: UBERON:0000014 ! zone of skin intersection_of: part_of UBERON:0002100 ! trunk relationship: part_of UBERON:0002100 ! trunk property_value: editor_note "TODO - distinguish between entire skin of region and arbitrary zone of skin on region" xsd:string [Term] id: UBERON:0001087 name: pleural fluid namespace: uberon def: "Transudate contained in the pleural cavity." [FMA:12273] subset: uberon_slim xref: BTO:0003080 xref: FMA:12273 xref: MA:0002532 xref: MAT:0000500 xref: ncithesaurus:Pleural_Fluid xref: Wikipedia:Pleural_fluid is_a: UBERON:0036244 ! secretion of serous membrane intersection_of: UBERON:0007779 ! transudate intersection_of: located_in UBERON:0002402 ! pleural cavity relationship: located_in UBERON:0002402 ! pleural cavity [Term] id: UBERON:0001090 name: synovial fluid namespace: uberon def: "Joint fluid is a transudate of plasma that is actively secreted by synovial cells." [https://www.ncbi.nlm.nih.gov/books/NBK274/] subset: uberon_slim subset: vertebrate_core synonym: "joint fluid" EXACT [https://www.ncbi.nlm.nih.gov/books/NBK274/] xref: BTO:0001339 xref: CALOHA:TS-0996 xref: ENVO:02000039 xref: FMA:12277 xref: GAID:265 xref: galen:SynovialFluid xref: http://linkedlifedata.com/resource/umls/id/C0039097 xref: MA:0002544 xref: MESH:D013582 xref: NCIT:C33718 xref: Synovial:fluid xref: TAO:0005154 xref: UMLS:C0039097 {source="ncithesaurus:Synovial_Fluid"} xref: Wikipedia:Synovial_fluid xref: ZFA:0005154 is_a: UBERON:0007779 ! transudate is_a: UBERON:0007794 {source="FMA"} ! secretion of serous gland intersection_of: UBERON:0007779 ! transudate intersection_of: produced_by CL:0000214 ! synovial cell relationship: has_part CHEBI:16336 ! hyaluronic acid relationship: located_in UBERON:0007617 ! synovial cavity of joint relationship: produced_by CL:0000214 ! synovial cell property_value: UBPROP:0000001 "Portion of organism substance that is a clear fluid that occupies the space in synovial joints.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0005154", ontology="TAO", source="ZFIN:curator"} property_value: UBPROP:0000009 "It provides nutrients and lubrication for articular cartilage" xsd:string property_value: UBPROP:0000010 "The fluid contains hyaluronan secreted by fibroblast-like cells in the synovial membrane, lubricin (proteoglycan 4; PRG4) secreted by the surface chondrocytes of the articular cartilage and interstitial fluid filtered from the blood plasma" xsd:string [Term] id: UBERON:0001096 name: wall of esophagus namespace: uberon def: "An anatomical wall that is part of a esophagus [Automatically generated definition]." [OBOL:automatic] synonym: "anatomical wall of esophagus" EXACT [OBOL:automatic] synonym: "anatomical wall of gullet" EXACT [OBOL:automatic] synonym: "anatomical wall of oesophagus" EXACT [OBOL:automatic] synonym: "esophageal wall" EXACT [] synonym: "esophagus anatomical wall" EXACT [OBOL:automatic] synonym: "esophagus wall" EXACT [] synonym: "gullet anatomical wall" EXACT [OBOL:automatic] synonym: "gullet wall" EXACT [OBOL:automatic] synonym: "oesophagus anatomical wall" EXACT [OBOL:automatic] synonym: "oesophagus wall" EXACT [OBOL:automatic] synonym: "wall of gullet" EXACT [OBOL:automatic] synonym: "wall of oesophagus" EXACT [OBOL:automatic] xref: EMAPA:35326 xref: FMA:12611 xref: MA:0002691 is_a: UBERON:0000328 ! gut wall intersection_of: UBERON:0000060 ! anatomical wall intersection_of: part_of UBERON:0001043 ! esophagus relationship: part_of UBERON:0001043 ! esophagus [Term] id: UBERON:0001103 name: diaphragm namespace: uberon def: "A thin musculomebranous barrier that separates the abdominal and thoracic cavities. Often used for breathing control." [MP:0002279] subset: efo_slim subset: organ_slim subset: pheno_slim subset: uberon_slim synonym: "diaphragm muscle" EXACT [BTO:0000341] synonym: "diaphragm of thorax" EXACT [] synonym: "midriff" RELATED [BTO:0000341] synonym: "phren" RELATED [BTO:0000341] synonym: "thoracic diaphragm" EXACT [] xref: BTO:0000341 xref: CALOHA:TS-0198 xref: EFO:0000937 xref: EHDAA2:0003495 xref: EMAPA:17701 xref: EV:0100376 xref: FMA:13295 xref: GAID:158 xref: MA:0001904 xref: MAT:0000502 xref: MESH:D003964 xref: NCIT:C12702 xref: OpenCyc:Mx4rvVivz5wpEbGdrcN5Y29ycA xref: SCTID:181614006 xref: UMLS:C0011980 {source="ncithesaurus:Diaphragm"} xref: VHOG:0000713 xref: Wikipedia:Thoracid_diaphragm is_a: UBERON:0003830 ! thoracic segment muscle is_a: UBERON:0003831 ! respiratory system muscle relationship: immediate_transformation_of UBERON:0010084 {evidence="definitional"} ! future diaphragm relationship: innervated_by UBERON:0001884 ! phrenic nerve relationship: only_in_taxon NCBITaxon:40674 {source="PMID:23586979"} ! Mammalia property_value: RO:0002161 NCBITaxon:8782 {source="Wikipedia:Thoracic_diaphragm#Comparative_anatomy_and_evolution"} property_value: UBPROP:0000001 "The diaphragm is a skeletal muscle that is responsible for contraction and expansion of the lungs[GO]." xsd:string {source="GO:0060539"} property_value: UBPROP:0000003 "The mammals are characterized by a diaphragm, which separates the thoracic portion of the body cavity from the abdominal region and assists in drawing air into the lungs and forcing it out. Modern reptiles lack a muscular diaphragm and it is reasonable to suppose that the diaphragm developed as a new device that made possible a large degree of oxygen intake for active animals. The change may have taken place during the transition from reptile to mammal (...).[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000713", ontology="VHOG", source="ISBN:978-0471384618 Colbert EH, Evolution of the vertebrates: a history of the backboned animals through time (2001) p.278", source="http://bgee.unil.ch/"} property_value: UBPROP:0000007 "phrenic" xsd:string property_value: UBPROP:0000008 "The existence of some membrane separating the pharynx from the stomach can be traced widely among the chordates. Thus amphioxus possesses an atrium by which water exits the pharynx, which has been argued (and disputed) to be homologous to structures in ascidians and hagfishes.[3]" xsd:string property_value: UBPROP:0000008 "The urochordate epicardium separates digestive organs from the pharynx and heart, but the anus returns to the upper compartment to discharge wastes through an outgoing siphon (Thoracic_diaphragm#Comparative_anatomy_and_evolution)" xsd:string property_value: UBPROP:0000009 "barrier between thoracic and abdominal cavities; stop gastric contents from refluxing into the oesophagus" xsd:string property_value: UBPROP:0000009 "breathing control" xsd:string property_value: UBPROP:0000011 "originate from the cervical somites, likely C3-C5[PMID:23586979]" xsd:string [Term] id: UBERON:0001133 name: cardiac muscle tissue namespace: uberon alt_id: UBERON:0007096 def: "Muscle tissue composed of cardiac muscle cells, forming the muscles of the heart[ZFA,modified]." [ZFA:0005280] subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "cardiac muscle" EXACT [] synonym: "cardiac muscle muscle tissue" EXACT [OBOL:automatic] synonym: "cardiac muscle textus muscularis" EXACT [OBOL:automatic] synonym: "cardiac musculature" RELATED [BILA:0000134] synonym: "heart muscle muscle tissue" EXACT [OBOL:automatic] synonym: "heart muscle textus muscularis" EXACT [OBOL:automatic] synonym: "heart myocardium muscle tissue" EXACT [OBOL:automatic] synonym: "heart myocardium textus muscularis" EXACT [OBOL:automatic] synonym: "muscle of heart muscle tissue" EXACT [OBOL:automatic] synonym: "muscle of heart textus muscularis" EXACT [OBOL:automatic] synonym: "muscle tissue of cardiac muscle" EXACT [OBOL:automatic] synonym: "muscle tissue of heart muscle" EXACT [OBOL:automatic] synonym: "muscle tissue of heart myocardium" EXACT [OBOL:automatic] synonym: "muscle tissue of muscle of heart" EXACT [OBOL:automatic] synonym: "muscle tissue of myocardium" EXACT [OBOL:automatic] synonym: "myocardium muscle tissue" EXACT [OBOL:automatic] synonym: "myocardium textus muscularis" EXACT [OBOL:automatic] synonym: "textus muscularis of cardiac muscle" EXACT [OBOL:automatic] synonym: "textus muscularis of heart muscle" EXACT [OBOL:automatic] synonym: "textus muscularis of heart myocardium" EXACT [OBOL:automatic] synonym: "textus muscularis of muscle of heart" EXACT [OBOL:automatic] synonym: "textus muscularis of myocardium" EXACT [OBOL:automatic] xref: AAO:0010245 xref: AEO:0000142 xref: BILA:0000134 xref: BTO:0000199 xref: CALOHA:TS-0440 xref: Cardiac:muscle xref: EHDAA2:0003142 xref: EMAPA:32688 xref: FMA:14068 xref: galen:CardiacMuscle xref: galen:CardiacMuscleTissue xref: ncithesaurus:Heart_Muscle xref: TAO:0005280 xref: Wikipedia:Cardiac_muscle xref: ZFA:0005280 is_a: UBERON:0002036 ! striated muscle tissue is_a: UBERON:0010314 ! structure with developmental contribution from neural crest intersection_of: UBERON:0002036 ! striated muscle tissue intersection_of: has_part CL:0000746 ! cardiac muscle cell disjoint_from: UBERON:0001134 ! skeletal muscle tissue relationship: composed_primarily_of CL:0000746 ! cardiac muscle cell relationship: has_part CL:0000746 ! cardiac muscle cell relationship: part_of UBERON:0000948 {source="ZFA"} ! heart property_value: editor_note "check relationship with myocardium. part_of in MA - but we also have a more specific class 'cardiac muscle tissue of myocardium'. Check ncit" xsd:string [Term] id: UBERON:0001134 name: skeletal muscle tissue namespace: uberon def: "Muscle tissue that consists primarily of skeletal muscle fibers." [https://github.com/obophenotype/uberon/issues/324] subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "skeletal muscle" BROAD [] synonym: "skeletal muscle system" RELATED [BTO:0001103] synonym: "somatic muscle" RELATED [BTO:0001103] xref: EMAPA:32716 xref: FMA:14069 xref: http://en.wikipedia.org/wiki/Skeletal_striated_muscle xref: http://linkedlifedata.com/resource/umls/id/C0242692 xref: http://www.snomedbrowser.com/Codes/Details/426215008 xref: MA:0002439 xref: NCIT:C13050 xref: SCTID:426215008 xref: UMLS:C0242692 {source="ncithesaurus:Skeletal_Muscle_Tissue"} xref: Wikipedia:Skeletal_striated_muscle is_a: UBERON:0002036 ! striated muscle tissue intersection_of: UBERON:0002385 ! muscle tissue intersection_of: composed_primarily_of CL:0008002 ! skeletal muscle fiber relationship: composed_primarily_of CL:0008002 ! skeletal muscle fiber relationship: develops_from UBERON:0003082 ! myotome relationship: part_of UBERON:0014892 ! skeletal muscle organ property_value: depicted:by https://upload.wikimedia.org/wikipedia/commons/c/c0/Skeletal_muscle.jpg xsd:anyURI property_value: depicted:by Skeletal:muscle.jpg xsd:anyURI property_value: editor_note "TODO - add skeletal muscle organ? See GO:0060538 skeletal muscle organ development. Todo - group FBbt:00005073 - somatic muscle." xsd:string property_value: http://purl.org/dc/elements/1.1/contributor https://github.com/cmungall property_value: http://purl.org/dc/elements/1.1/contributor https://github.com/dosumis property_value: http://purl.org/dc/elements/1.1/contributor https://github.com/mellybelly property_value: http://purl.org/dc/elements/1.1/contributor https://github.com/RDruzinsky property_value: UBPROP:0000001 "Muscle, composed of long cylindrical, multinucleated cells that attaches to the skeleton via tendons.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0005277", ontology="TAO", source="ZFIN:curator"} property_value: UBPROP:0000001 "Tissue which consists of skeletal muscle fibers surrounded by endomysium. Examples: Skeletal muscle tissue of biceps, Skeletal muscle tissue of diaphragm[FMA]" xsd:string {external_class="FMA:14069", ontology="FMA"} property_value: UBPROP:0000003 "This result implies the following views in terms of evolutionary differentiation: (1) Arthropod striated muscle and vertebrate skeletal and cardiac muscles share a common ancestor. In other words, they did not evolve independently (...) (5) The divergence of vertebrate skeletal and cardiac muscles/vertebrate smooth muscle and nonmuscle is at least before that of vertebrates/arthropods. In other words, emergence of skeletal and cardiac musle type tissues preceded the vertebrate/arthropod divergence (ca. 700 MYA).[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000319", ontology="VHOG", source="PMID:10368962 Oota S, Saitou N, Phylogenetic relationship of muscle tissues deduced from superimposition of gene trees. Mol Biol Evol (1999)", source="http://bgee.unil.ch/"} property_value: UBPROP:0000003 "This result implies the following views in terms of evolutionary differentiation: (1) Arthropod striated muscle and vertebrate skeletal and cardiac muscles share a common ancestor. In other words, they did not evolve independently (...) (5) The divergence of vertebrate skeletal and cardiac muscles/vertebrate smooth muscle and nonmuscle is at least before that of vertebrates/arthropods. In other words, emergence of skeletal and cardiac musle type tissues preceded the vertebrate/arthropod divergence (ca. 700 MYA).[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000319", ontology="VHOG", source="http://bgee.unil.ch/", source="PMID:10368962 Oota S, Saitou N, Phylogenetic relationship of muscle tissues deduced from superimposition of gene trees. Mol Biol Evol (1999)"} [Term] id: UBERON:0001135 name: smooth muscle tissue namespace: uberon def: "Muscle tissue which is unstriated, composed primarily of smooth muscle fibers surrounded by a reticulum of collagen and elastic fibers. Smooth muscle differs from striated muscle in the much higher actin/myosin ratio, the absence of conspicuous sarcomeres and the ability to contract to a much smaller fraction of its resting length[GO]." [GO:0006939, Wikipedia:Smooth_muscle_tissue] def: "Muscle tissue which is unstriated, composed primarily of smooth muscle fibers surrounded by a reticulum of collagen and elastic fibers. Smooth muscle differs from striated muscle in the much higher actin/myosin ratio, the absence of conspicuous sarcomeres and the ability to contract to a much smaller fraction of its resting length[GO]." [GO:0006939, http://en.wikipedia.org/wiki/Smooth_muscle_tissue] subset: efo_slim subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "involuntary muscle" EXACT [] synonym: "non-striated muscle" EXACT [] synonym: "smooth muscle" EXACT [] synonym: "textus muscularis levis; textus muscularis nonstriatus" RELATED LATIN [Wikipedia:Smooth_muscle_tissue] synonym: "textus muscularis levis; textus muscularis nonstriatus" RELATED LATIN [http://en.wikipedia.org/wiki/Smooth_muscle_tissue] synonym: "textus muscularis nonstriatus" EXACT LATIN [FMA:14070, FMA:TA] synonym: "visceral muscle" NARROW SENSU [] synonym: "visceral muscle tissue" NARROW SENSU [] xref: AAO:0010244 xref: AEO:0000141 xref: BTO:0001260 xref: CALOHA:TS-0943 xref: EFO:0000889 xref: EHDAA2:0003141 xref: EMAPA:32717 xref: EV:0100378 xref: FBbt:00003525 xref: FMA:14070 xref: GAID:167 xref: galen:SmoothMuscle xref: galen:SmoothMuscleTissue xref: http://en.wikipedia.org/wiki/Smooth_muscle_tissue xref: http://linkedlifedata.com/resource/umls/id/C1267092 xref: MA:0000166 xref: MAT:0000303 xref: MESH:D009130 xref: MIAA:0000303 xref: NCIT:C12437 xref: OpenCyc:Mx4rvvSS3pwpEbGdrcN5Y29ycA xref: TAO:0005274 xref: UMLS:C1267092 {source="ncithesaurus:Smooth_Muscle_Tissue"} xref: VHOG:0001246 xref: WBbt:0005781 xref: Wikipedia:Smooth_muscle_tissue xref: XAO:0000175 xref: ZFA:0005274 is_a: UBERON:0002385 ! muscle tissue intersection_of: UBERON:0002385 ! muscle tissue intersection_of: has_part CL:0000192 ! smooth muscle cell disjoint_from: UBERON:0002036 ! striated muscle tissue relationship: composed_primarily_of CL:0000192 ! smooth muscle cell relationship: has_part CL:0000192 ! smooth muscle cell relationship: has_part GO:0071953 ! elastic fiber property_value: depicted:by Glatte:Muskelzellen.jpg xsd:anyURI property_value: depicted:by https://upload.wikimedia.org/wikipedia/commons/3/3b/Glatte_Muskelzellen.jpg xsd:anyURI property_value: UBPROP:0000001 "A non-striated muscle that is composed of spindle-shaped cells. Smooth muscle usually is organized into sheets that line cavitated organs.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0005274", ontology="TAO", source="ZFIN:curator"} property_value: UBPROP:0000001 "Involuntary muscle tissue consisting of uninucleate spindle-shaped fibers.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0010244", ontology="AAO", source="AAO:CAM"} property_value: UBPROP:0000003 "(...) the first bilateral animals possessed only smooth muscles with the molecular repertoire necessary to build a striated muscle. (...) it is more parsimonious to regard striated muscle cells as a sister cell type to the smooth muscle cells. In this scenario, striated and smooth muscles would have arisen in the stem lineage that led to the Nephrozoa (i.e. all Bilateria exclusive the acoelomorphs) (Hejnol et al., 2009), from an 'acoel-like' smooth muscle, by segregation and divergence of functions and through differential recruitment of additional genes[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001246", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1002/jez.b.21416 Chiodin M, Achatz JG, Wanninger A, Martinez P, Molecular architecture of muscles in an acoel and its evolutionary implications. Journal of Experimental Zoology (2011)"} property_value: UBPROP:0000003 "(...) the first bilateral animals possessed only smooth muscles with the molecular repertoire necessary to build a striated muscle. (...) it is more parsimonious to regard striated muscle cells as a sister cell type to the smooth muscle cells. In this scenario, striated and smooth muscles would have arisen in the stem lineage that led to the Nephrozoa (i.e. all Bilateria exclusive the acoelomorphs) (Hejnol et al., 2009), from an 'acoel-like' smooth muscle, by segregation and divergence of functions and through differential recruitment of additional genes[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001246", ontology="VHOG", source="DOI:10.1002/jez.b.21416 Chiodin M, Achatz JG, Wanninger A, Martinez P, Molecular architecture of muscles in an acoel and its evolutionary implications. Journal of Experimental Zoology (2011)", source="http://bgee.unil.ch/"} property_value: UBPROP:0000013 "GO uses visceral and smooth interchangeably. However visceral can also be used in the sense of the viscera. Many fly annotations to smooth muscle terms. If we want to be inclusive of insects have to have a general definition of tissue that includes cells." xsd:string [Term] id: UBERON:0001136 name: mesothelium namespace: uberon def: "Simple squamous epithelium of mesodermal origin which lines serous membranes. Examples: mesothelium of pleura, mesothelium of peritoneum[FMA]. Wikipedia: The mesothelium is a membrane that forms the lining of several body cavities: the pleura (thoracal cavity), peritoneum (abdominal cavity including the mesentery) and pericardium (heart sac). Mesothelial tissue also surrounds the male internal reproductive organs (the tunica vaginalis testis) and covers the internal reproductive organs of women (the tunica serosa uteri)." [FMA:14074, http://en.wikipedia.org/wiki/Mesothelium] def: "Simple squamous epithelium of mesodermal origin which lines serous membranes. Examples: mesothelium of pleura, mesothelium of peritoneum[FMA]. Wikipedia: The mesothelium is a membrane that forms the lining of several body cavities: the pleura (thoracal cavity), peritoneum (abdominal cavity including the mesentery) and pericardium (heart sac). Mesothelial tissue also surrounds the male internal reproductive organs (the tunica vaginalis testis) and covers the internal reproductive organs of women (the tunica serosa uteri)." [FMA:14074, Wikipedia:Mesothelium] subset: uberon_slim xref: AEO:0000111 xref: BTO:0002422 xref: CALOHA:TS-1183 xref: EHDAA2_RETIRED:0003111 xref: EHDAA:2331 xref: EHDAA:2349 xref: EHDAA:295 xref: EHDAA:6073 xref: EHDAA:640 xref: EHDAA:646 xref: EMAPA:32856 xref: FMA:14074 xref: http://en.wikipedia.org/wiki/Mesothelium xref: http://linkedlifedata.com/resource/umls/id/C0086610 xref: http://www.snomedbrowser.com/Codes/Details/361918002 xref: MA:0000565 xref: NCIT:C33105 xref: SCTID:361918002 xref: UMLS:C0086610 {source="ncithesaurus:Mesothelium"} xref: Wikipedia:Mesothelium is_a: UBERON:0000487 ! simple squamous epithelium is_a: UBERON:0012275 ! meso-epithelium intersection_of: UBERON:0000487 ! simple squamous epithelium intersection_of: develops_from UBERON:0000926 ! mesoderm intersection_of: part_of UBERON:0000042 ! serous membrane relationship: composed_primarily_of CL:0000077 {source="FMA"} ! mesothelial cell relationship: part_of UBERON:0000042 ! serous membrane property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/2/25/Mesothelium_peritoneal_wash_high_mag.jpg xsd:anyURI [Term] id: UBERON:0001137 name: dorsum namespace: uberon def: "A major subdivision of an organism that is the entire part of the organism dorsal to a horizontal plane and bounded on one side by the same transverse plane. In vertebrares this includes the vertebral column.." [BSPO:0000063, http://en.wikipedia.org/wiki/Dorsum_(anatomy), UBERONREF:0000006] def: "A major subdivision of an organism that is the entire part of the organism dorsal to a horizontal plane and bounded on one side by the same transverse plane. In vertebrares this includes the vertebral column.." [BSPO:0000063, UBERONREF:0000006, Wikipedia:Dorsum_(anatomy)] subset: efo_slim subset: uberon_slim synonym: "back" EXACT [FMA:14181] synonym: "back of body proper" EXACT [FMA:14181] synonym: "dorsal part of organism" EXACT [] xref: BTO:0001713 xref: CALOHA:TS-2223 xref: Dorsum:(anatomy) xref: EFO:0001405 xref: FMA:14181 xref: GAID:30 xref: galen:Back xref: http://linkedlifedata.com/resource/umls/id/C0004600 xref: http://www.snomedbrowser.com/Codes/Details/123961009 xref: MESH:A01.176 xref: NCIT:C13062 xref: OpenCyc:Mx4rvVkEU5wpEbGdrcN5Y29ycA xref: SCTID:123961009 xref: UMLS:C0004600 {source="ncithesaurus:Back"} xref: Wikipedia:Dorsum_(anatomy) is_a: UBERON:0000475 ! organism subdivision relationship: only_in_taxon NCBITaxon:33213 ! Bilateria property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/e/ee/432px-Gray-back.PNG xsd:anyURI property_value: UBPROP:0000007 "dorsal" xsd:string property_value: UBPROP:0000008 "In humans, called the back, a large posterior area of the human body, rising from the top of the buttocks to the back of the neck and the shoulders. It is the surface opposite to the chest, its height being defined by the vertebral column (commonly referred to as the spine or backbone) and its breadth being supported by the ribcage and shoulders. The spinal canal runs through the spine and provides nerves to the rest of the body" xsd:string [Term] id: UBERON:0001145 name: ovarian vein namespace: uberon def: "A vein that carries deoxygenated blood from its corresponding ovary to inferior vena cava or one of its tributaries." [Wikipedia:Ovarian_vein] def: "A vein that carries deoxygenated blood from its corresponding ovary to inferior vena cava or one of its tributaries." [http://en.wikipedia.org/wiki/Ovarian_vein] subset: uberon_slim synonym: "female reproductive system gonad vein" EXACT [OBOL:automatic] synonym: "female reproductive system gonada vein" EXACT [OBOL:automatic] synonym: "gonad of female reproductive system vein" EXACT [OBOL:automatic] synonym: "gonada of female reproductive system vein" EXACT [OBOL:automatic] synonym: "ovary vein" EXACT [OBOL:automatic] synonym: "vein of female reproductive system gonad" EXACT [OBOL:automatic] synonym: "vein of female reproductive system gonada" EXACT [OBOL:automatic] synonym: "vein of gonad of female reproductive system" EXACT [OBOL:automatic] synonym: "vein of gonada of female reproductive system" EXACT [OBOL:automatic] synonym: "vein of ovary" EXACT [OBOL:automatic] synonym: "vena ovarica dextra" RELATED LATIN [http://en.wikipedia.org/wiki/Ovarian_vein] synonym: "vena ovarica dextra" RELATED LATIN [Wikipedia:Ovarian_vein] synonym: "vena ovarica sinistra" RELATED LATIN [http://en.wikipedia.org/wiki/Ovarian_vein] synonym: "vena ovarica sinistra" RELATED LATIN [Wikipedia:Ovarian_vein] xref: EMAPA:18644 xref: FMA:14346 xref: http://linkedlifedata.com/resource/umls/id/C0226720 xref: http://www.snomedbrowser.com/Codes/Details/278193003 xref: MA:0002186 xref: NCIT:C53058 xref: OpenCyc:Mx4rvrST5ZwpEbGdrcN5Y29ycA xref: Ovarian:vein xref: SCTID:278193003 xref: UMLS:C0226720 {source="ncithesaurus:Ovarian_Vein"} xref: Wikipedia:Ovarian_vein is_a: UBERON:0001638 ! vein is_a: UBERON:0015212 ! lateral structure intersection_of: UBERON:0001638 ! vein intersection_of: drains UBERON:0000992 ! ovary relationship: drains UBERON:0000992 ! ovary relationship: in_lateral_side_of UBERON:0000468 ! multicellular organism relationship: part_of RO:0002577 ! system property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/c/cf/Ovarschaf.jpg xsd:anyURI [Term] id: UBERON:0001167 name: wall of stomach namespace: uberon def: "The layered structure that makes up the stomach, typiclly consists of a serous coat, a muscular coat, a mucous membrane, and other tissue layers in between." [MGI:csmith, MP:0010783] subset: pheno_slim synonym: "anatomical wall of stomach" EXACT [OBOL:automatic] synonym: "anatomical wall of ventriculus" EXACT [OBOL:automatic] synonym: "gastric wall" EXACT [] synonym: "stomach anatomical wall" EXACT [OBOL:automatic] synonym: "stomach wall" EXACT [] synonym: "ventriculus anatomical wall" EXACT [OBOL:automatic] synonym: "ventriculus wall" EXACT [OBOL:automatic] synonym: "wall of ventriculus" EXACT [OBOL:automatic] xref: EMAPA:35826 xref: FMA:14582 xref: galen:WallOfStomach xref: MA:0002692 xref: SCTID:279995000 is_a: UBERON:0000328 ! gut wall intersection_of: UBERON:0000060 ! anatomical wall intersection_of: part_of UBERON:0000945 ! stomach relationship: contributes_to_morphology_of UBERON:0000945 ! stomach relationship: part_of UBERON:0000945 ! stomach [Term] id: UBERON:0001178 name: visceral peritoneum namespace: uberon def: "The inner layer of peritoneum that is wrapped around organs located inside the intraperitoneal space." [http://orcid.org/0000-0002-6601-2165, Wikipedia:Peritoneum#Types] subset: uberon_slim subset: vertebrate_core synonym: "visceral serous membrane of peritoneum" EXACT [UBERON:cjm] xref: EMAPA:16592 xref: FMA:14703 xref: SCTID:362702003 xref: TAO:0005132 xref: VHOG:0001528 xref: Wikipedia:Visceral_peritoneum xref: ZFA:0005132 is_a: UBERON:0022350 ! visceral serous membrane intersection_of: UBERON:0022350 ! visceral serous membrane intersection_of: part_of UBERON:0002358 ! peritoneum relationship: part_of UBERON:0002358 ! peritoneum property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/5/5f/Gray1040.png xsd:anyURI [Term] id: UBERON:0001179 name: peritoneal cavity namespace: uberon def: "Anatomical cavity bounded by visceral and parietal peritoneum." [http://orcid.org/0000-0002-6601-2165, https://github.com/obophenotype/uberon/issues/86, Wikipedia:Peritoneal_cavity] subset: pheno_slim subset: uberon_slim synonym: "cavitas peritonealis" RELATED [BTO:0001782] synonym: "cavitas peritonealis" RELATED LATIN [Wikipedia:Peritoneal_cavity] synonym: "saccus serosus peritonei" RELATED LATIN [Wikipedia:Peritoneal_cavity] xref: BTO:0001782 xref: EHDAA2:0001446 xref: EMAPA:16138 xref: FMA:14704 xref: GAID:24 xref: MA:0000054 xref: MESH:A01.047.025.600.678 xref: NCIT:C12769 xref: SCTID:181616008 xref: UMLS:C1704247 {source="ncithesaurus:Peritoneal_Cavity"} xref: VHOG:0000852 xref: Wikipedia:Peritoneal_cavity is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0035809 ! serous cavity intersection_of: UBERON:0002553 ! anatomical cavity intersection_of: adjacent_to UBERON:0001178 ! visceral peritoneum intersection_of: adjacent_to UBERON:0001366 ! parietal peritoneum intersection_of: luminal_space_of UBERON:0035820 ! peritoneal sac relationship: adjacent_to UBERON:0001178 ! visceral peritoneum relationship: adjacent_to UBERON:0001366 ! parietal peritoneum relationship: develops_from UBERON:0003887 {source="Wikipedia"} ! intraembryonic coelom relationship: luminal_space_of UBERON:0035820 ! peritoneal sac relationship: part_of UBERON:0035820 ! peritoneal sac property_value: UBPROP:0000001 "The potential space between the parietal and visceral layers of the peritoneum, which are normally in contact. The peritoneal cavity is divided into the greater and lesser sac. The greater sac is the peritoneal cavity, and the lesser sac is the omental bursa. [TFD][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000852", ontology="VHOG", source="http://bgee.unil.ch/", source="http://medical-dictionary.thefreedictionary.com/peritoneal+cavity"} property_value: UBPROP:0000003 "In hagfishes a transverse septum extends upward from the ventral body wall posterior to the heart, partly separating an anterior pericardial cavity from a larger peritoneal cavity. (...) These basic relationships have not been modified by urodeles. The small pericardial cavity remains far forward where it is separated by a transverse septum from the principal coelom, which may now be called a pleuroperitoneal cavity because slender lungs are present. (...) The heart [of other tetrapods] is separated from the lungs (and liver if present) by more or less horizontal partitions that have their origin in the embryo as folds on the serous membrane of the right and left lateral body walls. These grow out to join in the midline of the body. They are called lateral mesocardia (birds) or pleuropericardial membranes. Posteriorly they join the transverse septum to form the adult pericardial membrane, or pericardium. (...) In their partitioning of their coelom, embryonic mammals resemble first early fishes (incomplete partition, posterior to heart, consisting of the transverse septum) and then reptiles (pericardium derived from transverse septum and pleuropericardial membranes) Mammals then separate paired pleural cavities from the peritoneal cavity by a diaphragm. The ventral portion of this organ comes from the transverse septum. The dorsal portion is derived from the dorsal mesentery and from still another pair of outgrowths from the lateral body wall, the pleuroperitoneal membranes.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000852", ontology="VHOG", source="ISBN:978-0471090588 Hildebrand M, Analysis of vertebrate structure (1983) p.205-206", source="http://bgee.unil.ch/"} [Term] id: UBERON:0001190 name: ovarian artery namespace: uberon def: "An artery that supplies an ovary." [OBOL:automatic] subset: uberon_slim synonym: "arteria ovarica" RELATED LATIN [Wikipedia:Ovarian_artery] synonym: "arteria ovarica" RELATED LATIN [http://en.wikipedia.org/wiki/Ovarian_artery] synonym: "ovarian arterial tree" EXACT [] xref: EMAPA:18620 xref: FMA:14761 xref: http://linkedlifedata.com/resource/umls/id/C0226411 xref: http://www.snomedbrowser.com/Codes/Details/244280002 xref: MA:0002012 xref: NCIT:C33242 xref: OpenCyc:Mx4rwOa9PZwpEbGdrcN5Y29ycA xref: Ovarian:artery xref: SCTID:244280002 xref: UMLS:C0226411 {source="ncithesaurus:Ovarian_Artery"} xref: Wikipedia:Ovarian_artery is_a: UBERON:0001637 ! artery intersection_of: UBERON:0001637 ! artery intersection_of: supplies UBERON:0000992 ! ovary relationship: connected_to UBERON:0001516 {subset="human_reference_atlas"} ! abdominal aorta relationship: part_of RO:0002577 ! system relationship: supplies UBERON:0000992 ! ovary property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/a/ae/Gray1170.png xsd:anyURI property_value: UBPROP:0000001 "In human anatomy, the ovarian artery is a blood vessel that supplies oxygenated blood to the ovary. It arises from the abdominal aorta below the renal artery, and does not pass out of the abdomiproperty_value external_definitioncavity. It can be found in the suspensory ligament of the ovary. [WP]." xsd:string {source="Ovarian:artery"} property_value: UBPROP:0000001 "In human anatomy, the ovarian artery is a blood vessel that supplies oxygenated blood to the ovary. It arises from the abdominal aorta below the renal artery, and does not pass out of the abdomiproperty_value external_definitioncavity. It can be found in the suspensory ligament of the ovary. [WP]." xsd:string {source="Wikipedia:Ovarian_artery"} [Term] id: UBERON:0001199 name: mucosa of stomach namespace: uberon def: "The mucosal layer that lines the stomach." [http://orcid.org/0000-0002-6601-2165] subset: pheno_slim subset: uberon_slim synonym: "gastric mucosa" EXACT [] synonym: "gastric mucous membrane" EXACT [] synonym: "Magenschleimhaut" RELATED [BTO:0001308] synonym: "mucosa of organ of stomach" EXACT [OBOL:automatic] synonym: "mucosa of organ of ventriculus" EXACT [OBOL:automatic] synonym: "mucosa of ventriculus" EXACT [OBOL:automatic] synonym: "mucous membrane of stomach" EXACT [] synonym: "mucous membrane of ventriculus" EXACT [OBOL:automatic] synonym: "organ mucosa of stomach" EXACT [OBOL:automatic] synonym: "organ mucosa of ventriculus" EXACT [OBOL:automatic] synonym: "stomach mucosa" EXACT [] synonym: "stomach mucosa of organ" EXACT [OBOL:automatic] synonym: "stomach mucous membrane" EXACT [OBOL:automatic] synonym: "stomach organ mucosa" EXACT [OBOL:automatic] synonym: "tunica mucosa (gaster)" EXACT [] synonym: "tunica mucosa gastricae" EXACT LATIN [FMA:14907, FMA:TA] synonym: "tunica mucosa gastris" RELATED [BTO:0001308] synonym: "tunica mucosa gastris" RELATED LATIN [Wikipedia:Gastric_mucosa] synonym: "ventriculus mucosa" EXACT [OBOL:automatic] synonym: "ventriculus mucosa of organ" EXACT [OBOL:automatic] synonym: "ventriculus mucous membrane" EXACT [OBOL:automatic] synonym: "ventriculus organ mucosa" EXACT [OBOL:automatic] xref: BTO:0001308 xref: CALOHA:TS-0404 xref: EMAPA:35817 xref: FMA:14907 xref: GAID:321 xref: galen:GastricMucosa xref: MA:0002683 xref: MESH:A03.492.766.440 xref: NCIT:C32656 xref: OpenCyc:Mx8NhB4rvcD6KJwpEbGdrcN5Y29ycB4rvmKNOpwpEbGdrcN5Y29ycB4rvVj5FpwpEbGdrcN5Y29ycB4rvVjlqpwpEbGdrcN5Y29ycA xref: SCTID:362131005 xref: UMLS:C0017136 {source="ncithesaurus:Gastric_Mucosa"} xref: Wikipedia:Gastric_mucosa is_a: UBERON:0004786 ! gastrointestinal system mucosa intersection_of: UBERON:0000344 ! mucosa intersection_of: part_of UBERON:0000945 ! stomach relationship: capable_of GO:0001696 ! gastric acid secretion relationship: contributes_to_morphology_of UBERON:0001167 ! wall of stomach relationship: part_of UBERON:0001167 ! wall of stomach property_value: depicted:by Wikipedia:File:Normal_gastric_mucosa_intermed_mag.jpg xsd:anyURI property_value: UBPROP:0000001 "The gastric mucosa is the mucous membrane layer of the stomach which contains the glands and the gastric pits. In men it is about 1 mm thick and its surface is smooth, soft, and velvety. It consists of epithelium, lamina propria, and the muscularis mucosae. In its fresh state, it is of a pinkish tinge at the pyloric end and of a red or reddish-brown color over the rest of its surface. In infancy it is of a brighter hue, the vascular redness being more marked. It is thin at the cardiac extremity, but thicker toward the pylorus. During the contracted state of the organ it is thrown into numerous plaits or rugae, which, for the most part, have a longitudinal direction, and are most marked toward the pyloric end of the stomach, and along the greater curvature. These folds are entirely obliterated when the organ becomes distended. When examined with a lens, the inner surface of the mucous membrane presents a peculiar honeycomb appearance from being covered with funnel-like depressions or foveolae of a polygonal or hexagonal form, which vary from 0.12 to 0.25 mm. in diameter. These are the ducts of the gastric glands, and at the bottom of each may be seen one or more minute orifices, the openings of the gland tubes. Gastric glands are simple or branched tubular glands that emerge on the deeper part of the gastric foveola, inside the gastric areas and outlined by the folds of the mucosa. There are three types of glands: cardiac glands (in the proximal part of the stomach), oxyntic glands (the dominating type of gland), and pyloric glands. The cardiac glands mainly contain mucus producing cells. The bottom part of the oxyntic glands is dominated by zymogen (chief) cells that produce pepsinogen (an inactive precursor of the pepsin enzyme). Parietal cells, which secrete hydrochloric acid are scattered in the glands, with most of them in the middle part. The upper part of the glands consist of mucous neck cells; in this part the dividing cells are seen. The pyloric glands contain mucus-secreting cells. Several types of endocrine cells are found in all regions of the gastric mucosa. In the pyloric glands contain gastrin producing cells (G cells); this hormone stimulates acid production from the parietal cells. ECL (enterochromaffine-like) cells, found in the oxyntic glands release histamine, which also is a powerful stimulant of the acid secretion. The A cells produce glucagon, which mobilizes the hepatic glycogen, and the enterochromaffin cells that produce serotonin, which stimulates the contraction of the smooth muscles. The surface of the mucous membrane is covered by a single layer of columnar epithelium . This epithelium commences very abruptly at the cardiac orifice, where there is a sudden transition from the stratified epithelium of the esophagus. The epithelial lining of the gland ducts is of the same character and is continuous with the general lining of the stomach. [WP,unvetted][Wikipedia:Gastric_mucosa]." xsd:string {source="Wikipedia:Gastric_mucosa"} [Term] id: UBERON:0001200 name: submucosa of stomach namespace: uberon def: "The fibrous connective tissue layer beneath the stomach mucosa." [MGI:csmith, MP:0010794] subset: pheno_slim synonym: "gastric submucosa" EXACT [] synonym: "stomach submucosa" EXACT [] synonym: "submucosa of ventriculus" EXACT [OBOL:automatic] synonym: "submucous layer of stomach" RELATED [BTO:0002110] synonym: "tela submucosa (gaster)" EXACT [] synonym: "tela submucosa gastricae" EXACT LATIN [FMA:14908, FMA:TA] synonym: "tela submucosa ventriculi" RELATED [BTO:0002110] synonym: "ventriculus submucosa" EXACT [OBOL:automatic] xref: BTO:0002110 xref: EMAPA:35825 xref: FMA:14908 xref: MA:0002685 xref: NCIT:C32663 xref: SCTID:52459002 xref: UMLS:C0227211 {source="ncithesaurus:Gastric_Submucosa"} is_a: UBERON:0018257 ! submucosa of digestive tract intersection_of: UBERON:0000009 ! submucosa intersection_of: part_of UBERON:0000945 ! stomach relationship: contributes_to_morphology_of UBERON:0001167 ! wall of stomach relationship: part_of UBERON:0001167 ! wall of stomach [Term] id: UBERON:0001201 name: serosa of stomach namespace: uberon def: "The outermost layer of the stomach wall, consisting of layers of connective tissue continuous with the peritoneum." [MGI:csmith, MP:0010793] subset: pheno_slim synonym: "anatomical wall of stomach serosa" EXACT [OBOL:automatic] synonym: "anatomical wall of stomach serous membrane" EXACT [OBOL:automatic] synonym: "anatomical wall of ventriculus serosa" EXACT [OBOL:automatic] synonym: "anatomical wall of ventriculus serous membrane" EXACT [OBOL:automatic] synonym: "gastric serosa" RELATED [] synonym: "gastric wall serosa" EXACT [OBOL:automatic] synonym: "gastric wall serous membrane" EXACT [OBOL:automatic] synonym: "serosa of anatomical wall of stomach" EXACT [OBOL:automatic] synonym: "serosa of anatomical wall of ventriculus" EXACT [OBOL:automatic] synonym: "serosa of gastric wall" EXACT [OBOL:automatic] synonym: "serosa of stomach anatomical wall" EXACT [OBOL:automatic] synonym: "serosa of stomach wall" EXACT [OBOL:automatic] synonym: "serosa of ventriculus anatomical wall" EXACT [OBOL:automatic] synonym: "serosa of ventriculus wall" EXACT [OBOL:automatic] synonym: "serosa of wall of stomach" EXACT [OBOL:automatic] synonym: "serosa of wall of ventriculus" EXACT [OBOL:automatic] synonym: "serous coat of stomach" EXACT [] synonym: "serous membrane of anatomical wall of stomach" EXACT [OBOL:automatic] synonym: "serous membrane of anatomical wall of ventriculus" EXACT [OBOL:automatic] synonym: "serous membrane of gastric wall" EXACT [OBOL:automatic] synonym: "serous membrane of stomach anatomical wall" EXACT [OBOL:automatic] synonym: "serous membrane of stomach wall" EXACT [OBOL:automatic] synonym: "serous membrane of ventriculus anatomical wall" EXACT [OBOL:automatic] synonym: "serous membrane of ventriculus wall" EXACT [OBOL:automatic] synonym: "serous membrane of wall of stomach" EXACT [OBOL:automatic] synonym: "serous membrane of wall of ventriculus" EXACT [OBOL:automatic] synonym: "stomach anatomical wall serosa" EXACT [OBOL:automatic] synonym: "stomach anatomical wall serous membrane" EXACT [OBOL:automatic] synonym: "stomach serosa" EXACT [] synonym: "stomach wall serosa" EXACT [OBOL:automatic] synonym: "stomach wall serous membrane" EXACT [OBOL:automatic] synonym: "tunica serosa (gaster)" EXACT [] synonym: "tunica serosa gastricae" EXACT LATIN [FMA:14914, FMA:TA] synonym: "ventriculus anatomical wall serosa" EXACT [OBOL:automatic] synonym: "ventriculus anatomical wall serous membrane" EXACT [OBOL:automatic] synonym: "ventriculus wall serosa" EXACT [OBOL:automatic] synonym: "ventriculus wall serous membrane" EXACT [OBOL:automatic] synonym: "visceral peritoneum of stomach" EXACT [] synonym: "wall of stomach serosa" EXACT [OBOL:automatic] synonym: "wall of stomach serous membrane" EXACT [OBOL:automatic] synonym: "wall of ventriculus serosa" EXACT [OBOL:automatic] synonym: "wall of ventriculus serous membrane" EXACT [OBOL:automatic] xref: EMAPA:35822 xref: FMA:14914 xref: MA:0001626 xref: NCIT:C32662 xref: SCTID:1353004 xref: UMLS:C1517453 {source="ncithesaurus:Gastric_Serosal_Surface"} is_a: UBERON:0004782 ! gastrointestinal system serosa intersection_of: UBERON:0000042 ! serous membrane intersection_of: part_of UBERON:0001167 ! wall of stomach relationship: contributes_to_morphology_of UBERON:0001167 ! wall of stomach relationship: part_of UBERON:0001167 ! wall of stomach property_value: editor_note "TODO - check serosa/peritoneum" xsd:string [Term] id: UBERON:0001268 name: peritoneal fluid namespace: uberon def: "Transudate contained in the peritoneal cavity." [FMA:16515] subset: pheno_slim subset: uberon_slim xref: BTO:0001031 xref: EMAPA:35683 xref: FMA:16515 xref: MA:0002531 xref: ncithesaurus:Peritoneal_Fluid xref: Wikipedia:Peritoneal_fluid is_a: UBERON:0007779 ! transudate is_a: UBERON:0007794 {source="FMA"} ! secretion of serous gland is_a: UBERON:0036217 ! coelomic fluid intersection_of: UBERON:0007779 ! transudate intersection_of: located_in UBERON:0001179 ! peritoneal cavity relationship: located_in UBERON:0001179 ! peritoneal cavity [Term] id: UBERON:0001271 name: pelvic girdle region namespace: uberon def: "The organism subdivision that includes the pelvic girdle skeleton and associated soft tissue. Note that this includes both the skeletal elements and associated tissues (integument, muscle, etc). Examples: There are only two instances in an organism, right and left pectoral girdle regions." [FMA:16581, FMA:23217, https://doi.org/10.1002/dvdy.22617, https://groups.google.com/d/topic/obo-anatomy/h4R4xKmINrw/discussion, https://orcid.org/0000-0002-6601-2165, UBERONREF:0000003] subset: uberon_slim subset: vertebrate_core synonym: "girdle - pelvic" RELATED [] synonym: "pelvic girdle" RELATED INCONSISTENT [] xref: EMAPA:37862 {source="MA:th"} xref: FMA:16581 xref: http://linkedlifedata.com/resource/umls/id/C0684083 xref: http://www.snomedbrowser.com/Codes/Details/360010001 xref: NCIT:C33291 xref: UMLS:C0684083 {source="ncithesaurus:Pelvic_Girdle"} xref: VSAO:0000304 is_a: UBERON:0007823 ! appendage girdle region is_a: UBERON:0015212 ! lateral structure intersection_of: UBERON:0007823 ! appendage girdle region intersection_of: part_of UBERON:0010709 ! pelvic complex disjoint_from: UBERON:0007832 ! pelvic girdle skeleton relationship: has_skeleton UBERON:0007832 ! pelvic girdle skeleton relationship: in_lateral_side_of UBERON:0002355 ! pelvic region of trunk relationship: part_of UBERON:0002355 ! pelvic region of trunk relationship: part_of UBERON:0010709 ! pelvic complex property_value: IAO:0000232 "this class describes the subdivision of the limb/fin, NOT the skeleton within. See also: skeleton of pectoral girdle (UBERON:0007831). See also comments on obo-anatomy mail list. Note that even though the class includes soft tissue it is more restrictive than 'pelvis' which also includes structures in cavities etc. TODO this needs to be better documented" xsd:string property_value: UBPROP:0000001 "Subdivision of lower limb or fin which links the limb/fin to the body[FMA,modified]. There is only one instance of the pelvic girdle region per organism.[VSAO]" xsd:string {date_retrieved="2012-08-14", external_class="VSAO:0000304", ontology="VSAO", source="https://orcid.org/0000-0002-6601-2165"} [Term] id: UBERON:0001276 name: epithelium of stomach namespace: uberon def: "The epithelial layer of the stomach ." [MP:0000471] subset: pheno_slim synonym: "epithelial tissue of stomach" EXACT [OBOL:automatic] synonym: "epithelial tissue of ventriculus" EXACT [OBOL:automatic] synonym: "epithelium of ventriculus" EXACT [OBOL:automatic] synonym: "gastric epithelium" RELATED [BTO:0000500] synonym: "stomach epithelial tissue" EXACT [OBOL:automatic] synonym: "stomach epithelium" EXACT [OBOL:automatic] synonym: "ventriculus epithelial tissue" EXACT [OBOL:automatic] synonym: "ventriculus epithelium" EXACT [OBOL:automatic] xref: BTO:0000500 xref: CALOHA:TS-2068 xref: EHDAA2:0001918 xref: EMAPA:17023 xref: FMA:17091 xref: MA:0001610 xref: SCTID:64977002 xref: VHOG:0001433 is_a: UBERON:0000485 ! simple columnar epithelium is_a: UBERON:0003350 ! epithelium of mucosa is_a: UBERON:0004808 ! gastrointestinal system epithelium is_a: UBERON:0015833 ! foregut epithelium intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0000945 ! stomach relationship: contributes_to_morphology_of UBERON:0001199 ! mucosa of stomach relationship: part_of UBERON:0001199 ! mucosa of stomach property_value: UBPROP:0000012 "in FMA this is classified as simple columnar, MA divides this into squamous and glandular" xsd:string {external_ontology="FMA"} [Term] id: UBERON:0001325 name: muscle of pelvis namespace: uberon def: "Muscle (organ) which is a part of the pelvis. Examples: levator ani,." [FMA:19086] subset: pheno_slim subset: uberon_slim synonym: "muscle organ of pelvis" EXACT [OBOL:automatic] synonym: "pelvic muscle" EXACT [FMA:19086] synonym: "pelvis muscle" EXACT [] synonym: "pelvis muscle organ" EXACT [OBOL:automatic] xref: EMAPA:18184 xref: EMAPA:37481 {source="MA:th"} xref: FMA:19086 xref: MA:0000534 is_a: UBERON:0003833 {source="MA"} ! abdominal segment muscle is_a: UBERON:0005179 ! pelvic region element intersection_of: UBERON:0014892 {source="FMAdef"} ! skeletal muscle organ intersection_of: part_of UBERON:0002355 {source="FMAdef"} ! pelvic region of trunk [Term] id: UBERON:0001366 name: parietal peritoneum namespace: uberon alt_id: UBERON:0004459 def: "The outer layer of peritoneum that is attached to the abdominal and pelvic walls." [http://orcid.org/0000-0002-6601-2165, Wikipedia:Peritoneum#Types] subset: uberon_slim subset: vertebrate_core synonym: "parietal serous membrane of peritoneum" EXACT [UBERON:cjm] synonym: "peritoneal cavity lining" RELATED [] xref: AAO:0010816 xref: EMAPA:16591 xref: FMA:21451 xref: SCTID:362700006 xref: TAO:0005131 xref: VHOG:0001527 xref: Wikipedia:Parietal_peritoneum xref: ZFA:0005131 is_a: CARO:0000003 ! connected anatomical structure is_a: UBERON:0022351 ! parietal serous membrane intersection_of: UBERON:0022351 ! parietal serous membrane intersection_of: part_of UBERON:0002358 ! peritoneum relationship: attaches_to UBERON:0003697 ! abdominal wall relationship: part_of UBERON:0002358 ! peritoneum property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/5/5f/Gray1040.png xsd:anyURI property_value: UBPROP:0000001 "Peritoneum attached to the abdominal wall.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0010816", ontology="AAO", source="AAO:JMG"} [Term] id: UBERON:0001415 name: skin of pelvis namespace: uberon def: "A zone of skin that is part of a pelvis [Automatically generated definition]." [OBOL:automatic] synonym: "pelvic skin" EXACT [] synonym: "pelvis skin" EXACT [] synonym: "pelvis zone of skin" EXACT [OBOL:automatic] synonym: "zone of skin of pelvis" EXACT [OBOL:automatic] xref: EMAPA:37282 {source="MA:th"} xref: FMA:22984 xref: http://www.snomedbrowser.com/Codes/Details/181517009 xref: MA:0000546 is_a: UBERON:0003836 ! abdominal segment skin intersection_of: UBERON:0000014 ! zone of skin intersection_of: part_of UBERON:0002355 ! pelvic region of trunk relationship: part_of UBERON:0002355 ! pelvic region of trunk [Term] id: UBERON:0001416 name: skin of abdomen namespace: uberon def: "A zone of skin that is part of an abdomen [Automatically generated definition]." [OBOL:automatic] subset: efo_slim subset: pheno_slim synonym: "abdomen skin" EXACT [] synonym: "abdomen zone of skin" EXACT [OBOL:automatic] synonym: "abdominal skin" EXACT [] synonym: "skin of abdomen proper" EXACT [FMA:22988] synonym: "zone of skin of abdomen" EXACT [OBOL:automatic] xref: EFO:0000214 xref: FMA:22988 xref: FMA:23000 xref: http://linkedlifedata.com/resource/umls/id/C0222166 xref: http://www.snomedbrowser.com/Codes/Details/361707007 xref: MA:0000523 xref: NCIT:C52758 xref: SCTID:361707007 xref: UMLS:C0222166 {source="ncithesaurus:Abdominal_Skin"} is_a: UBERON:0003836 ! abdominal segment skin intersection_of: UBERON:0000014 ! zone of skin intersection_of: part_of UBERON:0000916 ! abdomen relationship: part_of UBERON:0000916 ! abdomen [Term] id: UBERON:0001417 name: skin of neck namespace: uberon def: "A zone of skin that is part of a neck [Automatically generated definition]." [OBOL:automatic] synonym: "neck (volume) zone of skin" EXACT [OBOL:automatic] synonym: "neck skin" EXACT [] synonym: "neck zone of skin" EXACT [OBOL:automatic] synonym: "zone of skin of neck" EXACT [OBOL:automatic] synonym: "zone of skin of neck (volume)" EXACT [OBOL:automatic] xref: EMAPA:37277 {source="MA:th"} xref: FMA:23021 xref: FMA:23022 xref: http://linkedlifedata.com/resource/umls/id/C0205030 xref: http://www.snomedbrowser.com/Codes/Details/361705004 xref: MA:0000590 xref: NCIT:C52756 xref: SCTID:361705004 xref: UMLS:C0205030 {source="ncithesaurus:Neck_Skin"} is_a: UBERON:0012180 ! head or neck skin intersection_of: UBERON:0000014 ! zone of skin intersection_of: part_of UBERON:0000974 ! neck relationship: part_of UBERON:0000974 ! neck [Term] id: UBERON:0001418 name: skin of thorax namespace: uberon def: "A zone of skin that is part of a thorax [Automatically generated definition]." [OBOL:automatic] synonym: "thoracic skin" EXACT [] synonym: "thorax skin" EXACT [] synonym: "thorax zone of skin" EXACT [OBOL:automatic] synonym: "upper body skin" RELATED [] synonym: "zone of skin of thorax" EXACT [OBOL:automatic] xref: EMAPA:37765 {source="MA:th"} xref: FMA:23028 xref: FMA:23029 xref: http://www.snomedbrowser.com/Codes/Details/281723000 xref: MA:0000564 xref: SCTID:281723000 is_a: UBERON:0001085 ! skin of trunk intersection_of: UBERON:0000014 ! zone of skin intersection_of: part_of UBERON:0000915 ! thoracic segment of trunk relationship: part_of UBERON:0000915 ! thoracic segment of trunk [Term] id: UBERON:0001421 name: pectoral girdle region namespace: uberon def: "An organism subdivision that includes the pectoral girdle skeleton and associated soft tissue. Note that this includes both the skeletal elements and associated tissues (integument, muscle, etc). Examples: There are only two instances in an organism, right and left pectoral girdle regions." [FMA:23217, https://orcid.org/0000-0002-6601-2165, UBERONREF:0000003] subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "cingulum membri superioris" EXACT LATIN [FMA:23217, FMA:TA] synonym: "cingulum membri superioris" NARROW [FMA:TA] synonym: "girdle - pectoral" EXACT [] synonym: "pectoral girdle" RELATED [] synonym: "pectoral region" RELATED [] synonym: "shoulder girdle" NARROW [FMA:23217] synonym: "upper limb girdle" NARROW [FMA:23217] xref: EMAPA:37856 {source="MA:th"} xref: FMA:23217 xref: galen:ShoulderGirdle xref: http://www.snomedbrowser.com/Codes/Details/229759004 xref: VSAO:0000305 is_a: UBERON:0007823 ! appendage girdle region is_a: UBERON:0015212 ! lateral structure intersection_of: UBERON:0007823 ! appendage girdle region intersection_of: part_of UBERON:0010708 ! pectoral complex disjoint_from: UBERON:0007831 ! pectoral girdle skeleton relationship: has_skeleton UBERON:0007831 ! pectoral girdle skeleton relationship: in_lateral_side_of UBERON:0000468 ! multicellular organism relationship: part_of UBERON:0010708 ! pectoral complex property_value: IAO:0000232 "this class describes the organism subdivision, NOT the skeleton within. See also: skeleton of pectoral girdle (UBERON:0007831)." xsd:string property_value: UBPROP:0000001 "An organism subdivision that includes the pectoral girdle skeleton. Note that this includes both the skeletal elements and associated tissues (integument, muscle, etc). There is only one instance of the pectoral girdle region per organism.[VSAO]" xsd:string {date_retrieved="2012-08-14", external_class="VSAO:0000305", ontology="VSAO", source="https://orcid.org/0000-0002-6601-2165"} property_value: UBPROP:0000005 "Note that this class describes the central subdivision of the pectoral girdle complex, NOT the skeleton within.[VSAO]" xsd:string {date_retrieved="2012-09-06", external_class="VSAO:0000305", ontology="VSAO", source="Curator"} [Term] id: UBERON:0001434 name: skeletal system namespace: uberon def: "Anatomical system that is a multi-element, multi-tissue anatomical cluster that consists of the skeleton and the articular system." [GO_REF:0000034, http://dx.plos.org/10.1371/journal.pone.0051070, VSAO:0000027] subset: efo_slim subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "set of all bones and joints" NARROW SENSU [] synonym: "skeleton system" EXACT [] synonym: "Skelettsystem" RELATED [BTO:0001486] xref: AAO:0000566 xref: BTO:0001486 xref: CALOHA:TS-1320 xref: EFO:0000806 xref: EHDAA2:0003168 xref: EMAPA:35773 xref: FMA:23881 xref: http://linkedlifedata.com/resource/umls/id/C0037253 xref: MA:0000018 xref: NCIT:C12788 xref: OpenCyc:Mx4rvVi1rpwpEbGdrcN5Y29ycA xref: TAO:0000434 xref: UMLS:C0037253 {source="ncithesaurus:Skeletal_System"} xref: VHOG:0001254 xref: VSAO:0000027 xref: XAO:0003060 xref: ZFA:0000434 is_a: UBERON:0011216 ! organ system subdivision intersection_of: UBERON:0011216 ! organ system subdivision intersection_of: has_part UBERON:0004288 ! skeleton intersection_of: has_part UBERON:0004770 ! articular system disjoint_from: UBERON:0001474 ! bone element disjoint_from: UBERON:0002204 ! musculoskeletal system disjoint_from: UBERON:0002330 ! exocrine system disjoint_from: UBERON:0002390 ! hematopoietic system disjoint_from: UBERON:0002405 ! immune system disjoint_from: UBERON:0002416 ! integumental system disjoint_from: UBERON:0004456 ! entire sense organ system relationship: existence_ends_during UBERON:0000066 ! fully formed stage relationship: has_part UBERON:0004288 ! skeleton relationship: has_part UBERON:0004770 ! articular system relationship: part_of UBERON:0002204 ! musculoskeletal system property_value: RO:0002171 UBERON:0001016 property_value: seeAlso https://github.com/obophenotype/uberon/wiki/The-skeletal-system xsd:anyURI property_value: UBPROP:0000001 "Anatomical system consisting of multiple elements and tissues that provides physical support.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0000434", ontology="TAO", source="TAO:wd"} property_value: UBPROP:0000001 "Anatomical system that is a multi-element, multi-tissue anatomical cluster that consists of the skeleton and the articular system.[VSAO]" xsd:string {date_retrieved="2012-08-14", external_class="VSAO:0000027", ontology="VSAO", source="GO_REF:0000034, http://dx.plos.org/10.1371/journal.pone.0051070", source="PSPUB:0000170"} property_value: UBPROP:0000001 "System that provides physical support to the organism.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0000566", ontology="AAO", source="AAO:LAP"} property_value: UBPROP:0000003 "By taking a holistic approach, integration of the evidence from molecular and developmental features of model organisms, the phylogenetic distribution in the 'new animal phylogeny' and the earliest fossilized remains of mineralized animal skeletons suggests independent origins of the skeleton at the phylum level.[debated][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001254", ontology="VHOG", source="DOI:10.1159/000324245 Donoghue PCJ, Sansom IJ, Origin and early evolution of vertebrate skeletonization. Microscopy research and technique (2002)", source="http://bgee.unil.ch/"} property_value: UBPROP:0000003 "By taking a holistic approach, integration of the evidence from molecular and developmental features of model organisms, the phylogenetic distribution in the 'new animal phylogeny' and the earliest fossilized remains of mineralized animal skeletons suggests independent origins of the skeleton at the phylum level.[debated][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001254", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1159/000324245 Donoghue PCJ, Sansom IJ, Origin and early evolution of vertebrate skeletonization. Microscopy research and technique (2002)"} property_value: UBPROP:0000007 "skeletal" xsd:string property_value: UBPROP:0000012 "GO defines skeletal system very generically: The skeleton is the bony framework of the body in vertebrates (endoskeleton) or the hard outer envelope of insects (exoskeleton or dermoskeleton) GO:0001501; however, all annotations are to vertebrates" xsd:string {external_ontology="GO"} [Term] id: UBERON:0001444 name: subdivision of head namespace: uberon subset: non_informative synonym: "head region" RELATED [] synonym: "head subdivision" EXACT [] synonym: "region of head" RELATED [] xref: FMA:24218 xref: http://www.snomedbrowser.com/Codes/Details/123852005 xref: SCTID:123852005 xref: XAO:0000040 is_a: UBERON:0000475 ! organism subdivision relationship: part_of UBERON:0000033 ! head [Term] id: UBERON:0001456 name: face namespace: uberon def: "A subdivision of the head that has as parts the layers deep to the surface of the anterior surface, including the mouth, eyes, and nose (when present). In vertebrates, this includes the facial skeleton and structures superficial to the facial skeleton (cheeks, mouth, eyeballs, skin of face, etc)." [http://orcid.org/0000-0002-6601-2165] subset: pheno_slim subset: uberon_slim synonym: "facia/facies" RELATED LATIN [Wikipedia:Face] synonym: "facia/facies" RELATED LATIN [http://en.wikipedia.org/wiki/Face] synonym: "visage" RELATED [BTO:0003369] xref: BTO:0003369 xref: CALOHA:TS-2216 xref: EMAPA:32763 xref: FMA:24728 xref: GAID:64 xref: galen:Face xref: HAO:0000316 xref: http://en.wikipedia.org/wiki/Face xref: http://linkedlifedata.com/resource/umls/id/C0015450 xref: http://www.snomedbrowser.com/Codes/Details/302549007 xref: MA:0002473 xref: MESH:D005145 xref: NCIT:C13071 xref: OpenCyc:Mx4rvVi5GZwpEbGdrcN5Y29ycA xref: SCTID:302549007 xref: UMLS:C0015450 {source="ncithesaurus:Face"} xref: Wikipedia:Face is_a: UBERON:0001444 ! subdivision of head relationship: contributes_to_morphology_of UBERON:0000033 ! head relationship: has_part UBERON:0000018 {gci_filler="NCBITaxon:50557", gci_relation="part_of"} ! compound eye relationship: has_part UBERON:0000165 ! mouth relationship: has_part UBERON:0011156 {gci_relation="part_of", gci_filler="NCBITaxon:7742"} ! facial skeleton relationship: has_skeleton UBERON:0011156 {gci_relation="part_of", gci_filler="NCBITaxon:7742"} ! facial skeleton property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/5/55/Mona_Lisa_headcrop.jpg xsd:anyURI property_value: UBPROP:0000001 "Subdivision of head which consists of the viscerocranium and all layers superficial to it. Examples: There is only one face." xsd:string {source="FMA:24728"} property_value: UBPROP:0000001 "The area that extends from the median ocellus to the oral foramen[HAO]." xsd:string {source="HAO:0000316", source="http://api.hymao.org/api/ref/67791", taxon="NCBITaxon:7399"} property_value: UBPROP:0000001 "The area that extends from the median ocellus to the oral foramen[HAO]." xsd:string {source="http://api.hymao.org/api/ref/67791", source="HAO:0000316", taxon="NCBITaxon:7399"} property_value: UBPROP:0000007 "facial" xsd:string property_value: UBPROP:0000011 "The face develops from outward growth of tissue located rostral to the cranium & pharynx. The lower jaw and most of the upper jaw are formed by growth of the first pharyngeal (branchial) arch. The upper incisor region and the nose and forehead (frontal region) are formed from tissue located rostral to the neural tube (frontonasal prominence)" xsd:string {source="vanat.cvm.umn.edu/TFFlectPDFs/LectFaceDevelop.pdf"} [Term] id: UBERON:0001458 name: skin of lip namespace: uberon def: "A zone of skin that is part of a lip [Automatically generated definition]." [OBOL:automatic] synonym: "lip skin" EXACT [] synonym: "lip zone of skin" EXACT [OBOL:automatic] synonym: "skin of lips" RELATED PLURAL [] synonym: "zone of skin of lip" EXACT [OBOL:automatic] xref: EMAPA:37643 {source="MA:th"} xref: FMA:24764 xref: http://linkedlifedata.com/resource/umls/id/C0222101 xref: http://www.snomedbrowser.com/Codes/Details/244092005 xref: MA:0001579 xref: NCIT:C12291 xref: SCTID:244092005 xref: UMLS:C0222101 {source="ncithesaurus:Skin_of_the_Lip"} is_a: UBERON:0001084 ! skin of head intersection_of: UBERON:0000014 ! zone of skin intersection_of: part_of UBERON:0001833 ! lip relationship: part_of UBERON:0001833 ! lip [Term] id: UBERON:0001474 name: bone element namespace: uberon def: "Skeletal element that is composed of bone tissue." [GO_REF:0000034, http://dx.plos.org/10.1371/journal.pone.0051070, https://github.com/obophenotype/uberon/issues/277, PSPUB:0000170, VSAO:0000057] subset: efo_slim subset: major_organ subset: organ_slim subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "bone" RELATED [AEO:0000082, BTO:0000140, MA:0001459, VHOG:0001190] synonym: "bone organ" EXACT [FMA:5018] synonym: "bones" RELATED PLURAL [ZFA:0001514] xref: AAO:0000047 xref: AEO:0000082 xref: BTO:0000140 xref: CALOHA:TS-0088 xref: EFO:0000298 xref: EHDAA2:0003082 xref: EMAPA:32782 xref: ENVO:00002039 xref: EV:0100140 xref: FMA:30317 xref: FMA:5018 xref: GAID:92 xref: galen:Bone xref: http://en.wikipedia.org/wiki/Bone xref: http://linkedlifedata.com/resource/umls/id/C0262950 xref: http://www.snomedbrowser.com/Codes/Details/90780006 xref: MA:0001459 xref: MAT:0000299 xref: MIAA:0000299 xref: NCIT:C12366 xref: OpenCyc:Mx4rvViDlpwpEbGdrcN5Y29ycA xref: OpenCyc:Mx4rvVkCG5wpEbGdrcN5Y29ycA xref: SCTID:90780006 xref: TAO:0001514 xref: UMLS:C0262950 {source="ncithesaurus:Bone"} xref: VHOG:0001190 xref: VSAO:0000057 xref: Wikipedia:Bone xref: XAO:0000169 xref: ZFA:0001514 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0004765 ! skeletal element intersection_of: UBERON:0004765 ! skeletal element intersection_of: composed_primarily_of UBERON:0002481 ! bone tissue disjoint_from: UBERON:0001630 ! muscle organ disjoint_from: UBERON:0005090 ! muscle structure relationship: composed_primarily_of UBERON:0002481 {source="VSAO-modified"} ! bone tissue relationship: only_in_taxon NCBITaxon:7742 ! Vertebrata property_value: RO:0002171 UBERON:0001015 property_value: RO:0002171 UBERON:0001630 property_value: RO:0002171 UBERON:0002385 property_value: UBPROP:0000001 "Also called osseous tissue, (Latin: os). Is a type of hard endoskeletal connective tissue found in many vertebrate animals. Bone is the main tissue of body organs that support body structures, protect internal organs, (in conjunction with muscles) facilitate movement; and are involved with cell formation, calcium metabolism, and mineral storage.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0000047", ontology="AAO", source="AAO:LAP"} property_value: UBPROP:0000001 "Portion of tissue which is calcified connective tissue making up the structural elements of the skeletal system.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0001514", ontology="TAO", source="ZFIN:curator"} property_value: UBPROP:0000001 "Skeletal element that is composed of bone tissue.[VSAO]" xsd:string {date_retrieved="2012-08-14", external_class="VSAO:0000057", ontology="VSAO", source="PSPUB:0000170"} property_value: UBPROP:0000002 "relationship loss: subclass specialized connective tissue (AAO:0000571)[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0000047", ontology="AAO"} property_value: UBPROP:0000003 "The 'new animal phylogeny' reveals that many of the groups known to biomineralize sit among close relatives that do not, and it favours an interpretation of convergent or parallel evolution for biomineralization in animals. (...) Whether this 'biomineralization toolkit'of genes reflects a parallel co-option of a common suite of genes or the inheritance of a skeletogenic gene regulatory network from a biomineralizing common ancestor remains an open debate.[debated][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001190", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1159/000324245 Murdock DJ, Donoghue PC, Evolutionary Origins of Animal Skeletal Biomineralization. Cells Tissues Organs (2011)"} property_value: UBPROP:0000003 "The 'new animal phylogeny' reveals that many of the groups known to biomineralize sit among close relatives that do not, and it favours an interpretation of convergent or parallel evolution for biomineralization in animals. (...) Whether this 'biomineralization toolkit'of genes reflects a parallel co-option of a common suite of genes or the inheritance of a skeletogenic gene regulatory network from a biomineralizing common ancestor remains an open debate.[debated][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001190", ontology="VHOG", source="DOI:10.1159/000324245 Murdock DJ, Donoghue PC, Evolutionary Origins of Animal Skeletal Biomineralization. Cells Tissues Organs (2011)", source="http://bgee.unil.ch/"} [Term] id: UBERON:0001484 name: articular capsule namespace: uberon def: "An articular capsule (or joint capsule) is an envelope surrounding a synovial joint. [WP,unvetted]." [Wikipedia:Articular_capsule] def: "An articular capsule (or joint capsule) is an envelope surrounding a synovial joint. [WP,unvetted]." [http://en.wikipedia.org/wiki/Articular_capsule] subset: organ_slim subset: uberon_slim synonym: "capsula articularis" EXACT LATIN [FMA:34836, FMA:TA] synonym: "capsulae articulares" RELATED LATIN [Wikipedia:Articular_capsule] synonym: "capsulae articulares" RELATED LATIN [http://en.wikipedia.org/wiki/Articular_capsule] synonym: "fibrous capsule of joint" EXACT [] synonym: "joint capsule" EXACT [] synonym: "joint fibrous capsule" EXACT [] xref: Articular:capsule xref: EMAPA:37621 {source="MA:th"} xref: FMA:34836 xref: GAID:263 xref: galen:JointCapsule xref: http://linkedlifedata.com/resource/umls/id/C0206207 xref: http://www.snomedbrowser.com/Codes/Details/182238002 xref: MA:0001519 xref: MESH:D017746 xref: NCIT:C32259 xref: NCIT:C84388 xref: SCTID:182238002 xref: UMLS:C0206207 {source="ncithesaurus:Joint_Capsule"} xref: Wikipedia:Articular_capsule is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000094 ! membrane organ intersection_of: UBERON:0000094 ! membrane organ intersection_of: has_part UBERON:0007616 ! layer of synovial tissue intersection_of: surrounds UBERON:0002217 ! synovial joint relationship: has_part UBERON:0007616 ! layer of synovial tissue relationship: surrounds UBERON:0002217 ! synovial joint property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/1/19/Joint.png xsd:anyURI property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/4/4a/Gray299.png xsd:anyURI property_value: UBPROP:0000012 "check ncita" xsd:string {external_ontology="ncit"} [Term] id: UBERON:0001496 name: ascending aorta namespace: uberon def: "The ascending aorta is the portion of the aorta in a two-pass circulatory system that lies between the heart and the arch of aorta[GO]. A portion of the aorta commencing at the upper part of the base of the left ventricle, on a level with the lower border of the third costal cartilage behind the left half of the sternum; it passes obliquely upward, forward, and to the right, in the direction of the heart's axis, as high as the upper border of the second right costal cartilage, describing a slight curve in its course, and being situated, about 6 cm behind the posterior surface of the sternum. The total length is about 5 cm in length [Wikipedia]." [GO:0035905, http://en.wikipedia.org/wiki/Ascending_aorta] subset: pheno_slim subset: uberon_slim synonym: "aorta ascendens" RELATED LATIN [http://en.wikipedia.org/wiki/Ascending_aorta] synonym: "ascending thoracic aorta" EXACT [EMAPA:17014] synonym: "pars ascendens aortae" EXACT [] synonym: "pars ascendens aortae" RELATED LATIN [http://en.wikipedia.org/wiki/Ascending_aorta] xref: Ascending:aorta xref: EHDAA2:0000147 xref: EHDAA:9828 xref: EMAPA:17014 xref: FMA:3736 xref: http://linkedlifedata.com/resource/umls/id/C0003956 xref: http://www.snomedbrowser.com/Codes/Details/181299009 xref: MA:0002570 xref: NCIT:C32150 xref: OpenCyc:Mx4rwVFqO5wpEbGdrcN5Y29ycA xref: UMLS:C0003956 {source="ncithesaurus:Ascending_Aorta"} is_a: UBERON:0001515 ! thoracic aorta is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: contributes_to_morphology_of UBERON:0001515 ! thoracic aorta relationship: develops_from UBERON:0005338 {source="EHDAA2"} ! outflow tract aortic component relationship: has_developmental_contribution_from UBERON:0002061 ! truncus arteriosus relationship: has_developmental_contribution_from UBERON:0005432 ! aortic sac relationship: part_of UBERON:0001515 ! thoracic aorta property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/e/e6/Gray506.svg xsd:anyURI [Term] id: UBERON:0001497 name: muscle of pelvic girdle namespace: uberon alt_id: UBERON:0003271 def: "Any muscle organ that is part of a pelvic girdle [Automatically generated definition]." [OBOL:automatic] subset: pheno_slim synonym: "girdle-pelvic muscle organ" EXACT [OBOL:automatic] synonym: "muscle organ of girdle-pelvic" EXACT [OBOL:automatic] synonym: "muscle organ of pelvic girdle" EXACT [OBOL:automatic] synonym: "muscle organ of pelvic girdle bone" EXACT [OBOL:automatic] synonym: "pelvic girdle muscle" EXACT [] synonym: "pelvic girdle muscle organ" EXACT [OBOL:automatic] synonym: "pelvic girdle skeletal muscle" EXACT [EMAPA:18185] xref: EHDAA:8326 xref: EMAPA:18184 xref: EMAPA:18185 xref: FMA:37367 xref: MA:0000537 xref: RETIRED_EHDAA2:0001430 is_a: UBERON:0001325 ! muscle of pelvis is_a: UBERON:0010890 ! pelvic complex muscle intersection_of: UBERON:0014892 ! skeletal muscle organ intersection_of: part_of UBERON:0001271 ! pelvic girdle region relationship: part_of UBERON:0004470 {source="https://github.com/obophenotype/uberon/wiki/Inferring-part-of-relationships"} ! musculature of pelvic girdle property_value: UBPROP:0000012 "Note that in MA, this is a subclass of pelvis muscle; in FMA this is a hindlimb muscle, but recall in FMA hindlimb includes the girdle." xsd:string {external_ontology="MA"} [Term] id: UBERON:0001508 name: arch of aorta namespace: uberon def: "The convex portion of the aorta between the ascending and descending parts of the aorta; branches from it include the brachiocephalic trunk, the left common carotid artery, and the left subclavian artery; the brachiocephalic trunk further splits to form the right subclavian artery and the right common carotid artery." [ISBN:0-683-40008-8, MP:0004113] subset: pheno_slim subset: uberon_slim synonym: "aortic arch" RELATED [FMA:3768] synonym: "arcus aortae" EXACT LATIN [FMA:3768, FMA:TA] synonym: "thoracic aorta" RELATED [GAID:471] xref: BTO:0000157 xref: EFO:0002526 xref: EHDAA2:0000132 xref: EMAPA:17613 xref: FMA:3768 xref: GAID:471 xref: http://en.wikipedia.org/wiki/Arch_of_aorta xref: http://www.snomedbrowser.com/Codes/Details/181300001 xref: MA:0000475 xref: VHOG:0001196 is_a: UBERON:0001515 ! thoracic aorta is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: connected_to UBERON:0001496 {subset="human_reference_atlas"} ! ascending aorta relationship: contributes_to_morphology_of UBERON:0001515 ! thoracic aorta relationship: develops_from UBERON:0003121 {notes="left arch 4 in human", source="embryology.ch"} ! pharyngeal arch artery 4 relationship: has_developmental_contribution_from UBERON:0005432 ! aortic sac relationship: has_developmental_contribution_from UBERON:0005613 ! left dorsal aorta relationship: part_of UBERON:0001515 ! thoracic aorta property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/e/e6/Gray506.svg xsd:anyURI property_value: IAO:0000232 "Do not confuse with aortic arch" xsd:string property_value: UBPROP:0000001 "The curving portion between the ascending aorta and the descending aorta, giving rise to the brachiocephalic trunk, the left common carotid artery, and the left subclavian artery. [TFD][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001196", ontology="VHOG", source="http://bgee.unil.ch/", source="http://medical-dictionary.thefreedictionary.com/arch+of+aorta"} property_value: UBPROP:0000003 "The double systemic arch arches (left and right) present in amphibians and reptiles become reduced to a single systemic arch - the right in birds, the left in mammals.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001196", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.460 and p.461 Figure 12.20"} property_value: UBPROP:0000008 "birds have right aortic arch, mammals left." xsd:string [Term] id: UBERON:0001514 name: descending aorta namespace: uberon def: "The descending aorta is the portion of the aorta in a two-pass circulatory system from the arch of aorta to the point where it divides into the common iliac arteries[GO]. The descending aorta is part of the aorta, the largest artery in the body. The descending aorta is the part of the aorta beginning at the aortic arch that runs down through the chest and abdomen. The descending aorta is divided into two portions, the thoracic and abdominal, in correspondence with the two great cavities of the trunk in which it is situated. Within the abdomen, the descending aorta branches into the two common iliac arteries which serve the legs. [WP,unvetted]." [GO:0035906, http://en.wikipedia.org/wiki/Descending_aorta] def: "The descending aorta is the portion of the aorta in a two-pass circulatory system from the arch of aorta to the point where it divides into the common iliac arteries[GO]. The descending aorta is part of the aorta, the largest artery in the body. The descending aorta is the part of the aorta beginning at the aortic arch that runs down through the chest and abdomen. The descending aorta is divided into two portions, the thoracic and abdominal, in correspondence with the two great cavities of the trunk in which it is situated. Within the abdomen, the descending aorta branches into the two common iliac arteries which serve the legs. [WP,unvetted]." [GO:0035906, Wikipedia:Descending_aorta] subset: pheno_slim subset: uberon_slim synonym: "aorta descendens" RELATED [Wikipedia:Descending_aorta] synonym: "aorta descendens" RELATED LATIN [Wikipedia:Descending_aorta] synonym: "aorta descendens" RELATED LATIN [http://en.wikipedia.org/wiki/Descending_aorta] synonym: "aorta descendens" RELATED [http://en.wikipedia.org/wiki/Descending_aorta] synonym: "pars descendens aortae" EXACT [FMA:3784] synonym: "pars descendens aortae" RELATED LATIN [Wikipedia:Descending_aorta] synonym: "pars descendens aortae" RELATED LATIN [http://en.wikipedia.org/wiki/Descending_aorta] xref: Descending:aorta xref: EMAPA:18606 xref: FMA:3784 xref: http://linkedlifedata.com/resource/umls/id/C0011666 xref: http://www.snomedbrowser.com/Codes/Details/261399002 xref: MA:0002571 xref: NCIT:C32455 xref: OpenCyc:Mx4rv4EE35wpEbGdrcN5Y29ycA xref: SCTID:261399002 xref: UMLS:C0011666 {source="ncithesaurus:Descending_Aorta"} xref: Wikipedia:Descending_aorta is_a: UBERON:0005800 {source="FMA"} ! section of aorta relationship: connected_to UBERON:0001508 {subset="human_reference_atlas"} ! arch of aorta relationship: develops_from UBERON:0005805 {source="Wikipedia"} ! dorsal aorta relationship: has_developmental_contribution_from UBERON:0005613 ! left dorsal aorta relationship: has_developmental_contribution_from UBERON:0005622 ! right dorsal aorta property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/e/e6/Gray506.svg xsd:anyURI property_value: UBPROP:0000011 "results from fusion of left and right dorsal aortae" xsd:string [Term] id: UBERON:0001515 name: thoracic aorta namespace: uberon def: "The part of the aorta that extends from the origin at the heart to the diaphragm, and from which arises numerous branches that supply oxygenated blood to the chest cage and the organs within the chest." [http://www.medterms.com, MP:0010468] subset: efo_slim subset: pheno_slim subset: uberon_slim synonym: "aorta thoracalis" RELATED LATIN [http://en.wikipedia.org/wiki/Thoracic_aorta] synonym: "aorta thoracalis" RELATED LATIN [Wikipedia:Thoracic_aorta] synonym: "aorta thoracica" EXACT LATIN [FMA:3786, FMA:TA] synonym: "pars thoracica aortae" RELATED LATIN [Wikipedia:Thoracic_aorta] synonym: "pars thoracica aortae" RELATED LATIN [http://en.wikipedia.org/wiki/Thoracic_aorta] synonym: "thoracic part of aorta" EXACT [] xref: BTO:0000157 xref: EFO:0002525 xref: EMAPA:18603 xref: FMA:3786 xref: GAID:471 xref: galen:ThoracicAorta xref: http://linkedlifedata.com/resource/umls/id/C1522460 xref: http://www.snomedbrowser.com/Codes/Details/302510009 xref: MA:0002569 xref: MESH:D001013 xref: NCIT:C33766 xref: OpenCyc:Mx4rveb9TpwpEbGdrcN5Y29ycA xref: SCTID:302510009 xref: Thoracic:aorta xref: UMLS:C1522460 {source="ncithesaurus:Thoracic_Aorta"} xref: Wikipedia:Thoracic_aorta is_a: UBERON:0005800 {source="FMA"} ! section of aorta intersection_of: UBERON:0005800 ! section of aorta intersection_of: part_of UBERON:0000915 ! thoracic segment of trunk relationship: contributes_to_morphology_of UBERON:0000947 ! aorta relationship: part_of UBERON:0000915 ! thoracic segment of trunk property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/7/75/Gray530.png xsd:anyURI [Term] id: UBERON:0001516 name: abdominal aorta namespace: uberon def: "Abdominal part of aorta: the distal part of the descending aorta, which is the continuation of the thoracic part and gives rise to the inferior phrenic, lumbar, median sacral, superior and inferior mesenteric, middle suprarenal, renal, and testicular or ovarian arteries, and celiac trunk[BTO]. The abdominal aorta is the largest artery in the abdominal cavity. As part of the aorta, it is a direct continuation of descending aorta(of the thorax). [WP,unvetted]." [BTO:0002976, http://en.wikipedia.org/wiki/Abdominal_aorta] def: "Abdominal part of aorta: the distal part of the descending aorta, which is the continuation of the thoracic part and gives rise to the inferior phrenic, lumbar, median sacral, superior and inferior mesenteric, middle suprarenal, renal, and testicular or ovarian arteries, and celiac trunk[BTO]. The abdominal aorta is the largest artery in the abdominal cavity. As part of the aorta, it is a direct continuation of descending aorta(of the thorax). [WP,unvetted]." [BTO:0002976, Wikipedia:Abdominal_aorta] subset: efo_slim subset: pheno_slim subset: uberon_slim synonym: "abdominal part of aorta" EXACT [FMA:3789] synonym: "abdominal part of aorta" RELATED [BTO:0002976] synonym: "aorta abdominalis" RELATED LATIN [http://en.wikipedia.org/wiki/Abdominal_aorta] synonym: "aorta abdominalis" RELATED [BTO:0002976] synonym: "aorta abdominalis" RELATED LATIN [Wikipedia:Abdominal_aorta] synonym: "descending abdominal aorta" EXACT [FMA:3789] synonym: "pars abdominalis aortae" EXACT [FMA:3789] synonym: "pars abdominalis aortae" RELATED LATIN [http://en.wikipedia.org/wiki/Abdominal_aorta] synonym: "pars abdominalis aortae" RELATED LATIN [Wikipedia:Abdominal_aorta] synonym: "pars abdominalis aortae" RELATED [BTO:0002976] xref: Abdominal:aorta xref: BTO:0002976 xref: EFO:0002524 xref: EMAPA:17856 xref: FMA:3789 xref: GAID:470 xref: galen:AbdominalAorta xref: http://linkedlifedata.com/resource/umls/id/C0003484 xref: http://www.snomedbrowser.com/Codes/Details/244231007 xref: MA:0000474 xref: MESH:D001012 xref: NCIT:C32038 xref: OpenCyc:Mx4rvYhWCZwpEbGdrcN5Y29ycA xref: SCTID:244231007 xref: UMLS:C0003484 {source="ncithesaurus:Abdominal_Aorta"} xref: Wikipedia:Abdominal_aorta is_a: UBERON:0005800 ! section of aorta relationship: connected_to UBERON:0002345 {subset="human_reference_atlas"} ! descending thoracic aorta relationship: contributes_to_morphology_of UBERON:0001514 ! descending aorta relationship: overlaps UBERON:0000916 ! abdomen relationship: part_of UBERON:0001514 {source="FMA"} ! descending aorta property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/a/af/Gray531.png xsd:anyURI property_value: editor_note "Many of the branches of the abdominal aorta in mammals may be branches of the dorsal aorta in other vertebrates" xsd:string [Term] id: UBERON:0001529 name: brachiocephalic artery namespace: uberon def: "The short first aortic arch branch and divides into the right subclavian artery and the right common carotid artery." [MGI:csmith, MP:0010663] subset: efo_slim subset: pheno_slim subset: uberon_slim synonym: "brachiocephalic trunk" EXACT [MA:0001922] synonym: "innominate" BROAD [http://en.wikipedia.org/wiki/Brachiocephalic_artery] synonym: "innominate artery" EXACT [http://en.wikipedia.org/wiki/Brachiocephalic_artery] synonym: "truncus brachiocephalicus" EXACT LATIN [FMA:3932, FMA:TA] synonym: "truncus brachiocephalicus" RELATED LATIN [http://en.wikipedia.org/wiki/Brachiocephalic_artery] xref: Brachiocephalic:artery xref: EFO:0002550 xref: EHDAA2:0000835 xref: EMAPA:17615 xref: FMA:3932 xref: GAID:476 xref: galen:BrachioCephalicArtery xref: http://linkedlifedata.com/resource/umls/id/C0006094 xref: http://www.snomedbrowser.com/Codes/Details/244244002 xref: MA:0001922 xref: MESH:D016122 xref: NCIT:C32814 xref: OpenCyc:Mx4rv9mMTpwpEbGdrcN5Y29ycA xref: UMLS:C0006094 {source="ncithesaurus:Innominate_Artery"} is_a: UBERON:0004573 ! systemic artery relationship: channels_from UBERON:0001508 ! arch of aorta relationship: connected_to UBERON:0001508 {subset="human_reference_atlas"} ! arch of aorta relationship: part_of RO:0002577 ! system relationship: part_of UBERON:0007204 ! brachiocephalic vasculature property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/e/e6/Gray506.svg xsd:anyURI [Term] id: UBERON:0001530 name: common carotid artery plus branches namespace: uberon def: "A bilaterally paired branched artery that originates from the aortic arches and divides into and includes as parts the internal and external carotid arteries[cjm]." [Wikipedia:Common_carotid_artery] def: "A bilaterally paired branched artery that originates from the aortic arches and divides into and includes as parts the internal and external carotid arteries[cjm]." [http://en.wikipedia.org/wiki/Common_carotid_artery] subset: pheno_slim subset: uberon_slim synonym: "a. carotis communis" RELATED LATIN [Wikipedia:Common_carotid_artery] synonym: "a. carotis communis" RELATED LATIN [http://en.wikipedia.org/wiki/Common_carotid_artery] synonym: "carotid artery" BROAD [FMA:3939] synonym: "carotid artery system" EXACT [EHDAA2:0000217] synonym: "common carotid artery" EXACT INCONSISTENT [FMA:3939] synonym: "trunk of common carotid tree" EXACT [FMA:3939] xref: CALOHA:TS-0116 xref: EHDAA2:0000217 xref: EHDAA:7331 xref: EMAPA:17855 xref: FMA:3939 xref: GAID:479 xref: http://en.wikipedia.org/wiki/Common_carotid_artery xref: http://linkedlifedata.com/resource/umls/id/C0162859 xref: http://www.snomedbrowser.com/Codes/Details/362041005 xref: MA:0001926 xref: MESH:D017536 xref: NCIT:C32352 xref: SCTID:362041005 xref: UMLS:C0162859 {source="ncithesaurus:Common_Carotid_Artery"} xref: VHOG:0000272 xref: Wikipedia:Common_carotid_artery is_a: UBERON:0004573 {source="FMA"} ! systemic artery is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: connected_to UBERON:0001508 {subset="human_reference_atlas"} ! arch of aorta relationship: develops_from UBERON:0004363 {source="Wikipedia"} ! pharyngeal arch artery relationship: existence_starts_during UBERON:0000068 ! embryo stage relationship: part_of RO:0002577 ! system property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/e/e6/Gray506.svg xsd:anyURI property_value: editor_note "we follow the FMA and treat the artery as a tree-structure - here we include the internal and external as parts. For the part that excludes the branches, see 'trunk of common carotid artery'" xsd:string property_value: IAO:0000232 "This class represents the adult and developing structures'" xsd:string property_value: UBPROP:0000011 "in birds and reptiles, develops from arch III and parts of ventral and dorsal aortae" xsd:string [Term] id: UBERON:0001533 name: subclavian artery namespace: uberon def: "One of two laterally paired arteries that supplies the pectoral appendages, usually branching from the dorsal aorta." [https://orcid.org/0000-0002-6601-2165, ISBN:0073040584] subset: pheno_slim subset: uberon_slim subset: unverified_taxonomic_grouping subset: vertebrate_core synonym: "arteria subclavia" EXACT LATIN [XAO:0000365] synonym: "arteria subclavia" RELATED LATIN [http://en.wikipedia.org/wiki/Subclavian_artery] synonym: "arterial tree of upper limb" EXACT [] synonym: "PA" RELATED ABBREVIATION [] synonym: "pectoral artery" EXACT [] synonym: "subclavian arterial tree" EXACT [] xref: AAO:0010232 xref: EHDAA2:0001933 xref: EHDAA:4357 xref: EMAPA:17617 xref: FMA:3951 xref: GAID:511 xref: http://linkedlifedata.com/resource/umls/id/C0038530 xref: http://www.snomedbrowser.com/Codes/Details/265790007 xref: MA:0002045 xref: MESH:D013348 xref: NCIT:C33643 xref: OpenCyc:Mx4rvp8u1JwpEbGdrcN5Y29ycA xref: Subclavian:artery xref: TAO:0005086 xref: UMLS:C0038530 {source="ncithesaurus:Subclavian_Artery"} xref: XAO:0000365 xref: ZFA:0005086 is_a: UBERON:0004573 ! systemic artery relationship: connected_to UBERON:0001508 {subset="human_reference_atlas"} ! arch of aorta relationship: develops_from UBERON:0002457 {source="EHDAA2"} ! intersomitic artery relationship: develops_from UBERON:0005622 {source="EHDAA2"} ! right dorsal aorta relationship: part_of RO:0002577 ! system relationship: supplies UBERON:0004710 ! pectoral appendage property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/e/e6/Gray506.svg xsd:anyURI property_value: editor_note "Developmental relationships should be added (intersegmental artery and right dorsal aorta in EHDAA2, occipitovertebral artery in XAO)" xsd:string property_value: UBPROP:0000001 "Artery which supplies blood via branches to the various muscles of the shoulder region and to the forelimb.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0010232", ontology="AAO", source="AAO:BJB"} property_value: UBPROP:0000001 "In human anatomy, the subclavian artery is a major artery of the upper thorax that mainly supplies blood to the head and arms. It is located below the clavicle, hence the name. There is a left subclavian and a right subclavian. On the left side of the body, the subclavian comes directly off the arch of aorta. On the right side of the body, the subclavian arises from the relatively short brachiocephalic artery (trunk) when it bifurcates into the subclavian and the right common carotid artery. The usual branches of the subclavian on both sides of the body are the vertebral artery, the internal thoracic artery, the thyrocervical trunk, the costocervical trunk and the dorsal scapular artery. The subclavian becomes the axillary artery at the lateral border of the first rib[WP]" xsd:string {source="Subclavian:artery"} property_value: UBPROP:0000001 "The pectoral (subclavian) arteries originate from the dorsal aorta and takes the blood outward into the fin from the paired portion of the dorsal aorta posterior to the last aortic arch. Kimmel et al. 1993[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0005086", ontology="TAO", source="ZFIN:curator"} [Term] id: UBERON:0001534 name: right subclavian artery namespace: uberon def: "The subclavian artery that supplies the right pectoral appendage." [http://orcid.org/0000-0002-6601-2165] subset: pheno_slim subset: uberon_slim synonym: "arteria subclavia dextra" EXACT LATIN [FMA:3953, FMA:TA] xref: EHDAA2:0004514 xref: EMAPA:37384 {source="MA:th"} xref: FMA:3953 xref: http://linkedlifedata.com/resource/umls/id/C0226261 xref: http://www.snomedbrowser.com/Codes/Details/244246000 xref: MA:0002047 xref: NCIT:C33490 xref: OpenCyc:Mx4rtW7hwqgEEdudWQACs5b6Bw xref: OpenCyc:Mx8Ngh4rvgHsHZwpEbGdrcN5Y29ycB4rvp8u1JwpEbGdrcN5Y29ycA xref: Subclavian:artery xref: UMLS:C0226261 {source="ncithesaurus:Right_Subclavian_Artery"} is_a: UBERON:0001533 ! subclavian artery is_a: UBERON:0015212 ! lateral structure intersection_of: UBERON:0001533 ! subclavian artery intersection_of: in_right_side_of UBERON:0000468 ! multicellular organism relationship: connected_to UBERON:0001529 {subset="human_reference_atlas"} ! brachiocephalic artery relationship: in_right_side_of UBERON:0000468 ! multicellular organism property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/e/e6/Gray506.svg xsd:anyURI property_value: UBPROP:0000008 "in humans, arises from the relatively short brachiocephalic artery (trunk) when it bifurcates into the subclavian and the right common carotid artery" xsd:string property_value: UBPROP:0000011 "proximal part arises from right 4th aortic arch in humans" xsd:string [Term] id: UBERON:0001555 name: digestive tract namespace: uberon def: "A tube extending from the mouth to the anus." [https://github.com/geneontology/go-ontology/issues/7549, Wikipedia:Talk\:Human_gastrointestinal_tract] def: "A tube extending from the mouth to the anus." [http://en.wikipedia.org/wiki/Talk\:Human_gastrointestinal_tract, https://github.com/geneontology/go-ontology/issues/7549] subset: uberon_slim subset: vertebrate_core synonym: "alimentary canal" NARROW [] synonym: "alimentary tract" NARROW [] synonym: "digestive canal" RELATED [BTO:0000058] synonym: "digestive tube" EXACT [] synonym: "enteric tract" EXACT [ZFA:0000112] synonym: "gut" BROAD [] synonym: "gut tube" RELATED [] xref: AAO:0010023 xref: BILA:0000083 xref: BTO:0000511 xref: BTO:0000545 xref: EHDAA2:0000726 xref: EHDAA:518 xref: EMAPA:16247 xref: FBbt:00003125 xref: FMA:45615 xref: galen:AlimentaryTract xref: http://linkedlifedata.com/resource/umls/id/C0017189 xref: MA:0000917 xref: NCIT:C34082 xref: OpenCyc:Mx4rvVi0GpwpEbGdrcN5Y29ycA xref: TAO:0000112 xref: TGMA:0001819 xref: UMLS:C0017189 {source="ncithesaurus:Gastrointestinal_Tract"} xref: VHOG:0000309 xref: WBbt:0005743 xref: ZFA:0000112 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000025 ! tube relationship: connects UBERON:0000165 ! mouth relationship: develops_from UBERON:0007026 ! presumptive gut relationship: immediate_transformation_of UBERON:0007026 {source="NCBIBook:NBK10107"} ! presumptive gut relationship: only_in_taxon NCBITaxon:6072 ! Eumetazoa relationship: part_of UBERON:0001007 ! digestive system property_value: RO:0002161 NCBITaxon:147099 {source="Wikipedia:Acoelomorpha"} property_value: RO:0002161 NCBITaxon:147099 {source="http://en.wikipedia.org/wiki/Acoelomorpha"} property_value: RO:0002161 NCBITaxon:41324 {source="DOI:10.1371/journal.pone.0016309"} property_value: RO:0002161 NCBITaxon:41324 {source="https://doi.org/10.1371/journal.pone.0016309"} property_value: UBPROP:0000001 "The alimentary or digestive tract, and associated organs.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0000112", ontology="TAO", source="ZFIN:curator"} property_value: UBPROP:0000003 "The bilaterian gut is typically a complete tube that opens to the exterior at both ends. It consists of mouth, foregut, midgut, hindgut, and anus (reference 1); Although all vertebrates have a digestive tract and accessory glands, various parts of this system are not necessarily homologous, analogous, or even present in all species. Therefore, broad comparisons can be best made under the listings of headgut, foregut, midgut, pancreas and biliary system, hindgut (reference 2).[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000309", ontology="VHOG", source="ISBN:978-0030259821 Ruppert EE, Fox RS, Barnes RD, Invertebrate zoology: a functional evolutionary approach (2003) p.203, ISBN:978-0521617147 Stevens CE and Hume ID, Comparative physiology of the vertebrate digestive system (2004) p.11", source="http://bgee.unil.ch/"} property_value: UBPROP:0000003 "The bilaterian gut is typically a complete tube that opens to the exterior at both ends. It consists of mouth, foregut, midgut, hindgut, and anus (reference 1); Although all vertebrates have a digestive tract and accessory glands, various parts of this system are not necessarily homologous, analogous, or even present in all species. Therefore, broad comparisons can be best made under the listings of headgut, foregut, midgut, pancreas and biliary system, hindgut (reference 2).[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000309", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0030259821 Ruppert EE, Fox RS, Barnes RD, Invertebrate zoology: a functional evolutionary approach (2003) p.203, ISBN:978-0521617147 Stevens CE and Hume ID, Comparative physiology of the vertebrate digestive system (2004) p.11"} property_value: UBPROP:0000012 "FMA also has a term 'gastrointestinal tract', but this includes the liver." xsd:string {external_ontology="FMA"} property_value: UBPROP:0000012 "we place the MA and EMAPA class here, although the intent is probably a smaller region. See https://github.com/obophenotype/uberon/issues/509" xsd:string {external_ontology="MA"} property_value: UBPROP:0000013 "we following Kardong in naming the entire tube from mouth to anus the alimentary canal. Kardong calls the portion of this tract that excludes buccal cavity and pharynx the 'alimentary canal', consider adding an extra class for this" xsd:string [Term] id: UBERON:0001558 name: lower respiratory tract namespace: uberon def: "The segment of the respiratory tract that starts proximally with the trachea and includes all distal structures including the lungs[WP,modified]." [http://orcid.org/0000-0002-6601-2165, Wikipedia:Lower_respiratory_tract] def: "The segment of the respiratory tract that starts proximally with the trachea and includes all distal structures including the lungs[WP,modified]." [http://en.wikipedia.org/wiki/Lower_respiratory_tract, http://orcid.org/0000-0002-6601-2165] subset: pheno_slim subset: uberon_slim synonym: "lower respiratory system" EXACT [] xref: EHDAA2:0001036 xref: EMAPA:16738 xref: FMA:45662 xref: http://en.wikipedia.org/wiki/Lower_respiratory_tract xref: http://www.snomedbrowser.com/Codes/Details/281488008 xref: MA:0000435 xref: OpenCyc:Mx4rQRqjUgAKEdyHxgDggVfs8g xref: SCTID:281488008 xref: VHOG:0000382 xref: Wikipedia:Lower_respiratory_tract is_a: UBERON:0000072 ! proximo-distal subdivision of respiratory tract relationship: has_part UBERON:0000170 ! pair of lungs property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/9/9f/Illu_conducting_passages.svg xsd:anyURI property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/c/c3/Illu_conducting_passages.jpg xsd:anyURI [Term] id: UBERON:0001584 name: left subclavian artery namespace: uberon def: "The subclavian artery that supplies the left pectoral appendage." [http://orcid.org/0000-0002-6601-2165] subset: pheno_slim subset: uberon_slim synonym: "arteria subclavia (sinistra)" EXACT LATIN [FMA:4694, FMA:TA] xref: EMAPA:37100 {source="MA:th"} xref: FMA:4694 xref: http://linkedlifedata.com/resource/umls/id/C0226262 xref: http://www.snomedbrowser.com/Codes/Details/244245001 xref: MA:0002046 xref: NCIT:C32972 xref: OpenCyc:Mx4rtW7hw6gEEdudWQACs5b6Bw xref: OpenCyc:Mx8Ngh4rvgIFoJwpEbGdrcN5Y29ycB4rvp8u1JwpEbGdrcN5Y29ycA xref: Subclavian:artery xref: UMLS:C0226262 {source="ncithesaurus:Left_Subclavian_Artery"} is_a: UBERON:0001533 ! subclavian artery is_a: UBERON:0015212 ! lateral structure intersection_of: UBERON:0001533 ! subclavian artery intersection_of: in_left_side_of UBERON:0000468 ! multicellular organism relationship: in_left_side_of UBERON:0000468 ! multicellular organism property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/e/e6/Gray506.svg xsd:anyURI property_value: UBPROP:0000008 "in humans, branches off the arch of aorta" xsd:string property_value: UBPROP:0000011 "arises from left intersegmental 6th artery in the region of the 6th -7th cervical segment in humans" xsd:string [Term] id: UBERON:0001585 name: anterior vena cava namespace: uberon def: "A vein that carries deoxygenated blood from the upper half of the body into the right atrium of the heart." [http://en.wikipedia.org/wiki/Superior_vena_cava, http://orcid.org/0000-0002-6601-2165] subset: pheno_slim subset: uberon_slim synonym: "cranial vena cava" RELATED [VHOG:0001195] synonym: "precava" RELATED [] synonym: "superior caval vein" EXACT [http://orcid.org/0000-0002-6601-2165] synonym: "superior vena cava" EXACT [FMA:4720] synonym: "vena cava superior" RELATED LATIN [http://en.wikipedia.org/wiki/Superior_vena_cava] synonym: "vena cava superior" RELATED [BTO:0002683] synonym: "vena maxima" RELATED LATIN [http://en.wikipedia.org/wiki/Superior_vena_cava] xref: BTO:0002683 xref: EHDAA2:0001962 xref: EHDAA:8726 xref: EMAPA:18417 xref: FMA:4720 xref: GAID:549 xref: galen:SuperiorVenaCava xref: http://en.wikipedia.org/wiki/Superior_vena_cava xref: http://linkedlifedata.com/resource/umls/id/C0042459 xref: http://www.snomedbrowser.com/Codes/Details/181368006 xref: MA:0000481 xref: MESH:D014683 xref: NCIT:C12816 xref: UMLS:C0042459 {source="ncithesaurus:Superior_Vena_Cava"} xref: VHOG:0001195 is_a: UBERON:0004087 ! vena cava intersection_of: UBERON:0004087 ! vena cava intersection_of: drains UBERON:0000153 ! anterior region of body relationship: connected_to UBERON:0002078 {subset="human_reference_atlas"} ! right cardiac atrium relationship: drains UBERON:0000153 ! anterior region of body relationship: part_of RO:0002577 ! system property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/b/b4/Venenwinkel.png xsd:anyURI property_value: UBPROP:0000003 "Phylogenetic modifications within this basic pattern of arteries and veins are largely correlated with functional changes. In the transition from water to land, gills gave way to lungs, accompanied by the establishment of a pulmonary circulation. In some fishes and certainly in tetrapods, the cardinal veins become less involved in blood return. Instead, the composite, prominent postcava (posterior vena cava) arose to drain the posterior part of the body and the precava (anterior vena cava) developed to drain the anterior part of the body.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001195", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.454-455"} property_value: UBPROP:0000008 "The mouse has both left and right anterior vena cava. adult humans only have a right. Postnatally the left regresses and becomes non-functional (Wessels and Sedmera 2003). In the mouse, The right pulmonary vein passes dorsal to the right superior vena cava, the left pulmonary dorsal to the left superior vena cava (Biology of the Laboratory Mouse, Green)." xsd:string [Term] id: UBERON:0001586 name: internal jugular vein namespace: uberon def: "One of two jugular veins that collect the blood from the brain, the superficial parts of the face, and the neck. [WP,unvetted]." [http://en.wikipedia.org/wiki/Internal_jugular_vein] def: "One of two jugular veins that collect the blood from the brain, the superficial parts of the face, and the neck. [WP,unvetted]." [Wikipedia:Internal_jugular_vein] subset: uberon_slim synonym: "internal jugular" EXACT [EHDAA2:0000877] synonym: "internal jugular venous tree" EXACT [] synonym: "vena jugularis interna" RELATED LATIN [Wikipedia:Internal_jugular_vein] synonym: "vena jugularis interna" RELATED LATIN [http://en.wikipedia.org/wiki/Internal_jugular_vein] xref: AAO:0010236 xref: EHDAA2:0000877 xref: EHDAA:5407 xref: EMAPA:17620 xref: FMA:4724 xref: galen:InternalJugularVein xref: http://en.wikipedia.org/wiki/Internal_jugular_vein xref: http://linkedlifedata.com/resource/umls/id/C0226550 xref: http://www.snomedbrowser.com/Codes/Details/181372005 xref: MA:0002157 xref: NCIT:C32849 xref: OpenCyc:Mx4rvqdb95wpEbGdrcN5Y29ycA xref: RETIRED_EHDAA2:0000878 xref: SCTID:181372005 xref: UMLS:C0226550 {source="ncithesaurus:Internal_Jugular_Vein"} xref: Wikipedia:Internal_jugular_vein xref: XAO:0000382 is_a: UBERON:0004711 ! jugular vein relationship: connected_to UBERON:0003711 {subset="human_reference_atlas"} ! brachiocephalic vein relationship: drains UBERON:0000955 ! brain relationship: drains UBERON:0001456 ! face property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/e/e9/Gray562.png xsd:anyURI property_value: UBPROP:0000001 "Vein which receives many veins draining the palate, brain, and the orbital, nasal, and auditory regions.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0010236", ontology="AAO", source="AAO:BJB"} [Term] id: UBERON:0001605 name: ciliary muscle namespace: uberon def: "The ciliary muscle is a ring of smooth muscle in the middle layer of the eye that controls the eye's accommodation for viewing objects at varying distances and regulates the flow of aqueous humour through Schlemm's canal. [WP,unvetted]." [Wikipedia:Ciliary_muscle] def: "The ciliary muscle is a ring of smooth muscle in the middle layer of the eye that controls the eye's accommodation for viewing objects at varying distances and regulates the flow of aqueous humour through Schlemm's canal. [WP,unvetted]." [http://en.wikipedia.org/wiki/Ciliary_muscle] subset: pheno_slim subset: uberon_slim synonym: "Bowman`s muscles" RELATED [BTO:0000654] synonym: "ciliaris" RELATED [Wikipedia:Ciliary_muscle] synonym: "ciliaris" RELATED [http://en.wikipedia.org/wiki/Ciliary_muscle] synonym: "musculus ciliaris" RELATED LATIN [Wikipedia:Ciliary_muscle] synonym: "musculus ciliaris" RELATED LATIN [http://en.wikipedia.org/wiki/Ciliary_muscle] synonym: "musculus ciliarus" EXACT [BTO:0000654] xref: BTO:0000654 xref: Ciliary:muscle xref: EMAPA:35240 xref: FMA:49151 xref: http://linkedlifedata.com/resource/umls/id/C0559230 xref: http://www.snomedbrowser.com/Codes/Details/280862009 xref: MA:0001269 xref: NCIT:C32315 xref: SCTID:280862009 xref: UMLS:C0559230 {source="ncithesaurus:Ciliary_Muscle"} xref: Wikipedia:Ciliary_muscle is_a: UBERON:0003386 {source="MA"} ! smooth muscle of eye is_a: UBERON:0010314 ! structure with developmental contribution from neural crest is_a: UBERON:0011222 {source="FMA"} ! intra-ocular muscle relationship: part_of UBERON:0001775 {source="FMA"} ! ciliary body property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/2/28/Gray872.png xsd:anyURI [Term] id: UBERON:0001606 name: muscle of iris namespace: uberon def: "." [http://en.wikipedia.org/wiki/Iris_muscle] def: "." [Wikipedia:Iris_muscle] subset: uberon_slim synonym: "iris muscle" EXACT [] synonym: "iris muscle organ" EXACT [OBOL:automatic] synonym: "muscle organ of iris" EXACT [OBOL:automatic] xref: EMAPA:35448 xref: FMA:49154 xref: http://www.snomedbrowser.com/Codes/Details/280888007 xref: Iris:muscle xref: MA:0001287 xref: SCTID:280888007 xref: Wikipedia:Iris_muscle is_a: UBERON:0011222 {source="FMA"} ! intra-ocular muscle intersection_of: UBERON:0001630 ! muscle organ intersection_of: part_of UBERON:0001769 ! iris relationship: part_of UBERON:0001769 ! iris property_value: editor_note "revisit this, see issue #331" xsd:string property_value: UBPROP:0000008 "in aves, stromal mesenchymal cells may migrate to the iris and become skeletal" xsd:string property_value: UBPROP:0000008 "The muscle cells of the iris are smooth muscle in mammals and amphibians, but are striated muscle in birds and reptiles. Many fish have neither, and, as a result, their irides are unable to dilate and contract, so that the pupil always remains of a fixed size[Romer, via WP]" xsd:string [Term] id: UBERON:0001612 name: facial artery namespace: uberon def: "A branch of the external carotid artery that supplies structures of the face. [WP,unvetted]." [http://en.wikipedia.org/wiki/Facial_artery] def: "A branch of the external carotid artery that supplies structures of the face. [WP,unvetted]." [Wikipedia:Facial_artery] subset: uberon_slim synonym: "arteria maxillaris externa" RELATED LATIN [Wikipedia:Facial_artery] synonym: "arteria maxillaris externa" RELATED LATIN [http://en.wikipedia.org/wiki/Facial_artery] synonym: "external maxillary artery" RELATED [] xref: EMAPA:19213 xref: Facial:artery xref: FMA:49549 xref: http://linkedlifedata.com/resource/umls/id/C0226109 xref: http://www.snomedbrowser.com/Codes/Details/181328007 xref: MA:0001950 xref: NCIT:C32578 xref: OpenCyc:Mx4rwCt95ZwpEbGdrcN5Y29ycA xref: SCTID:181328007 xref: UMLS:C0226109 {source="ncithesaurus:Facial_Artery"} xref: Wikipedia:Facial_artery is_a: UBERON:0035398 ! branch of external carotid artery intersection_of: UBERON:0001637 ! artery intersection_of: branching_part_of UBERON:0001070 ! external carotid artery intersection_of: supplies UBERON:0001456 ! face relationship: supplies UBERON:0001456 ! face property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/7/7b/Gray508.png xsd:anyURI [Term] id: UBERON:0001616 name: maxillary artery namespace: uberon def: "An artery that supplies deep structures of the face. It comes just out behind the neck of the mandible. [WP,unvetted]." [http://en.wikipedia.org/wiki/Maxillary_artery] def: "An artery that supplies deep structures of the face. It comes just out behind the neck of the mandible. [WP,unvetted]." [Wikipedia:Maxillary_artery] subset: uberon_slim synonym: "arteria maxillaris" RELATED LATIN [http://en.wikipedia.org/wiki/Maxillary_artery] synonym: "arteria maxillaris" RELATED LATIN [Wikipedia:Maxillary_artery] synonym: "internal maxillary artery" RELATED [] xref: EHDAA2:0001069 xref: EHDAA:7357 xref: EMAPA:17311 xref: FMA:49675 xref: GAID:498 xref: http://linkedlifedata.com/resource/umls/id/C0024949 xref: http://www.snomedbrowser.com/Codes/Details/181326006 xref: MA:0001919 xref: Maxillary:artery xref: MESH:D008438 xref: NCIT:C34205 xref: OpenCyc:Mx4rwDDJ45wpEbGdrcN5Y29ycA xref: SCTID:181326006 xref: UMLS:C0024949 {source="ncithesaurus:Maxillary_Artery"} xref: Wikipedia:Maxillary_artery is_a: UBERON:0001637 ! artery is_a: UBERON:0010314 ! structure with developmental contribution from neural crest intersection_of: UBERON:0001637 ! artery intersection_of: directly_develops_from UBERON:0003118 ! pharyngeal arch artery 1 relationship: connected_to UBERON:0001070 {subset="human_reference_atlas"} ! external carotid artery relationship: develops_from UBERON:0003118 ! pharyngeal arch artery 1 relationship: directly_develops_from UBERON:0003118 ! pharyngeal arch artery 1 relationship: part_of RO:0002577 ! system property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/3/39/Gray510.png xsd:anyURI property_value: UBPROP:0000011 "...1st pair undergoes partial regression, the remnants of which becomes part of the maxillary arteries" xsd:string {source="Vascular:Devt.html"} property_value: UBPROP:0000011 "...1st pair undergoes partial regression, the remnants of which becomes part of the maxillary arteries" xsd:string {source="http://download.videohelp.com/vitualis/med/Vascular_Devt.html"} [Term] id: UBERON:0001630 name: muscle organ namespace: uberon def: "Organ consisting of a tissue made up of various elongated cells that are specialized to contract and thus to produce movement and mechanical work[GO]." [GO:0007517] subset: organ_slim subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "muscle" BROAD [ZFA:0005145] xref: AAO:0011066 xref: EMAPA:32715 xref: EMAPA:37474 {source="MA:th"} xref: EV:0100146 xref: FMA:5022 xref: GAID:131 xref: galen:Muscle xref: http://www.snomedbrowser.com/Codes/Details/71616004 xref: MA:0000015 xref: OpenCyc:Mx4rv2kf-5wpEbGdrcN5Y29ycA xref: SCTID:71616004 xref: TAO:0005145 xref: VHOG:0001245 xref: XAO:0000172 xref: ZFA:0005145 is_a: UBERON:0000062 ! organ is_a: UBERON:0005090 ! muscle structure intersection_of: UBERON:0000062 ! organ intersection_of: composed_primarily_of UBERON:0002385 ! muscle tissue relationship: composed_primarily_of UBERON:0002385 ! muscle tissue relationship: has_part UBERON:0002385 ! muscle tissue relationship: part_of UBERON:0001015 ! musculature property_value: UBPROP:0000001 "Portion of tissue composed of contractile fibers.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0005145", ontology="TAO", source="ZFIN:curator"} property_value: UBPROP:0000003 "It seems clear that the metazoan ancestor inherited from its unicellular descendants an actin cytoskeleton and motor-proteins of the myosin superfamily. Within metazoans, these two molecules were arranged into effective contractile units, the muscles. The basic trends for muscle evolution are already expressed in the diploblastic taxa.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001245", ontology="VHOG", source="ISBN:978-0198566694 Schmidt-Rhaesa A, The evolution of organ systems (2007) p.75", source="http://bgee.unil.ch/"} property_value: UBPROP:0000003 "It seems clear that the metazoan ancestor inherited from its unicellular descendants an actin cytoskeleton and motor-proteins of the myosin superfamily. Within metazoans, these two molecules were arranged into effective contractile units, the muscles. The basic trends for muscle evolution are already expressed in the diploblastic taxa.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001245", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0198566694 Schmidt-Rhaesa A, The evolution of organ systems (2007) p.75"} property_value: UBPROP:0000007 "muscular" xsd:string [Term] id: UBERON:0001637 name: artery namespace: uberon def: "An epithelial tube or tree of tibes that transports blood away from the heart[modified from AEO definition]." [AEO:JB] subset: efo_slim subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "arterial subtree" EXACT [] synonym: "arterial system" RELATED [] synonym: "arterial tree organ part" EXACT [] synonym: "arterial vessel" RELATED [] synonym: "arteries" EXACT PLURAL [TAO:0000005] xref: AAO:0010211 xref: AEO:0000208 xref: BTO:0000573 xref: CALOHA:TS-0054 xref: EFO:0000814 xref: EHDAA2:0000143 xref: EHDAA2:0003253 xref: EMAPA:35147 xref: EV:0100026 xref: FMA:50720 xref: GAID:468 xref: galen:Artery xref: http://en.wikipedia.org/wiki/Artery xref: http://linkedlifedata.com/resource/umls/id/C0003842 xref: http://www.snomedbrowser.com/Codes/Details/362877004 xref: MA:0000064 xref: MAT:0000034 xref: MESH:D001158 xref: MIAA:0000034 xref: NCIT:C12372 xref: OpenCyc:Mx4rvVjknZwpEbGdrcN5Y29ycA xref: SCTID:362877004 xref: TAO:0000005 xref: UMLS:C0003842 {source="ncithesaurus:Artery"} xref: VHOG:0001251 xref: Wikipedia:Artery xref: XAO:0000114 xref: ZFA:0000005 is_a: UBERON:0003509 ! arterial blood vessel relationship: channels_from UBERON:0000948 ! heart property_value: editor_note "Note that in FMA an artery is a tree, whereas AEO/JB defines it as a tube; FMA includes a separate class for what it calls the trunk. Classification in this ontology may currently (Jan 2012) represent a mix of both schemes, although we are gradually revising in the direction of the AEO scheme." xsd:string property_value: UBPROP:0000001 "Part of the circulatory system composed of blood vessels which carry oxygenated blood away from the heart to the rest of the body.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0010211", ontology="AAO", source="AAO:BJB"} property_value: UBPROP:0000003 "The appearance of Chordata and subsequently the vertebrates is accompanied by a rapid structural diversification of this primitive linear heart: looping, unidirectional circulation, an enclosed vasculature, and the conduction system.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001251", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1196/annals.1341.002 Bishopric NH, Evolution of the heart from bacteria to man. Annals of the New York Academy of Sciences (2006)"} property_value: UBPROP:0000003 "The appearance of Chordata and subsequently the vertebrates is accompanied by a rapid structural diversification of this primitive linear heart: looping, unidirectional circulation, an enclosed vasculature, and the conduction system.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001251", ontology="VHOG", source="DOI:10.1196/annals.1341.002 Bishopric NH, Evolution of the heart from bacteria to man. Annals of the New York Academy of Sciences (2006)", source="http://bgee.unil.ch/"} property_value: UBPROP:0000007 "arterial" xsd:string property_value: UBPROP:0000012 "Some arthropods have primitive arterial systems but this term refers to arteries in a true closed circulatory system." xsd:string property_value: UBPROP:0000202 FMA:63812 [Term] id: UBERON:0001638 name: vein namespace: uberon def: "Any of the tubular branching vessels that carry blood from the capillaries toward the heart." [Wikipedia:Vein] def: "Any of the tubular branching vessels that carry blood from the capillaries toward the heart." [http://en.wikipedia.org/wiki/Vein] subset: efo_slim subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "vascular element" RELATED [EMAPA:th] synonym: "vena" RELATED LATIN [Wikipedia:Vein] synonym: "vena" RELATED LATIN [http://en.wikipedia.org/wiki/Vein] synonym: "venae" RELATED PLURAL [VHOG:0001743] synonym: "venous subtree" BROAD [] synonym: "venous tree organ part" EXACT [] synonym: "venous vessel" BROAD [] xref: AAO:0010212 xref: AEO:0000209 xref: BTO:0000234 xref: CALOHA:TS-1108 xref: EFO:0000816 xref: EHDAA2:0003254 xref: EMAPA:35906 xref: EV:0100031 xref: FMA:50723 xref: GAID:492 xref: galen:Vein xref: http://en.wikipedia.org/wiki/Vein xref: http://linkedlifedata.com/resource/umls/id/C0042449 xref: http://www.snomedbrowser.com/Codes/Details/181367001 xref: MA:0000067 xref: MAT:0000037 xref: MESH:D014680 xref: MIAA:0000037 xref: NCIT:C12814 xref: OpenCyc:Mx4rvVjkWpwpEbGdrcN5Y29ycA xref: SCTID:181367001 xref: TAO:0000082 xref: UMLS:C0042449 {source="ncithesaurus:Vein"} xref: VHOG:0001743 xref: Wikipedia:Vein xref: XAO:0000115 xref: ZFA:0000082 is_a: UBERON:0003920 ! venous blood vessel intersection_of: UBERON:0003920 ! venous blood vessel intersection_of: channel_for UBERON:0013756 ! venous blood relationship: channel_for UBERON:0013756 ! venous blood relationship: channels_from UBERON:0001982 ! capillary property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/c/c2/Venous_system_en.svg xsd:anyURI property_value: editor_note "TODO - check with MA - vein vs venous blood vessel" xsd:string property_value: UBPROP:0000001 "Part of the circulatory system composed of blood vessels which carry blood from other organs, tissues, and cells to the heart.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0010212", ontology="AAO", source="AAO:BJB"} property_value: UBPROP:0000003 "The appearance of Chordata and subsequently the vertebrates is accompanied by a rapid structural diversification of this primitive linear heart: looping, unidirectional circulation, an enclosed vasculature, and the conduction system.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001743", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1196/annals.1341.002 Bishopric NH, Evolution of the heart from bacteria to man. Annals of the New York Academy of Sciences (2006)"} property_value: UBPROP:0000003 "The appearance of Chordata and subsequently the vertebrates is accompanied by a rapid structural diversification of this primitive linear heart: looping, unidirectional circulation, an enclosed vasculature, and the conduction system.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001743", ontology="VHOG", source="DOI:10.1196/annals.1341.002 Bishopric NH, Evolution of the heart from bacteria to man. Annals of the New York Academy of Sciences (2006)", source="http://bgee.unil.ch/"} property_value: UBPROP:0000007 "venous" xsd:string property_value: UBPROP:0000202 FMA:63814 [Term] id: UBERON:0001645 name: trigeminal nerve namespace: uberon def: "Cranial nerve that has three branches - the ophthalmic (supplying the skin of the nose and upper jaw), the maxillary and the mandibular (supplying the lower jaw)." [ISBN:0471209627, Wikipedia:Trigeminal_nerve] subset: efo_slim subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "5n" BROAD ABBREVIATION [BIRNLEX:869, NIFSTD:NeuroNames_abbrevSource] synonym: "CN-V" RELATED [] synonym: "cranial nerve V" RELATED [] synonym: "fifth cranial nerve" EXACT [] synonym: "nerve V" RELATED [NeuroNames:549] synonym: "nervus trigeminus" EXACT LATIN [Wikipedia:Trigeminal_nerve] synonym: "nervus trigeminus" RELATED [BTO:0001072] synonym: "nervus trigeminus [v]" EXACT LATIN [FMA:50866, FMA:TA] synonym: "trigeminal nerve [V]" EXACT [] synonym: "trigeminal nerve tree" EXACT [] synonym: "trigeminal V" EXACT [EHDAA2:0002084] synonym: "trigeminal v nerve" EXACT [] synonym: "trigeminus" RELATED [BTO:0001072] xref: AAO:0010470 xref: BAMS:5n xref: BAMS:nV xref: BAMS:Vn xref: BIRNLEX:869 xref: BM:VN xref: BTO:0001072 xref: EFO:0001402 xref: EHDAA2:0002084 xref: EHDAA:3738 xref: EMAPA:17576 xref: FMA:50866 xref: GAID:726 xref: HBA:9322 xref: http://braininfo.rprc.washington.edu/centraldirectory.aspx?ID=549 {source="BIRNLEX:869"} xref: MA:0001100 xref: MBA:901 xref: MESH:D014276 xref: MFMO:0000093 xref: NCIT:C12806 xref: OpenCyc:Mx4rwMF8CJwpEbGdrcN5Y29ycA xref: SCTID:362459002 xref: TAO:0000697 xref: UMLS:C0040996 {source="BIRNLEX:869"} xref: UMLS:C0040996 {source="ncithesaurus:Trigeminal_Nerve"} xref: VHOG:0000704 xref: Wikipedia:Trigeminal_nerve xref: XAO:0003092 xref: ZFA:0000697 is_a: UBERON:0001785 ! cranial nerve intersection_of: UBERON:0001785 ! cranial nerve intersection_of: extends_fibers_into UBERON:0002925 ! trigeminal nucleus intersection_of: innervates UBERON:0000165 ! mouth intersection_of: innervates UBERON:0011648 ! jaw muscle intersection_of: innervates UBERON:1000021 ! skin of face relationship: extends_fibers_into UBERON:0002925 ! trigeminal nucleus relationship: has_developmental_contribution_from UBERON:0005239 {source="Wikipedia"} ! basal plate metencephalon relationship: innervates UBERON:0000165 ! mouth relationship: innervates UBERON:0011648 ! jaw muscle relationship: innervates UBERON:1000021 ! skin of face property_value: depicted:by Gray778:Trigeminal.png xsd:anyURI property_value: UBPROP:0000001 "Nerve consists of motor and sensory components. Ganglion cells of the sensory component form the proximal part of the trigeminal (Gasserian) ganglion. From the ganglion 3 major rami innervate jaws, snout, and buccal roof.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0010470", ontology="AAO", source="AAO:EJS"} property_value: UBPROP:0000003 "We conclude this section by listing some of the many synapomorphies of craniates, including (...) (5) cranial nerves (...) (reference 1); Phylogenetically, the cranial nerves are thought to have evolved from dorsal and ventral nerves of a few anterior spinal nerves that became incorporated into the braincase. Dorsal and ventral nerves fuse in the trunk but not in the head, and they produce two series: dorsal cranial nerves (V, VII, IX, and X) and ventral cranial nerves (III, IV, VI, and XIII) (reference 2).[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000704", ontology="VHOG", source="ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.43, ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.625", source="http://bgee.unil.ch/"} property_value: UBPROP:0000008 "the ophthalmic usually usually merges with the other two. In some vertebrates, the ophthalmic emerges from the brain separately[Kardong] The trigeminal nerve has 3 branches in mammals - similar branches are present in nonmammalian vertebrates, but in some a separate profundus nerve that corresponds to opthalmic branch in mammls" xsd:string {source="ISBN:0471888893"} [Term] id: UBERON:0001651 name: right pulmonary artery namespace: uberon def: "The pulmonary artery that supplies the right lung." [UBERON:cjm] subset: uberon_slim synonym: "arteria pulmonalis dextra" RELATED LATIN [http://en.wikipedia.org/wiki/Right_pulmonary_artery] synonym: "arteria pulmonalis dextra" RELATED LATIN [Wikipedia:Right_pulmonary_artery] synonym: "right main pulmonary artery" EXACT [] synonym: "right pulmonary arterial tree" EXACT [] xref: EMAPA:37378 {source="MA:th"} xref: FMA:50872 xref: galen:RightPulmonaryArtery xref: http://en.wikipedia.org/wiki/Right_pulmonary_artery xref: http://linkedlifedata.com/resource/umls/id/C0923924 xref: http://www.snomedbrowser.com/Codes/Details/244235003 xref: MA:0002500 xref: NCIT:C33489 xref: SCTID:244235003 xref: UMLS:C0923924 {source="ncithesaurus:Right_Pulmonary_Artery"} xref: Wikipedia:Right_pulmonary_artery is_a: UBERON:0001637 ! artery intersection_of: UBERON:0001637 ! artery intersection_of: supplies UBERON:0002167 ! right lung relationship: connected_to UBERON:0002333 {subset="human_reference_atlas"} ! pulmonary trunk relationship: part_of RO:0002577 ! system relationship: supplies UBERON:0002167 ! right lung property_value: depicted:by Alveoli:diagram.png xsd:anyURI property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/f/f6/Gray504.png xsd:anyURI property_value: depicted:by https://upload.wikimedia.org/wikipedia/commons/d/db/Alveoli_diagram.png xsd:anyURI property_value: editor_note "TODO - add class 'pulmonary artery tree organ'" xsd:string [Term] id: UBERON:0001652 name: left pulmonary artery namespace: uberon def: "The pulmonary artery that supplies the left lung." [UBERON:cjm] subset: uberon_slim synonym: "arteria pulmonalis sinistra" RELATED LATIN [http://en.wikipedia.org/wiki/Left_pulmonary_artery] synonym: "arteria pulmonalis sinistra" RELATED LATIN [Wikipedia:Left_pulmonary_artery] synonym: "left main pulmonary artery" EXACT [] synonym: "left pulmonary arterial tree" EXACT [] xref: EMAPA:37097 {source="MA:th"} xref: FMA:50873 xref: galen:LeftPulmonaryArtery xref: http://en.wikipedia.org/wiki/Left_pulmonary_artery xref: http://linkedlifedata.com/resource/umls/id/C0923925 xref: http://www.snomedbrowser.com/Codes/Details/244234004 xref: MA:0002032 xref: NCIT:C32971 xref: SCTID:244234004 xref: UMLS:C0923925 {source="ncithesaurus:Left_Pulmonary_Artery"} xref: Wikipedia:Left_pulmonary_artery is_a: UBERON:0001637 ! artery intersection_of: UBERON:0001637 ! artery intersection_of: supplies UBERON:0002168 ! left lung relationship: connected_to UBERON:0002333 {subset="human_reference_atlas"} ! pulmonary trunk relationship: part_of RO:0002577 ! system relationship: supplies UBERON:0002168 ! left lung property_value: depicted:by Alveoli:diagram.png xsd:anyURI property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/f/f6/Gray504.png xsd:anyURI property_value: depicted:by https://upload.wikimedia.org/wikipedia/commons/d/db/Alveoli_diagram.png xsd:anyURI property_value: editor_note "TODO - add class 'pulmonary artery tree organ'" xsd:string [Term] id: UBERON:0001653 name: facial vein namespace: uberon def: "The anterior facial vein (facial vein) commences at the side of the root of the nose, and is a direct continuation of the angular vein where it also receives a small nasal branch. It lies behind the facial artery and follows a less tortuous course. It receives blood from the external palatine vein before it either joins the anterior branch of the retromandibular vein to form the common facial vein, or drains directly into the internal jugular vein. [WP,unvetted]." [http://en.wikipedia.org/wiki/Facial_vein] def: "The anterior facial vein (facial vein) commences at the side of the root of the nose, and is a direct continuation of the angular vein where it also receives a small nasal branch. It lies behind the facial artery and follows a less tortuous course. It receives blood from the external palatine vein before it either joins the anterior branch of the retromandibular vein to form the common facial vein, or drains directly into the internal jugular vein. [WP,unvetted]." [Wikipedia:Facial_vein] subset: uberon_slim synonym: "anterior facial vein" RELATED INCONSISTENT [Wikipedia:Facial_vein] synonym: "anterior facial vein" RELATED INCONSISTENT [http://en.wikipedia.org/wiki/Facial_vein] synonym: "face vein" EXACT [OBOL:automatic] synonym: "vein of face" EXACT [OBOL:automatic] synonym: "vena facialis anterior" RELATED LATIN [http://en.wikipedia.org/wiki/Facial_vein] synonym: "vena facialis anterior" RELATED LATIN [Wikipedia:Facial_vein] xref: AAO:0010513 xref: EMAPA:19220 xref: Facial:vein xref: FMA:50874 xref: http://linkedlifedata.com/resource/umls/id/C0226532 xref: http://www.snomedbrowser.com/Codes/Details/181374006 xref: MA:0002115 xref: NCIT:C32579 xref: OpenCyc:Mx4rvziz3JwpEbGdrcN5Y29ycA xref: SCTID:181374006 xref: UMLS:C0226532 {source="ncithesaurus:Facial_Vein"} xref: Wikipedia:Facial_vein is_a: UBERON:0003496 ! head blood vessel is_a: UBERON:0003502 ! neck blood vessel is_a: UBERON:0009141 ! craniocervical region vein relationship: part_of UBERON:0001456 ! face relationship: part_of UBERON:0001586 ! internal jugular vein relationship: tributary_of UBERON:0001586 {source="FMA"} ! internal jugular vein property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/8/8c/Gray557.png xsd:anyURI property_value: UBPROP:0000001 "Vein which collects blood from muscles of the head and drains into the external jugular vein.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0010513", ontology="AAO", source="AAO:BJB"} property_value: UBPROP:0000012 "MA and NCITA also has 'anterior facial vein'" xsd:string {external_ontology="MA"} [Term] id: UBERON:0001675 name: trigeminal ganglion namespace: uberon def: "The cranial ganglion that is associated with and extends fibers into the trigeminal nerve." [http://orcid.org/0000-0002-6601-2165, http://www.ncbi.nlm.nih.gov/books/NBK53171, https://github.com/obophenotype/uberon/issues/693] subset: efo_slim subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "5th ganglion" EXACT [ZFA:0000295] synonym: "fifth ganglion" EXACT [ZFA:0000295] synonym: "fused trigeminal ganglion" NARROW SENSU [NCBITaxon:32524] synonym: "ganglion of trigeminal complex" EXACT [http://orcid.org/0000-0002-6601-2165] synonym: "ganglion of trigeminal nerve" RELATED [BTO:0001231] synonym: "ganglion semilunare" RELATED LATIN [Wikipedia:Trigeminal_ganglion] synonym: "ganglion trigeminale" RELATED LATIN [Wikipedia:Trigeminal_ganglion] synonym: "ganglion trigeminale" RELATED [BTO:0001231] synonym: "Gasser's ganglion" RELATED [BTO:0001231] synonym: "Gasserian ganglia" RELATED PLURAL [Wikipedia:Trigeminal_ganglion] synonym: "Gasserian ganglion" EXACT [Wikipedia:Trigeminal_ganglion] synonym: "gV" RELATED [] synonym: "semilunar ganglion" EXACT [ISBN:0471888893] synonym: "trigeminal ganglia" RELATED PLURAL [] synonym: "trigeminal V ganglion" EXACT [MA:0001080] synonym: "trigeminus ganglion" RELATED [] xref: AAO:0011107 xref: BAMS:5Gn xref: BAMS:GV xref: BTO:0001231 xref: EFO:0000903 xref: EHDAA2:0002085 xref: EHDAA:2113 xref: EMAPA:16797 xref: FMA:52618 xref: GAID:725 xref: http://braininfo.rprc.washington.edu/centraldirectory.aspx?ID=1402 xref: MA:0001080 xref: MAT:0000511 xref: MESH:D012668 xref: NCIT:C62642 xref: SCTID:244449009 xref: TAO:0000295 xref: UMLS:C0040995 {source="ncithesaurus:Trigeminal_Ganglion"} xref: VHOG:0000694 xref: Wikipedia:Trigeminal_ganglion xref: XAO:0000427 xref: XAO:0000428 xref: ZFA:0000295 is_a: UBERON:0001714 ! cranial ganglion is_a: UBERON:0001800 {source="ncithesaurus"} ! sensory ganglion is_a: UBERON:0010313 ! neural crest-derived structure intersection_of: UBERON:0001714 ! cranial ganglion intersection_of: extends_fibers_into UBERON:0001645 ! trigeminal nerve relationship: extends_fibers_into UBERON:0001645 ! trigeminal nerve relationship: immediate_transformation_of UBERON:0006304 {source="Bgee:AN"} ! future trigeminal ganglion property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/6/69/Gray776.png xsd:anyURI property_value: editor_note "consider renaming this 'trigeminal ganglion complex'. The complex may be fused (amniotes) partially fused (xenopus) or separate (sharks)" xsd:string property_value: UBPROP:0000001 "A prominent collection of touch-sensory neurons of the trigeminal or fifth cranial nerve, positioned beside the brain between the eye and the ear. Kimmel et al, 1995.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0000295", ontology="TAO", source="ZFIN:curator"} property_value: UBPROP:0000008 "In Xenopus, the profundal and the trigeminal ganglia are separate distally but fused at their proximal end as they condense around NF stage 24." xsd:string {source="PMID:21452441", source="XAO:0004093"} [Term] id: UBERON:0001676 name: occipital bone namespace: uberon def: "The bone at the lower, posterior part of the skull." [ISBN:0-683-40008-8, MP:0005269] subset: pheno_slim subset: uberon_slim synonym: "occipital complex" RELATED [http://palaeos.com/vertebrates/bones/braincase/occiput.html] synonym: "occipital squama" RELATED [] synonym: "os occipitale" RELATED LATIN [Wikipedia:Occipital_bone] synonym: "os occipitale" RELATED LATIN [http://en.wikipedia.org/wiki/Occipital_bone] xref: EMAPA:25112 xref: FMA:52735 xref: GAID:227 xref: http://linkedlifedata.com/resource/umls/id/C0028784 xref: http://www.snomedbrowser.com/Codes/Details/181796003 xref: MA:0001468 xref: MESH:D009777 xref: NCIT:C12757 xref: Occipital:bone xref: OpenCyc:Mx4rwQtsiZwpEbGdrcN5Y29ycA xref: SCTID:181796003 xref: UMLS:C0028784 {source="ncithesaurus:Occipital_Bone"} xref: Wikipedia:Occipital_bone is_a: UBERON:0010428 {source="FMA"} ! flat bone is_a: UBERON:0011164 ! neurocranium bone relationship: develops_from UBERON:0003089 {source="PMID:11523816"} ! sclerotome relationship: develops_from UBERON:0003089 {source="http://www.ncbi.nlm.nih.gov/pubmed/11523816"} ! sclerotome relationship: only_in_taxon NCBITaxon:117570 {source="WP"} ! Teleostomi relationship: overlaps UBERON:0002241 {notes="basi paired exo and supra occipital bones", source="MA-modified"} ! chondrocranium relationship: overlaps UBERON:0003113 {notes="interparietal (postparietal)"} ! dermatocranium relationship: part_of UBERON:0005902 {source="FMA"} ! occipital region relationship: surrounds UBERON:0003687 ! foramen magnum property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/2/27/Gray194.png xsd:anyURI property_value: UBPROP:0000008 "formed from the sclerotome of the occipital somites. It is not present in living or fossil agnathans or cartilaginous fishes, but appears to have arisen in parallel in many bony fishes. Incorporation of the occipital ver- tebrae into the skull was associated with the annexation of the upper part of the spinal cord into the brain, together with the first 2 spinal nerves as cranial nerves XI and XII" xsd:string {source="PMID:11523816"} property_value: UBPROP:0000008 "formed from the sclerotome of the occipital somites. It is not present in living or fossil agnathans or cartilaginous fishes, but appears to have arisen in parallel in many bony fishes. Incorporation of the occipital ver- tebrae into the skull was associated with the annexation of the upper part of the spinal cord into the brain, together with the first 2 spinal nerves as cranial nerves XI and XII" xsd:string {source="http://www.ncbi.nlm.nih.gov/pubmed/11523816"} property_value: UBPROP:0000008 "fusion of basi-, exo- and supra-occipitals (and maybe tabular)" xsd:string {source="Kardong"} [Term] id: UBERON:0001703 name: neurocranium namespace: uberon def: "Subdivision of skeletal system that surrounds and protects the brain. Includes the skull base, sensory capsules and the central part of the skull roof." [PMID:11523816, TAO:MAH, Wikipedia:Neuroranium, ZFA:0001580] def: "Subdivision of skeletal system that surrounds and protects the brain. Includes the skull base, sensory capsules and the central part of the skull roof." [http://en.wikipedia.org/wiki/Neuroranium, http://www.ncbi.nlm.nih.gov/pubmed/11523816, TAO:MAH, ZFA:0001580] subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "brain box" EXACT [] synonym: "brain case" RELATED [ZFA:0001580] synonym: "brain pan" RELATED [http://www.thefreedictionary.com/braincase] synonym: "braincase" RELATED [ZFA:0001580] xref: AAO:0010153 xref: EHDAA2:0000243 xref: EMAPA:17681 xref: FMA:53672 xref: http://en.wikipedia.org/wiki/Neuroranium xref: http://www.snomedbrowser.com/Codes/Details/361731002 xref: MA:0000317 xref: SCTID:361731002 xref: TAO:0001580 xref: Wikipedia:Neuroranium xref: XAO:0003170 xref: ZFA:0001580 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0011158 {source="FMA"} ! primary subdivision of skull relationship: develops_from UBERON:0004761 ! cartilaginous neurocranium relationship: location_of UBERON:0000955 ! brain relationship: part_of UBERON:0003128 ! cranium relationship: protects UBERON:0000955 ! brain property_value: UBPROP:0000001 "Anatomical cluster that consists of the cartilages and bones that surround the brain.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0001580", ontology="TAO", source="TAO:MAH"} property_value: UBPROP:0000007 "neurocranial" xsd:string property_value: UBPROP:0000010 "It includes the following bones: Ethmoid bone, Frontal bone, Occipital bone, Parietal bone, Sphenoid bone, Temporal bone. The term cranium can be ambiguous, in that it can refer to the neurocranium, or the neurocranium and the Facial skeleton" xsd:string property_value: UBPROP:0000011 "The cartilaginous parts of the neurocranium undergo endochondral ossification in most species; ossification has been lost in cartilaginous fishes, but the cartilaginous condition of the skull of lampreys is considered to be primitive (Kardong, 1995)[PMID:11523816]. The neurocranium arises from paraxial mesoderm in the head (first five somites and the unsegmented somitomeres rostral to the first somite) and from ectoderm via the neural crest. In Chondrichthyes and other cartilaginous vertebrates this portion of the cranium does not ossify; it is not replaced via endochondral ossification[WP]." xsd:string {source="WP"} property_value: UBPROP:0000012 "It seems MA uses 'neurocranium' as a synonym for chondrocranium. Note there are currently some structures part of both viscero and neurocranium - ethmoid, zyogomatic, ..." xsd:string {external_ontology="MA"} [Term] id: UBERON:0001708 name: jaw skeleton namespace: uberon def: "Subdivision of skeleton which includes upper and lower jaw skeletons." [http://en.wikipedia.org/wiki/Jaw, https://orcid.org/0000-0002-6601-2165] def: "Subdivision of skeleton which includes upper and lower jaw skeletons." [https://orcid.org/0000-0002-6601-2165, Wikipedia:Jaw] subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "anterior splanchnocranium" RELATED [] synonym: "jaw" EXACT [MA:0001905] synonym: "jaw cartilage" EXACT [ZFA:0001227] synonym: "jaws" RELATED [] synonym: "mandibular arch" RELATED [TAO:0001227] synonym: "mandibular arch skeleton" EXACT [ZFA:0001227] synonym: "oral jaw skeleton" RELATED [] synonym: "pharyngeal arch 1 skeleton" RELATED [] synonym: "visceral arch 1" RELATED [] xref: AAO:0000988 xref: BTO:0001749 xref: EMAPA:35455 xref: FMA:54396 xref: GAID:214 xref: galen:Jaw xref: http://en.wikipedia.org/wiki/Jaw xref: http://linkedlifedata.com/resource/umls/id/C0022359 xref: http://www.snomedbrowser.com/Codes/Details/181811001 xref: MA:0001905 xref: MESH:D007568 xref: NCIT:C48821 xref: OpenCyc:Mx4rvVjjEZwpEbGdrcN5Y29ycA xref: SCTID:181811001 xref: TAO:0001227 xref: UMLS:C0022359 {source="ncithesaurus:Jaw"} xref: Wikipedia:Jaw xref: ZFA:0001227 is_a: CARO:0000003 ! connected anatomical structure is_a: UBERON:0010313 ! neural crest-derived structure is_a: UBERON:0010912 ! subdivision of skeleton intersection_of: UBERON:0010912 ! subdivision of skeleton intersection_of: skeleton_of UBERON:0011595 ! jaw region relationship: capable_of NBO:0000073 ! chewing relationship: only_in_taxon NCBITaxon:7776 ! Gnathostomata relationship: overlaps UBERON:0008895 ! splanchnocranium relationship: part_of UBERON:0011156 {source="cjm"} ! facial skeleton relationship: part_of UBERON:0011595 ! jaw region relationship: skeleton_of UBERON:0011595 ! jaw region property_value: editor_note "TODO - move ZFA:0001227 (it is the entire jaw skeleton)." xsd:string property_value: UBPROP:0000001 "Skeletal and cartilage elements of the first pharyngeal arch.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0001227", ontology="TAO", source="ZFIN:curator"} property_value: UBPROP:0000011 "There are cellular contributions from all three embryonic germ layers: pharyngeal mesoderm, endoderm and neural crest that migrates out of the ectoderm (Noden, 1983)." xsd:string property_value: UBPROP:0000012 "in FMA, the jaw is an organism subdivision cluster, and includes mucosal tissue such as the gingiva as parts. It appears to be skeletal in MA (and has teeth as parts). It is reasonable to assume that ZFA and XAO consider the upper and lower jaws to be skeletal elements or clusters. EHDAA2 also considers these clusters. TODO - follow EHDAA2 model. These arbitrary differences in terminology and classification have to be reconciled with the genuine well-known biological differences in the skeletal elements across vertebrates" xsd:string {external_ontology="FMA"} [Term] id: UBERON:0001710 name: lower jaw region namespace: uberon def: "Subdivision of head that consists of the lower jaw skeletal elements plus associated soft tissue (skin, lips, muscle)[cjm]." [Wikipedia:Lower_jaw] def: "Subdivision of head that consists of the lower jaw skeletal elements plus associated soft tissue (skin, lips, muscle)[cjm]." [http://en.wikipedia.org/wiki/Lower_jaw] comment: See notes for jaw w.r.t skeletal element vs subdivision of head subset: efo_slim subset: uberon_slim subset: vertebrate_core synonym: "lower part of mouth" RELATED [] synonym: "mandibular part of mouth" EXACT [FMA:59398] synonym: "mandibular series" RELATED [] xref: AAO:0000272 xref: EFO:0003660 xref: EHDAA2:0001018 xref: EHDAA:7995 xref: EMAPA:17906 xref: FMA:59398 xref: http://www.snomedbrowser.com/Codes/Details/362637005 xref: Lower:jaw xref: MESH:D008334 xref: ncithesaurus:Lower_Jaw xref: SCTID:362637005 xref: VHOG:0000453 xref: Wikipedia:Lower_jaw is_a: CARO:0000003 ! connected anatomical structure is_a: UBERON:0000475 ! organism subdivision is_a: UBERON:0010314 ! structure with developmental contribution from neural crest intersection_of: UBERON:0000475 ! organism subdivision intersection_of: has_skeleton UBERON:0003278 ! skeleton of lower jaw relationship: develops_from UBERON:0005867 {source="Wikipedia:Mandibular_prominence"} ! mandibular prominence relationship: develops_from UBERON:0005867 {source="Mandibular:prominence"} ! mandibular prominence relationship: has_part UBERON:0003278 ! skeleton of lower jaw relationship: has_skeleton UBERON:0003278 ! skeleton of lower jaw relationship: part_of UBERON:0011595 ! jaw region property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/6/64/Gray176.png xsd:anyURI property_value: RO:0002171 UBERON:0001709 property_value: UBPROP:0000001 "Inferior mandibular arch located on the anterior and lateral sides of the skull.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0000272", ontology="AAO", source="AAO:LAP"} property_value: UBPROP:0000003 "Subsequent vertebrate evolution has also involved major alterations to the pharynx; perhaps the most notable occurred with the evolution of the gnathostomes. This involved substantial modifications to the most anterior pharyngeal segments, with the jaw forming from the first, anterior, pharyngeal segment, while the second formed its supporting apparatus, the hyoid.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000453", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1046/j.1469-7580.2001.19910133.x Graham A. The development and evolution of the pharyngeal arches. J Anat (2001)"} property_value: UBPROP:0000003 "Subsequent vertebrate evolution has also involved major alterations to the pharynx; perhaps the most notable occurred with the evolution of the gnathostomes. This involved substantial modifications to the most anterior pharyngeal segments, with the jaw forming from the first, anterior, pharyngeal segment, while the second formed its supporting apparatus, the hyoid.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000453", ontology="VHOG", source="DOI:10.1046/j.1469-7580.2001.19910133.x Graham A. The development and evolution of the pharyngeal arches. J Anat (2001)", source="http://bgee.unil.ch/"} property_value: UBPROP:0000012 "Note isa/partof difference MA/FMA" xsd:string {external_ontology="MA"} [Term] id: UBERON:0001714 name: cranial ganglion namespace: uberon alt_id: UBERON:0003213 alt_id: UBERON:0026601 def: "The groups of nerve cell bodies associated with the twelve cranial nerves." [ISBN:0-683-40008-8, MGI:csmith, MP:0001081, PMID:9362461] subset: efo_slim subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "cranial ganglia" RELATED [] synonym: "cranial ganglion" EXACT [] synonym: "cranial ganglion part of peripheral nervous system" EXACT [BIRNLEX:2597] synonym: "cranial ganglion/nerve" EXACT [] synonym: "cranial nerve ganglion" EXACT [] synonym: "cranial neural ganglion" EXACT [] synonym: "cranial neural tree organ ganglion" EXACT [OBOL:automatic] synonym: "ganglion of cranial nerve" EXACT [FMA:54502] synonym: "ganglion of cranial neural tree organ" EXACT [OBOL:automatic] synonym: "head ganglion" RELATED [] synonym: "presumptive cranial ganglia" RELATED [ZFA:0000013] xref: BIRNLEX:2597 xref: BTO:0000106 xref: EFO:0000902 xref: EMAPA:16659 xref: FMA:54502 xref: MA:0000213 xref: MA:0000214 xref: MAT:0000200 xref: MIAA:0000200 xref: SCTID:244448001 xref: TAO:0000013 xref: VHOG:0000076 xref: Wikipedia:Cranial_nerve_ganglion xref: XAO:0000027 xref: ZFA:0000013 is_a: UBERON:0000045 ! ganglion intersection_of: UBERON:0000045 ! ganglion intersection_of: extends_fibers_into UBERON:0034713 ! cranial neuron projection bundle relationship: extends_fibers_into UBERON:0034713 ! cranial neuron projection bundle relationship: part_of UBERON:0000033 ! head property_value: UBPROP:0000001 "Ganglion which is located in the head.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0000013", ontology="TAO", source="ZFIN:curator"} [Term] id: UBERON:0001731 name: cavity of pharynx namespace: uberon def: "A anatomical space that is enclosed by a pharynx." [OBOL:automatic] def: "An anatomical space that is enclosed by a pharynx." [OBOL:automatic] synonym: "cavitas pharyngealis" RELATED LATIN [] synonym: "cavitas pharyngis" RELATED [BTO:0002097] synonym: "lumen of pharynx" EXACT [] synonym: "pharyngeal cavity" EXACT [] xref: AAO:0010435 xref: BSA:0000113 xref: BTO:0002097 xref: EMAPA:18381 xref: FMA:54935 xref: http://www.snomedbrowser.com/Codes/Details/180543003 xref: SCTID:180543003 xref: XAO:0000105 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000464 ! anatomical space intersection_of: UBERON:0000464 ! anatomical space intersection_of: luminal_space_of UBERON:0006562 ! pharynx relationship: develops_from UBERON:0001041 {source="XAO"} ! foregut relationship: luminal_space_of UBERON:0006562 ! pharynx relationship: part_of UBERON:0006562 ! pharynx property_value: UBPROP:0000008 "See notes for pharynx - as a grouping class this is probably too bad. We exclude WBbt:0005790 (pharyngeal lumen) because of the developmental relationship" xsd:string property_value: UBPROP:0000011 "TOODO check" xsd:string [Term] id: UBERON:0001766 name: anterior chamber of eyeball namespace: uberon def: "the space in the eye, filled with aqueous humor, and bounded anteriorly by the cornea and a small portion of the sclera and posteriorly by a small portion of the ciliary body, the iris, and part of the crystalline lens" [MESH:A09.371.060.067, MP:0005205] def: "The space in the eye, filled with aqueous humor, and bounded anteriorly by the cornea and a small portion of the sclera and posteriorly by a small portion of the ciliary body, the iris, and part of the crystalline lens." [MESH:A09.371.060.067, MP:0005205] subset: pheno_slim synonym: "anterior chamber" EXACT [HP:0000593, MP:0010709] synonym: "anterior chamber of eye" EXACT [] synonym: "camera anterior" EXACT [] synonym: "camera anterior bulbi" RELATED [BTO:0002084] synonym: "camera anterior bulbi oculi" RELATED LATIN [Wikipedia:Anterior_chamber_of_eyeball] synonym: "camera anterior bulbi oculi" RELATED LATIN [http://en.wikipedia.org/wiki/Anterior_chamber_of_eyeball] synonym: "camera oculi anterior" RELATED [BTO:0002084] synonym: "eye anterior chamber" EXACT [] xref: BTO:0002084 xref: EHDAA2:0000129 xref: EHDAA:9033 xref: EMAPA:18231 xref: FMA:58078 xref: GAID:889 xref: http://en.wikipedia.org/wiki/Anterior_chamber_of_eyeball xref: http://linkedlifedata.com/resource/umls/id/C0003151 xref: http://www.snomedbrowser.com/Codes/Details/181160009 xref: MA:0000262 xref: MESH:D000867 xref: NCIT:C12667 xref: SCTID:181160009 xref: UMLS:C0003151 {source="ncithesaurus:Anterior_Chamber_of_the_Eye"} xref: VHOG:0001431 xref: Wikipedia:Anterior_chamber_of_eyeball is_a: UBERON:0006311 {source="FMA"} ! chamber of eyeball relationship: contributes_to_morphology_of UBERON:0001801 ! anterior segment of eyeball relationship: part_of UBERON:0001801 ! anterior segment of eyeball property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/1/1e/Schematic_diagram_of_the_human_eye_en.svg xsd:anyURI property_value: UBPROP:0000001 "The part of the eyeball between the cornea and the iris, filled with aqueous humor. [TFD][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001431", ontology="VHOG", source="http://bgee.unil.ch/", source="http://medical-dictionary.thefreedictionary.com/anterior+chamber"} property_value: UBPROP:0000001 "The part of the eyeball between the cornea and the iris, filled with aqueous humor. [TFD][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001431", ontology="VHOG", source="http://bgee.unil.ch/", source="http://medical-dictionary.thefreedictionary.com/anterior+chamber"} property_value: UBPROP:0000012 "space in EHDAA2 - consider adding Cavity of anterior chamber of eyeball" xsd:string {external_ontology="EHDAA2"} [Term] id: UBERON:0001768 name: uvea namespace: uberon def: "The pigmented middle of the three concentric layers that make up an eye, consisting of the iris, ciliary body and choroid[WP,edited]." [MP:0005197, Wikipedia:Uvea] def: "The pigmented middle of the three concentric layers that make up an eye, consisting of the iris, ciliary body and choroid[WP,edited]." [http://en.wikipedia.org/wiki/Uvea, MP:0005197] def: "the pigmented middle of the three concentric layers that make up an eye, consisting of the iris, ciliary body and choroid[WP,edited]." [http://en.wikipedia.org/wiki/Uvea, MP:0005197] subset: pheno_slim subset: uberon_slim synonym: "pars iridica retinae" RELATED [http://en.wikipedia.org/wiki/Uvea] synonym: "pars iridica retinae" RELATED [Wikipedia:Uvea] synonym: "tunica vasculatis oculi" RELATED [http://en.wikipedia.org/wiki/Uvea] synonym: "tunica vasculatis oculi" RELATED [Wikipedia:Uvea] synonym: "tunica vasculosa bulbi" RELATED LATIN [http://en.wikipedia.org/wiki/Uvea] synonym: "tunica vasculosa bulbi" RELATED LATIN [Wikipedia:Uvea] synonym: "tunica vasculosa of eyeball" EXACT [FMA:58103] synonym: "uvea" EXACT [FMA:58103] synonym: "uveal tract" EXACT [FMA:58103] synonym: "vascular layer of eyeball" RELATED [FMA:58103] xref: CALOHA:TS-2228 xref: EMAPA:35901 xref: FMA:58103 xref: GAID:912 xref: http://en.wikipedia.org/wiki/Uvea xref: http://linkedlifedata.com/resource/umls/id/C0042160 xref: http://www.snomedbrowser.com/Codes/Details/280648000 xref: MA:0002480 xref: MESH:D014602 xref: NCIT:C12811 xref: SCTID:280648000 xref: UMLS:C0042160 {source="ncithesaurus:Uvea"} xref: Wikipedia:Uvea is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0004923 {source="FMA"} ! organ component layer is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: contributes_to_morphology_of UBERON:0000019 ! camera-type eye relationship: has_part UBERON:0001769 ! iris relationship: has_part UBERON:0001775 ! ciliary body relationship: has_part UBERON:0001776 ! optic choroid relationship: part_of UBERON:0001801 ! anterior segment of eyeball property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/e/eb/Gray869.png xsd:anyURI property_value: editor_note "TODO - check child terms, isa vs partof. See also MA:0001284 ! tunica vasculosa plexus" xsd:string property_value: RO:0002175 NCBITaxon:7955 {source="DOI:10.1177/0192623311409597"} property_value: RO:0002175 NCBITaxon:7955 {source="https://doi.org/10.1177/0192623311409597"} property_value: UBPROP:0000007 "uveal" xsd:string [Term] id: UBERON:0001769 name: iris namespace: uberon def: "the adjustable membrane, composed of the stroma and pigmented epithelium, located just in front of the crystalline lens within the eye" [ISBN:0-683-40008-8, MP:0001322] def: "The adjustable membrane, composed of the stroma and pigmented epithelium, located just in front of the crystalline lens within the eye." [ISBN:0-683-40008-8, MP:0001322] subset: efo_slim subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "anterior uvea" RELATED [] synonym: "irides" RELATED PLURAL [] synonym: "irises" RELATED PLURAL [VHOG:0000101] xref: AAO:0010347 xref: BTO:0000653 xref: CALOHA:TS-0491 xref: EFO:0004245 xref: EMAPA:19154 xref: EV:0100345 xref: FMA:58235 xref: GAID:917 xref: http://linkedlifedata.com/resource/umls/id/C0022077 xref: http://www.snomedbrowser.com/Codes/Details/181164000 xref: Iris:(anatomy) xref: MA:0000273 xref: MESH:D007498 xref: NCIT:C12737 xref: OpenCyc:Mx4rvVjbppwpEbGdrcN5Y29ycA xref: SCTID:181164000 xref: TAO:0001238 xref: UMLS:C0022077 {source="ncithesaurus:Iris"} xref: VHOG:0000101 xref: Wikipedia:Iris_(anatomy) xref: XAO:0000185 xref: ZFA:0001238 is_a: UBERON:0000481 ! multi-tissue structure is_a: UBERON:0004121 ! ectoderm-derived structure relationship: contributes_to_morphology_of UBERON:0011892 ! anterior uvea relationship: develops_from UBERON:0004128 {source="XAO"} ! optic vesicle relationship: part_of UBERON:0011892 ! anterior uvea property_value: UBPROP:0000001 "The opaque muscular contractile diaphragm suspended in the aqueous humour in front of the lens of the eye. The organ is perforated by the pupil and continues peripherally with the ciliary body. [Dorian_AF, Elsevier's_encyclopaedic_dictionary_of_medicine, Part_B:_Anatomy_(1988)_Amsterdam_etc.:_Elsevier][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000101", ontology="VHOG", source="http://bgee.unil.ch/"} property_value: UBPROP:0000001 "The opaque muscular contractile diaphragm suspended in the aqueous humour in front of the lens of the eye. The organ is perforated by the pupil and continues peripherally with the ciliary body. [Dorian_AF, Elsevier's_encyclopaedic_dictionary_of_medicine, Part_B:_Anatomy_(1988)_Amsterdam_etc.:_Elsevier][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000101", ontology="VHOG", source="http://bgee.unil.ch/"} property_value: UBPROP:0000003 "The eye of the adult lamprey is remarkably similar to our own, and it possesses numerous features (including the expression of opsin genes) that are very similar to those of the eyes of jawed vertebrates. The lamprey's camera-like eye has a lens, an iris and extra-ocular muscles (five of them, unlike the eyes of jawed vertebrates, which have six), although it lacks intra-ocular muscles. Its retina also has a structure very similar to that of the retinas of other vertebrates, with three nuclear layers comprised of the cell bodies of photoreceptors and bipolar, horizontal, amacrine and ganglion cells. The southern hemisphere lamprey, Geotria australis, possesses five morphological classes of retinal photoreceptor and five classes of opsin, each of which is closely related to the opsins of jawed vertebrates. Given these similarities, we reach the inescapable conclusion that the last common ancestor of jawless and jawed vertebrates already possessed an eye that was comparable to that of extant lampreys and gnathostomes. Accordingly, a vertebrate camera-like eye must have been present by the time that lampreys and gnathostomes diverged, around 500 Mya.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000101", ontology="VHOG", source="DOI:10.1038/nrn2283 Lamb TD, Collin SP and Pugh EN Jr, Evolution of the vertebrate eye: opsins, photoreceptors, retina and eye cup. Nature Reviews Neuroscience (2007)", source="http://bgee.unil.ch/"} property_value: UBPROP:0000003 "The eye of the adult lamprey is remarkably similar to our own, and it possesses numerous features (including the expression of opsin genes) that are very similar to those of the eyes of jawed vertebrates. The lamprey's camera-like eye has a lens, an iris and extra-ocular muscles (five of them, unlike the eyes of jawed vertebrates, which have six), although it lacks intra-ocular muscles. Its retina also has a structure very similar to that of the retinas of other vertebrates, with three nuclear layers comprised of the cell bodies of photoreceptors and bipolar, horizontal, amacrine and ganglion cells. The southern hemisphere lamprey, Geotria australis, possesses five morphological classes of retinal photoreceptor and five classes of opsin, each of which is closely related to the opsins of jawed vertebrates. Given these similarities, we reach the inescapable conclusion that the last common ancestor of jawless and jawed vertebrates already possessed an eye that was comparable to that of extant lampreys and gnathostomes. Accordingly, a vertebrate camera-like eye must have been present by the time that lampreys and gnathostomes diverged, around 500 Mya.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000101", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1038/nrn2283 Lamb TD, Collin SP and Pugh EN Jr, Evolution of the vertebrate eye: opsins, photoreceptors, retina and eye cup. Nature Reviews Neuroscience (2007)"} property_value: UBPROP:0000007 "iridial" xsd:string property_value: UBPROP:0000008 "The avian iris and ciliary body undergoes a transition from smooth-to-striated muscle during embryonic development [DOI:dx.doi.org/10.1006/dbio.1998.9019]" xsd:string [Term] id: UBERON:0001772 name: corneal epithelium namespace: uberon def: "the smooth stratified squamous epithelium that covers the outer surface of the cornea" [MESH:A09.371.060.217.325, MGI:smb, MP:0006000] def: "The smooth stratified squamous epithelium that covers the outer surface of the cornea." [MESH:A09.371.060.217.325, MGI:smb, MP:0006000] subset: efo_slim subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "anterior corneal epithelium" EXACT [] synonym: "anterior endothelium of cornea" RELATED [BTO:0000287] synonym: "cornea epithelial tissue" EXACT [OBOL:automatic] synonym: "cornea epithelium" EXACT [OBOL:automatic] synonym: "e. anterius corneae" RELATED LATIN [Wikipedia:Corneal_epithelium] synonym: "e. anterius corneae" RELATED LATIN [http://en.wikipedia.org/wiki/Corneal_epithelium] synonym: "endothelium anterius corneae" RELATED [BTO:0000287] synonym: "endothelium camerae anterioris bulbi" RELATED [BTO:0000287] synonym: "endothelium corneale" RELATED [BTO:0000287] synonym: "epithelial tissue of cornea" EXACT [OBOL:automatic] synonym: "epithelium anterius (cornea)" EXACT [] synonym: "epithelium anterius corneae" EXACT LATIN [FMA:58263, FMA:TA] synonym: "epithelium corneæ anterior layer" EXACT [] synonym: "epithelium of cornea" EXACT [] synonym: "epithelium posterius corneae" RELATED [BTO:0000287] synonym: "external epithelium of cornea" EXACT [] xref: BTO:0000287 xref: CALOHA:TS-0173 xref: Corneal:epithelium xref: EFO:0001917 xref: EHDAA2:0000319 xref: EMAPA:17162 xref: FMA:58263 xref: GAID:895 xref: http://linkedlifedata.com/resource/umls/id/C0459875 xref: http://www.snomedbrowser.com/Codes/Details/368825001 xref: MA:0001243 xref: MESH:D019573 xref: NCIT:C12928 xref: SCTID:368825001 xref: TAO:0002187 xref: UMLS:C0459875 {source="ncithesaurus:Corneal_Epithelium"} xref: Wikipedia:Corneal_epithelium xref: ZFA:0001683 is_a: UBERON:0010313 ! neural crest-derived structure is_a: UBERON:0015808 ! eye epithelium intersection_of: UBERON:0000483 ! epithelium intersection_of: bounding_layer_of UBERON:0000964 ! cornea relationship: bounding_layer_of UBERON:0000964 ! cornea relationship: contributes_to_morphology_of UBERON:0000964 ! cornea relationship: develops_from UBERON:0000076 {source="ISBN:0781772214"} ! external ectoderm relationship: part_of UBERON:0000964 ! cornea property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/6/66/Gray871.png xsd:anyURI property_value: UBPROP:0000001 "Portion of tissue comprised of four to six layers of nonkeratinized, stratified squamous cells and represents approximately 60% of the thickness of the cornea.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0002187", ontology="TAO", source="ZFIN:ZDB-PUB-061010-3"} property_value: UBPROP:0000008 "In Humans: It consists of several layers of cells. The cells of the deepest layer are columnar; then follow two or three layers of polyhedral cells, the majority of which are prickle cells similar to those found in the stratum mucosum of the cuticle. Lastly, there are three or four layers of squamous cells, with flattened nuclei" xsd:string property_value: UBPROP:0000008 "In zebrafish: nonpigmented, stratified squamous nonkeratinizing epithelial cells, attached to a thick basement membrane that is considered to be analogous to the Bowman's membrane in mammals" xsd:string [Term] id: UBERON:0001773 name: sclera namespace: uberon def: "Opaque fibrous outer layer of the eyeball[ZFA,Kardong,WP]." [Wikipedia:Sclera, ZFIN:ZDB-PUB-050701-15] def: "Opaque fibrous outer layer of the eyeball[ZFA,Kardong,WP]." [http://en.wikipedia.org/wiki/Sclera, ZFIN:ZDB-PUB-050701-15] comment: Disease notes: implicated in rheumatoid arthritis. subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "scleral capsule" RELATED [] xref: AAO:0010354 xref: BTO:0001606 xref: EMAPA:19027 xref: EV:0100342 xref: FMA:58269 xref: GAID:911 xref: http://en.wikipedia.org/wiki/Sclera xref: http://linkedlifedata.com/resource/umls/id/C0036410 xref: http://www.snomedbrowser.com/Codes/Details/181163006 xref: MA:0000280 xref: MESH:D012590 xref: NCIT:C12784 xref: OpenCyc:Mx4rv7yR55wpEbGdrcN5Y29ycA xref: SCTID:181163006 xref: UMLS:C0036410 {source="ncithesaurus:Sclera"} xref: VHOG:0001274 xref: Wikipedia:Sclera xref: XAO:0000183 xref: ZFA:0005563 is_a: UBERON:0000064 ! organ part is_a: UBERON:0010313 ! neural crest-derived structure relationship: contributes_to_morphology_of UBERON:0000019 ! camera-type eye relationship: develops_from UBERON:0003314 {source="ISBN:0781772214"} ! eye mesenchyme relationship: has_part CL:0000347 {source="ZFA"} ! scleral cell relationship: has_quality PATO:0000963 ! opaque relationship: part_of UBERON:0012430 {source="FMA"} ! tunica fibrosa of eyeball property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/1/1e/Schematic_diagram_of_the_human_eye_en.svg xsd:anyURI property_value: UBPROP:0000001 "The sclera, also known as the white part of the eye, is the opaque (usually white, though certain animals, such as horses and lizards, can have black sclera), fibrous, protective, outer layer of the eye containing collagen and elastic fiber. It is derived from the neural crest. In children, it is thinner and shows some of the underlying pigment, appearing slightly blue. In the elderly, however, fatty deposits on the sclera can make it appear slightly yellow. The sclera forms the posterior five sixths of the connective tissue coat of the globe. It is continuous with the dura mater and the cornea, and maintains the shape of the globe, offering resistance to internal and external forces, and provides an attachment for the extraocular muscle insertions. The sclera is perforated by plenty of nerves and vessels passing through the posterior scleral foramen, the hole that is formed by the optic nerve. At the optic disk the outer two-thirds of the sclera continues with the dura mater (outer coat of the brain) via the dural sheath of the optic nerve. The inner third joins with some choroidal tissue to form a plate (lamina cribrosa) across the optic nerve with perforations through which the optic fibers (fasciculi). The thickness of the sclera varies from 1mm at the posterior pole to 0.3 mm just behind the rectus muscle insertions. The sclera's blood vessels are mainly on the surface, and together with the conjunctiva (which lies on top) This is a thin layer covering the sclera. Along with the vessels of the conjunctiva, those of the sclera renders the inflamed eye bright red. [WP,unvetted][Wikipedia:Sclera]." xsd:string {source="Wikipedia:Sclera"} property_value: UBPROP:0000001 "The sclera, also known as the white part of the eye, is the opaque (usually white, though certain animals, such as horses and lizards, can have black sclera), fibrous, protective, outer layer of the eye containing collagen and elastic fiber. It is derived from the neural crest. In children, it is thinner and shows some of the underlying pigment, appearing slightly blue. In the elderly, however, fatty deposits on the sclera can make it appear slightly yellow. The sclera forms the posterior five sixths of the connective tissue coat of the globe. It is continuous with the dura mater and the cornea, and maintains the shape of the globe, offering resistance to internal and external forces, and provides an attachment for the extraocular muscle insertions. The sclera is perforated by plenty of nerves and vessels passing through the posterior scleral foramen, the hole that is formed by the optic nerve. At the optic disk the outer two-thirds of the sclera continues with the dura mater (outer coat of the brain) via the dural sheath of the optic nerve. The inner third joins with some choroidal tissue to form a plate (lamina cribrosa) across the optic nerve with perforations through which the optic fibers (fasciculi). The thickness of the sclera varies from 1mm at the posterior pole to 0.3 mm just behind the rectus muscle insertions. The sclera's blood vessels are mainly on the surface, and together with the conjunctiva (which lies on top) This is a thin layer covering the sclera. Along with the vessels of the conjunctiva, those of the sclera renders the inflamed eye bright red. [WP,unvetted][Wikipedia:Sclera]." xsd:string {source="http://en.wikipedia.org/wiki/Sclera"} property_value: UBPROP:0000001 "The tough, usually white, outer coat of the eyeball, covering all the posterior surface and continuous anteriorly with the cornea. [TFD][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001274", ontology="VHOG", source="http://bgee.unil.ch/", source="http://medical-dictionary.thefreedictionary.com/sclera"} property_value: UBPROP:0000001 "The tough, usually white, outer coat of the eyeball, covering all the posterior surface and continuous anteriorly with the cornea. [TFD][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001274", ontology="VHOG", source="http://bgee.unil.ch/", source="http://medical-dictionary.thefreedictionary.com/sclera"} property_value: UBPROP:0000007 "scleral" xsd:string property_value: UBPROP:0000008 "in fish, reptiles and monotremes the connective tissue of the sclera is skeletal" xsd:string property_value: UBPROP:0000010 "continuous with the dura mater and the cornea; The sclera forms the posterior five-sixths of the connective tissue coat of the globe." xsd:string property_value: UBPROP:0000011 "Majority derives from NC that surrounds optic cup of neurectoderm; a small temporal portion develops from the mesoderm that contributes to striated extra-ocular muscles and vascular endothelia[Rada&Johnson]." xsd:string property_value: UBPROP:0000011 "Seko et al demonstrate chondrogenic potential and identify this as connective tissue[DOI:10.1371/journal.pone.0003709]." xsd:string [Term] id: UBERON:0001774 name: skeletal muscle of trunk namespace: uberon def: "A skeletal muscle organ that is part of the trunk region." [http://orcid.org/0000-0002-6601-2165] subset: uberon_slim subset: vertebrate_core synonym: "body musculature" EXACT [ZFA:0000473] synonym: "muscle of trunk" EXACT [FMA:58274] synonym: "muscle organ of torso" EXACT [OBOL:automatic] synonym: "muscle organ of trunk" EXACT [OBOL:automatic] synonym: "torso muscle organ" EXACT [OBOL:automatic] synonym: "trunk muscle" EXACT [] synonym: "trunk muscle organ" EXACT [OBOL:automatic] synonym: "trunk musculature" EXACT [] xref: AAO:0000611 xref: EMAPA:35888 xref: FMA:58274 xref: MA:0000514 xref: TAO:0000473 xref: XAO:0003230 xref: ZFA:0000473 is_a: UBERON:0005177 ! trunk region element is_a: UBERON:0014892 ! skeletal muscle organ intersection_of: UBERON:0014892 ! skeletal muscle organ intersection_of: part_of UBERON:0002100 ! trunk relationship: part_of UBERON:0004479 {source="prolog"} ! musculature of trunk property_value: editor_note "Note that this class excludes smooth muscle elements in the trunk region, such as the internal anal sphincter. This appears to be consistent with other ontologies such as FMA and ZFA which appear to only include skeletal muscles here. In fact the MA class 'trunk muscle' is classified as a 'set of skeletal muscles'." xsd:string property_value: UBPROP:0000012 "Many ontologies do not appear to have a coherent distinction between an individual muscle and the musculature (i.e. the set of muscles in a region), so we group all together here." xsd:string [Term] id: UBERON:0001775 name: ciliary body namespace: uberon def: "the thickened portion of the vascular tunic, which lies between the choroid and the iris, composed of ciliary muscle and ciliary processes" [http://en.wikipedia.org/wiki/Ciliary_body, ISBN:0-683-40008-8, MP:0005099] def: "The thickened portion of the vascular tunic, which lies between the choroid and the iris, composed of ciliary muscle and ciliary processes." [http://en.wikipedia.org/wiki/Ciliary_body, ISBN:0-683-40008-8, MP:0005099] def: "The thickened portion of the vascular tunic, which lies between the choroid and the iris, composed of ciliary muscle and ciliary processes." [ISBN:0-683-40008-8, MP:0005099, Wikipedia:Ciliary_body] subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "anterior uvea" RELATED [] synonym: "ciliary bodies" RELATED PLURAL [VHOG:0000102] synonym: "corpus ciliare" RELATED LATIN [http://en.wikipedia.org/wiki/Ciliary_body] synonym: "corpus ciliare" RELATED [http://en.wikipedia.org/wiki/Ciliary_body] synonym: "corpus ciliare" RELATED LATIN [Wikipedia:Ciliary_body] synonym: "corpus ciliare" RELATED [Wikipedia:Ciliary_body] synonym: "ocular ciliary body" EXACT [] xref: AAO:0010341 xref: BTO:0000260 xref: CALOHA:TS-0694 xref: Ciliary:body xref: EMAPA:19065 xref: EV:0100346 xref: FMA:58295 xref: GAID:916 xref: http://braininfo.rprc.washington.edu/centraldirectory.aspx?ID=1571 xref: http://linkedlifedata.com/resource/umls/id/C0008779 xref: http://www.snomedbrowser.com/Codes/Details/263340007 xref: MA:0000264 xref: MESH:D002924 xref: NCIT:C12345 xref: SCTID:263340007 xref: UMLS:C0008779 {source="ncithesaurus:Ciliary_Body"} xref: VHOG:0000102 xref: Wikipedia:Ciliary_body xref: XAO:0000186 is_a: UBERON:0000481 ! multi-tissue structure is_a: UBERON:0004121 ! ectoderm-derived structure relationship: contributes_to_morphology_of UBERON:0011892 ! anterior uvea relationship: develops_from UBERON:0002346 {source="ISBN:0781772214"} ! neurectoderm relationship: has_part UBERON:0001605 ! ciliary muscle relationship: has_part UBERON:0010427 ! ciliary processes relationship: part_of UBERON:0011892 ! anterior uvea property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/1/1e/Schematic_diagram_of_the_human_eye_en.svg xsd:anyURI property_value: UBPROP:0000003 "The eye of the adult lamprey is remarkably similar to our own, and it possesses numerous features (including the expression of opsin genes) that are very similar to those of the eyes of jawed vertebrates. The lamprey's camera-like eye has a lens, an iris and extra-ocular muscles (five of them, unlike the eyes of jawed vertebrates, which have six), although it lacks intra-ocular muscles. Its retina also has a structure very similar to that of the retinas of other vertebrates, with three nuclear layers comprised of the cell bodies of photoreceptors and bipolar, horizontal, amacrine and ganglion cells. The southern hemisphere lamprey, Geotria australis, possesses five morphological classes of retinal photoreceptor and five classes of opsin, each of which is closely related to the opsins of jawed vertebrates. Given these similarities, we reach the inescapable conclusion that the last common ancestor of jawless and jawed vertebrates already possessed an eye that was comparable to that of extant lampreys and gnathostomes. Accordingly, a vertebrate camera-like eye must have been present by the time that lampreys and gnathostomes diverged, around 500 Mya.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000102", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1038/nrn2283 Lamb TD, Collin SP and Pugh EN Jr, Evolution of the vertebrate eye: opsins, photoreceptors, retina and eye cup. Nature Reviews Neuroscience (2007)"} property_value: UBPROP:0000003 "The eye of the adult lamprey is remarkably similar to our own, and it possesses numerous features (including the expression of opsin genes) that are very similar to those of the eyes of jawed vertebrates. The lamprey's camera-like eye has a lens, an iris and extra-ocular muscles (five of them, unlike the eyes of jawed vertebrates, which have six), although it lacks intra-ocular muscles. Its retina also has a structure very similar to that of the retinas of other vertebrates, with three nuclear layers comprised of the cell bodies of photoreceptors and bipolar, horizontal, amacrine and ganglion cells. The southern hemisphere lamprey, Geotria australis, possesses five morphological classes of retinal photoreceptor and five classes of opsin, each of which is closely related to the opsins of jawed vertebrates. Given these similarities, we reach the inescapable conclusion that the last common ancestor of jawless and jawed vertebrates already possessed an eye that was comparable to that of extant lampreys and gnathostomes. Accordingly, a vertebrate camera-like eye must have been present by the time that lampreys and gnathostomes diverged, around 500 Mya.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000102", ontology="VHOG", source="DOI:10.1038/nrn2283 Lamb TD, Collin SP and Pugh EN Jr, Evolution of the vertebrate eye: opsins, photoreceptors, retina and eye cup. Nature Reviews Neuroscience (2007)", source="http://bgee.unil.ch/"} [Term] id: UBERON:0001776 name: optic choroid namespace: uberon def: "Vascular layer containing connective tissue, of the eye lying between the retina and the sclera. The choroid provides oxygen and nourishment to the outer layers of the retina. Along with the ciliary body and iris, the choroid forms the uveal tract[WP]." [Wikipedia:Choroid] def: "Vascular layer containing connective tissue, of the eye lying between the retina and the sclera. The choroid provides oxygen and nourishment to the outer layers of the retina. Along with the ciliary body and iris, the choroid forms the uveal tract[WP]." [http://en.wikipedia.org/wiki/Choroid] def: "vascular layer containing connective tissue, of the eye lying between the retina and the sclera. The choroid provides oxygen and nourishment to the outer layers of the retina. Along with the ciliary body and iris, the choroid forms the uveal tract[WP]." [http://en.wikipedia.org/wiki/Choroid] subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "chorioid" RELATED [BTO:0001829] synonym: "choroid" EXACT [MA:0000263] synonym: "choroid coat" EXACT [Wikipedia:Choroid] synonym: "choroid coat" EXACT [http://en.wikipedia.org/wiki/Choroid] synonym: "choroidea" EXACT [Wikipedia:Choroid] synonym: "choroidea" EXACT [http://en.wikipedia.org/wiki/Choroid] synonym: "choroidea" RELATED LATIN [Wikipedia:Choroid] synonym: "choroidea" RELATED LATIN [http://en.wikipedia.org/wiki/Choroid] synonym: "eye choroid" EXACT [VHOG:0001568] synonym: "optic choroid" RELATED [ZFA:0005229] synonym: "posterior uvea" EXACT [Wikipedia:Uvea#Regions] synonym: "posterior uvea" EXACT [http://en.wikipedia.org/wiki/Uvea#Regions] xref: BTO:0001829 xref: CALOHA:TS-2054 xref: EMAPA:19077 xref: EV:0100347 xref: FMA:58298 xref: GAID:913 xref: http://en.wikipedia.org/wiki/Choroid xref: http://linkedlifedata.com/resource/umls/id/C0008520 xref: http://www.snomedbrowser.com/Codes/Details/181172003 xref: MA:0000263 xref: MESH:D002829 xref: NCIT:C12344 xref: SCTID:181172003 xref: TAO:0005229 xref: UMLS:C0008520 {source="ncithesaurus:Choroid"} xref: VHOG:0001568 xref: Wikipedia:Choroid xref: ZFA:0005229 is_a: UBERON:0002203 ! vasculature of eye disjoint_from: UBERON:0011892 {source="lexical"} ! anterior uvea relationship: adjacent_to UBERON:0000966 ! retina relationship: adjacent_to UBERON:0001773 ! sclera relationship: adjacent_to UBERON:0011892 ! anterior uvea relationship: contributes_to_morphology_of UBERON:0001768 ! uvea relationship: overlaps UBERON:0001802 {source="Wikipedia"} ! posterior segment of eyeball relationship: part_of UBERON:0001768 {source="MA"} ! uvea relationship: part_of UBERON:0019207 ! chorioretinal region property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/1/1e/Schematic_diagram_of_the_human_eye_en.svg xsd:anyURI property_value: editor_note "check choroid vs choroid layer; check ZFA/TAO placement - no homology assertion in VHOG. Note this is entirely in the posterior region of eyeball in ZFA" xsd:string property_value: UBPROP:0000007 "choroidal" xsd:string property_value: UBPROP:0000012 "MP treats posterior uvea and optic choroid as distinct" xsd:string {external_ontology="MP"} [Term] id: UBERON:0001777 name: substantia propria of cornea namespace: uberon def: "The lamellated connective tissue of the cornea between the Bowman and Descemet membranes." [ISBN:0-683-40008-8, MESH:A09.371.060.217.228, MP:0005300] subset: efo_slim subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "corneal stroma" EXACT [MA:0001245] synonym: "stroma of cornea" EXACT [] synonym: "substantia propria" BROAD [] synonym: "substantia propria corneae" EXACT LATIN [FMA:58306, FMA:TA] xref: CALOHA:TS-1138 xref: Corneal:stroma xref: EFO:0002514 xref: EMAPA:17602 xref: FMA:58306 xref: GAID:893 xref: http://linkedlifedata.com/resource/umls/id/C0010040 xref: http://www.snomedbrowser.com/Codes/Details/362511000 xref: MA:0001245 xref: MESH:D003319 xref: NCIT:C12699 xref: SCTID:362511000 xref: TAO:0002189 xref: UMLS:C0010040 {source="ncithesaurus:Corneal_Stroma"} xref: Wikipedia:Corneal_stroma xref: ZFA:0001685 is_a: UBERON:0003891 ! stroma is_a: UBERON:0010313 ! neural crest-derived structure intersection_of: UBERON:0003891 ! stroma intersection_of: part_of UBERON:0000964 ! cornea relationship: adjacent_to UBERON:0004367 ! Descemet's membrane relationship: adjacent_to UBERON:0004370 ! anterior limiting lamina of cornea relationship: contributes_to_morphology_of UBERON:0000964 ! cornea relationship: develops_from UBERON:0007213 {inferred_by="cjm", source="ISBN:0781772214", source="Wikipedia"} ! mesenchyme derived from head neural crest relationship: part_of UBERON:0000964 ! cornea property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/6/66/Gray871.png xsd:anyURI property_value: UBPROP:0000001 "Portion of tissue that is located basal to Bowman's layer and distal to Descemet's membrane and is comprised largely of connective tissue.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0002189", ontology="TAO", source="ZFIN:ZDB-PUB-061010-3"} property_value: UBPROP:0000002 "relationship type change: subclass tissue (CARO:0000043) CHANGED TO: develops_from tissue (UBERON:0000479)[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0002189", ontology="TAO"} property_value: UBPROP:0000002 "relationship type change: subclass tissue (CARO:0000043) CHANGED TO: has_developmental_contribution_from tissue (UBERON:0000479)[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0002189", ontology="TAO"} [Term] id: UBERON:0001778 name: ciliary epithelium namespace: uberon def: "A double layer covering the ciliary body that produces aqueous humor." [Wikipedia:Ciliary_body#Ciliary_epithelium] def: "A double layer covering the ciliary body that produces aqueous humor." [http://en.wikipedia.org/wiki/Ciliary_body#Ciliary_epithelium] synonym: "ciliary body epithelium" EXACT [FMA:58464] synonym: "epithelium of ciliary body" EXACT [FMA:58464] synonym: "ocular ciliary epithelium" EXACT [] xref: BTO:0001770 xref: CALOHA:TS-0695 xref: Ciliary_epithelium xref: EMAPA:35239 xref: FMA:58464 xref: http://linkedlifedata.com/resource/umls/id/C0459736 xref: http://www.snomedbrowser.com/Codes/Details/280870004 xref: MA:0001238 xref: NCIT:C32314 xref: SCTID:280870004 xref: UMLS:C0459736 {source="ncithesaurus:Ciliary_Epithelium"} xref: Wikipedia:Ciliary_body#Ciliary_epithelium is_a: UBERON:0000488 {source="FMA"} ! atypical epithelium is_a: UBERON:0015808 ! eye epithelium intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0001775 ! ciliary body relationship: has_part GO:0048770 {source="MP"} ! pigment granule relationship: part_of UBERON:0001775 {source="MA"} ! ciliary body relationship: produces UBERON:0001796 {source="Wikipedia"} ! aqueous humor of eyeball [Term] id: UBERON:0001779 name: iris stroma namespace: uberon def: "The delicate vascular connective tissue that lies between the anterior surface of the iris and the pars iridica retinae." [http://en.wikipedia.org/wiki/Iris_stroma, http://www.drugs.com/dict/stroma-of-iris.html] def: "The delicate vascular connective tissue that lies between the anterior surface of the iris and the pars iridica retinae." [http://www.drugs.com/dict/stroma-of-iris.html, Wikipedia:Iris_stroma] subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "iridial stroma" EXACT [] synonym: "stroma of iris" EXACT [] xref: EMAPA:35451 xref: FMA:58526 xref: http://www.snomedbrowser.com/Codes/Details/280882008 xref: Iris:stroma xref: MA:0002777 xref: SCTID:280882008 xref: Wikipedia:Iris_stroma xref: ZFA:0005569 is_a: UBERON:0003891 ! stroma is_a: UBERON:0004121 ! ectoderm-derived structure intersection_of: UBERON:0003891 ! stroma intersection_of: part_of UBERON:0001769 ! iris relationship: contributes_to_morphology_of UBERON:0001769 ! iris relationship: part_of UBERON:0001769 ! iris property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/5/55/Gray883.png xsd:anyURI [Term] id: UBERON:0001780 name: spinal nerve namespace: uberon def: "The any of the paired peripheral nerves formed by the union of the dorsal and ventral spinal roots from each spinal cord segment[MP,modified]." [MESH:A08.800.800.720, MP:0001077] subset: pheno_slim subset: uberon_slim synonym: "backbone nerve" EXACT [OBOL:automatic] synonym: "nerve of backbone" EXACT [OBOL:automatic] synonym: "nerve of spinal column" EXACT [OBOL:automatic] synonym: "nerve of spine" EXACT [OBOL:automatic] synonym: "nerve of vertebral column" EXACT [OBOL:automatic] synonym: "nervi spinales" RELATED LATIN [Wikipedia:Spinal_nerve] synonym: "spinal column nerve" EXACT [OBOL:automatic] synonym: "spinal nerve tree" EXACT [] synonym: "spinal nerves" RELATED PLURAL [BAMS:spin] synonym: "spine nerve" EXACT [OBOL:automatic] synonym: "vertebral column nerve" EXACT [OBOL:automatic] xref: AAO:0011101 xref: BAMS:spin xref: BTO:0000870 xref: EHDAA2:0001898 xref: EMAPA:16989 xref: FMA:5858 xref: GAID:841 xref: http://braininfo.rprc.washington.edu/centraldirectory.aspx?ID=1228 xref: MA:0000233 xref: MESH:D013127 xref: NCIT:C12792 xref: OpenCyc:Mx4rwK_iFJwpEbGdrcN5Y29ycA xref: SCTID:361099009 xref: UMLS:C0037941 {source="ncithesaurus:Spinal_Nerve"} xref: VHOG:0000824 xref: Wikipedia:Spinal_nerve xref: XAO:0003101 is_a: UBERON:0001021 ! nerve intersection_of: UBERON:0001021 ! nerve intersection_of: extends_fibers_into UBERON:0002240 ! spinal cord relationship: extends_fibers_into UBERON:0002240 ! spinal cord property_value: depicted:by Spinal:nerve.svg xsd:anyURI property_value: UBPROP:0000001 "Any of the paired nerves emerging from the spinal cord, each attached to the cord by two roots: ventral and dorsal, and passing out between the vertebrae. [TFD][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000824", ontology="VHOG", source="http://bgee.unil.ch/", source="http://medical-dictionary.thefreedictionary.com/spinal+nerve"} [Term] id: UBERON:0001781 name: layer of retina namespace: uberon def: "Any of the layers that make up the retina[MP]." [MP:0003727] subset: pheno_slim subset: vertebrate_core synonym: "retina layer" EXACT [] synonym: "retina neuronal layer" EXACT [MP:0006069] synonym: "retinal layer" EXACT [] synonym: "retinal neuronal layer" EXACT [MP:0006069] xref: AAO:0010353 xref: EMAPA:35742 xref: FMA:58617 xref: http://linkedlifedata.com/resource/umls/id/C0459649 xref: http://www.snomedbrowser.com/Codes/Details/280657006 xref: MA:0001319 xref: NCIT:C49328 xref: SCTID:280657006 xref: UMLS:C0459649 {source="ncithesaurus:Retina_Layer"} xref: XAO:0000266 is_a: UBERON:0022303 ! nervous system cell part layer relationship: contributes_to_morphology_of UBERON:0000966 ! retina relationship: part_of UBERON:0000966 ! retina property_value: UBPROP:0000012 "MA does not treat internal/external limiting memranes as layers - these are classified as laminae. Here we follow other ontologies in grouping with other layers. MA also treats retinal pigment epithelium and neural retina epithelium as distinct from the layers. We follow ontologies such as FMA and ZFA in first dividing into pigmented and neural layers - these are also classified as layers, giving us over the usual 10 layers" xsd:string {external_ontology="MA"} [Term] id: UBERON:0001785 name: cranial nerve namespace: uberon def: "Cranial nerves are nerves that emerge directly from the brain, in contrast to spinal nerves, which emerge from segments of the spinal cord." [Wikipedia:Cranial_nerve] subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "cranial nerves" RELATED [] synonym: "cranial neural tree organ" EXACT [] synonym: "nervus cranialis" RELATED LATIN [Wikipedia:Cranial_nerve] xref: AAO:0000108 xref: BAMS:cran xref: BIRNLEX:1623 xref: BTO:0001104 xref: EHDAA2:0000323 xref: EMAPA:17264 xref: FMA:5865 xref: GAID:802 xref: HBA:9299 xref: http://braininfo.rprc.washington.edu/centraldirectory.aspx?ID=1227 xref: MA:0000215 xref: MBA:967 xref: MESH:D003391 xref: NCIT:C12700 xref: OpenCyc:Mx4rvWvJVpwpEbGdrcN5Y29ycA xref: SCTID:244447006 xref: TAO:0000641 xref: UMLS:C0010268 {source="BIRNLEX:1623"} xref: UMLS:C0010268 {source="ncithesaurus:Cranial_Nerve"} xref: UMLS:C1269897 {source="BIRNLEX:1623"} xref: VHOG:0000279 xref: Wikipedia:Cranial_nerve xref: XAO:0000429 xref: XAO:0003089 xref: ZFA:0000641 is_a: UBERON:0011779 ! nerve of head region is_a: UBERON:0034713 ! cranial neuron projection bundle intersection_of: UBERON:0001021 ! nerve intersection_of: anterior_to UBERON:0001780 ! spinal nerve intersection_of: extends_fibers_into UBERON:0000955 ! brain relationship: anterior_to UBERON:0001780 ! spinal nerve relationship: has_developmental_contribution_from UBERON:0003099 ! cranial neural crest property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/1/18/Brain_human_normal_inferior_view_with_labels_en-2.svg xsd:anyURI property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/8/84/Brain_human_normal_inferior_view_with_labels_en.svg xsd:anyURI property_value: editor_note "classified as neural tree organ, not nerve in FMA. CN II poses a challenge here as it is not strictly a nerve, yet is expected to be classified under CN." xsd:string property_value: UBPROP:0000001 "Twelve pairs of cranial nerves exit/enter the cranium through openings in the skull. The nerves contain efferent axons with motor and glandular functions, as well as afferent axons from cranial ganglia with sensory functions. The nerves are numbered in a rostral to caudal sequence, with the exception of the lateral line nerves.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0000641", ontology="TAO", source="ZFIN:curator"} property_value: UBPROP:0000003 "We conclude this section by listing some of the many synapomorphies of craniates, including (...) (5) cranial nerves (...).[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000279", ontology="VHOG", source="ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.43", source="http://bgee.unil.ch/"} property_value: UBPROP:0000012 "See https://github.com/obophenotype/mouse-anatomy-ontology/issues/6" xsd:string [Term] id: UBERON:0001796 name: aqueous humor of eyeball namespace: uberon def: "A thick watery refractive medium that fills the space between the lens and the cornea[WP]." [Wikipedia:Aqueous_humor] def: "A thick watery refractive medium that fills the space between the lens and the cornea[WP]." [http://en.wikipedia.org/wiki/Aqueous_humor] subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "aqueous humor" EXACT [] synonym: "aqueous humour" EXACT [EHDAA2:0000139] synonym: "humor aquosus" EXACT LATIN [FMA:58819, FMA:TA] xref: Aqueous:humor xref: EHDAA2:0000139 xref: EHDAA:10196 xref: EMAPA:18232 xref: ENVO:02000024 xref: FMA:58819 xref: GAID:890 xref: http://linkedlifedata.com/resource/umls/id/C0003662 xref: http://www.snomedbrowser.com/Codes/Details/280587006 xref: MA:0001236 xref: MESH:D001082 xref: NCIT:C13190 xref: OpenCyc:Mx4rvdGd-5wpEbGdrcN5Y29ycA xref: SCTID:280587006 xref: UMLS:C0003662 {source="ncithesaurus:Aqueous_Humor"} xref: VHOG:0000548 xref: Wikipedia:Aqueous_humor xref: ZFA:0005564 is_a: UBERON:0006312 ! ocular refractive media is_a: UBERON:0006314 ! bodily fluid relationship: contributes_to_morphology_of UBERON:0001766 ! anterior chamber of eyeball relationship: part_of UBERON:0001766 {notes="FMA def states A and P", notes="located_in in EHDAA2", source="VHOG"} ! anterior chamber of eyeball property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/1/1e/Schematic_diagram_of_the_human_eye_en.svg xsd:anyURI property_value: UBPROP:0000001 "The fluid produced by the ciliary process in the eye and occupying the anterior and posterior chambers. It provides nourishment for the lens and cornea and maintains the ocular pressure, and hence the optical integrity of the eyeball. [TFD][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000548", ontology="VHOG", source="http://bgee.unil.ch/", source="http://medical-dictionary.thefreedictionary.com/aqueous+humour"} property_value: UBPROP:0000001 "The fluid produced by the ciliary process in the eye and occupying the anterior and posterior chambers. It provides nourishment for the lens and cornea and maintains the ocular pressure, and hence the optical integrity of the eyeball. [TFD][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000548", ontology="VHOG", source="http://bgee.unil.ch/", source="http://medical-dictionary.thefreedictionary.com/aqueous+humour"} property_value: UBPROP:0000003 "(...) we reach the inescapable conclusion that the last common ancestor of jawless and jawed vertebrates already possessed an eye that was comparable to that of extant lampreys and gnathostomes. Accordingly, a vertebrate camera-like eye must have been present by the time that lampreys and gnathostomes diverged, around 500 Mya (reference 1); Although the eye varies greatly in adaptative details among vertebrates, its basic structure is the same in all. The human eye is representative of the design typical for a tetrapod. (...) A watery aqueous humor fills the spaces in the eye in front of the lens (...) (reference 2).[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000548", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1038/nrn2283 Lamb TD, Collin SP and Pugh EN Jr, Evolution of the vertebrate eye: opsins, photoreceptors, retina and eye cup. Nature Reviews Neuroscience (2007), ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.424 and p.426 and p.429 and Figure 12-24"} property_value: UBPROP:0000003 "(...) we reach the inescapable conclusion that the last common ancestor of jawless and jawed vertebrates already possessed an eye that was comparable to that of extant lampreys and gnathostomes. Accordingly, a vertebrate camera-like eye must have been present by the time that lampreys and gnathostomes diverged, around 500 Mya (reference 1); Although the eye varies greatly in adaptative details among vertebrates, its basic structure is the same in all. The human eye is representative of the design typical for a tetrapod. (...) A watery aqueous humor fills the spaces in the eye in front of the lens (...) (reference 2).[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000548", ontology="VHOG", source="DOI:10.1038/nrn2283 Lamb TD, Collin SP and Pugh EN Jr, Evolution of the vertebrate eye: opsins, photoreceptors, retina and eye cup. Nature Reviews Neuroscience (2007), ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.424 and p.426 and p.429 and Figure 12-24", source="http://bgee.unil.ch/"} property_value: UBPROP:0000012 "FMA says A+P chambers, and MA states A chamber. ZFA states A chamber and tha it is produced primarily by dorsal ciliary epithelial cells.To be investigated across taxa." xsd:string {external_ontology="FMA"} [Term] id: UBERON:0001800 name: sensory ganglion namespace: uberon def: "The clusters of neurons in the somatic peripheral nervous system which contain the cell bodies of sensory nerve axons, interneurons and non-neuronal supporting cells." [MP:0000960] subset: pheno_slim synonym: "ganglion sensorium" EXACT LATIN [] xref: AEO:0001000 xref: BTO:0005630 xref: EMAPA:36596 xref: FMA:5885 xref: MA:0002566 xref: MESH:D017950 xref: NCIT:C13060 xref: UMLS:C0206429 {source="ncithesaurus:Sensory_Ganglion"} is_a: UBERON:0000045 ! ganglion intersection_of: UBERON:0000045 ! ganglion intersection_of: extends_fibers_into UBERON:0001027 ! sensory nerve relationship: extends_fibers_into UBERON:0001027 ! sensory nerve [Term] id: UBERON:0001801 name: anterior segment of eyeball namespace: uberon def: "any of the parts of the eye that lie in front of, or ventral to, the lens (inclusive)" [ISBN:0-683-40008-8, MESH:A09.371.060, MP:0005193] def: "Any of the parts of the eye that lie in front of, or ventral to, the lens (inclusive)." [ISBN:0-683-40008-8, MESH:A09.371.060, MP:0005193] subset: pheno_slim subset: vertebrate_core synonym: "anterior eye segment" EXACT [] synonym: "anterior segment eye" EXACT [ZFA:0005566] synonym: "anterior segment of eye" EXACT [] synonym: "anterior segment of the eye" EXACT [] synonym: "eye anterior segment" EXACT [] synonym: "segmentum anterius (bulbus oculi)" EXACT [] synonym: "segmentum anterius bulbi oculi" RELATED LATIN [Wikipedia:Anterior_segment_of_eyeball] synonym: "segmentum anterius bulbi oculi" RELATED LATIN [http://en.wikipedia.org/wiki/Anterior_segment_of_eyeball] xref: EMAPA:36594 xref: FMA:58865 xref: http://en.wikipedia.org/wiki/Anterior_segment_of_eyeball xref: http://linkedlifedata.com/resource/umls/id/C0003153 xref: http://www.snomedbrowser.com/Codes/Details/280658001 xref: MA:0002484 xref: MESH:D000869 xref: NCIT:C12668 xref: SCTID:280658001 xref: UMLS:C0003153 {source="ncithesaurus:Anterior_Eye_Segment"} xref: Wikipedia:Anterior_segment_of_eyeball xref: ZFA:0005566 is_a: UBERON:0000063 ! organ subunit is_a: UBERON:0004121 ! ectoderm-derived structure disjoint_from: UBERON:0001802 {source="lexical"} ! posterior segment of eyeball relationship: contributes_to_morphology_of UBERON:0000019 ! camera-type eye relationship: in_anterior_side_of UBERON:0010230 {source="cjm"} ! eyeball of camera-type eye relationship: part_of UBERON:0010230 {source="FMA"} ! eyeball of camera-type eye property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/b/ba/Cataract_in_human_eye.png xsd:anyURI property_value: RO:0002171 UBERON:0001802 {exceptions="ZFA", source="https://github.com/obophenotype/uberon/issues/378", status="pending"} [Term] id: UBERON:0001802 name: posterior segment of eyeball namespace: uberon def: "any of the parts of the eye that lie in back of, or dorsal to, the lens (but not inclusive)" [ISBN:0-683-40008-8, MP:0005195] def: "Any of the parts of the eye that lie in back of, or dorsal to, the lens (but not inclusive)." [ISBN:0-683-40008-8, MP:0005195] subset: pheno_slim subset: vertebrate_core synonym: "eye posterior segment" EXACT [] synonym: "posterior eye segment" EXACT [] synonym: "posterior segment eye" EXACT [ZFA:0005567] synonym: "posterior segment of eye" EXACT [] synonym: "posterior segment of the eye" EXACT [] synonym: "segmentum posterius (bulbus oculi)" EXACT [] synonym: "segmentum posterius bulbi oculi" RELATED LATIN [http://en.wikipedia.org/wiki/Posterior_segment_of_eyeball] synonym: "segmentum posterius bulbi oculi" RELATED LATIN [Wikipedia:Posterior_segment_of_eyeball] xref: EMAPA:36595 xref: FMA:58868 xref: http://en.wikipedia.org/wiki/Posterior_segment_of_eyeball xref: http://linkedlifedata.com/resource/umls/id/C0278450 xref: http://www.snomedbrowser.com/Codes/Details/280659009 xref: MA:0002485 xref: NCIT:C12906 xref: SCTID:280659009 xref: UMLS:C0278450 {source="ncithesaurus:Posterior_Eye_Segment"} xref: Wikipedia:Posterior_segment_of_eyeball xref: ZFA:0005567 is_a: UBERON:0000063 ! organ subunit is_a: UBERON:0004121 ! ectoderm-derived structure relationship: contributes_to_morphology_of UBERON:0000019 ! camera-type eye relationship: in_posterior_side_of UBERON:0010230 {source="cjm"} ! eyeball of camera-type eye relationship: part_of UBERON:0010230 {source="FMA"} ! eyeball of camera-type eye property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/1/1e/Schematic_diagram_of_the_human_eye_en.svg xsd:anyURI [Term] id: UBERON:0001803 name: epithelium of lens namespace: uberon def: "A layer of epithelial cells that is part of the eye." [http://orcid.org/0000-0002-6601-2165] subset: pheno_slim subset: vertebrate_core synonym: "epithelial tissue of eye lens" EXACT [OBOL:automatic] synonym: "epithelial tissue of lens" EXACT [OBOL:automatic] synonym: "epithelium lentis" EXACT LATIN [FMA:58871, FMA:TA] synonym: "epithelium of eye lens" EXACT [OBOL:automatic] synonym: "eye lens epithelial tissue" EXACT [OBOL:automatic] synonym: "eye lens epithelium" EXACT [OBOL:automatic] synonym: "lens epithelial tissue" EXACT [OBOL:automatic] synonym: "lens epithelium" EXACT [] xref: BTO:0001873 xref: CALOHA:TS-0543 xref: EMAPA:32871 xref: FMA:58871 xref: http://www.snomedbrowser.com/Codes/Details/362523006 xref: Lens_Epithelium xref: MA:0001301 xref: SCTID:362523006 xref: TAO:0001326 xref: Wikipedia:Lens_(anatomy)#Lens_Epithelium xref: XAO:0004094 xref: ZFA:0001326 is_a: UBERON:0000484 ! simple cuboidal epithelium is_a: UBERON:0015808 ! eye epithelium intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0000965 ! lens of camera-type eye relationship: contributes_to_morphology_of UBERON:0000965 ! lens of camera-type eye relationship: part_of UBERON:0000965 ! lens of camera-type eye property_value: IAO:0000232 "this class is the superclass of the anterior epithelium and equatorial epithlium, although the term 'lens epithelium' may refer specifically to the former" xsd:string [Term] id: UBERON:0001804 name: capsule of lens namespace: uberon def: "the elastic, clear, membrane-like structure, that is outer most layer of the lens" [http://www.ncbi.nlm.nih.gov/pubmed/15483628, MGI:smb, MP:0003236] def: "The elastic, clear, membrane-like structure, that is outer most layer of the lens." [MGI:smb, MP:0003236, PMID:15483628] def: "The elastic, clear, membrane-like structure, that is outer most layer of the lens." [http://www.ncbi.nlm.nih.gov/pubmed/15483628, MGI:smb, MP:0003236] subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "capsula lentis" EXACT LATIN [] synonym: "lens capsule" EXACT [] xref: EHDAA2:0000977 xref: EMAPA:18237 xref: FMA:58881 xref: http://linkedlifedata.com/resource/umls/id/C0229232 xref: http://www.snomedbrowser.com/Codes/Details/244500004 xref: Lens_capsule xref: MA:0001300 xref: NCIT:C32975 xref: SCTID:244500004 xref: UMLS:C0229232 {source="ncithesaurus:Lens_Capsule"} xref: VHOG:0000550 xref: Wikipedia:Lens_(anatomy)#Lens_capsule xref: ZFA:0005574 is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0005764 ! acellular membrane is_a: UBERON:0010314 ! structure with developmental contribution from neural crest intersection_of: UBERON:0000476 ! acellular anatomical structure intersection_of: bounding_layer_of UBERON:0000965 ! lens of camera-type eye relationship: bounding_layer_of UBERON:0000965 ! lens of camera-type eye relationship: develops_from UBERON:0005614 {source="EHDAA2"} ! lens anterior epithelium relationship: has_part CHEBI:35722 ! sulfated glycosaminoglycan relationship: has_part GO:0005587 ! collagen type IV trimer relationship: has_quality PATO:0000964 ! transparent relationship: part_of UBERON:0000965 ! lens of camera-type eye property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/5/55/Gray883.png xsd:anyURI property_value: UBPROP:0000001 "The transparent membrane which surrounds the lens of the eye. [Dorian_AF, Elsevier's_encyclopaedic_dictionary_of_medicine, Part_B:_Anatomy_(1988)_Amsterdam_etc.:_Elsevier][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000550", ontology="VHOG", source="http://bgee.unil.ch/"} property_value: UBPROP:0000001 "The transparent membrane which surrounds the lens of the eye. [Dorian_AF, Elsevier's_encyclopaedic_dictionary_of_medicine, Part_B:_Anatomy_(1988)_Amsterdam_etc.:_Elsevier][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000550", ontology="VHOG", source="http://bgee.unil.ch/"} property_value: UBPROP:0000003 "(...) we reach the inescapable conclusion that the last common ancestor of jawless and jawed vertebrates already possessed an eye that was comparable to that of extant lampreys and gnathostomes. Accordingly, a vertebrate camera-like eye must have been present by the time that lampreys and gnathostomes diverged, around 500 Mya (reference 1); Although the eye varies greatly in adaptative details among vertebrates, its basic structure is the same in all. The human eye is representative of the design typical for a tetrapod. (...) A watery aqueous humor fills the spaces in the eye in front of the lens (...) (reference 2).[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000550", ontology="VHOG", source="DOI:10.1038/nrn2283 Lamb TD, Collin SP and Pugh EN Jr, Evolution of the vertebrate eye: opsins, photoreceptors, retina and eye cup. Nature Reviews Neuroscience (2007), ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.424 and p.426 and p.429 and Figure 12-24", source="http://bgee.unil.ch/"} property_value: UBPROP:0000003 "(...) we reach the inescapable conclusion that the last common ancestor of jawless and jawed vertebrates already possessed an eye that was comparable to that of extant lampreys and gnathostomes. Accordingly, a vertebrate camera-like eye must have been present by the time that lampreys and gnathostomes diverged, around 500 Mya (reference 1); Although the eye varies greatly in adaptative details among vertebrates, its basic structure is the same in all. The human eye is representative of the design typical for a tetrapod. (...) A watery aqueous humor fills the spaces in the eye in front of the lens (...) (reference 2).[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000550", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1038/nrn2283 Lamb TD, Collin SP and Pugh EN Jr, Evolution of the vertebrate eye: opsins, photoreceptors, retina and eye cup. Nature Reviews Neuroscience (2007), ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.424 and p.426 and p.429 and Figure 12-24"} property_value: UBPROP:0000010 "synthesized by the lens epithelium and its main components are Type IV collagen and sulfated glycosaminoglycans (GAGs). [Wikipedia:Capsule_of_lens" xsd:string property_value: UBPROP:0000012 "FMA classifies this is a capsule and hence an organ part. In contrast we classify this as acellular" xsd:string {external_ontology="FMA"} [Term] id: UBERON:0001805 name: autonomic ganglion namespace: uberon def: "Ganglion that has dendrites that form a junction between autonomic nerves originating from the central nervous system and autonomic nerves innervating their target organs in the periphery. There are two subtypes, sympathetic ganglion and parasympathetic ganglion." [Wikipedia:Autonomic_ganglion] subset: uberon_slim synonym: "autonomic nervous system ganglion" EXACT [OBOL:automatic] synonym: "ganglion autonomicum" RELATED LATIN [Wikipedia:Autonomic_ganglion] synonym: "ganglion of autonomic nervous system" EXACT [OBOL:automatic] synonym: "ganglion of visceral nervous system" EXACT [OBOL:automatic] synonym: "visceral nervous system ganglion" EXACT [OBOL:automatic] xref: AEO:0001001 xref: CALOHA:TS-2340 xref: EMAPA:17157 xref: EMAPA:18221 xref: FMA:5889 xref: MA:0000220 xref: MESH:D005725 xref: NCIT:C12720 xref: UMLS:C0017068 {source="ncithesaurus:Autonomic_Ganglion"} xref: Wikipedia:Autonomic_ganglion is_a: UBERON:0003338 ! ganglion of peripheral nervous system intersection_of: UBERON:0000045 ! ganglion intersection_of: part_of UBERON:0002410 ! autonomic nervous system relationship: extends_fibers_into UBERON:0034728 ! autonomic nerve relationship: part_of UBERON:0002410 ! autonomic nervous system property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/f/f7/Gray839.png xsd:anyURI [Term] id: UBERON:0001806 name: sympathetic ganglion namespace: uberon def: "A ganglion of the sympathetic nervous system. Examples: paravertebral and the prevertebral ganglia, which include the sympathetic chain ganglia, the superior, middle, and inferior cervical ganglia, and the aorticorenal, celiac, and stellate ganglia." [http://orcid.org/0000-0002-6601-2165, MP:0001008] subset: pheno_slim subset: uberon_slim synonym: "ganglion of sympathetic nervous system" EXACT [OBOL:automatic] synonym: "ganglion of sympathetic part of autonomic division of nervous system" EXACT [OBOL:automatic] synonym: "ganglion sympatheticum" EXACT [] synonym: "ganglion sympathicum" RELATED LATIN [Wikipedia:Sympathetic_ganglion] synonym: "ganglion sympathicum" RELATED [BTO:0001333] synonym: "sympathetic nervous system ganglion" EXACT [OBOL:automatic] synonym: "sympathetic part of autonomic division of nervous system ganglion" EXACT [OBOL:automatic] xref: AAO:0010773 xref: BTO:0001333 xref: CALOHA:TS-0994 xref: EHDAA2:0001969 xref: EMAPA:17157 xref: FMA:5890 xref: MA:0000226 xref: NCIT:C12467 xref: SCTID:362485003 xref: UMLS:C0017071 {source="ncithesaurus:Sympathetic_Ganglion"} xref: Wikipedia:Sympathetic_ganglion is_a: UBERON:0001805 ! autonomic ganglion is_a: UBERON:0010313 ! neural crest-derived structure intersection_of: UBERON:0000045 ! ganglion intersection_of: part_of UBERON:0000013 ! sympathetic nervous system relationship: contributes_to_morphology_of UBERON:0000013 ! sympathetic nervous system relationship: develops_from UBERON:0003083 {source="DOI:10.1101/gr.157586.113", source="ISBN:0073040584"} ! trunk neural crest relationship: extends_fibers_into UBERON:0034729 ! sympathetic nerve relationship: part_of UBERON:0000013 ! sympathetic nervous system property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/f/f7/Gray839.png xsd:anyURI [Term] id: UBERON:0001833 name: lip namespace: uberon def: "One of the two fleshy folds which surround the opening of the mouth." [http://en.wikipedia.org/wiki/Lip, http://www.medterms.com/script/main/art.asp?articlekey=9458] def: "One of the two fleshy folds which surround the opening of the mouth." [http://www.medterms.com/script/main/art.asp?articlekey=9458, Wikipedia:Lip] subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "labia oris" RELATED LATIN [Wikipedia:Lip] synonym: "labia oris" RELATED LATIN [http://en.wikipedia.org/wiki/Lip] synonym: "lips" RELATED [] xref: BTO:0001647 xref: CALOHA:TS-0558 xref: EMAPA:32839 xref: FMA:59816 xref: GAID:76 xref: galen:Lip xref: http://en.wikipedia.org/wiki/Lip xref: http://linkedlifedata.com/resource/umls/id/C0023759 xref: http://www.snomedbrowser.com/Codes/Details/181221003 xref: MA:0000343 xref: MESH:D008046 xref: NCIT:C12220 xref: OpenCyc:Mx4rvVi4U5wpEbGdrcN5Y29ycA xref: SCTID:181221003 xref: TAO:0007006 xref: UMLS:C0023759 {source="ncithesaurus:Lip"} xref: VHOG:0000677 xref: Wikipedia:Lip xref: ZFA:0007006 is_a: UBERON:0003102 {source="ZFA"} ! surface structure relationship: contributes_to_morphology_of UBERON:0000165 ! mouth relationship: part_of UBERON:0000165 {source="BTO", source="FMA-implicit", source="VHOG", source="ZFA"} ! mouth relationship: surrounds UBERON:0000166 {source="cjm"} ! oral opening property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/9/90/Lips.JPG xsd:anyURI property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/9/99/Mouth.jpg xsd:anyURI property_value: RO:0002161 NCBITaxon:8782 property_value: UBPROP:0000001 "Surface structure that is one of the two fleshy folds surrounding the opening of the mouth.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0007006", ontology="TAO", source="http://purl.obolibrary.org/obo/uberon/http/:www.medterms.com/script/main/art.asp?articlekey=9458", source="ZFIN:curator"} property_value: UBPROP:0000001 "Surface structure that is one of the two fleshy folds surrounding the opening of the mouth.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0007006", ontology="TAO", source="ZFIN:curator", source="http//:www.medterms.com/script/main/art.asp?articlekey=9458"} property_value: UBPROP:0000007 "labial" xsd:string [Term] id: UBERON:0001835 name: lower lip namespace: uberon alt_id: UBERON:0003392 def: "Lip that covers the lower portion of the mouth.[TAO]." [http://en.wikipedia.org/wiki/Lower_lip, TAO:0002060] def: "Lip that covers the lower portion of the mouth.[TAO]." [TAO:0002060, Wikipedia:Lower_lip] subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "labium inferius oris" RELATED LATIN [Wikipedia:Lower_lip] synonym: "labium inferius oris" RELATED LATIN [http://en.wikipedia.org/wiki/Lower_lip] synonym: "lower jaw lip" EXACT [https://orcid.org/0000-0002-6601-2165] xref: EHDAA2:0001020 xref: EMAPA:17909 xref: FMA:59818 xref: http://linkedlifedata.com/resource/umls/id/C0458583 xref: http://www.snomedbrowser.com/Codes/Details/245777007 xref: Lower:lip xref: MA:0000921 xref: NCIT:C94572 xref: OpenCyc:Mx4rv842UpwpEbGdrcN5Y29ycA xref: SCTID:245777007 xref: TAO:0002060 xref: UMLS:C0458583 {source="ncithesaurus:Lower_Lip"} xref: Wikipedia:Lower_lip xref: ZFA:0005225 is_a: UBERON:0001833 ! lip is_a: UBERON:0010314 ! structure with developmental contribution from neural crest intersection_of: UBERON:0001833 ! lip intersection_of: part_of UBERON:0001710 ! lower jaw region relationship: develops_from UBERON:0011596 ! future lower lip relationship: part_of UBERON:0001710 ! lower jaw region property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/9/99/Mouth.jpg xsd:anyURI property_value: UBPROP:0000001 "Lip that covers the lower portion of the mouth.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0002060", ontology="TAO", source="TAO:wd"} [Term] id: UBERON:0001884 name: phrenic nerve namespace: uberon def: "A nerve that arises from the caudal cervical nerves and is primarily the motor nerve of the diaphragm but also sends sensory fibers to the pericardium." [VHOG:0000728] subset: pheno_slim subset: uberon_slim synonym: "diaphragmatic nerve" RELATED [BTO:0001063] synonym: "nervus phrenicus" RELATED [BTO:0001063] synonym: "nervus phrenicus" RELATED LATIN [Wikipedia:Phrenic_nerve] synonym: "phrenic" RELATED [BTO:0001063] xref: BAMS:phn xref: BTO:0001063 xref: EHDAA:4677 xref: EMAPA:17813 xref: FMA:6191 xref: GAID:848 xref: MA:0001170 xref: MESH:D010791 xref: NCIT:C52813 xref: OpenCyc:Mx4rvtmdUJwpEbGdrcN5Y29ycA xref: SCTID:280344009 xref: UMLS:C0031774 {source="ncithesaurus:Phrenic_Nerve"} xref: VHOG:0000728 xref: Wikipedia:Phrenic_nerve is_a: UBERON:0003443 ! thoracic cavity nerve is_a: UBERON:0003473 ! thoracic cavity artery intersection_of: UBERON:0001021 ! nerve intersection_of: supplies UBERON:0001103 ! diaphragm relationship: branching_part_of UBERON:0000962 ! nerve of cervical vertebra relationship: supplies UBERON:0001103 ! diaphragm property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/3/3c/Gray806.png xsd:anyURI property_value: UBPROP:0000001 "A nerve that arises from the caudal cervical nerves and is primarily the motor nerve of the diaphragm but also sends sensory fibers to the pericardium. [TFD][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000728", ontology="VHOG", source="http://bgee.unil.ch/", source="http://medical-dictionary.thefreedictionary.com/phrenic+nerve"} [Term] id: UBERON:0001891 name: midbrain namespace: uberon def: "The midbrain is the middle division of the three primary divisions of the developing chordate brain or the corresponding part of the adult brain (in vertebrates, includes a ventral part containing the cerebral peduncles and a dorsal tectum containing the corpora quadrigemina and that surrounds the aqueduct of Sylvius connecting the third and fourth ventricles)[GO]." [GO:0030901] subset: efo_slim subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "MB" BROAD ABBREVIATION [BIRNLEX:1667, NIFSTD:NeuroNames_abbrevSource] synonym: "mesencephalon" RELATED LATIN [Wikipedia:Midbrain] synonym: "mesencephalon" RELATED LATIN [http://en.wikipedia.org/wiki/Midbrain] xref: AAO:0010149 xref: BAMS:MES xref: BIRNLEX:1667 xref: BM:MB xref: BTO:0000138 xref: CALOHA:TS-0630 xref: DHBA:10648 xref: DMBA:16649 xref: EFO:0000919 xref: EHDAA2:0001162 xref: EHDAA:3694 xref: EMAPA:16974 xref: EV:0100242 xref: FMA:61993 xref: HBA:9001 xref: http://braininfo.rprc.washington.edu/centraldirectory.aspx?ID=462 xref: http://braininfo.rprc.washington.edu/centraldirectory.aspx?ID=462 {source="BIRNLEX:1667"} xref: http://en.wikipedia.org/wiki/Midbrain xref: http://linkedlifedata.com/resource/umls/id/C0025462 xref: http://www.snomedbrowser.com/Codes/Details/279099009 xref: MA:0000207 xref: MAT:0000106 xref: MBA:313 xref: MESH:D008636 xref: MIAA:0000106 xref: NCIT:C12510 xref: OpenCyc:Mx4rvsBUqpwpEbGdrcN5Y29ycA xref: RETIRED_EHDAA2:0001104 xref: SCTID:279099009 xref: TAO:0000128 xref: UMLS:C0025462 {source="ncithesaurus:Mesencephalon"} xref: UMLS:C0025462 {source="BIRNLEX:1667"} xref: VHOG:0000069 xref: Wikipedia:Midbrain xref: XAO:0000014 xref: ZFA:0000128 is_a: UBERON:0002616 ! regional part of brain is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: contributes_to_morphology_of UBERON:0000955 ! brain relationship: develops_from UBERON:0009616 ! presumptive midbrain relationship: has_developmental_contribution_from UBERON:0003849 {evidence="definitional"} ! mesencephalic neural crest relationship: immediate_transformation_of UBERON:0009616 {source="Bgee:AN"} ! presumptive midbrain property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/f/f9/Human_brain_inferior_view_description.JPG xsd:anyURI property_value: editor_note "developmental relationships need revised" xsd:string property_value: RO:0002171 UBERON:0001894 {exceptions="ZFA", exceptions_url="https://github.com/obophenotype/uberon/issues/378", source="ABA", status="pending"} property_value: RO:0002171 UBERON:0002028 {exceptions="ZFA", source="ABA", status="pending"} property_value: UBPROP:0000001 "Middle part of the brain composed of the optic tectum and penducular region.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0010149", ontology="AAO", source="AAO:BJB"} property_value: UBPROP:0000001 "The brain region between the forebrain anteriorly and the hindbrain posteriorly, including the tectum dorsally and the midbrain tegmentum ventrally. Kimmel et al, 1995.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0000128", ontology="TAO", source="ZFIN:curator"} property_value: UBPROP:0000003 "Fine structural, computerized three-dimensional (3D) mapping of cell connectivity in the amphioxus nervous system and comparative molecular genetic studies of amphioxus and tunicates have provided recent insights into the phylogenetic origin of the vertebrate nervous system. The results suggest that several of the genetic mechanisms for establishing and patterning the vertebrate nervous system already operated in the ancestral chordate and that the nerve cord of the proximate invertebrate ancestor of the vertebrates included a diencephalon, midbrain, hindbrain, and spinal cord.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000069", ontology="VHOG", source="DOI:10.1016/S0959-4388(99)00003-3 Holland LZ and Holland ND, Chordate origins of the vertebrate central nervous system. Current Opinion in Neurobiology (1999)", source="http://bgee.unil.ch/"} property_value: UBPROP:0000003 "Fine structural, computerized three-dimensional (3D) mapping of cell connectivity in the amphioxus nervous system and comparative molecular genetic studies of amphioxus and tunicates have provided recent insights into the phylogenetic origin of the vertebrate nervous system. The results suggest that several of the genetic mechanisms for establishing and patterning the vertebrate nervous system already operated in the ancestral chordate and that the nerve cord of the proximate invertebrate ancestor of the vertebrates included a diencephalon, midbrain, hindbrain, and spinal cord.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000069", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1016/S0959-4388(99)00003-3 Holland LZ and Holland ND, Chordate origins of the vertebrate central nervous system. Current Opinion in Neurobiology (1999)"} property_value: UBPROP:0000007 "mesencephalic" xsd:string property_value: UBPROP:0000012 "part of brainstem in ABA - we reject this in favor of ISBN:0471888893 which has an implicit overlaps relationships" xsd:string {external_ontology="ABA"} [Term] id: UBERON:0001892 name: rhombomere namespace: uberon def: "A segment of the developing hindbrain[ZFA]. In the vertebrate embryo, a rhombomere is a transiently divided segment of the developing neural tube, within the hindbrain region (a neuromere) in the area that will eventually become the rhombencephalon. The rhombomeres appear as a series of slightly constricted swellings in the neural tube, caudal to the cephalic flexure.[WP]." [http://en.wikipedia.org/wiki/Rhombomere, ZFIN:curator] def: "A segment of the developing hindbrain[ZFA]. In the vertebrate embryo, a rhombomere is a transiently divided segment of the developing neural tube, within the hindbrain region (a neuromere) in the area that will eventually become the rhombencephalon. The rhombomeres appear as a series of slightly constricted swellings in the neural tube, caudal to the cephalic flexure.[WP]." [Wikipedia:Rhombomere, ZFIN:curator] subset: efo_slim subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "future rhombencephalon" RELATED [MIAA:0000272] synonym: "hindbrain neuromere" EXACT [] synonym: "hindbrain neuromeres" EXACT PLURAL [DHBA:HNM] synonym: "hindbrain segment" BROAD [ZFA:0001064] synonym: "rhombomere" EXACT [] synonym: "rhombomeres" RELATED PLURAL [VHOG:0000672] synonym: "segment of hindbrain" BROAD [ZFA:0001064] xref: DHBA:12664 xref: EFO:0003617 xref: EMAPA:16148 xref: FMA:295666 xref: http://en.wikipedia.org/wiki/Rhombomere xref: MAT:0000272 xref: MIAA:0000272 xref: RETIRED_EHDAA2:0000669 xref: TAO:0001064 xref: VHOG:0000672 xref: Wikipedia:Rhombomere xref: XAO:0004079 xref: ZFA:0001064 is_a: UBERON:0004731 ! neuromere intersection_of: UBERON:0004731 ! neuromere intersection_of: part_of UBERON:0007277 ! presumptive hindbrain relationship: part_of UBERON:0007277 ! presumptive hindbrain property_value: UBPROP:0000001 "A segment of the developing hindbrain. Kimmel et al, 1995.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0001064", ontology="TAO", source="ZFIN:curator"} property_value: UBPROP:0000003 "Rhombomeric segmentation is found in all living vertebrates and is of fundamental importance to the development of the vertebrate head.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000672", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1006/dbio.2002.0831 Mazet F, Shimeld SM, The Evolution of Chordate Neural Segmentation. Developmental Biology (2002)"} property_value: UBPROP:0000003 "Rhombomeric segmentation is found in all living vertebrates and is of fundamental importance to the development of the vertebrate head.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000672", ontology="VHOG", source="DOI:10.1006/dbio.2002.0831 Mazet F, Shimeld SM, The Evolution of Chordate Neural Segmentation. Developmental Biology (2002)", source="http://bgee.unil.ch/"} property_value: UBPROP:0000008 "In human embryonic development, the rhombomeres are present by day 29" xsd:string property_value: UBPROP:0000012 "DHBA divides this into A(1-3),B(4),C(5-7) and D(8)" xsd:string [Term] id: UBERON:0001895 name: metencephalon namespace: uberon def: "Rostral segment of the hindbrain that has as its parts the pons (where present) and the cerebellum[WP,modified]." [https://github.com/obophenotype/uberon/issues/300, Wikipedia:Metencephalon] comment: the terms metencephalon and myelencephalon are only meaningful in mammals and birds[Neuroanatomy of the Zebrafish Brain]. In zebrafish, with the exception of the cerebellum, the ventral remainder of the metencephalon can be separated only arbitrarily from the more caudal myelencephalic portion of the medulla oblongata and thus these are not distinguished in ZFA[ZFA]. subset: pheno_slim subset: uberon_slim synonym: "epencephalon" BROAD INCONSISTENT [ncithesaurus:Epencephalon] synonym: "epencephalon-2" EXACT [FMA:62003] xref: BAMS:Met xref: BIRNLEX:965 xref: BTO:0000673 xref: CALOHA:TS-2029 xref: DHBA:10655 xref: EHDAA2:0001149 xref: EHDAA:5498 xref: EMAPA:17071 xref: FMA:62003 xref: GAID:594 xref: HBA:4833 xref: http://braininfo.rprc.washington.edu/centraldirectory.aspx?ID=543 {source="BIRNLEX:965"} xref: MA:0000197 xref: MESH:D020540 xref: NCIT:C32741 xref: UMLS:C0376353 {source="BIRNLEX:965"} xref: UMLS:C1516904 {source="ncithesaurus:Epencephalon"} xref: VHOG:0000741 xref: Wikipedia:Metencephalon is_a: UBERON:0004733 ! segmental subdivision of hindbrain relationship: contributes_to_morphology_of UBERON:0002028 ! hindbrain relationship: immediate_transformation_of UBERON:0010092 {evidence="definitional"} ! future metencephalon property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/5/54/EmbryonicBrain.svg xsd:anyURI property_value: RO:0002174 NCBITaxon:7955 property_value: UBPROP:0000001 "Anterior part of the hindbrain ventral to the cerebellum[BIRNLEX:965]." xsd:string {source="BIRNLEX:965"} property_value: UBPROP:0000001 "The anterior of two brain vesicles formed by specialization of the rhombencephalon in the developing embryo. It gives rise to cerebellum and pons. [TFD][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000741", ontology="VHOG", source="http://bgee.unil.ch/", source="http://medical-dictionary.thefreedictionary.com/metencephalon"} property_value: UBPROP:0000003 "The early development of most vertebrate brains is similar (...). The zebrafish neural tube follows the same basic differentiation pattern as the mammalian neural tube (reference 1); The brain develops from three embryonic enlargements of the neural tube, which later differentiate into five regions. A forebrain differentiates into telencephalon and diencephalon. The midbrain, or mesencephalon, remains undivided. The hindbrain divides into the metencephalon and myelencephalon. Cavities within the brain enlarge to form a series of interconnected ventricles (reference 2).[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000741", ontology="VHOG", source="ISBN:978-0878932504 Gilbert SF, Developmental Biology (2006) p.381-382, ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.500", source="http://bgee.unil.ch/"} [Term] id: UBERON:0001896 name: medulla oblongata namespace: uberon def: "Organ component of neuraxis that has as its parts the medullary reticular formation, inferior olivary complex and cochlear nuclear complex, among other structures[FMA]. The medulla oblongata lies directly above the spinal cord and controls vital autonomic functions such as digestion, breathing and the control of heart rate[GO]." [FMA:62004, GO:0021550, Wikipedia:Bone_marrow_of_ovary_oblongata] def: "Organ component of neuraxis that has as its parts the medullary reticular formation, inferior olivary complex and cochlear nuclear complex, among other structures[FMA]. The medulla oblongata lies directly above the spinal cord and controls vital autonomic functions such as digestion, breathing and the control of heart rate[GO]." [FMA:62004, GO:0021550, http://en.wikipedia.org/wiki/Bone_marrow_of_ovary_oblongata] subset: efo_slim subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "bulb" BROAD [] synonym: "bulbus" EXACT LATIN [FMA:62004, FMA:TA] synonym: "medulla" BROAD [ABA:MY] synonym: "medulla oblonzata" RELATED LATIN [Wikipedia:Medulla_oblongata] synonym: "medulla oblonzata" RELATED LATIN [http://en.wikipedia.org/wiki/Medulla_oblongata] synonym: "metepencephalon" RELATED [FMA:62004] xref: AAO:0010486 xref: BAMS:Md xref: BAMS:MY xref: BIRNLEX:957 xref: BM:Me xref: BTO:0000041 xref: CALOHA:TS-0607 xref: DMBA:17352 xref: EFO:0000924 xref: EHDAA2:0001088 xref: EHDAA:7588 xref: EMAPA:17550 xref: EV:0100275 xref: FMA:62004 xref: GAID:590 xref: http://braininfo.rprc.washington.edu/centraldirectory.aspx?ID=698 xref: http://braininfo.rprc.washington.edu/centraldirectory.aspx?ID=698 {source="BIRNLEX:957"} xref: http://en.wikipedia.org/wiki/Bone_marrow_of_ovary_oblongata xref: http://linkedlifedata.com/resource/umls/id/C0025148 xref: http://linkedlifedata.com/resource/umls/id/C1269575 xref: http://www.snomedbrowser.com/Codes/Details/279104005 xref: MA:0000206 xref: MAT:0000111 xref: MAT:0000367 xref: MBA:354 xref: MESH:D008526 xref: MIAA:0000111 xref: NCIT:C12442 xref: OpenCyc:Mx4rvVjxSJwpEbGdrcN5Y29ycA xref: OpenCyc:Mx4rwCqnXJwpEbGdrcN5Y29ycA xref: SCTID:279104005 xref: TAO:0000545 xref: UMLS:C0025148 {source="ncithesaurus:Medulla_Oblongata"} xref: UMLS:C0025148 {source="BIRNLEX:957"} xref: UMLS:C1269575 {source="BIRNLEX:957"} xref: VHOG:0000181 xref: Wikipedia:Bone_marrow_of_ovary_oblongata xref: XAO:0003100 xref: ZFA:0000545 is_a: UBERON:0000064 ! organ part is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: capable_of GO:0002027 ! regulation of heart rate relationship: capable_of GO:0043576 ! regulation of respiratory gaseous exchange relationship: capable_of GO:0044058 ! regulation of digestive system process relationship: part_of UBERON:0002298 ! brainstem relationship: part_of UBERON:0005290 ! myelencephalon property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/6/6b/Illu_pituitary_pineal_glands.jpg xsd:anyURI property_value: UBPROP:0000001 "Posterior portion of the hindbrain which controls respiration, heartbeat, digestion, and swallowing as well as some locomotor responses.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0010486", ontology="AAO", source="AAO:BJB"} property_value: UBPROP:0000001 "The posterior region of the brain that is continuous with the spinal cord. [Bemis_WE, Functional_Anatomy_of_the_Vertebrates:_An_Evolutionary_Perspective, Glossary_G-17, Grande_L, Liem_KF, Third_Edition_(2001)_Orlando_Fla.:_Harcourt_College_Publishers, Walker_WF][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000181", ontology="VHOG", source="http://bgee.unil.ch/"} property_value: UBPROP:0000001 "The posterior region of the brain that is continuous with the spinal cord. [Bemis_WE, Functional_Anatomy_of_the_Vertebrates:_An_Evolutionary_Perspective, Glossary_G-17, Grande_L, Liem_KF, Third_Edition_(2001)_Orlando_Fla.:_Harcourt_College_Publishers, Walker_WF][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000181", ontology="VHOG", source="http://bgee.unil.ch/"} property_value: UBPROP:0000003 "Classical anatomical studies subdivided the vertebrate rhombencephalon into pons and medulla oblongata. (...) The medulla oblongata appears therefore as a tagma, that is, a group of segmental units (pseudorhombomeres, in this case) sharing some morphological and molecular characteristics, and in some aspects different from the segmental units present in adjoining brain regions, pons and spinal cord.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000181", ontology="VHOG", source="DOI:10.1016/j.ydbio.2008.08.017 Marin F, Aroca P, Puelles L, Hox gene colinear expression in the avian medulla oblongata is correlated with pseudorhombomeric domains. Developmental Biology (2008)", source="http://bgee.unil.ch/"} property_value: UBPROP:0000003 "Classical anatomical studies subdivided the vertebrate rhombencephalon into pons and medulla oblongata. (...) The medulla oblongata appears therefore as a tagma, that is, a group of segmental units (pseudorhombomeres, in this case) sharing some morphological and molecular characteristics, and in some aspects different from the segmental units present in adjoining brain regions, pons and spinal cord.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000181", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1016/j.ydbio.2008.08.017 Marin F, Aroca P, Puelles L, Hox gene colinear expression in the avian medulla oblongata is correlated with pseudorhombomeric domains. Developmental Biology (2008)"} [Term] id: UBERON:0001915 name: endothelium of capillary namespace: uberon def: "An endothelium that is part of a capillary [Automatically generated definition]." [OBOL:automatic] synonym: "blood capillary endothelium" EXACT [OBOL:automatic] synonym: "capillary endothelium" EXACT [] synonym: "capillary vessel endothelium" EXACT [OBOL:automatic] synonym: "endothelium of blood capillary" EXACT [OBOL:automatic] synonym: "endothelium of capillary vessel" EXACT [OBOL:automatic] xref: BTO:0004954 xref: CALOHA:TS-0112 xref: EMAPA:36292 xref: FMA:62114 xref: http://linkedlifedata.com/resource/umls/id/C0006904 xref: MA:0000711 xref: NCIT:C49215 xref: UMLS:C0006904 {source="ncithesaurus:Capillary_Endothelium"} is_a: UBERON:0004638 ! blood vessel endothelium intersection_of: UBERON:0001986 ! endothelium intersection_of: part_of UBERON:0001982 ! capillary relationship: part_of UBERON:0001982 ! capillary [Term] id: UBERON:0001916 name: endothelium of arteriole namespace: uberon def: "An endothelium that is part of an arteriole [Automatically generated definition]." [OBOL:automatic] synonym: "arteriole endothelium" EXACT [] xref: EMAPA:36286 xref: FMA:62115 xref: http://linkedlifedata.com/resource/umls/id/C1179024 xref: MA:0000705 xref: NCIT:C49192 xref: UMLS:C1179024 {source="ncithesaurus:Arteriole_Endothelium"} is_a: UBERON:0004638 ! blood vessel endothelium is_a: UBERON:0004700 ! arterial system endothelium intersection_of: UBERON:0001986 ! endothelium intersection_of: part_of UBERON:0001980 ! arteriole relationship: part_of UBERON:0001980 ! arteriole [Term] id: UBERON:0001917 name: endothelium of artery namespace: uberon def: "An endothelium that is part of an artery [Automatically generated definition]." [OBOL:automatic] synonym: "arterial endothelium" EXACT [] synonym: "artery endothelium" EXACT [] xref: AAO:0011013 xref: BTO:0004757 xref: EMAPA:35148 xref: FMA:62116 xref: http://linkedlifedata.com/resource/umls/id/C1179025 xref: MA:0000707 xref: NCIT:C49194 xref: UMLS:C1179025 {source="ncithesaurus:Artery_Endothelium"} xref: VHOG:0001215 xref: XAO:0000357 is_a: UBERON:0003915 ! endothelial tube is_a: UBERON:0004638 ! blood vessel endothelium is_a: UBERON:0004700 ! arterial system endothelium intersection_of: UBERON:0001986 ! endothelium intersection_of: part_of UBERON:0001637 ! artery relationship: part_of UBERON:0001637 ! artery property_value: UBPROP:0000001 "The endothelium is the thin layer of cells that lines the interior surface of blood vessels, forming an interface between circulating blood in the lumen and the rest of the vessel wall.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0011013", ontology="AAO", source="XAO:curator"} property_value: UBPROP:0000003 "Vertebrates and a very few invertebrates such as squids have evolved a secondary epithelium, the endothelium, that lines their blood vessels.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001215", ontology="VHOG", source="ISBN:978-0030259821 Ruppert EE, Fox RS, Barnes RD, Invertebrate zoology: a functional evolutionary approach (2003) p.207", source="http://bgee.unil.ch/"} property_value: UBPROP:0000003 "Vertebrates and a very few invertebrates such as squids have evolved a secondary epithelium, the endothelium, that lines their blood vessels.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001215", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0030259821 Ruppert EE, Fox RS, Barnes RD, Invertebrate zoology: a functional evolutionary approach (2003) p.207"} [Term] id: UBERON:0001918 name: endothelium of venule namespace: uberon def: "An endothelium that is part of a venule [Automatically generated definition]." [OBOL:automatic] synonym: "venule endothelium" EXACT [] xref: EMAPA:36290 xref: FMA:62117 xref: http://linkedlifedata.com/resource/umls/id/C1179026 xref: MA:0000716 xref: NCIT:C49319 xref: UMLS:C1179026 {source="ncithesaurus:Venule_Endothelium"} is_a: UBERON:0004638 ! blood vessel endothelium is_a: UBERON:0004701 ! venous system endothelium intersection_of: UBERON:0001986 ! endothelium intersection_of: part_of UBERON:0001979 ! venule relationship: part_of UBERON:0001979 ! venule [Term] id: UBERON:0001919 name: endothelium of vein namespace: uberon def: "An endothelium that is part of a vein [Automatically generated definition]." [OBOL:automatic] synonym: "vein endothelium" EXACT [] synonym: "veinous endothelium" RELATED [VHOG:0001216] synonym: "venous endothelium" EXACT [] xref: AAO:0011110 xref: BTO:0004756 xref: EMAPA:36288 xref: FMA:62118 xref: http://linkedlifedata.com/resource/umls/id/C1179027 xref: MA:0000712 xref: NCIT:C49317 xref: UMLS:C1179027 {source="ncithesaurus:Vein_Endothelium"} xref: VHOG:0001216 xref: XAO:0000358 is_a: UBERON:0004638 ! blood vessel endothelium is_a: UBERON:0004701 ! venous system endothelium intersection_of: UBERON:0001986 ! endothelium intersection_of: part_of UBERON:0001638 ! vein relationship: part_of UBERON:0001638 ! vein property_value: UBPROP:0000003 "Vertebrates and a very few invertebrates such as squids have evolved a secondary epithelium, the endothelium, that lines their blood vessels.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001216", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0030259821 Ruppert EE, Fox RS, Barnes RD, Invertebrate zoology: a functional evolutionary approach (2003) p.207"} property_value: UBPROP:0000003 "Vertebrates and a very few invertebrates such as squids have evolved a secondary epithelium, the endothelium, that lines their blood vessels.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001216", ontology="VHOG", source="ISBN:978-0030259821 Ruppert EE, Fox RS, Barnes RD, Invertebrate zoology: a functional evolutionary approach (2003) p.207", source="http://bgee.unil.ch/"} [Term] id: UBERON:0001943 name: midbrain tegmentum namespace: uberon def: "Ventral part of the midbrain, separated from the hindbrain by the isthmus[ISBN:0471888893]. Subdivision of the midbrain lying anterior to the tectum and posterior to the substantia nigra and cerebral peduncle[FMA] The part of the midbrain extending from the substantia nigra to the cerebral aqueduct in a horizontal section of the midbrain. It forms the floor of the midbrain that surrounds the cerebral aqueduct[WP]." [FMA:FMA, ISBN:0471888893, Wikipedia:Midbrain_tegmentum] def: "Ventral part of the midbrain, separated from the hindbrain by the isthmus[ISBN:0471888893]. Subdivision of the midbrain lying anterior to the tectum and posterior to the substantia nigra and cerebral peduncle[FMA] The part of the midbrain extending from the substantia nigra to the cerebral aqueduct in a horizontal section of the midbrain. It forms the floor of the midbrain that surrounds the cerebral aqueduct[WP]." [FMA:FMA, http://en.wikipedia.org/wiki/Midbrain_tegmentum, ISBN:0471888893] comment: 'tegmentum' is used generically for the ventral part of the brainstem (ISBN:0471888893). We use the label 'midbrain tegmentum' to denote the midbrain structure. In NIFSTD tegmentum is a composite structure and there is a separate class for midbrain tegmentum and pontine tegmentum subset: efo_slim subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "mesencephalic tegmentum" RELATED [VHOG:0001367] synonym: "MTg" BROAD ABBREVIATION [BIRNLEX:1200, NIFSTD:NeuroNames_abbrevSource] synonym: "tegmentum" BROAD [ISBN:0471888893] synonym: "tegmentum mesencephali" EXACT LATIN [http://en.wikipedia.org/wiki/Midbrain_tegmentum] synonym: "tegmentum mesencephali" EXACT LATIN [Wikipedia:Midbrain_tegmentum] synonym: "tegmentum mesencephalicum" RELATED LATIN [NeuroNames:491] synonym: "tegmentum of midbrain" EXACT [] xref: BAMS:MTg xref: BIRNLEX:1200 xref: BTO:0003388 xref: DHBA:12195 xref: EFO:0000921 xref: EHDAA2:0004475 xref: EMAPA:18215 xref: FMA:62393 xref: HBA:9002 xref: http://braininfo.rprc.washington.edu/centraldirectory.aspx?ID=491 {source="BIRNLEX:1200"} xref: http://braininfo.rprc.washington.edu/centraldirectory.aspx?ID=491 xref: http://linkedlifedata.com/resource/umls/id/C0039441 xref: http://www.snomedbrowser.com/Codes/Details/362392007 xref: MA:0000212 xref: MAT:0000452 xref: Midbrain:tegmentum xref: SCTID:362392007 xref: TAO:0000160 xref: UMLS:C0039441 {source="BIRNLEX:1200"} xref: VHOG:0001367 xref: Wikipedia:Midbrain_tegmentum xref: XAO:0004271 xref: ZFA:0000160 is_a: UBERON:0002616 ! regional part of brain relationship: develops_from UBERON:0010285 {source="ZFA"} ! midbrain basal plate relationship: part_of UBERON:0001891 ! midbrain relationship: part_of UBERON:0002298 ! brainstem property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/b/b6/Gray712.png xsd:anyURI property_value: UBPROP:0000003 "Together, our results reveal a shared basic organization in the tegmental domains of the diencephalon and midbrain of developing lamprey, indicating early appearance of the domain in vertebrate phylogeny.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001367", ontology="VHOG", source="DOI:10.1016/j.brainresbull.2005.05.001 Villar-Cheda B, Abalo XM, Anadon R, Rodicio MC, The tegmental proliferation region in the sea lamprey. Brain Research Bulletin (2005)", source="http://bgee.unil.ch/"} property_value: UBPROP:0000003 "Together, our results reveal a shared basic organization in the tegmental domains of the diencephalon and midbrain of developing lamprey, indicating early appearance of the domain in vertebrate phylogeny.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001367", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1016/j.brainresbull.2005.05.001 Villar-Cheda B, Abalo XM, Anadon R, Rodicio MC, The tegmental proliferation region in the sea lamprey. Brain Research Bulletin (2005)"} [Term] id: UBERON:0001948 name: regional part of spinal cord namespace: uberon def: "A multi-tissue structure that is part of a spinal cord." [OBOL:automatic] subset: non_informative synonym: "spinal cord part" RELATED [] xref: BIRNLEX:1496 xref: http://linkedlifedata.com/resource/umls/id/C1268166 xref: http://www.snomedbrowser.com/Codes/Details/244437008 xref: NCIT:C33969 xref: SCTID:244437008 xref: UMLS:C1268166 {source="ncithesaurus:Spinal_Cord_Part"} is_a: UBERON:0000073 ! regional part of nervous system is_a: UBERON:0004121 ! ectoderm-derived structure intersection_of: UBERON:0000481 ! multi-tissue structure intersection_of: part_of UBERON:0002240 ! spinal cord relationship: part_of UBERON:0002240 ! spinal cord [Term] id: UBERON:0001969 name: blood plasma namespace: uberon def: "The liquid component of blood, in which erythrocytes are suspended." [http://orcid.org/0000-0002-6601-2165] subset: efo_slim subset: pheno_slim subset: uberon_slim synonym: "blood plasm" EXACT [] synonym: "plasma" BROAD [MA:0002501] synonym: "portion of blood plasma" EXACT [] synonym: "portion of plasma" BROAD [FMA:62970] xref: Blood:plasma xref: BTO:0000131 xref: CALOHA:TS-0800 xref: EFO:0001905 xref: EMAPA:35690 xref: FMA:62970 xref: GAID:1178 xref: http://linkedlifedata.com/resource/umls/id/C0032105 xref: MA:0002501 xref: MAT:0000052 xref: MESH:D010949 xref: MIAA:0000052 xref: NCIT:C13356 xref: OpenCyc:Mx4rEg4ZYrIbEduAAAAOpmP6tw xref: UMLS:C0032105 {source="ncithesaurus:Plasma"} xref: Wikipedia:Blood_plasma is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000179 ! haemolymphatic fluid intersection_of: UBERON:0000463 ! organism substance intersection_of: has_part GO:0005577 ! fibrinogen complex intersection_of: has_quality PATO:0001548 ! quality of a liquid intersection_of: part_of UBERON:0000178 ! blood intersection_of: surrounds CL:0000232 ! erythrocyte relationship: has_part GO:0005577 ! fibrinogen complex relationship: part_of UBERON:0000178 ! blood relationship: surrounds CL:0000232 ! erythrocyte [Term] id: UBERON:0001971 name: gastric juice namespace: uberon def: "." [Wikipedia:Gastric_juice] subset: pheno_slim subset: uberon_slim synonym: "stomach secretion" EXACT [] synonym: "succus gastricus" RELATED [BTO:0000501] xref: BTO:0000501 xref: FMA:62972 xref: GAID:1160 xref: galen:GastricJuice xref: MA:0002519 xref: MESH:D005750 xref: NCIT:C32661 xref: UMLS:C0017133 {source="ncithesaurus:Gastric_Secretion"} xref: Wikipedia:Gastric_juice is_a: UBERON:0000456 ! secretion of exocrine gland intersection_of: UBERON:0000456 ! secretion of exocrine gland intersection_of: produced_by UBERON:0011953 ! stomach glandular region relationship: produced_by UBERON:0011953 ! stomach glandular region [Term] id: UBERON:0001972 name: submucosa of esophagus namespace: uberon def: "A submucosa that is part of a esophagus [Automatically generated definition]." [OBOL:automatic] synonym: "esophageal submucosa" EXACT [] synonym: "esophagus submucosa" EXACT [] synonym: "gullet submucosa" EXACT [OBOL:automatic] synonym: "oesophagus submucosa" EXACT [OBOL:automatic] synonym: "submucosa of esophagus" EXACT [] synonym: "submucosa of gullet" EXACT [OBOL:automatic] synonym: "submucosa of oesophagus" EXACT [OBOL:automatic] synonym: "submucous layer of esophagus" RELATED [BTO:0002109] synonym: "tela submucosa (oesophagus)" EXACT LATIN [FMA:62997, FMA:TA] synonym: "tela submucosa esophagi" EXACT LATIN [BTO:0002109] synonym: "tela submucosa oesophageae" EXACT LATIN [FMA:62997, FMA:TA] synonym: "tela submucosa oesophagi" RELATED [BTO:0002109] synonym: "tela submucosa of esophagus" EXACT [] xref: BTO:0002109 xref: EMAPA:35325 xref: FMA:62997 xref: http://www.snomedbrowser.com/Codes/Details/362128009 xref: MA:0002724 xref: SCTID:362128009 is_a: UBERON:0018257 ! submucosa of digestive tract intersection_of: UBERON:0000009 ! submucosa intersection_of: part_of UBERON:0001043 ! esophagus relationship: part_of UBERON:0001096 ! wall of esophagus [Term] id: UBERON:0001974 name: lamina propria of esophagus namespace: uberon def: "A lamina propria that is part of a esophagus [Automatically generated definition]." [OBOL:automatic] synonym: "esophageal lamina propria" RELATED [EMAPA:26987] synonym: "esophagus lamina propria" EXACT [] synonym: "esophagus lamina propria mucosa" EXACT [OBOL:automatic] synonym: "esophagus lamina propria mucosae" EXACT [OBOL:automatic] synonym: "gullet lamina propria" EXACT [OBOL:automatic] synonym: "gullet lamina propria mucosa" EXACT [OBOL:automatic] synonym: "gullet lamina propria mucosae" EXACT [OBOL:automatic] synonym: "lamina propria mucosa of esophagus" EXACT [OBOL:automatic] synonym: "lamina propria mucosa of gullet" EXACT [OBOL:automatic] synonym: "lamina propria mucosa of oesophagus" EXACT [OBOL:automatic] synonym: "lamina propria mucosae of esophagus" EXACT [] synonym: "lamina propria mucosae of gullet" EXACT [OBOL:automatic] synonym: "lamina propria mucosae of oesophagus" EXACT [OBOL:automatic] synonym: "lamina propria of gullet" EXACT [OBOL:automatic] synonym: "lamina propria of oesophagus" EXACT [OBOL:automatic] synonym: "oesophagus lamina propria" RELATED [] synonym: "oesophagus lamina propria mucosa" EXACT [OBOL:automatic] synonym: "oesophagus lamina propria mucosae" EXACT [OBOL:automatic] xref: EMAPA:26987 xref: FMA:63050 xref: http://linkedlifedata.com/resource/umls/id/C1707949 xref: MA:0001568 xref: NCIT:C49223 xref: UMLS:C1707949 {source="ncithesaurus:Esophageal_Lamina_Propria"} is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000030 ! lamina propria intersection_of: UBERON:0000030 ! lamina propria intersection_of: part_of UBERON:0001043 ! esophagus relationship: part_of UBERON:0002469 {source="FMA"} ! esophagus mucosa [Term] id: UBERON:0001975 name: serosa of esophagus namespace: uberon def: "A serous membrane that is part of a esophagus [Automatically generated definition]." [OBOL:automatic] synonym: "esophagus serosa" EXACT [] synonym: "esophagus serous membrane" EXACT [OBOL:automatic] synonym: "gullet serosa" EXACT [OBOL:automatic] synonym: "gullet serous membrane" EXACT [OBOL:automatic] synonym: "oesophagus serosa" RELATED [] synonym: "oesophagus serous membrane" EXACT [OBOL:automatic] synonym: "serosa of abdominal part of esophagus" EXACT [] synonym: "serosa of gullet" EXACT [OBOL:automatic] synonym: "serosa of oesophagus" EXACT [] synonym: "serous coat of oesophagus" EXACT [] synonym: "serous membrane of esophagus" EXACT [OBOL:automatic] synonym: "serous membrane of gullet" EXACT [OBOL:automatic] synonym: "serous membrane of oesophagus" EXACT [OBOL:automatic] synonym: "tunica serosa oesophageae" EXACT LATIN [FMA:63057, FMA:TA] xref: EMAPA:35322 xref: FMA:63057 xref: MA:0001571 is_a: UBERON:0000042 ! serous membrane intersection_of: UBERON:0000042 ! serous membrane intersection_of: part_of UBERON:0001043 ! esophagus relationship: part_of UBERON:0001096 ! wall of esophagus [Term] id: UBERON:0001976 name: epithelium of esophagus namespace: uberon def: "The epithelial layer that lines the luminal space of the esophagus." [ISBN:0-683-40008-8, MP:0000468] subset: efo_slim subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "epithelial tissue of esophagus" EXACT [OBOL:automatic] synonym: "epithelial tissue of gullet" EXACT [OBOL:automatic] synonym: "epithelial tissue of oesophagus" EXACT [OBOL:automatic] synonym: "epithelium of gullet" EXACT [OBOL:automatic] synonym: "epithelium of oesophagus" EXACT [OBOL:automatic] synonym: "esophageal epithelium" EXACT [] synonym: "esophagus epithelial tissue" EXACT [OBOL:automatic] synonym: "esophagus epithelium" EXACT [] synonym: "gullet epithelial tissue" EXACT [OBOL:automatic] synonym: "gullet epithelium" EXACT [OBOL:automatic] synonym: "oesophagus epithelial tissue" EXACT [OBOL:automatic] synonym: "oesophagus epithelium" RELATED [] xref: BTO:0001578 xref: CALOHA:TS-0698 xref: EFO:0003041 xref: EHDAA2:0001287 xref: EMAPA:16835 xref: FMA:63063 xref: http://linkedlifedata.com/resource/umls/id/C1179544 xref: MA:0001565 xref: NCIT:C49221 xref: TAO:0001499 xref: UMLS:C1179544 {source="ncithesaurus:Esophageal_Epithelium"} xref: ZFA:0001499 is_a: UBERON:0003350 ! epithelium of mucosa is_a: UBERON:0003929 ! digestive tract epithelium intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0001043 ! esophagus relationship: contributes_to_morphology_of UBERON:0001043 ! esophagus relationship: part_of UBERON:0002469 {source="FMA"} ! esophagus mucosa property_value: editor_note "TODO check epithelium types: in FMA: Nonkeratinizing stratified squamous epithelium; mouse has basal and squamous subtypes; in ZFA it is columnar" xsd:string property_value: UBPROP:0000001 "Simple columnar epithelium that lines the esophagus. Chen et al, 2007.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0001499", ontology="TAO", source="ZFIN:curator"} [Term] id: UBERON:0001979 name: venule namespace: uberon def: "One of the minute vessels that collect deoxygenated blood from the capillary plexuses returns it to the veins" [MESH:A07.231.432.952, MP:0004125] def: "One of the minute vessels that collect deoxygenated blood from the capillary plexuses returns it to the veins." [MESH:A07.231.432.952, MP:0004125] subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "venula" RELATED LATIN [http://en.wikipedia.org/wiki/Venule] synonym: "venula" RELATED LATIN [Wikipedia:Venule] xref: BTO:0002626 xref: EMAPA:35917 xref: FMA:63130 xref: http://en.wikipedia.org/wiki/Venule xref: http://linkedlifedata.com/resource/umls/id/C0042520 xref: http://www.snomedbrowser.com/Codes/Details/341687009 xref: MA:0000071 xref: MESH:A07.231.432.952 xref: NCIT:C12818 xref: SCTID:341687009 xref: TAO:0005315 xref: UMLS:C0042520 {source="ncithesaurus:Venule"} xref: VHOG:0001765 xref: Wikipedia:Venule xref: ZFA:0005315 is_a: UBERON:0003920 ! venous blood vessel relationship: connects UBERON:0001638 ! vein relationship: connects UBERON:0001982 ! capillary property_value: depicted:by https://upload.wikimedia.org/wikipedia/commons/d/da/Illu_capillary.jpg xsd:anyURI property_value: depicted:by Illu:capillary.jpg xsd:anyURI property_value: UBPROP:0000001 "Multi-tissue structure part of the blood vasculature formed by the anastomosis of capillaries. Venules carry blood toward the heart.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0005315", ontology="TAO", source="ZFIN:curator"} [Term] id: UBERON:0001980 name: arteriole namespace: uberon def: "The smallest division of the artery located between the muscular arteries and the capillaries[GO]." [GO:0014830] subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "arteriola" RELATED LATIN [http://en.wikipedia.org/wiki/Arteriole] synonym: "arteriola" RELATED LATIN [Wikipedia:Arteriole] xref: AAO:0010253 xref: BTO:0001997 xref: EMAPA:35146 xref: FMA:63182 xref: http://en.wikipedia.org/wiki/Arteriole xref: http://linkedlifedata.com/resource/umls/id/C0003847 xref: http://www.snomedbrowser.com/Codes/Details/337724002 xref: MA:0000063 xref: MESH:D001160 xref: NCIT:C12672 xref: SCTID:337724002 xref: TAO:0002138 xref: UMLS:C0003847 {source="ncithesaurus:Arteriole"} xref: VHOG:0001763 xref: Wikipedia:Arteriole xref: ZFA:0005255 is_a: UBERON:0003509 {source="MA"} ! arterial blood vessel intersection_of: UBERON:0001981 ! blood vessel intersection_of: connects UBERON:0001637 ! artery intersection_of: connects UBERON:0001982 ! capillary relationship: connects UBERON:0001637 ! artery relationship: connects UBERON:0001982 ! capillary relationship: contributes_to_morphology_of UBERON:0001637 ! artery property_value: depicted:by https://upload.wikimedia.org/wikipedia/commons/d/da/Illu_capillary.jpg xsd:anyURI property_value: depicted:by Illu:capillary.jpg xsd:anyURI property_value: UBPROP:0000001 "Multi-tissue structure part of the blood vasculature, feeds into capillaries. Arterioles carry blood away from the heart.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0002138", ontology="TAO", source="ZFIN:curator"} property_value: UBPROP:0000001 "Small, terminal branch of an artery which generally connects to capillaries.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0010253", ontology="AAO", source="AAO:BJB"} [Term] id: UBERON:0001981 name: blood vessel namespace: uberon def: "A vessel through which blood circulates in the body." [BTO:0001102, http://en.wikipedia.org/wiki/Blood_vessel] def: "A vessel through which blood circulates in the body." [BTO:0001102, Wikipedia:Blood_vessel] subset: efo_slim subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "region of vascular tree organ" EXACT [FMA:50722] synonym: "vas sanguineum" RELATED LATIN [http://en.wikipedia.org/wiki/Blood_vessel] synonym: "vas sanguineum" RELATED LATIN [Wikipedia:Blood_vessel] synonym: "vascular element" BROAD [EMAPA:35993] synonym: "vascular tree organ region" EXACT [FMA:50722] xref: AAO:0011004 xref: AEO:0000207 xref: Blood:vessel xref: BTO:0001102 xref: CALOHA:TS-0080 xref: EFO:0000817 xref: EHDAA2:0003252 xref: EHDAA:240 xref: EMAPA:32743 xref: EMAPA:35993 xref: FMA:50722 xref: FMA:63183 xref: GAID:169 xref: http://linkedlifedata.com/resource/umls/id/C0005847 xref: http://www.snomedbrowser.com/Codes/Details/361097006 xref: MA:0000060 xref: MAT:0000393 xref: MESH:D001808 xref: NCIT:C12679 xref: NLXANAT:090901 xref: OpenCyc:Mx4rvVjxlpwpEbGdrcN5Y29ycA xref: SCTID:361097006 xref: TAO:0002137 xref: UMLS:C0005847 {source="ncithesaurus:Blood_Vessel"} xref: VHOG:0001250 xref: Wikipedia:Blood_vessel xref: XAO:0001011 xref: ZFA:0005314 is_a: UBERON:0000055 ! vessel is_a: UBERON:0004120 ! mesoderm-derived structure relationship: capable_of_part_of GO:0008015 ! blood circulation relationship: channel_for UBERON:0000178 ! blood relationship: develops_from UBERON:0004872 ! splanchnic layer of lateral plate mesoderm relationship: develops_from UBERON:0006965 {source="GO:0072360"} ! vascular cord relationship: has_part CL:0000071 {source="AEO"} ! blood vessel endothelial cell relationship: has_part UBERON:0007500 {source="EHDAA2"} ! epithelial tube open at both ends relationship: has_quality PATO:0002045 ! dendritic relationship: part_of UBERON:0004537 ! blood vasculature property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/2/29/Circulatory_System_en.svg xsd:anyURI property_value: editor_note "consider adopting the EMAPA superclass 'vascular element', which includes microvasculature (e.g. capillaries), vascular plexus" xsd:string property_value: UBPROP:0000001 "Any of the vessels through which blood circulates in the body. [XAO:0001011_][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001250", ontology="VHOG", source="http://bgee.unil.ch/"} property_value: UBPROP:0000001 "Any of the vessels through which blood circulates in the body. [XAO:0001011_][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001250", ontology="VHOG", source="http://bgee.unil.ch/"} property_value: UBPROP:0000001 "Any of the vessels through which blood circulates in the body.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0011004", ontology="AAO", source="AAO:EJS"} property_value: UBPROP:0000003 "The appearance of Chordata and subsequently the vertebrates is accompanied by a rapid structural diversification of this primitive linear heart: looping, unidirectional circulation, an enclosed vasculature, and the conduction system.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001250", ontology="VHOG", source="DOI:10.1196/annals.1341.002 Bishopric NH, Evolution of the heart from bacteria to man. Annals of the New York Academy of Sciences (2006)", source="http://bgee.unil.ch/"} property_value: UBPROP:0000003 "The appearance of Chordata and subsequently the vertebrates is accompanied by a rapid structural diversification of this primitive linear heart: looping, unidirectional circulation, an enclosed vasculature, and the conduction system.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001250", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1196/annals.1341.002 Bishopric NH, Evolution of the heart from bacteria to man. Annals of the New York Academy of Sciences (2006)"} property_value: UBPROP:0000008 "annelids have blood vessels, but this class is not applicable to annelids." xsd:string property_value: UBPROP:0000012 "FMA:63183 Blood vessel is categorized as 'general anatomical term'. Suggestion to map to region of vascular tree from Terry H at JAX" xsd:string {external_ontology="FMA"} [Term] id: UBERON:0001982 name: capillary namespace: uberon def: "Any of the smallest blood vessels connecting arterioles with venules." [http://en.wikipedia.org/wiki/Capillary, https://github.com/obophenotype/uberon/issues/137, ISBN:0073040584] def: "Any of the smallest blood vessels connecting arterioles with venules." [https://github.com/obophenotype/uberon/issues/137, ISBN:0073040584, Wikipedia:Capillary] subset: efo_slim subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "blood capillary" EXACT [] synonym: "capillary vessel" EXACT [] xref: AAO:0010252 xref: BTO:0002045 xref: CALOHA:TS-2006 xref: EFO:0001906 xref: EMAPA:35198 xref: EV:0100035 xref: FMA:63194 xref: http://en.wikipedia.org/wiki/Capillary xref: http://linkedlifedata.com/resource/umls/id/C0935624 xref: MA:0000065 xref: MESH:A07.231.432.410 xref: NCIT:C12685 xref: NLXANAT:090902 xref: OpenCyc:Mx4rvWEU-5wpEbGdrcN5Y29ycA xref: TAO:0005250 xref: UMLS:C0935624 {source="ncithesaurus:Capillary"} xref: VHOG:0001253 xref: Wikipedia:Capillary xref: XAO:0000116 xref: ZFA:0005250 is_a: UBERON:0001981 {source="FMA", source="MA", source="XAO"} ! blood vessel is_a: UBERON:0010523 {source="ZFA"} ! microcirculatory vessel intersection_of: UBERON:0001981 ! blood vessel intersection_of: connects UBERON:0001979 ! venule intersection_of: connects UBERON:0001980 ! arteriole relationship: connects UBERON:0001979 ! venule relationship: connects UBERON:0001980 ! arteriole property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/2/2f/A_red_blood_cell_in_a_capillary,_pancreatic_tissue_-_TEM.jpg xsd:anyURI property_value: editor_note "not all sources agree capillary is a blood vessel - consider adopting EMAPA superclass of vascular element" xsd:string property_value: UBPROP:0000001 "Any of the tiny blood vessels connecting the arterioles to the venules.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0010252", ontology="AAO", source="AAO:BJB"} property_value: UBPROP:0000003 "The appearance of Chordata and subsequently the vertebrates is accompanied by a rapid structural diversification of this primitive linear heart: looping, unidirectional circulation, an enclosed vasculature, and the conduction system.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001253", ontology="VHOG", source="DOI:10.1196/annals.1341.002 Bishopric NH, Evolution of the heart from bacteria to man. Annals of the New York Academy of Sciences (2006)", source="http://bgee.unil.ch/"} property_value: UBPROP:0000003 "The appearance of Chordata and subsequently the vertebrates is accompanied by a rapid structural diversification of this primitive linear heart: looping, unidirectional circulation, an enclosed vasculature, and the conduction system.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001253", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1196/annals.1341.002 Bishopric NH, Evolution of the heart from bacteria to man. Annals of the New York Academy of Sciences (2006)"} property_value: UBPROP:0000010 "capillaries lack tunica media and tunica adventitia; only the endothelial wall of the tunica intima belongs" xsd:string [Term] id: UBERON:0001985 name: corneal endothelium namespace: uberon def: "A monolayer of specialized, flattened, mitochondria-rich cells that lines the posterior surface of the cornea and faces the anterior chamber of the eye[WP]." [http://en.wikipedia.org/wiki/Corneal_endothelium] def: "A monolayer of specialized, flattened, mitochondria-rich cells that lines the posterior surface of the cornea and faces the anterior chamber of the eye[WP]." [Wikipedia:Corneal_endothelium] subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "cornea endothelium" EXACT [OBOL:automatic] synonym: "endothelium of cornea" EXACT [OBOL:automatic] synonym: "epithelium posterius corneae" RELATED LATIN [Wikipedia:Corneal_endothelium] synonym: "epithelium posterius corneae" RELATED LATIN [http://en.wikipedia.org/wiki/Corneal_endothelium] xref: CALOHA:TS-0172 xref: Corneal:endothelium xref: EMAPA:35935 xref: FMA:63882 xref: GAID:891 xref: http://linkedlifedata.com/resource/umls/id/C0014259 xref: http://www.snomedbrowser.com/Codes/Details/368827009 xref: MA:0001242 xref: MESH:D004728 xref: NCIT:C12707 xref: SCTID:368827009 xref: TAO:0002186 xref: UMLS:C0014259 {source="ncithesaurus:Corneal_Endothelium"} xref: Wikipedia:Corneal_endothelium xref: ZFA:0001687 is_a: UBERON:0001986 ! endothelium is_a: UBERON:0010313 ! neural crest-derived structure is_a: UBERON:0015808 ! eye epithelium intersection_of: UBERON:0001986 ! endothelium intersection_of: part_of UBERON:0000964 ! cornea relationship: adjacent_to UBERON:0001766 ! anterior chamber of eyeball relationship: contributes_to_morphology_of UBERON:0000964 ! cornea relationship: part_of UBERON:0000964 ! cornea property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/6/66/Gray871.png xsd:anyURI [Term] id: UBERON:0001986 name: endothelium namespace: uberon def: "A layer of epithelium that lines the heart, blood vessels (endothelium, vascular), lymph vessels (endothelium, lymphatic), and the serous cavities of the body[MESH]. Simple squamous epithelium which lines blood and lymphatic vessels and the heart[FMA]" [FMA:63916, https://github.com/obophenotype/uberon/issues/225, MESH:A10.272.491] def: "A layer of epithelium that lines the heart, blood vessels (endothelium, vascular), lymph vessels (endothelium, lymphatic), and the serous cavities of the body[MESH]. Simple squamous epithelium which lines blood and lymphatic vessels and the heart[FMA]." [FMA:63916, https://github.com/obophenotype/uberon/issues/225, MESH:A10.272.491] comment: The term 'endothelium' has been either restricted to the continuous cell layer of the vertebrates, as we are assuming here, or applied to all the cells able to adhere to the luminal surface of the vascular basement membrane (Casley-Smith 1980) subset: efo_slim subset: uberon_slim xref: BTO:0000393 xref: CALOHA:TS-0278 xref: EFO:0002548 xref: FMA:63916 xref: GAID:520 xref: galen:Endothelium xref: http://linkedlifedata.com/resource/umls/id/C0014257 xref: http://www.snomedbrowser.com/Codes/Details/27168002 xref: MESH:D004727 xref: NCIT:C12481 xref: SCTID:27168002 xref: UMLS:C0014257 {source="ncithesaurus:Endothelium"} is_a: UBERON:0000487 {source="https://github.com/obophenotype/uberon/issues/225", source="FMA-text-def"} ! simple squamous epithelium is_a: UBERON:0000487 {source="FMA-text-def", source="https://github.com/obophenotype/uberon/issues/225"} ! simple squamous epithelium is_a: UBERON:0012275 ! meso-epithelium intersection_of: UBERON:0000483 ! epithelium intersection_of: composed_primarily_of CL:0000115 ! endothelial cell relationship: composed_primarily_of CL:0000115 ! endothelial cell relationship: only_in_taxon NCBITaxon:7742 ! Vertebrata property_value: UBPROP:0000007 "endothelial" xsd:string [Term] id: UBERON:0002012 name: pulmonary artery namespace: uberon def: "An artery that carries deoxygenated blood from heart to the lungs. They are the only arteries (other than umbilical arteries in the fetus) that carry deoxygenated blood.." [http://en.wikipedia.org/wiki/Pulmonary_artery, http://orcid.org/0000-0002-6601-2165] def: "An artery that carries deoxygenated blood from heart to the lungs. They are the only arteries (other than umbilical arteries in the fetus) that carry deoxygenated blood.." [http://orcid.org/0000-0002-6601-2165, Wikipedia:Pulmonary_artery] subset: efo_slim subset: pheno_slim subset: uberon_slim synonym: "arteria pulmonalis" RELATED LATIN [http://en.wikipedia.org/wiki/Pulmonary_artery] synonym: "arteria pulmonalis" RELATED LATIN [Wikipedia:Pulmonary_artery] synonym: "pulmonary arterial subtree" RELATED [FMA:66326] synonym: "pulmonary arterial tree" EXACT [FMA:66326] synonym: "pulmonary arterial tree organ part" EXACT [FMA:66326] synonym: "truncus pulmonalis" RELATED LATIN [Wikipedia:Pulmonary_artery] synonym: "truncus pulmonalis" RELATED LATIN [http://en.wikipedia.org/wiki/Pulmonary_artery] xref: AAO:0010221 xref: BTO:0000778 xref: CALOHA:TS-0839 xref: EFO:0001399 xref: EHDAA2:0001575 xref: EHDAA:4351 xref: EMAPA:17008 xref: FMA:66326 xref: GAID:505 xref: galen:PulmonaryArtery xref: http://linkedlifedata.com/resource/umls/id/C0034052 xref: http://www.snomedbrowser.com/Codes/Details/181380003 xref: MA:0002031 xref: MESH:D011651 xref: NCIT:C12774 xref: OpenCyc:Mx4rvVjbIpwpEbGdrcN5Y29ycA xref: Pulmonary:artery xref: SCTID:181380003 xref: UMLS:C0034052 {source="ncithesaurus:Pulmonary_Artery"} xref: VHOG:0000982 xref: Wikipedia:Pulmonary_artery xref: XAO:0004162 is_a: UBERON:0001637 ! artery is_a: UBERON:0010314 ! structure with developmental contribution from neural crest is_a: UBERON:0013768 ! great vessel of heart intersection_of: UBERON:0001637 ! artery intersection_of: part_of UBERON:0008886 ! pulmonary vascular system intersection_of: supplies UBERON:0002048 ! lung disjoint_from: UBERON:0004573 ! systemic artery relationship: continuous_with UBERON:0002333 ! pulmonary trunk relationship: develops_from UBERON:0002061 {source="Wikipedia"} ! truncus arteriosus relationship: develops_from UBERON:0003123 {source="EHDAA2", source="XAO"} ! pharyngeal arch artery 6 relationship: develops_from UBERON:0005339 {source="EHDAA2"} ! outflow tract pulmonary component relationship: part_of RO:0002577 ! system relationship: part_of UBERON:0008886 ! pulmonary vascular system relationship: supplies UBERON:0002048 ! lung property_value: depicted:by Alveoli:diagram.png xsd:anyURI property_value: depicted:by https://upload.wikimedia.org/wikipedia/commons/d/db/Alveoli_diagram.png xsd:anyURI property_value: UBPROP:0000001 "Major artery which supplies blood to the lungs.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0010221", ontology="AAO", source="AAO:BJB"} property_value: UBPROP:0000001 "One of two arteries, leaving from the heart, the left one supplying the left lung and the right one supplying the right lung. [TFD][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000982", ontology="VHOG", source="http://bgee.unil.ch/", source="http://medical-dictionary.thefreedictionary.com/pulmonary+artery"} property_value: UBPROP:0000001 "One of two arteries, leaving from the heart, the left one supplying the left lung and the right one supplying the right lung. [TFD][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000982", ontology="VHOG", source="http://bgee.unil.ch/", source="http://medical-dictionary.thefreedictionary.com/pulmonary+artery"} property_value: UBPROP:0000003 "On the other hand, in the sister clade of the actinopterygians, the sarcopterygians, the gill circulation is supplemented with lung ventilation. As a result, the pulmonary artery and vein and a functional ductus arteriosus arose as a major evolutionary innovation from the sixth arch, giving the organism a flexible shunt to balance blood supply to and from gills and lungs according to environmental conditions.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000982", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.620"} property_value: UBPROP:0000003 "On the other hand, in the sister clade of the actinopterygians, the sarcopterygians, the gill circulation is supplemented with lung ventilation. As a result, the pulmonary artery and vein and a functional ductus arteriosus arose as a major evolutionary innovation from the sixth arch, giving the organism a flexible shunt to balance blood supply to and from gills and lungs according to environmental conditions.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000982", ontology="VHOG", source="ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.620", source="http://bgee.unil.ch/"} property_value: UBPROP:0000008 "In the human heart, the pulmonary trunk (pulmonary artery or main pulmonary artery) begins at the base of the right ventricle. It is short and wide - approximately 5 cm (2 inches) in length and 3 cm (1.2 inches) in diameter. It then branches into two pulmonary arteries (left and right), which deliver deoxygenated blood to the corresponding lung[WP]" xsd:string [Term] id: UBERON:0002016 name: pulmonary vein namespace: uberon def: "Pulmonary veins are blood vessels that transport blood from the lungs to the heart[GO]." [GO:0060577] subset: pheno_slim subset: uberon_slim synonym: "pulmonary venous tree organ part" EXACT [] synonym: "venae pulmonales" RELATED LATIN [http://en.wikipedia.org/wiki/Pulmonary_vein] synonym: "venae pulmonales" RELATED LATIN [Wikipedia:Pulmonary_vein] xref: AAO:0010521 xref: BTO:0001799 xref: CALOHA:TS-0840 xref: EHDAA2:0001579 xref: EHDAA:2629 xref: EMAPA:18645 xref: FMA:66643 xref: GAID:543 xref: galen:PulmonaryVein xref: http://linkedlifedata.com/resource/umls/id/C0034090 xref: http://www.snomedbrowser.com/Codes/Details/430160002 xref: MA:0002206 xref: MESH:D011667 xref: NCIT:C12776 xref: Pulmonary:vein xref: SCTID:430160002 xref: UMLS:C0034090 {source="ncithesaurus:Pulmonary_Vein"} xref: VHOG:0001133 xref: Wikipedia:Pulmonary_vein xref: XAO:0000394 is_a: UBERON:0001638 ! vein is_a: UBERON:0010314 ! structure with developmental contribution from neural crest is_a: UBERON:0013768 ! great vessel of heart intersection_of: UBERON:0001638 ! vein intersection_of: drains UBERON:0002048 ! lung relationship: develops_from UBERON:0002061 ! truncus arteriosus relationship: drains UBERON:0002048 ! lung relationship: part_of RO:0002577 ! system relationship: part_of UBERON:0008886 ! pulmonary vascular system property_value: depicted:by Alveoli:diagram.png xsd:anyURI property_value: depicted:by https://upload.wikimedia.org/wikipedia/commons/d/db/Alveoli_diagram.png xsd:anyURI property_value: UBPROP:0000001 "Any of the veins which collect blood from the lungs and some small vesicles received from the esophagus.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0010521", ontology="AAO", source="AAO:BJB"} property_value: UBPROP:0000001 "One of two pairs of large vessels that return oxygenated blood from each lung to the left atrium of the heart. [TFD][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001133", ontology="VHOG", source="http://bgee.unil.ch/", source="http://medical-dictionary.thefreedictionary.com/pulmonary+vein"} property_value: UBPROP:0000001 "One of two pairs of large vessels that return oxygenated blood from each lung to the left atrium of the heart. [TFD][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001133", ontology="VHOG", source="http://bgee.unil.ch/", source="http://medical-dictionary.thefreedictionary.com/pulmonary+vein"} property_value: UBPROP:0000001 "the veins that return oxygenated blood from the lungs to the left atrium of the heart" xsd:string {source="MP:0002726,MGI:cwg"} property_value: UBPROP:0000003 "On the other hand, in the sister clade of the actinopterygians, the sarcopterygians, the gill circulation is supplemented with lung ventilation. As a result, the pulmonary artery and vein and a functional ductus arteriosus arose as a major evolutionary innovation from the sixth arch, giving the organism a flexible shunt to balance blood supply to and from gills and lungs according to environmental conditions.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001133", ontology="VHOG", source="ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.620", source="http://bgee.unil.ch/"} property_value: UBPROP:0000003 "On the other hand, in the sister clade of the actinopterygians, the sarcopterygians, the gill circulation is supplemented with lung ventilation. As a result, the pulmonary artery and vein and a functional ductus arteriosus arose as a major evolutionary innovation from the sixth arch, giving the organism a flexible shunt to balance blood supply to and from gills and lungs according to environmental conditions.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001133", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.620"} property_value: UBPROP:0000202 FMA:70827 [Term] id: UBERON:0002020 name: gray matter namespace: uberon def: "A nervous system structure composed primarily of nerve cell bodies (somas). May also include dendrites and the initial unmyelinated portion of axons." [http://orcid.org/0000-0002-6601-2165, Wikipedia:Gray_matter] def: "A nervous system structure composed primarily of nerve cell bodies (somas). May also include dendrites and the initial unmyelinated portion of axons." [http://en.wikipedia.org/wiki/Gray_matter, http://orcid.org/0000-0002-6601-2165] subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "gray mater" RELATED [ZFA:0001681] synonym: "gray matter" EXACT [] synonym: "gray matter of neuraxis" EXACT [FMA:67242] synonym: "grey matter" EXACT [] synonym: "grey matter of neuraxis" EXACT [] synonym: "grey substance" EXACT [] synonym: "grisea" RELATED LATIN [] synonym: "neuronal grey matter" EXACT [AEO:0001012] synonym: "substantia grisea" EXACT LATIN [FMA:67242, FMA:TA] xref: AEO:0001012 xref: EHDAA2:0003136 xref: EHDAA2_RETIRED:0004658 xref: EMAPA:37596 {source="MA:th"} xref: FMA:67242 xref: Gray:matter xref: HBA:4006 xref: http://braininfo.rprc.washington.edu/centraldirectory.aspx?ID=2869 xref: http://linkedlifedata.com/resource/umls/id/C0018220 xref: MA:0001112 xref: NCIT:C32695 xref: OpenCyc:Mx4rwDdKMpwpEbGdrcN5Y29ycA xref: TAO:0002197 xref: UMLS:C0018220 {source="ncithesaurus:Gray_Matter"} xref: VHOG:0001768 xref: Wikipedia:Gray_matter xref: ZFA:0001681 is_a: UBERON:0011215 ! central nervous system cell part cluster relationship: composed_primarily_of GO:0043025 ! neuronal cell body property_value: depicted:by https://upload.wikimedia.org/wikipedia/commons/d/d2/Spinal_nerve.svg xsd:anyURI property_value: depicted:by Spinal:nerve.svg xsd:anyURI property_value: UBPROP:0000001 "Multi-tissue comprised of neurons, dendrites, axon terminals, glial cells, and capillaries.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0002197", ontology="TAO", source="ZFIN:curator"} [Term] id: UBERON:0002028 name: hindbrain namespace: uberon def: "The most posterior of the three principal regions of the brain. In mammals and birds the hindbrain is divided into a rostral metencephalon and a caudal myelencephalon. In zebrafish, with the exception of the cerebellum, the ventral remainder of the metencephalon can be separated only arbitrarily from the more caudal myelencephalic portion of the medulla oblongata (From: Neuroanatomy of the Zebrafish Brain)[ZFA]. Organ component of neuraxis that has as its parts the pons, cerebellum and medulla oblongata[FMA]." [http://en.wikipedia.org/wiki/Rhombencephalon, ZFA:0000029, ZFIN:curator] def: "The most posterior of the three principal regions of the brain. In mammals and birds the hindbrain is divided into a rostral metencephalon and a caudal myelencephalon. In zebrafish, with the exception of the cerebellum, the ventral remainder of the metencephalon can be separated only arbitrarily from the more caudal myelencephalic portion of the medulla oblongata (From: Neuroanatomy of the Zebrafish Brain)[ZFA]. Organ component of neuraxis that has as its parts the pons, cerebellum and medulla oblongata[FMA]." [Wikipedia:Rhombencephalon, ZFA:0000029, ZFIN:curator] subset: efo_slim subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "rhombencephalon" RELATED [] xref: AAO:0010150 xref: BAMS:HB xref: BIRNLEX:942 xref: BTO:0000672 xref: CALOHA:TS-0457 xref: DHBA:10653 xref: DMBA:16808 xref: EFO:0000923 xref: EHDAA2:0000746 xref: EHDAA:3514 xref: EHDAA:6487 xref: EMAPA:16916 xref: FMA:67687 xref: http://braininfo.rprc.washington.edu/centraldirectory.aspx?ID=540 {source="BIRNLEX:942"} xref: http://braininfo.rprc.washington.edu/centraldirectory.aspx?ID=540 xref: http://en.wikipedia.org/wiki/Rhombencephalon xref: http://linkedlifedata.com/resource/umls/id/C0035507 xref: http://linkedlifedata.com/resource/umls/id/C1522180 xref: http://www.snomedbrowser.com/Codes/Details/303456008 xref: MA:0000195 xref: MAT:0000107 xref: MBA:1065 xref: MESH:D012249 xref: MIAA:0000107 xref: NCIT:C40336 xref: SCTID:303456008 xref: TAO:0000029 xref: UMLS:C0035507 {source="ncithesaurus:Hind-Brain"} xref: UMLS:C0035507 {source="BIRNLEX:942"} xref: UMLS:C1522180 {source="BIRNLEX:942"} xref: VHOG:0000070 xref: Wikipedia:Rhombencephalon xref: XAO:0000015 xref: ZFA:0000029 is_a: UBERON:0002616 ! regional part of brain is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: contributes_to_morphology_of UBERON:0000955 ! brain relationship: develops_from UBERON:0007277 ! presumptive hindbrain relationship: immediate_transformation_of UBERON:0007277 {source="Bgee:AN"} ! presumptive hindbrain relationship: only_in_taxon NCBITaxon:89593 ! Craniata relationship: overlaps UBERON:0002298 {notes="modified-source-relation", source="ABA"} ! brainstem property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/5/54/EmbryonicBrain.svg xsd:anyURI property_value: RO:0002171 UBERON:0001891 {exceptions="ZFA", source="ABA", source="https://github.com/obophenotype/uberon/issues/378", status="pending"} property_value: RO:0002171 UBERON:0001894 {source="ABA"} property_value: RO:0002175 NCBITaxon:7762 {source="PMID:8932866"} property_value: RO:0002175 NCBITaxon:7762 {source="http://www.ncbi.nlm.nih.gov/pubmed/8932866"} property_value: UBPROP:0000001 "Posterior part of the brain consisting of the cerebellum and medulla oblongata.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0010150", ontology="AAO", source="AAO:BJB"} property_value: UBPROP:0000001 "The most posterior of the three principal regions of the brain, forming the rhombencephalon and all or most of the metencephalon. Kimmel et al, 1995.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0000029", ontology="TAO", source="ZFIN:curator"} property_value: UBPROP:0000002 "relationship loss: develops_from hindbrain neural tube (TAO:0007043)[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0000029", ontology="TAO"} property_value: UBPROP:0000003 "Fine structural, computerized three-dimensional (3D) mapping of cell connectivity in the amphioxus nervous system and comparative molecular genetic studies of amphioxus and tunicates have provided recent insights into the phylogenetic origin of the vertebrate nervous system. The results suggest that several of the genetic mechanisms for establishing and patterning the vertebrate nervous system already operated in the ancestral chordate and that the nerve cord of the proximate invertebrate ancestor of the vertebrates included a diencephalon, midbrain, hindbrain, and spinal cord.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000070", ontology="VHOG", source="DOI:10.1016/S0959-4388(99)00003-3 Holland LZ and Holland ND, Chordate origins of the vertebrate central nervous system. Current Opinion in Neurobiology (1999)", source="http://bgee.unil.ch/"} property_value: UBPROP:0000003 "Fine structural, computerized three-dimensional (3D) mapping of cell connectivity in the amphioxus nervous system and comparative molecular genetic studies of amphioxus and tunicates have provided recent insights into the phylogenetic origin of the vertebrate nervous system. The results suggest that several of the genetic mechanisms for establishing and patterning the vertebrate nervous system already operated in the ancestral chordate and that the nerve cord of the proximate invertebrate ancestor of the vertebrates included a diencephalon, midbrain, hindbrain, and spinal cord.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000070", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1016/S0959-4388(99)00003-3 Holland LZ and Holland ND, Chordate origins of the vertebrate central nervous system. Current Opinion in Neurobiology (1999)"} property_value: UBPROP:0000007 "rhombencephalic" xsd:string property_value: UBPROP:0000012 "in MA, brainstem and hindbrain and part-of siblings under brain, consistent with FMA and NIF. See also notes for cerebellum. We weaken the relation in ABA to overlaps" xsd:string {external_ontology="MA"} [Term] id: UBERON:0002036 name: striated muscle tissue namespace: uberon def: "Muscle tissue that contains fibers that are divided by transverse bands into striations." [CL:0000737, GOC:dph, GOC:mtg_muscle] subset: pheno_slim subset: uberon_slim synonym: "striated muscle" EXACT [] xref: AAO:0010762 xref: AEO:0000140 xref: CALOHA:TS-2047 xref: EHDAA2:0003140 xref: EMAPA:36390 xref: FMA:67905 xref: galen:StriatedMuscle xref: http://linkedlifedata.com/resource/umls/id/C1331262 xref: MA:0002438 xref: NCIT:C12436 xref: OpenCyc:Mx4rwAoze5wpEbGdrcN5Y29ycA xref: Striated:muscle xref: UMLS:C1331262 {source="ncithesaurus:Striated_Muscle_Tissue"} xref: WBbt:0005779 xref: Wikipedia:Striated_muscle is_a: UBERON:0002385 ! muscle tissue intersection_of: UBERON:0002385 ! muscle tissue intersection_of: composed_primarily_of CL:0000737 ! striated muscle cell relationship: composed_primarily_of CL:0000737 ! striated muscle cell property_value: UBPROP:0000001 "Voluntary muscle tissue arranged in bundles of fibers.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0010762", ontology="AAO", source="AAO:CAM"} [Term] id: UBERON:0002040 name: bronchial artery namespace: uberon def: "A systemic artery that supplies the lung with with oxygenated blood." [UBERON:cjm, Wikipedia:Bronchial_artery] def: "A systemic artery that supplies the lung with with oxygenated blood." [http://en.wikipedia.org/wiki/Bronchial_artery, UBERON:cjm] comment: Although there is much variation, there are usually two bronchial arteries that run to the left lung, and one to the right lung. subset: uberon_slim synonym: "arteriae bronchiales" RELATED LATIN [http://en.wikipedia.org/wiki/Bronchial_artery] synonym: "arteriae bronchiales" RELATED LATIN [Wikipedia:Bronchial_artery] synonym: "bronchial arterial tree" EXACT [] synonym: "rami bronchiales partis thoracicae aortae" RELATED LATIN [http://en.wikipedia.org/wiki/Bronchial_artery] synonym: "rami bronchiales partis thoracicae aortae" RELATED LATIN [Wikipedia:Bronchial_artery] xref: Bronchial:artery xref: EMAPA:18608 xref: FMA:68109 xref: GAID:477 xref: http://linkedlifedata.com/resource/umls/id/C0006257 xref: http://www.snomedbrowser.com/Codes/Details/244247009 xref: MA:0001923 xref: MESH:D001981 xref: NCIT:C32230 xref: OpenCyc:Mx4r4sy0UiNbEd2AAAACs6hRXg xref: SCTID:244247009 xref: UMLS:C0006257 {source="ncithesaurus:Bronchial_Artery"} xref: Wikipedia:Bronchial_artery is_a: UBERON:0004573 ! systemic artery intersection_of: UBERON:0004573 ! systemic artery intersection_of: part_of UBERON:0004571 ! systemic arterial system intersection_of: supplies UBERON:0002048 ! lung relationship: part_of RO:0002577 ! system relationship: supplies UBERON:0002048 ! lung property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/a/a7/Gray1032.png xsd:anyURI [Term] id: UBERON:0002047 name: pontine raphe nucleus namespace: uberon def: "The pontine raphe nucleus is one of the raphe nuclei. It is located in the pontine tegmentum. [WP,unvetted]." [Wikipedia:Pontine_raphe_nucleus] subset: pheno_slim subset: uberon_slim synonym: "nucleus raphe pontis" RELATED LATIN [NeuroNames:589] synonym: "nucleus raphes pontis" RELATED LATIN [Wikipedia:Pontine_raphe_nucleus] synonym: "raphe (mediana pontina)" RELATED LATIN [NeuroNames:589] synonym: "raphe of pons" EXACT [] synonym: "raphe pontis" EXACT LATIN [FMA:68875, FMA:TA] synonym: "raphe pontis nucleus" RELATED [] xref: BAMS:PnR xref: BAMS:RA-PONS xref: BAMS:RPn xref: BIRNLEX:1110 xref: DHBA:12471 xref: DHBA:12475 xref: FMA:68875 xref: HBA:9159 xref: http://braininfo.rprc.washington.edu/centraldirectory.aspx?ID=589 {source="BIRNLEX:1110"} xref: MA:0001022 xref: MBA:238 xref: UMLS:C0175423 {source="BIRNLEX:1110"} xref: Wikipedia:Pontine_raphe_nucleus is_a: UBERON:0006331 ! brainstem nucleus is_a: UBERON:0009662 ! hindbrain nucleus relationship: part_of UBERON:0003023 ! pontine tegmentum relationship: part_of UBERON:0004684 {source="Wikipedia"} ! raphe nuclei property_value: RO:0002171 UBERON:0002148 {source="ABA"} property_value: RO:0002171 UBERON:0002267 {source="ABA"} property_value: RO:0002171 UBERON:0002587 {source="ABA"} property_value: RO:0002171 UBERON:0003004 {source="ABA"} [Term] id: UBERON:0002048 name: lung namespace: uberon def: "Respiration organ that develops as an outpocketing of the esophagus." [http://orcid.org/0000-0002-6601-2165] comment: Snakes and limbless lizards typically possess only the right lung as a major respiratory organ; the left lung is greatly reduced, or even absent. Amphisbaenians, however, have the opposite arrangement, with a major left lung, and a reduced or absent right lung [WP] subset: efo_slim subset: major_organ subset: organ_slim subset: pheno_slim subset: uberon_slim synonym: "pulmo" EXACT LATIN [] xref: AAO:0000275 xref: AAO:0010567 xref: BTO:0000763 xref: CALOHA:TS-0568 xref: EFO:0000934 xref: EHDAA2:0001042 xref: EHDAA:1554 xref: EHDAA:2205 xref: EMAPA:16728 xref: EV:0100042 xref: FMA:7195 xref: GAID:345 xref: galen:Lung xref: http://en.wikipedia.org/wiki/Lung xref: http://linkedlifedata.com/resource/umls/id/C0024109 xref: http://www.snomedbrowser.com/Codes/Details/181216001 xref: MA:0000415 xref: MAT:0000135 xref: MESH:D008168 xref: MIAA:0000135 xref: NCIT:C12468 xref: OpenCyc:Mx4rvVjKy5wpEbGdrcN5Y29ycA xref: SCTID:181216001 xref: UMLS:C0024109 {source="ncithesaurus:Lung"} xref: VHOG:0000310 xref: Wikipedia:Lung xref: XAO:0000119 is_a: UBERON:0000171 ! respiration organ is_a: UBERON:0004119 ! endoderm-derived structure is_a: UBERON:0005178 ! thoracic cavity element is_a: UBERON:0015212 ! lateral structure relationship: contributes_to_morphology_of UBERON:0001004 ! respiratory system relationship: develops_from UBERON:0000118 ! lung bud relationship: in_lateral_side_of UBERON:0000170 ! pair of lungs relationship: only_in_taxon NCBITaxon:7776 ! Gnathostomata relationship: part_of UBERON:0000170 {note="some species only have a single lung"} ! pair of lungs property_value: RO:0002161 NCBITaxon:32443 {editor="BGEE:fb", source="https://github.com/obophenotype/uberon/issues/701"} property_value: RO:0002161 NCBITaxon:32443 {editor="BGEE:fb", source="https://github.com/obophenotype/uberon/issues/701"} property_value: RO:0002161 NCBITaxon:7777 {editor="BGEE:fb", source="https://github.com/obophenotype/uberon/issues/701"} property_value: RO:0002161 NCBITaxon:7777 {editor="BGEE:fb", source="https://github.com/obophenotype/uberon/issues/701"} property_value: seeAlso https://github.com/obophenotype/uberon/issues/701 xsd:anyURI property_value: UBPROP:0000001 "Either of two organs which allow gas exchange absorbing oxygen from inhaled air and releasing carbon dioxide with exhaled air.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0010567", ontology="AAO", source="AAO:SBH"} property_value: UBPROP:0000003 "Lungs had already developed as paired ventral pockets from the intestine in the ancestor of Osteognathostomata. (...) In actinopterygian fishes, apart from Cladistia, the ventral intestinal pocket migrates dorsally and becomes the swim-bladder, a mainly hydrostatical organ (reference 1); Comparative transcriptome analyses indicate molecular homology of zebrafish swimbladder and Mammalian lung (reference 2).[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000310", ontology="VHOG", source="ISBN:978-0198566694 Schmidt-Rhaesa A, The evolution of organ systems (2007) p.210, DOI:10.1371/journal.pone.0024019 Zheng W, Wang Z, Collins JE, Andrews RM, Stemple D, Gong Z, Comparative transcriptome analyses indicate molecular homology of zebrafish swimbladder and Mammalian lung. PLoS One (2011)", source="http://bgee.unil.ch/"} property_value: UBPROP:0000003 "Lungs had already developed as paired ventral pockets from the intestine in the ancestor of Osteognathostomata. (...) In actinopterygian fishes, apart from Cladistia, the ventral intestinal pocket migrates dorsally and becomes the swim-bladder, a mainly hydrostatical organ (reference 1); Comparative transcriptome analyses indicate molecular homology of zebrafish swimbladder and Mammalian lung (reference 2).[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000310", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0198566694 Schmidt-Rhaesa A, The evolution of organ systems (2007) p.210, DOI:10.1371/journal.pone.0024019 Zheng W, Wang Z, Collins JE, Andrews RM, Stemple D, Gong Z, Comparative transcriptome analyses indicate molecular homology of zebrafish swimbladder and Mammalian lung. PLoS One (2011)"} property_value: UBPROP:0000007 "pulmonary" xsd:string property_value: UBPROP:0000008 "respiration organ in all air-breathing animals, including most tetrapods, a few fish and a few snails. In mammals and the more complex life forms, the two lungs are located in the chest on either side of the heart. Their principal function is to transport oxygen from the atmosphere into the bloodstream, and to release carbon dioxide from the bloodstream into the atmosphere. This exchange of gases is accomplished in the mosaic of specialized cells that form millions of tiny, exceptionally thin-walled air sacs called alveoli. // Avian lungs do not have alveoli as mammalian lungs do, they have Faveolar lungs. They contain millions of tiny passages known as para-bronchi, connected at both ends by the dorsobronchi" xsd:string [Term] id: UBERON:0002049 name: vasculature namespace: uberon def: "An interconnected tubular multi-tissue structure contains fluid that is actively transported around the organism[ZFA]. Examples: vasculature of lung, vasculature of face." [ZFA:0005249] subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "vascular network" EXACT [FMA:69050] xref: BTO:0003718 xref: FMA:69050 xref: TAO:0005249 xref: ZFA:0005249 is_a: BFO:0000040 ! material entity is_a: UBERON:0000477 {source="FMA"} ! anatomical cluster relationship: composed_primarily_of UBERON:0000055 ! vessel relationship: has_part UBERON:0000055 ! vessel relationship: has_part UBERON:0000179 ! haemolymphatic fluid relationship: part_of UBERON:0007798 ! vascular system property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/2/29/Circulatory_System_en.svg xsd:anyURI property_value: editor_note "see also: vascular system. Consider merging?" xsd:string property_value: UBPROP:0000007 "vascular" xsd:string [Term] id: UBERON:0002050 name: embryonic structure namespace: uberon def: "Anatomical structure that is part of an embryo." [BTO:0000174, ZFIN:curator] subset: efo_slim subset: inconsistent_with_fma subset: vertebrate_core synonym: "developing embryonic structure" EXACT [FBbt:00004208] synonym: "developing structure" RELATED [] synonym: "embryonale Struktur" RELATED [BTO:0000174] synonym: "embryonic anatomical structure" EXACT [RETIRED_EHDAA2:0003169] synonym: "embryonic structures" RELATED PLURAL [ZFA:0001105] xref: AAO:0000138 xref: BILA:0000034 xref: BTO:0000174 xref: CALOHA:TS-2110 xref: EFO:0000461 xref: FBbt:00004208 xref: FMA:69067 xref: GAID:407 xref: http://linkedlifedata.com/resource/umls/id/C0013948 xref: http://www.snomedbrowser.com/Codes/Details/667009 xref: MESH:D004628 xref: NCIT:C13229 xref: RETIRED_EHDAA2:0003169 xref: SCTID:667009 xref: TAO:0001105 xref: UMLS:C0013948 {source="ncithesaurus:Embryonic_Structure"} xref: VSAO:0000178 xref: XAO:0003042 xref: ZFA:0001105 is_a: UBERON:0005423 ! developing anatomical structure intersection_of: UBERON:0005423 ! developing anatomical structure intersection_of: part_of UBERON:0000922 ! embryo relationship: part_of UBERON:0000922 ! embryo property_value: UBPROP:0000001 "Anatomical structure that is part of the embryo and is comprised of portions of tissue or cells.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0000138", ontology="AAO", source="AAO:BJB"} property_value: UBPROP:0000001 "Anatomical structure that is part of the embryo and is comprised of portions of tissue or cells.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0001105", ontology="TAO", source="ZFIN:curator"} property_value: UBPROP:0000001 "Anatomical structure that is part of the embryo and is comprised of portions of tissue or cells.[VSAO]" xsd:string {date_retrieved="2012-08-14", external_class="VSAO:0000178", ontology="VSAO", source="ZFIN:curator"} property_value: UBPROP:0000012 "in FMA embryo is_a embryonic structure" xsd:string {external_ontology="FMA"} [Term] id: UBERON:0002057 name: phrenic artery namespace: uberon def: "An artery that supplies the diaphragm." [https://orcid.org/0000-0002-6601-2165] subset: uberon_slim xref: EMAPA:37108 {source="MA:th"} xref: FMA:69330 xref: MA:0002019 xref: NCIT:C33320 xref: UMLS:C1181536 {source="ncithesaurus:Phrenic_Artery"} is_a: UBERON:0004573 ! systemic artery intersection_of: UBERON:0004573 ! systemic artery intersection_of: supplies UBERON:0001103 ! diaphragm relationship: supplies UBERON:0001103 ! diaphragm property_value: UBPROP:0000008 "In humans this includes the superior and inferior phrenic arteries" xsd:string [Term] id: UBERON:0002061 name: truncus arteriosus namespace: uberon def: "The truncus arteriosus and bulbus cordis are divided by the aorticopulmonary septum. The truncus arteriosus gives rise to the ascending aorta and the pulmonary trunk. The bulbus cordis gives rise to the smooth parts (outflow tract) of the left and right ventricles." [Wikipedia:Truncus_arteriosus_(embryology)] def: "The truncus arteriosus and bulbus cordis are divided by the aorticopulmonary septum. The truncus arteriosus gives rise to the ascending aorta and the pulmonary trunk. The bulbus cordis gives rise to the smooth parts (outflow tract) of the left and right ventricles." [http://en.wikipedia.org/wiki/Truncus_arteriosus_(embryology)] subset: uberon_slim xref: EHDAA2:0004143 xref: EMAPA:35887 xref: FMA:70301 xref: GAID:554 xref: http://en.wikipedia.org/wiki/Truncus_arteriosus_(embryology) xref: http://linkedlifedata.com/resource/umls/id/C1519589 xref: http://www.snomedbrowser.com/Codes/Details/308828009 xref: MA:0000103 xref: MESH:D014338 xref: NCIT:C34317 xref: OpenCyc:Mx4rquH9YKgNEdudWQACs5b6Bw xref: SCTID:308828009 xref: UMLS:C1519589 {source="ncithesaurus:Trancus_Arteriosus"} xref: Wikipedia:Truncus_arteriosus_(embryology) is_a: UBERON:0001637 {source="EHDAA2"} ! artery is_a: UBERON:0002050 {source="FMA"} ! embryonic structure is_a: UBERON:0003498 ! heart blood vessel is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: develops_from UBERON:0005432 {source="EHDAA2"} ! aortic sac relationship: part_of UBERON:0004145 {source="MA"} ! outflow tract relationship: part_of UBERON:0005498 {source="EHDAA2"} ! primitive heart tube property_value: UBPROP:0000012 "assume spelling error for ncit" xsd:string {external_ontology="ncit"} [Term] id: UBERON:0002062 name: endocardial cushion namespace: uberon def: "The endocardial cushion is a specialized region of mesenchymal cells that will give rise to the heart septa and valves[GO]. Swellings of tissue present between the endocardial and myocardial cell layers that will give rise to the interstitial cells of the cardiac valves[ZFA]." [GO:0003197, http://en.wikipedia.org/wiki/Atrioventricular_cushions, ZFIN:curator] def: "The endocardial cushion is a specialized region of mesenchymal cells that will give rise to the heart septa and valves[GO]. Swellings of tissue present between the endocardial and myocardial cell layers that will give rise to the interstitial cells of the cardiac valves[ZFA]." [GO:0003197, Wikipedia:Atrioventricular_cushions, ZFIN:curator] comment: GO graph seems to suggest this is an endothelium. WP: The endocardial cushions are thought to arise from a subset of endothelial cells that undergo epithelial to mesenchymal transformation, a process whereby these cells break cell-to-cell contacts and migrate into the cardiac jelly (towards to interior of the heart tube). Latest (2010-06-01) new def suggested for GO, added above. Note that EHDAA2 has a more detailed model which we may later adopt. JB: Patterning makes the cushions lay down connective tissue in three domains that force out the local endothelial lining and so the leaflets form subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "atrioventricular canal cushion" RELATED [FMA:70302] synonym: "atrioventricular cushion" EXACT [http://en.wikipedia.org/wiki/Endocardial_cushion] synonym: "atrioventricular cushion" EXACT [Wikipedia:Endocardial_cushion] synonym: "AV cushion" EXACT [] synonym: "cardiac cushion" EXACT [PMID:15797462] synonym: "cardiac cushion" EXACT [http://www.ncbi.nlm.nih.gov/pubmed/15797462] synonym: "endocardial cushion tissue" EXACT [EHDAA2:0000434] synonym: "endocardial cushions" RELATED PLURAL [] xref: Atrioventricular:cushions xref: EHDAA2:0000434 xref: EHDAA2:0004028 xref: EHDAA:2586 xref: EMAPA:16696 xref: FMA:70302 xref: MA:0000078 xref: TAO:0001317 xref: VHOG:0000932 xref: Wikipedia:Atrioventricular_cushions xref: XAO:0004189 xref: ZFA:0001317 is_a: UBERON:0002050 ! embryonic structure is_a: UBERON:0005256 ! trunk mesenchyme is_a: UBERON:0009751 ! cardiac mesenchyme is_a: UBERON:0014387 ! mesenchyme derived from neural crest relationship: part_of UBERON:0002165 {source="ZFA"} ! endocardium property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/c/c7/Gray465.png xsd:anyURI property_value: UBPROP:0000001 "Swellings of tissue present between the endocardial and myocardial cell layers that will give rise to the interstitial cells of the cardiac valves.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0001317", ontology="TAO", source="ZFIN:curator"} property_value: UBPROP:0000002 "relationship loss: develops_from endocardial ring (TAO:0005072)[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0001317", ontology="TAO"} property_value: UBPROP:0000003 "(Cardiac valve formation in vertebrates) In response to a myocardial signal, endocardial cells at chamber boundaries take on a mesenchymal character, delaminate and migrate into the cardiac jelly. There, they form an endocardial cushion that is later remodelled into a valve.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000932", ontology="VHOG", source="DOI:10.1038/35047564 Stainier DYR, Zebrafish genetics and vertebrate heart formation. Nature Reviews Genetics (2001) Figure 3", source="http://bgee.unil.ch/"} property_value: UBPROP:0000003 "(Cardiac valve formation in vertebrates) In response to a myocardial signal, endocardial cells at chamber boundaries take on a mesenchymal character, delaminate and migrate into the cardiac jelly. There, they form an endocardial cushion that is later remodelled into a valve.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000932", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1038/35047564 Stainier DYR, Zebrafish genetics and vertebrate heart formation. Nature Reviews Genetics (2001) Figure 3"} [Term] id: UBERON:0002063 name: sinus venosus namespace: uberon def: "The sinus venosus is a large cardiac chamber at the inflow tract that receives venous blood from systemic circulation. precedes the atrium on the venous side of the chordate heart." [http://en.wikipedia.org/wiki/Sinus_venosus, http://www.ncbi.nlm.nih.gov/pubmed/20735616] def: "The sinus venosus is a large cardiac chamber at the inflow tract that receives venous blood from systemic circulation. precedes the atrium on the venous side of the chordate heart." [PMID:20735616, Wikipedia:Sinus_venosus] subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "inflow tract" BROAD [ZFA:0000154] synonym: "sinus venarum" RELATED [Wikipedia:Sinus_venosus] synonym: "sinus venarum" RELATED [http://en.wikipedia.org/wiki/Sinus_venosus] synonym: "sinus venosus cordis" RELATED LATIN [Wikipedia:Sinus_venosus] synonym: "sinus venosus cordis" RELATED LATIN [http://en.wikipedia.org/wiki/Sinus_venosus] synonym: "venarum" RELATED [http://en.wikipedia.org/wiki/Sinus_venosus] synonym: "venarum" RELATED [Wikipedia:Sinus_venosus] synonym: "venarum sinus" RELATED [Wikipedia:Sinus_venosus] synonym: "venarum sinus" RELATED [http://en.wikipedia.org/wiki/Sinus_venosus] synonym: "venosus" RELATED [Wikipedia:Sinus_venosus] synonym: "venosus" RELATED [http://en.wikipedia.org/wiki/Sinus_venosus] xref: AAO:0010505 xref: EHDAA2:0001839 xref: EHDAA:480 xref: EMAPA:16237 xref: FMA:70303 xref: http://linkedlifedata.com/resource/umls/id/C0225857 xref: http://linkedlifedata.com/resource/umls/id/C0231084 xref: NCIT:C34299 xref: NCIT:C34300 xref: Sinus:venosus xref: TAO:0000154 xref: UMLS:C0225857 {source="ncithesaurus:Sinus_Venarum"} xref: UMLS:C0231084 {source="ncithesaurus:Sinus_Venosus"} xref: VHOG:0000177 xref: Wikipedia:Sinus_venosus xref: ZFA:0000154 is_a: UBERON:0004151 ! cardiac chamber relationship: develops_from UBERON:0007278 ! presumptive sinus venosus relationship: immediate_transformation_of UBERON:0007278 {source="Bgee:AN"} ! presumptive sinus venosus relationship: part_of UBERON:0002350 {source="VHOG"} ! conducting system of heart property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/c/c7/Gray465.png xsd:anyURI property_value: UBPROP:0000001 "Heart region collecting blood from the paired common cardinal veins and delivering to the atrium. One of four components of the heart. The sinus venosus also acts as a pacemaker and is the first to contract. Kimmel et al, 1995.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0000154", ontology="TAO", source="ZFIN:curator"} property_value: UBPROP:0000001 "Part of the circulatory system which receives blood from the systemic veins and contracts to pump the blood into the atrium of the heart.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0010505", ontology="AAO", source="AAO:BJB"} property_value: UBPROP:0000003 "In the primitive vertebrate heart the four chambers are: 1. Sinus venosus (...) 2. Atrium (...) 3. Ventricle (...) 4. Conus arteriosus (...).[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000177", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0721676678 Romer AS, Vertebrate body (1970) p.428"} property_value: UBPROP:0000003 "In the primitive vertebrate heart the four chambers are: 1. Sinus venosus (...) 2. Atrium (...) 3. Ventricle (...) 4. Conus arteriosus (...).[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000177", ontology="VHOG", source="ISBN:978-0721676678 Romer AS, Vertebrate body (1970) p.428", source="http://bgee.unil.ch/"} property_value: UBPROP:0000008 "In fish, receives venous blood from the systemic circulation through paired hepatic veins, anterior jugular veins and Cuvierian ducts[PMID:20735616]" xsd:string property_value: UBPROP:0000008 "In humans, it exists distinctly only in the embryonic heart, where it is found between the two venae cavae. In the adult, it is incorporated into the wall of the right atrium to form a smooth part called the sinus venarum, also known as the venarum sinus, which is separated from the rest of the atrium by a ridge of fibres called the crista terminalis. The sinus venosus also forms the SA node and the coronary sinus. In the embryo, the thin walls of the sinus venosus are connected below with the right ventricle, and medially with the left atrium, but are free in the rest of their extent. It receives blood from the vitelline vein, umbilical vein and common cardinal vein. It originally starts as a paired structure but shifts towards associating only with the right atrium as the embryonic heart develops. The left portion shrinks in size and eventually forms the coronary sinus and oblique vein of the left atrium, whereas the right part becomes incorporated into the right atrium to form the sinus venarmu" xsd:string property_value: UBPROP:0000008 "In zebrafish, the sinus venosus also acts as a pacemaker and is the first to contract" xsd:string {source="ZFA:0000154"} [Term] id: UBERON:0002067 name: dermis namespace: uberon def: "The dermis is a layer of skin between the epidermis (with which it makes up the skin) and subcutaneous tissues, and is composed of two layers, the papillary and reticular dermis[WP]." [http://en.wikipedia.org/wiki/Dermis, ZFIN:curator] def: "The dermis is a layer of skin between the epidermis (with which it makes up the skin) and subcutaneous tissues, and is composed of two layers, the papillary and reticular dermis[WP]." [Wikipedia:Dermis, ZFIN:curator] subset: efo_slim subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "corium" RELATED [BTO:0000294] synonym: "corium" RELATED LATIN [Wikipedia:Dermis] synonym: "corium" RELATED LATIN [http://en.wikipedia.org/wiki/Dermis] synonym: "cutis" RELATED [BTO:0000294] synonym: "vertebrate dermis" EXACT [] xref: AAO:0000128 xref: BTO:0000294 xref: CALOHA:TS-2076 xref: EFO:0000953 xref: EMAPA:17527 xref: EV:0100154 xref: FMA:70323 xref: GAID:1321 xref: http://en.wikipedia.org/wiki/Dermis xref: http://linkedlifedata.com/resource/umls/id/C0011646 xref: http://www.snomedbrowser.com/Codes/Details/361696001 xref: MA:0000152 xref: MAT:0000153 xref: MESH:D020405 xref: MIAA:0000153 xref: NCIT:C12701 xref: SCTID:361696001 xref: TAO:0001119 xref: UMLS:C0011646 {source="ncithesaurus:Dermis"} xref: VHOG:0000108 xref: Wikipedia:Dermis xref: XAO:0000217 xref: ZFA:0001119 is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0010314 ! structure with developmental contribution from neural crest is_a: UBERON:0013754 ! integumentary system layer relationship: composed_primarily_of UBERON:0002384 ! connective tissue relationship: deep_to UBERON:0001003 ! skin epidermis relationship: develops_from UBERON:0010083 ! future dermis relationship: has_part GO:0071953 ! elastic fiber relationship: has_part UBERON:0002384 ! connective tissue relationship: has_part UBERON:0011860 ! collection of collagen fibrils relationship: immediate_transformation_of UBERON:0010083 {evidence="definitional"} ! future dermis relationship: part_of UBERON:0002097 {source="FMA"} ! skin of body relationship: superficial_to UBERON:0002072 ! hypodermis property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/2/23/EpidermisPainted.svg xsd:anyURI property_value: editor_note "Consider adding a layer-of-skin grouping class for all skin layers" xsd:string property_value: UBPROP:0000001 "A collagenous layer of the skin subjacent to the epidermis and covering the hypodermis. It contains various types of cells (e.g. fibroblasts, pigment cells, nerve, blood vessels and scales. Le Guellec et al, 2004.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0001119", ontology="TAO", source="ZFIN:curator"} property_value: UBPROP:0000003 "When approaching controversies surrounding skin evolution, we need to remember that the skin consists of two layers, an epidermis and a dermis, not a single evolving structure. (...) It is little wonder that controversies about homology exist. If we think of the epidermis, the dermis, and their interactions as an evolving unit, then their specialized products (hair, feathers, and reptilian scales) are broadly homologous.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000108", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.231-232 see also p.209 and p.228 and Figure 6-1"} property_value: UBPROP:0000003 "When approaching controversies surrounding skin evolution, we need to remember that the skin consists of two layers, an epidermis and a dermis, not a single evolving structure. (...) It is little wonder that controversies about homology exist. If we think of the epidermis, the dermis, and their interactions as an evolving unit, then their specialized products (hair, feathers, and reptilian scales) are broadly homologous.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000108", ontology="VHOG", source="ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.231-232 see also p.209 and p.228 and Figure 6-1", source="http://bgee.unil.ch/"} property_value: UBPROP:0000007 "dermal" xsd:string [Term] id: UBERON:0002072 name: hypodermis namespace: uberon def: "Lowermost layer of the integumentary system in vertebrates. Types of cells that are found in the hypodermis are fibroblasts, adipose cells, and macrophages. It is derived from the mesoderm, but unlike the dermis, it is not derived from the dermatome region of the mesoderm. The hypodermis is used mainly for fat storage[WP]." [http://en.wikipedia.org/wiki/Hypodermis] def: "Lowermost layer of the integumentary system in vertebrates. Types of cells that are found in the hypodermis are fibroblasts, adipose cells, and macrophages. It is derived from the mesoderm, but unlike the dermis, it is not derived from the dermatome region of the mesoderm. The hypodermis is used mainly for fat storage[WP]." [Wikipedia:Hypodermis] subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "hypoderm" EXACT [] synonym: "sub-tegumental tissue" RELATED [BTO:0004525] synonym: "subcutaneous tissue" RELATED [Wikipedia:Hypodermis] synonym: "subcutaneous tissue" RELATED [http://en.wikipedia.org/wiki/Hypodermis] synonym: "subcutis" RELATED [] synonym: "subtegumental tissue" RELATED [BTO:0004525] synonym: "superficial fascia" RELATED INCONSISTENT [] synonym: "tela subcutanea" RELATED LATIN [http://en.wikipedia.org/wiki/Hypodermis] synonym: "tela subcutanea" RELATED LATIN [Wikipedia:Hypodermis] synonym: "vertebrate hypodermis" EXACT [] xref: BTO:0001314 xref: CALOHA:TS-2366 xref: EMAPA:37505 {source="MA:th"} xref: FMA:70544 xref: http://en.wikipedia.org/wiki/Hypodermis xref: http://linkedlifedata.com/resource/umls/id/C0278403 xref: NCIT:C33645 xref: TAO:0001136 xref: UMLS:C0278403 {source="ncithesaurus:Subcutis"} xref: Wikipedia:Hypodermis xref: ZFA:0001136 is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0013754 ! integumentary system layer relationship: composed_primarily_of UBERON:0001013 ! adipose tissue relationship: composed_primarily_of UBERON:0011825 {source="FMA-modified"} ! loose connective tissue relationship: deep_to UBERON:0002067 ! dermis relationship: has_part UBERON:0001013 ! adipose tissue relationship: has_part UBERON:0011825 ! loose connective tissue relationship: part_of UBERON:0002199 {source="ZFA"} ! integument relationship: superficial_to UBERON:0001015 ! musculature property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/6/6d/Skin.svg xsd:anyURI property_value: UBPROP:0000001 "A layer separating the inner face of the dermis from the subjacent muscle cells. It is covered on both sides by a basement membrane. It contains pigment cells. Le Guellec et al, 2004.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0001136", ontology="TAO", source="ZFIN:curator"} property_value: UBPROP:0000001 "A layer separating the inner face of the dermis from the subjacent muscle cells. It is covered on both sides by a basement membrane. It contains pigment cells[FMA:70544]." xsd:string {source="FMA:70544"} property_value: UBPROP:0000007 "hypodermal" xsd:string property_value: UBPROP:0000007 "subcutaneous" xsd:string property_value: UBPROP:0000007 "subcutaneus" xsd:string property_value: UBPROP:0000012 "BTO has 'subcutis', as part of dermis. We follow FMA in having distinct classes for hypodermis and superficial fascia, and including these as part of the non-skin intgeument." xsd:string {external_ontology="BTO"} [Term] id: UBERON:0002075 name: viscus namespace: uberon def: "An organ that is located within the body cavity (or in its extension, in the scrotum); it consists of organ parts that are embryologically derived from endoderm, splanchnic mesoderm or intermediate mesoderm; together with other organs, the viscus constitutes the respiratory, gastrointestinal, urinary, reproductive and immune systems, or is the central organ of the cardiovascular system. Examples: heart, lung, esophagus, kidney, ovary, spleen." [BTO:0001491, https://github.com/obophenotype/mouse-anatomy-ontology/issues/14, Wikipedia:Viscus] def: "An organ that is located within the body cavity (or in its extension, in the scrotum); it consists of organ parts that are embryologically derived from endoderm, splanchnic mesoderm or intermediate mesoderm; together with other organs, the viscus constitutes the respiratory, gastrointestinal, urinary, reproductive and immune systems, or is the central organ of the cardiovascular system. Examples: heart, lung, esophagus, kidney, ovary, spleen." [BTO:0001491, http://en.wikipedia.org/wiki/Viscus, https://github.com/obophenotype/mouse-anatomy-ontology/issues/14] subset: organ_slim subset: pheno_slim subset: uberon_slim subset: upper_level synonym: "Organsystem@de" RELATED [BTO:0001491] synonym: "splanchnic tissue" RELATED [BTO:0001491] synonym: "viscera" RELATED [] synonym: "visceral organ" EXACT [RETIRED_EHDAA2:0002201] synonym: "visceral organ system" EXACT [MA:0000019] synonym: "visceral tissue" RELATED [BTO:0001491] xref: AAO:0010386 xref: BTO:0001491 xref: EHDAA:512 xref: EMAPA:16245 xref: FMA:7085 xref: http://en.wikipedia.org/wiki/Viscus xref: http://linkedlifedata.com/resource/umls/id/C0042779 xref: http://www.snomedbrowser.com/Codes/Details/118760003 xref: MA:0000019 xref: MESH:D014781 xref: NCIT:C28287 xref: RETIRED_EHDAA2:0002201 xref: SCTID:118760003 xref: UMLS:C0042779 {source="ncithesaurus:Viscera"} xref: Wikipedia:Viscus xref: XAO:0003034 is_a: UBERON:0005177 ! trunk region element intersection_of: UBERON:0000062 ! organ intersection_of: located_in UBERON:0002323 ! coelemic cavity lumen relationship: located_in UBERON:0002323 ! coelemic cavity lumen property_value: UBPROP:0000001 "An internal organ of the body; especially: one (as the heart, liver, or intestine) located in the great cavity of the trunk proper.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0010386", ontology="AAO", source="BTO:0001491"} property_value: UBPROP:0000012 "general anatomical term in FMA. Note that we place the MA class here temporarily, although properly systems should be distinguished from organs." xsd:string {external_ontology="FMA"} [Term] id: UBERON:0002078 name: right cardiac atrium namespace: uberon def: "A cardiac atrium that is in the left side of the heart. It receives deoxygenated blood. In mammals, this comes from the superior and inferior vena cava and the coronary sinus, and pumps it into the right ventricle through the tricuspid valve." [http://en.wikipedia.org/wiki/Right_atrium, http://orcid.org/0000-0002-6601-2165] def: "A cardiac atrium that is in the left side of the heart. It receives deoxygenated blood. In mammals, this comes from the superior and inferior vena cava and the coronary sinus, and pumps it into the right ventricle through the tricuspid valve." [http://orcid.org/0000-0002-6601-2165, Wikipedia:Right_atrium] subset: pheno_slim subset: uberon_slim synonym: "atrium dextrum" RELATED LATIN [http://en.wikipedia.org/wiki/Right_atrium] synonym: "atrium dextrum" RELATED LATIN [Wikipedia:Right_atrium] synonym: "cardiac right atrium" EXACT [] synonym: "heart right atrium" EXACT [MA:0000075] synonym: "right atrium" EXACT [VHOG:0000328] synonym: "right atrium of heart" EXACT [] synonym: "right cardiac atrium" EXACT [] xref: AAO:0010248 xref: BTO:0001703 xref: EHDAA2:0000290 xref: EMAPA:17321 xref: FMA:7096 xref: galen:RightAtrium xref: http://linkedlifedata.com/resource/umls/id/C0225844 xref: http://www.snomedbrowser.com/Codes/Details/244383003 xref: MA:0000075 xref: NCIT:C12868 xref: OpenCyc:Mx4runNcs6fqEdudWQACs5b6Bw xref: OpenCyc:Mx8Ngh4rvgHsHZwpEbGdrcN5Y29ycB4rDJ89oqgPEdudWQACs5b6Bw xref: Right:atrium xref: SCTID:244383003 xref: UMLS:C0225844 {source="ncithesaurus:Right_Atrium"} xref: VHOG:0000328 xref: Wikipedia:Right_atrium xref: XAO:0003192 is_a: UBERON:0002081 ! cardiac atrium is_a: UBERON:0035554 ! right cardiac chamber intersection_of: UBERON:0002081 ! cardiac atrium intersection_of: in_right_side_of UBERON:0000948 ! heart property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/2/20/Diagram_of_the_human_heart_%28cropped%29.svg xsd:anyURI property_value: UBPROP:0000001 "Right cardiac chamber which is continuous with the superior vena cava and inferior vena cava.[FMA]" xsd:string {source="FMA:7096"} property_value: UBPROP:0000003 "The tetrapod clade develops a complete atrial septum and loses the fifth aortic arch altogether.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000328", ontology="VHOG", source="ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.620", source="http://bgee.unil.ch/"} property_value: UBPROP:0000003 "The tetrapod clade develops a complete atrial septum and loses the fifth aortic arch altogether.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000328", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.620"} property_value: UBPROP:0000006 https://github.com/obophenotype/uberon/wiki/Modeling-paired-structures-Design-Pattern xsd:anyURI [Term] id: UBERON:0002079 name: left cardiac atrium namespace: uberon def: "A cardiac atrium that is in the left side of the heart. It receives oxygenated blood from the pulmonary veins, In mammals this is pumped into the left ventricle, via the Mitral valve." [http://en.wikipedia.org/wiki/Left_atrium, http://orcid.org/0000-0002-6601-2165] def: "A cardiac atrium that is in the left side of the heart. It receives oxygenated blood from the pulmonary veins, In mammals this is pumped into the left ventricle, via the Mitral valve." [http://orcid.org/0000-0002-6601-2165, Wikipedia:Left_atrium] subset: pheno_slim subset: uberon_slim synonym: "atrium sinistrum" EXACT LATIN [Wikipedia:Left_atrium] synonym: "atrium sinistrum" EXACT LATIN [http://en.wikipedia.org/wiki/Left_atrium] synonym: "cardiac left atrium" EXACT [] synonym: "heart left atrium" EXACT [MA:0000074] synonym: "left atrium" EXACT [VHOG:0000369] synonym: "left atrium of heart" EXACT [] synonym: "left cardiac atrium" EXACT [] xref: AAO:0010247 xref: BTO:0001702 xref: EHDAA2:0000275 xref: EMAPA:17315 xref: FMA:7097 xref: galen:LeftAtrium xref: http://linkedlifedata.com/resource/umls/id/C0225860 xref: http://www.snomedbrowser.com/Codes/Details/244387002 xref: Left:atrium xref: MA:0000074 xref: NCIT:C12869 xref: OpenCyc:Mx4rkJN1AagEEdudWQACs5b6Bw xref: OpenCyc:Mx8Ngh4rvgIFoJwpEbGdrcN5Y29ycB4rDJ89oqgPEdudWQACs5b6Bw xref: SCTID:244387002 xref: UMLS:C0225860 {source="ncithesaurus:Left_Atrium"} xref: VHOG:0000369 xref: Wikipedia:Left_atrium xref: XAO:0003191 is_a: UBERON:0002081 ! cardiac atrium is_a: UBERON:0035553 ! left cardiac chamber intersection_of: UBERON:0002081 ! cardiac atrium intersection_of: in_left_side_of UBERON:0000948 ! heart property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/2/20/Diagram_of_the_human_heart_%28cropped%29.svg xsd:anyURI property_value: UBPROP:0000001 "Left cardiac chamber which is continuous with the pulmonary venous trunk.[FMA]" xsd:string {source="FMA:7097"} property_value: UBPROP:0000001 "The chamber of the heart that receives blood from the lungs[XAO:EJS]." xsd:string {source="XAO:EJS"} property_value: UBPROP:0000003 "The tetrapod clade develops a complete atrial septum and loses the fifth aortic arch altogether.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000369", ontology="VHOG", source="ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.620", source="http://bgee.unil.ch/"} property_value: UBPROP:0000003 "The tetrapod clade develops a complete atrial septum and loses the fifth aortic arch altogether.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000369", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.620"} property_value: UBPROP:0000006 https://github.com/obophenotype/uberon/wiki/Modeling-paired-structures-Design-Pattern xsd:anyURI [Term] id: UBERON:0002080 name: heart right ventricle namespace: uberon def: "A cardiac ventricle that is in the right side of the heart." [http://orcid.org/0000-0002-6601-2165] subset: pheno_slim subset: uberon_slim synonym: "cardiac right ventricle" EXACT [] synonym: "right cardiac ventricle" RELATED [EMAPA:17340] synonym: "right ventricle" EXACT [FMA:7098] synonym: "right ventricle of heart" EXACT [] synonym: "ventriculus dexter" RELATED LATIN [Wikipedia:Right_ventricle] synonym: "ventriculus dexter" RELATED LATIN [http://en.wikipedia.org/wiki/Right_ventricle] xref: BTO:0001630 xref: CALOHA:TS-0443 xref: EHDAA2:0000196 xref: EMAPA:17340 xref: FMA:7098 xref: galen:RightVentricle xref: http://linkedlifedata.com/resource/umls/id/C0225883 xref: http://www.snomedbrowser.com/Codes/Details/244384009 xref: MA:0000093 xref: NCIT:C12870 xref: OpenCyc:Mx4rRMlc0KgNEdudWQACs5b6Bw xref: OpenCyc:Mx8Ngh4rvgHsHZwpEbGdrcN5Y29ycB4rvVjj1pwpEbGdrcN5Y29ycA xref: Right:ventricle xref: SCTID:244384009 xref: UMLS:C0225883 {source="ncithesaurus:Right_Ventricle"} xref: VHOG:0000717 xref: Wikipedia:Right_ventricle is_a: UBERON:0002082 ! cardiac ventricle is_a: UBERON:0035554 ! right cardiac chamber intersection_of: UBERON:0002082 ! cardiac ventricle intersection_of: in_right_side_of UBERON:0000948 ! heart relationship: develops_from UBERON:0009889 {source="PMID:17276708"} ! secondary heart field relationship: develops_from UBERON:0009889 {source="http://www.ncbi.nlm.nih.gov/pubmed/17276708"} ! secondary heart field relationship: has_developmental_contribution_from UBERON:0004706 {source="cjm"} ! bulbus cordis property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/2/20/Diagram_of_the_human_heart_%28cropped%29.svg xsd:anyURI property_value: UBPROP:0000001 "The muscular chamber on the right and in front of the left ventricle. It generally receives venous blood from the right atrium and conveys it into the pulmonary artery. [(1988)_Dorian_AF, Amsterdam, Dorian_AF, Elsevier's_encyclopaedic_dictionary_of_medicine, Part_B._Anatomy, Part_B:_Anatomy_(1988)_Amsterdam_etc.:_Elsevier, Part_B:_Anatomy_(1988)_Amsterdam_etc.:_Elsevier's_Encyclopaedic_Dictionary_of_Medicine][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000717", ontology="VHOG", source="http://bgee.unil.ch/"} property_value: UBPROP:0000001 "The muscular chamber on the right and in front of the left ventricle. It generally receives venous blood from the right atrium and conveys it into the pulmonary artery. [(1988)_Dorian_AF, Amsterdam, Dorian_AF, Elsevier's_encyclopaedic_dictionary_of_medicine, Part_B._Anatomy, Part_B:_Anatomy_(1988)_Amsterdam_etc.:_Elsevier, Part_B:_Anatomy_(1988)_Amsterdam_etc.:_Elsevier's_Encyclopaedic_Dictionary_of_Medicine][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000717", ontology="VHOG", source="http://bgee.unil.ch/"} property_value: UBPROP:0000006 https://github.com/obophenotype/uberon/wiki/Modeling-paired-structures-Design-Pattern xsd:anyURI property_value: UBPROP:0000008 "In mammals continuous with the pulmonary arteries" xsd:string [Term] id: UBERON:0002081 name: cardiac atrium namespace: uberon def: "Cardiac chamber in which blood enters the heart." [http://orcid.org/0000-0002-6601-2165, Wikipedia:Heart_atrium] def: "Cardiac chamber in which blood enters the heart." [http://en.wikipedia.org/wiki/Heart_atrium, http://orcid.org/0000-0002-6601-2165] subset: efo_slim subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "atria" EXACT PLURAL [] synonym: "atrial tissue" RELATED [BTO:0000903] synonym: "atrium" EXACT [ZFA:0000471] synonym: "atrium of heart" EXACT [] synonym: "cardiac atria" EXACT PLURAL [] synonym: "heart atrium" EXACT [] xref: AAO:0010246 xref: BTO:0000903 xref: CALOHA:TS-0437 xref: EFO:0000277 xref: EHDAA2:0000154 xref: EHDAA:1265 xref: EMAPA:16688 xref: EV:0100019 xref: FMA:7099 xref: GAID:555 xref: galen:Atrium xref: Heart:atrium xref: http://linkedlifedata.com/resource/umls/id/C0018792 xref: http://www.snomedbrowser.com/Codes/Details/261405004 xref: MA:0000073 xref: MAT:0000496 xref: MESH:D006325 xref: NCIT:C12728 xref: SCTID:261405004 xref: TAO:0000471 xref: UMLS:C0018792 {source="ncithesaurus:Cardiac_Atrium"} xref: VHOG:0000175 xref: Wikipedia:Heart_atrium xref: ZFA:0000471 is_a: UBERON:0004151 ! cardiac chamber relationship: contributes_to_morphology_of UBERON:0000948 ! heart relationship: develops_from UBERON:0010227 ! future cardiac atrium relationship: immediate_transformation_of UBERON:0010227 ! future cardiac atrium property_value: UBPROP:0000001 "One of four heart chambers.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0000471", ontology="TAO", source="ZFIN:curator"} property_value: UBPROP:0000001 "One of two chambers of the heart which receive blood from the veins and forces it by muscular contration to the ventricle.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0010246", ontology="AAO", source="AAO:BJB"} property_value: UBPROP:0000003 "In the primitive vertebrate heart the four chambers are: 1. Sinus venosus (...) 2. Atrium (...) 3. Ventricle (...) 4. Conus arteriosus (...).[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000175", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0721676678 Romer AS, Vertebrate body (1970) p.428"} property_value: UBPROP:0000003 "In the primitive vertebrate heart the four chambers are: 1. Sinus venosus (...) 2. Atrium (...) 3. Ventricle (...) 4. Conus arteriosus (...).[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000175", ontology="VHOG", source="ISBN:978-0721676678 Romer AS, Vertebrate body (1970) p.428", source="http://bgee.unil.ch/"} [Term] id: UBERON:0002082 name: cardiac ventricle namespace: uberon def: "Cardiac chamber through which blood leaves the heart." [http://orcid.org/0000-0002-6601-2165, Wikipedia:Ventricle_(heart)] def: "Cardiac chamber through which blood leaves the heart." [http://en.wikipedia.org/wiki/Ventricle_(heart), http://orcid.org/0000-0002-6601-2165] subset: efo_slim subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "heart ventricle" EXACT [] synonym: "lower chamber of heart" EXACT [] synonym: "ventricle" BROAD [] synonym: "ventricle of heart" EXACT [] xref: AAO:0010249 xref: BTO:0000862 xref: CALOHA:TS-0444 xref: EFO:0000317 xref: EHDAA2:0004164 xref: EHDAA:1912 xref: EMAPA:17331 xref: EV:0100020 xref: FMA:7100 xref: GAID:568 xref: galen:Ventricle xref: http://linkedlifedata.com/resource/umls/id/C0018827 xref: http://www.snomedbrowser.com/Codes/Details/277699000 xref: MA:0000091 xref: MAT:0000497 xref: MESH:D006352 xref: NCIT:C12730 xref: OpenCyc:Mx4rvVjj1pwpEbGdrcN5Y29ycA xref: SCTID:277699000 xref: TAO:0000009 xref: UMLS:C0018827 {source="ncithesaurus:Cardiac_Ventricle"} xref: Ventricle:(heart) xref: VHOG:0000435 xref: Wikipedia:Ventricle_(heart) xref: XAO:0003193 xref: ZFA:0000009 is_a: UBERON:0004151 ! cardiac chamber relationship: contributes_to_morphology_of UBERON:0000948 ! heart relationship: develops_from UBERON:0006283 ! future cardiac ventricle relationship: immediate_transformation_of UBERON:0006283 {source="Bgee:AN"} ! future cardiac ventricle property_value: UBPROP:0000001 "A chamber of the heart that receives blood from one or more atria and pumps it by muscular contraction into the arteries.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0010249", ontology="AAO", source="AAO:BJB"} property_value: UBPROP:0000001 "One of four heart chambers.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0000009", ontology="TAO", source="ZFIN:curator"} property_value: UBPROP:0000003 "In the primitive vertebrate heart the four chambers are: 1. Sinus venosus (...) 2. Atrium (...) 3. Ventricle (...) 4. Conus arteriosus (...)[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000435", ontology="VHOG", source="ISBN:978-0721676678 Romer AS, Vertebrate body (1970) p.428", source="http://bgee.unil.ch/"} property_value: UBPROP:0000003 "In the primitive vertebrate heart the four chambers are: 1. Sinus venosus (...) 2. Atrium (...) 3. Ventricle (...) 4. Conus arteriosus (...)[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000435", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0721676678 Romer AS, Vertebrate body (1970) p.428"} [Term] id: UBERON:0002084 name: heart left ventricle namespace: uberon def: "A cardiac ventricle that is in the left side of the heart." [http://orcid.org/0000-0002-6601-2165] subset: pheno_slim subset: uberon_slim synonym: "cardiac left ventricle" EXACT [] synonym: "left cardiac ventricle" EXACT [] synonym: "left ventricle" EXACT [FMA:7101] synonym: "left ventricle of heart" EXACT [] synonym: "ventriculus sinister cordis" RELATED LATIN [Wikipedia:Left_ventricle] synonym: "ventriculus sinister cordis" RELATED LATIN [http://en.wikipedia.org/wiki/Left_ventricle] xref: BTO:0001629 xref: CALOHA:TS-0439 xref: EHDAA2:0002178 xref: EMAPA:17337 xref: FMA:7101 xref: galen:LeftVentricle xref: http://linkedlifedata.com/resource/umls/id/C0225897 xref: http://www.snomedbrowser.com/Codes/Details/244385005 xref: Left:ventricle xref: MA:0000092 xref: NCIT:C12871 xref: OpenCyc:Mx4rtW8v46gEEdudWQACs5b6Bw xref: OpenCyc:Mx8Ngh4rvgIFoJwpEbGdrcN5Y29ycB4rvVjj1pwpEbGdrcN5Y29ycA xref: SCTID:244385005 xref: UMLS:C0225897 {source="ncithesaurus:Left_Ventricle"} xref: VHOG:0000718 xref: Wikipedia:Left_ventricle is_a: UBERON:0002082 ! cardiac ventricle is_a: UBERON:0035553 ! left cardiac chamber intersection_of: UBERON:0002082 ! cardiac ventricle intersection_of: in_left_side_of UBERON:0000948 ! heart relationship: continuous_with UBERON:0000947 ! aorta relationship: develops_from UBERON:0004140 {source="GO"} ! primary heart field property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/2/20/Diagram_of_the_human_heart_%28cropped%29.svg xsd:anyURI property_value: UBPROP:0000001 "Thick-walled muscular chamber constituting the left border and apex of the heart. It receives oxygenated blood from the left atrium through the mitral orifice and send it off into the aorta. [Dorian_AF, Elsevier's_encyclopaedic_dictionary_of_medicine, Part_B:_Anatomy_(1988)_Amsterdam_etc.:_Elsevier][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000718", ontology="VHOG", source="http://bgee.unil.ch/"} property_value: UBPROP:0000001 "Thick-walled muscular chamber constituting the left border and apex of the heart. It receives oxygenated blood from the left atrium through the mitral orifice and send it off into the aorta. [Dorian_AF, Elsevier's_encyclopaedic_dictionary_of_medicine, Part_B:_Anatomy_(1988)_Amsterdam_etc.:_Elsevier][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000718", ontology="VHOG", source="http://bgee.unil.ch/"} property_value: UBPROP:0000003 "The vertebrate heart initially forms as a tube from a population of precursor cells termed the first heart field (FHF). Cells from the adjacent second heart field (SHF) are then progressively added to the developing heart. In avian and mammalian hearts, the FHF contributes mainly to the left ventricle, whereas the SHF gives rise to the outflow tract and large portions of the right ventricle and atria. Both fields arise from common mesodermal progenitors, although the detailed lineage relationships between FHF and SHF remain uncertain.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000718", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1126/science.1190181 Stolfi A, Gainous TB, Young JJ, Mori A, Levine M, Christiaen L, Early chordate origins of the vertebrate second heart field. Science (2010)"} property_value: UBPROP:0000003 "The vertebrate heart initially forms as a tube from a population of precursor cells termed the first heart field (FHF). Cells from the adjacent second heart field (SHF) are then progressively added to the developing heart. In avian and mammalian hearts, the FHF contributes mainly to the left ventricle, whereas the SHF gives rise to the outflow tract and large portions of the right ventricle and atria. Both fields arise from common mesodermal progenitors, although the detailed lineage relationships between FHF and SHF remain uncertain.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000718", ontology="VHOG", source="DOI:10.1126/science.1190181 Stolfi A, Gainous TB, Young JJ, Mori A, Levine M, Christiaen L, Early chordate origins of the vertebrate second heart field. Science (2010)", source="http://bgee.unil.ch/"} property_value: UBPROP:0000006 https://github.com/obophenotype/uberon/wiki/Modeling-paired-structures-Design-Pattern xsd:anyURI property_value: UBPROP:0000008 "In mammals continuous with aorta" xsd:string [Term] id: UBERON:0002085 name: interatrial septum namespace: uberon def: "A cardiac septum that divides the left and right atria of the heart." [http://orcid.org/0000-0002-6601-2165] subset: pheno_slim subset: uberon_slim synonym: "atrial septum" EXACT [] synonym: "atrium septum" EXACT [] synonym: "interatrial septal wall" EXACT [] xref: EHDAA2:0000838 xref: EHDAA:1896 xref: EMAPA:17011 xref: FMA:7108 xref: galen:InteratrialSeptum xref: http://linkedlifedata.com/resource/umls/id/C0225836 xref: http://www.snomedbrowser.com/Codes/Details/362016003 xref: Interatrial:septum xref: MA:0000084 xref: NCIT:C32818 xref: OpenCyc:Mx4rpd49nLYEEduAAAACs2IKfQ xref: OpenCyc:Mx4rwGvku5wpEbGdrcN5Y29ycA xref: SCTID:362016003 xref: UMLS:C0225836 {source="ncithesaurus:Interatrial_Septum"} xref: VHOG:0000385 xref: Wikipedia:Interatrial_septum is_a: UBERON:0002099 ! cardiac septum intersection_of: UBERON:0002099 ! cardiac septum intersection_of: adjacent_to UBERON:0002078 ! right cardiac atrium intersection_of: adjacent_to UBERON:0002079 ! left cardiac atrium relationship: adjacent_to UBERON:0002078 ! right cardiac atrium relationship: adjacent_to UBERON:0002079 ! left cardiac atrium property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/6/6c/Gray493.png xsd:anyURI property_value: UBPROP:0000001 "The partition separating the right and left atria of the heart. [TFD][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000385", ontology="VHOG", source="http://bgee.unil.ch/", source="http://medical-dictionary.thefreedictionary.com/interatrial+septum"} property_value: UBPROP:0000001 "The partition separating the right and left atria of the heart. [TFD][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000385", ontology="VHOG", source="http://bgee.unil.ch/", source="http://medical-dictionary.thefreedictionary.com/interatrial+septum"} property_value: UBPROP:0000003 "The tetrapod clade develops a complete atrial septum and loses the fifth aortic arch altogether.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000385", ontology="VHOG", source="ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.620", source="http://bgee.unil.ch/"} property_value: UBPROP:0000003 "The tetrapod clade develops a complete atrial septum and loses the fifth aortic arch altogether.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000385", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.620"} [Term] id: UBERON:0002090 name: postcranial axial skeleton namespace: uberon def: "The postcranial subdivision of skeleton structural components forming the long axis of the vertebrate body; in Danio, consisting of the notochord, vertebrae, ribs, supraneurals, intermuscular bones, and unpaired median fins; in human consists of the bones of the vertebral column, the thoracic cage and the pelvis[ZFA+FMA]." [https://sourceforge.net/tracker/?func=detail&aid=2983975&group_id=76834&atid=974957, https://sourceforge.net/tracker/?func=detail&atid=1205376&aid=2983977&group_id=76834, ZFA:0000317] comment: previous some AOs had used the term 'axial skeleton' to include the skull. This is being resolved (see tracker items above). Status: MA - fixed. subset: efo_slim subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "axial skeleton" BROAD [FMA:71221, https://github.com/obophenotype/uberon/wiki/The-axial-skeleton] synonym: "post-cranial axial skeleton" EXACT [] xref: AAO:0000034 xref: EFO:0000942 xref: EHDAA2:0000161 xref: EHDAA:5049 xref: EMAPA:17214 xref: EMAPA:37721 {source="MA:th"} xref: FMA:71221 xref: MA:0002986 xref: MAT:0000148 xref: MIAA:0000148 xref: TAO:0000317 xref: VHOG:0000317 xref: VSAO:0000093 xref: XAO:0003073 xref: ZFA:0000317 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0010912 ! subdivision of skeleton relationship: develops_from UBERON:0003089 ! sclerotome relationship: part_of UBERON:0005944 ! axial skeleton plus cranial skeleton relationship: part_of UBERON:0011138 ! postcranial axial skeletal system property_value: seeAlso http://purl.obolibrary.org/obo/uberon/docs/The-axial-skeleton xsd:anyURI property_value: UBPROP:0000001 "Skeletal subdivision of the central body axis including vertebrae, notochord, ribs, and sternum.[VSAO]" xsd:string {date_retrieved="2012-08-14", external_class="VSAO:0000093", ontology="VSAO", source="PSPUB:0000170"} property_value: UBPROP:0000001 "The axial skeleton is formed by the vertebral column, a metameric, semi-flexible, arched bar located in the dorsal part of the trunk, and is formed by a series of cartilaginous or bony vertebrae. It provides suspension for the appendicular skeleton and protection for the spinal nerve cord.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0000034", ontology="AAO", source="AAO:LAP"} property_value: UBPROP:0000001 "The post-cranial structural components forming the long axis of the vertebrate body; usually consists of the notochord, vertebrae, ribs, supraneurals, intermuscular bones, and unpaired median fins.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0000317", ontology="TAO", source="ZFIN:curator"} property_value: UBPROP:0000003 "The axial musculoskeletal system represents the plesiomorphic locomotor engine of the vertebrate body, playing a central role in locomotion. In craniates, the evolution of the postcranial skeleton is characterized by two major transformations. First, the axial skeleton became increasingly functionally and morphologically regionalized. Second, the axial-based locomotion plesiomorphic for craniates became progressively appendage-based with the evolution of extremities in tetrapods.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000317", ontology="VHOG", source="DOI:10.1186/1742-9994-8-4 Schilling N, Evolution of the axial system in craniates: morphology and function of the perivertebral musculature. Frontiers in Zoology (2011)", source="http://bgee.unil.ch/"} property_value: UBPROP:0000003 "The axial musculoskeletal system represents the plesiomorphic locomotor engine of the vertebrate body, playing a central role in locomotion. In craniates, the evolution of the postcranial skeleton is characterized by two major transformations. First, the axial skeleton became increasingly functionally and morphologically regionalized. Second, the axial-based locomotion plesiomorphic for craniates became progressively appendage-based with the evolution of extremities in tetrapods.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000317", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1186/1742-9994-8-4 Schilling N, Evolution of the axial system in craniates: morphology and function of the perivertebral musculature. Frontiers in Zoology (2011)"} [Term] id: UBERON:0002091 name: appendicular skeleton namespace: uberon def: "Subdivision of skeleton which which consists of all the skeletal elements in in the pectoral and pelvic appendage complexes[cjm]." [https://orcid.org/0000-0002-6601-2165, UBERONREF:0000003, Wikipedia:Appendicular_skeleton] def: "Subdivision of skeleton which which consists of all the skeletal elements in in the pectoral and pelvic appendage complexes[cjm]." [http://en.wikipedia.org/wiki/Appendicular_skeleton, https://orcid.org/0000-0002-6601-2165, UBERONREF:0000003] subset: efo_slim subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "appendicular skeleton" EXACT [] synonym: "entire appendicular skeleton" EXACT [https://github.com/obophenotype/uberon/issues/59] synonym: "paired fin skeleton" NARROW SENSU [] synonym: "skeleton appendiculare" RELATED LATIN [Wikipedia:Appendicular_skeleton] synonym: "skeleton appendiculare" RELATED LATIN [http://en.wikipedia.org/wiki/Appendicular_skeleton] xref: AAO:0000747 xref: Appendicular:skeleton xref: EFO:0000951 xref: EMAPA:32729 xref: FMA:71222 xref: http://linkedlifedata.com/resource/umls/id/C0222646 xref: http://www.snomedbrowser.com/Codes/Details/322050006 xref: MA:0000290 xref: MAT:0000278 xref: MIAA:0000278 xref: NCIT:C49477 xref: SCTID:322050006 xref: UMLS:C0222646 {source="ncithesaurus:Appendicular_Skeleton"} xref: VHOG:0001666 xref: VSAO:0000076 xref: Wikipedia:Appendicular_skeleton xref: XAO:0003166 is_a: UBERON:0010912 ! subdivision of skeleton relationship: contributes_to_morphology_of UBERON:0001434 ! skeletal system relationship: only_in_taxon NCBITaxon:7776 ! Gnathostomata relationship: overlaps UBERON:0000026 ! appendage relationship: part_of UBERON:0011249 ! appendicular skeletal system property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/7/7c/Appendicular_skeleton_diagram.svg xsd:anyURI property_value: seeAlso https://github.com/obophenotype/uberon/wiki/Appendages-and-the-appendicular-skeleton xsd:anyURI property_value: UBPROP:0000001 "Skeletal subdivision consisting of all the skeletal elements in the pectoral and pelvic appendage complexes.[VSAO]" xsd:string {date_retrieved="2012-08-14", external_class="VSAO:0000076", ontology="VSAO", source="https://orcid.org/0000-0002-6601-2165", source="PSPUB:0000170"} property_value: UBPROP:0000001 "Skeletal subdivision consisting of all the skeletal elements in the pectoral and pelvic appendage complexes.[VSAO]" xsd:string {date_retrieved="2012-08-14", external_class="VSAO:0000076", ontology="VSAO", source="PSPUB:0000170", source="https://orcid.org/0000-0002-6601-2165"} property_value: UBPROP:0000001 "Skeletal system that consists of the paired fins (pectoral or pelvic fins).[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0000027", ontology="TAO", source="TAO:wd"} property_value: UBPROP:0000001 "The pectoral and pelvic girdles, which articulate with the axial skeleton, together with their associated limbs, the forelimbs and hind limbs, form the appendicular skeleton.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0000747", ontology="AAO", source="AAO:LAP"} property_value: UBPROP:0000012 "ontologies differ in whether they treat the term appendicular skeleton as being the entire set of bones in the limbs, or whether the fore and hind limbs/fins are treated as seperate appendicular skeletons. Here we follow FMA, and treat the appendicular skeleton as the sum total of skeletal elements in the organism (this is evidenced by the fact that in FMA, skeleton of left/right upper/lower limb is part_of a appendicular skeleton, and subtypes of 'subdivision of appendicular skeleton'). We have separate classes such as 'skeleton of limb', and 'skeleton of hindlimb' for the 4 parts of the appendicular skeleton. In future the ZFA/TAO classes may be moved." xsd:string {external_ontology="FMA"} [Term] id: UBERON:0002094 name: interventricular septum namespace: uberon def: "Cardiac septum which separates the right ventricle from the left ventricle.[FMA]." [FMA:7133] subset: efo_slim subset: pheno_slim subset: uberon_slim synonym: "heart interventricular septum" EXACT [MA:0000085] synonym: "heart ventricular septum" EXACT [MA:0000085] synonym: "interventricular septum of heart" RELATED [BTO:0002483] synonym: "interventriculare cordis" RELATED [BTO:0002483] synonym: "intraventricular septum" RELATED [http://en.wikipedia.org/wiki/Interventricular_septum] synonym: "intraventricular septum" RELATED [Wikipedia:Interventricular_septum] synonym: "s. interventriculare cordis" RELATED LATIN [Wikipedia:Interventricular_septum] synonym: "s. interventriculare cordis" RELATED LATIN [http://en.wikipedia.org/wiki/Interventricular_septum] synonym: "septum inferius" RELATED [http://en.wikipedia.org/wiki/Interventricular_septum] synonym: "septum inferius" RELATED [Wikipedia:Interventricular_septum] synonym: "septum membranaceum" RELATED [Wikipedia:Interventricular_septum] synonym: "septum membranaceum" RELATED [http://en.wikipedia.org/wiki/Interventricular_septum] synonym: "ventricle septum" RELATED [] synonym: "ventricular septum" RELATED [MA:0000085, Wikipedia:Interventricular_septum] synonym: "ventricular septum" RELATED [http://en.wikipedia.org/wiki/Interventricular_septum, MA:0000085] xref: BTO:0002483 xref: EFO:0001956 xref: EHDAA:2603 xref: EMAPA:17333 xref: FMA:7133 xref: galen:InterventricularSeptum xref: http://linkedlifedata.com/resource/umls/id/C0225870 xref: http://www.snomedbrowser.com/Codes/Details/362019005 xref: Interventricular:septum xref: MA:0000085 xref: NCIT:C32874 xref: OpenCyc:Mx4rwA7lp5wpEbGdrcN5Y29ycA xref: SCTID:362019005 xref: UMLS:C0225870 {source="ncithesaurus:Interventricular_Septum"} xref: VHOG:0000386 xref: Wikipedia:Interventricular_septum is_a: UBERON:0002099 ! cardiac septum intersection_of: UBERON:0002099 ! cardiac septum intersection_of: adjacent_to UBERON:0002080 ! heart right ventricle intersection_of: adjacent_to UBERON:0002084 ! heart left ventricle relationship: adjacent_to UBERON:0002080 ! heart right ventricle relationship: adjacent_to UBERON:0002084 ! heart left ventricle property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/9/96/Gray498.png xsd:anyURI property_value: UBPROP:0000001 "The partition separating the right and left ventricles of the heart. [TFD][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000386", ontology="VHOG", source="http://bgee.unil.ch/", source="http://medical-dictionary.thefreedictionary.com/interventricular+septum"} property_value: UBPROP:0000001 "The partition separating the right and left ventricles of the heart. [TFD][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000386", ontology="VHOG", source="http://bgee.unil.ch/", source="http://medical-dictionary.thefreedictionary.com/interventricular+septum"} property_value: UBPROP:0000003 "The two most progressive vertebrate classes, the birds and mammals, have completed the ventricular septum and at long last have completely separated the two blood streams along the length of the major heart chambers. This development has obviously been brought about independently in the two cases, since mammals and birds have evolved independently from primitive reptiles.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000386", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0721676678 Romer AS, Vertebrate body (1970) p.430"} property_value: UBPROP:0000003 "The two most progressive vertebrate classes, the birds and mammals, have completed the ventricular septum and at long last have completely separated the two blood streams along the length of the major heart chambers. This development has obviously been brought about independently in the two cases, since mammals and birds have evolved independently from primitive reptiles.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000386", ontology="VHOG", source="ISBN:978-0721676678 Romer AS, Vertebrate body (1970) p.430", source="http://bgee.unil.ch/"} property_value: UBPROP:0000011 "involves the recruitment of myocardial cells as well as of non- muscular mesenchymal cells (Kaufman and Bard, 1999)" xsd:string {source="ISBN:0124020607"} [Term] id: UBERON:0002097 name: skin of body namespace: uberon def: "The organ covering the body that consists of the dermis and epidermis." [UBERON:cjm] subset: efo_slim subset: major_organ subset: pheno_slim subset: uberon_slim synonym: "entire integument" RELATED [] synonym: "entire skin" EXACT [] synonym: "integument" RELATED [] synonym: "integumental organ" RELATED [] synonym: "pelt" RELATED [] synonym: "skin" RELATED [] synonym: "skin organ" EXACT [] xref: BTO:0001253 xref: CALOHA:TS-0934 xref: EFO:0000962 xref: EHDAA2:0001844 xref: EMAPA:17525 xref: FMA:7163 xref: galen:Skin xref: http://en.wikipedia.org/wiki/Skin xref: http://linkedlifedata.com/resource/umls/id/C1123023 xref: http://www.snomedbrowser.com/Codes/Details/181469002 xref: MESH:D012867 xref: MFMO:0000099 xref: NCIT:C12470 xref: OpenCyc:Mx4rvVjX3ZwpEbGdrcN5Y29ycA xref: SCTID:181469002 xref: UMLS:C1123023 {source="ncithesaurus:Skin"} xref: Wikipedia:Skin xref: XAO:0000023 is_a: UBERON:0000062 ! organ is_a: UBERON:0004121 ! ectoderm-derived structure relationship: composed_primarily_of UBERON:0000014 ! zone of skin relationship: develops_from UBERON:0011272 {source="Wikipathways:WP2062"} ! embryonic skin basal layer relationship: has_part UBERON:0000014 ! zone of skin relationship: part_of UBERON:0002199 ! integument property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/6/6d/Skin.svg xsd:anyURI property_value: IAO:0000232 "consider 'integumentary system' for invertebrates" xsd:string property_value: UBPROP:0000012 "MA uses the term skin to refer to what is called here: zone of skin" xsd:string {external_ontology="FMA"} [Term] id: UBERON:0002099 name: cardiac septum namespace: uberon def: "The thin membranous structure between the two heart atria or the thick muscular structure between the two heart ventricles." [MESH:A07.541.459] subset: pheno_slim subset: uberon_slim synonym: "cardiac septa" EXACT PLURAL [] synonym: "heart septa" EXACT PLURAL [] synonym: "heart septum" EXACT [] synonym: "septum of heart" EXACT [] synonym: "spiral septa" RELATED PLURAL [XAO:0004141] xref: EMAPA:35400 xref: FMA:7180 xref: GAID:562 xref: http://linkedlifedata.com/resource/umls/id/C0018819 xref: http://www.snomedbrowser.com/Codes/Details/362014000 xref: MA:0000083 xref: MESH:D006346 xref: NCIT:C49485 xref: SCTID:362014000 xref: UMLS:C0018819 {source="ncithesaurus:Heart_Septum"} xref: XAO:0004141 is_a: UBERON:0003037 ! septum is_a: UBERON:0004120 ! mesoderm-derived structure intersection_of: UBERON:0003037 ! septum intersection_of: part_of UBERON:0000948 ! heart relationship: adjacent_to UBERON:0004151 ! cardiac chamber relationship: contributes_to_morphology_of UBERON:0000948 ! heart relationship: part_of UBERON:0000948 ! heart property_value: UBPROP:0000008 "'Terrestrial vertebrates have divided hearts in which septae separate the oxygenated and deoxygenated blood within the pulmonary and systemic circulations'" xsd:string property_value: UBPROP:0000012 "in GO, septum morphogenesis is part of cardiac chamber morphogenesis; need to add axioms to infer this" xsd:string {external_ontology="GO"} [Term] id: UBERON:0002100 name: trunk namespace: uberon def: "Organism subdivision which is the part of the body posterior to the cervical region (or head, when cervical region not present) and anterior to the caudal region. Includes the sacrum when present." [TAO:0001115, UBERONREF:0000006, Wikipedia:Torso] def: "Organism subdivision which is the part of the body posterior to the cervical region (or head, when cervical region not present) and anterior to the caudal region. Includes the sacrum when present." [http://en.wikipedia.org/wiki/Torso, TAO:0001115, UBERONREF:0000006] subset: efo_slim subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "Rumpf" RELATED [BTO:0001493] synonym: "thoracolumbar region" EXACT [] synonym: "torso" EXACT [] synonym: "trunk region" EXACT [XAO:0000054] xref: AAO:0010339 xref: BILA:0000116 xref: BTO:0001493 xref: CALOHA:TS-1071 xref: EFO:0000966 xref: EMAPA:31857 xref: FMA:7181 xref: galen:Trunk xref: http://en.wikipedia.org/wiki/Torso xref: http://linkedlifedata.com/resource/umls/id/C0460005 xref: http://www.snomedbrowser.com/Codes/Details/262225004 xref: MA:0000004 xref: MAT:0000296 xref: MIAA:0000296 xref: NCIT:C33816 xref: OpenCyc:Mx4rvVkJjpwpEbGdrcN5Y29ycA xref: SCTID:262225004 xref: TAO:0001115 xref: UMLS:C0460005 {source="ncithesaurus:Trunk"} xref: Wikipedia:Torso xref: XAO:0000054 xref: XAO:0003025 xref: ZFA:0001115 is_a: UBERON:0011676 ! subdivision of organism along main body axis relationship: has_part UBERON:0000915 {gci_relation="part_of", gci_filler="NCBITaxon:7742"} ! thoracic segment of trunk relationship: has_part UBERON:0000916 {gci_relation="part_of", gci_filler="NCBITaxon:7742"} ! abdomen relationship: part_of UBERON:0013702 ! body proper property_value: RO:0002171 UBERON:0000026 {exceptions="ZFA", source="https://github.com/obophenotype/uberon/issues/378", status="pending"} property_value: RO:0002171 UBERON:0000033 property_value: UBPROP:0000001 "Organism subdivision that is the part of the body posterior to the head and anterior to the tail.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0010339", ontology="AAO", source="AAO:BJB"} property_value: UBPROP:0000001 "Organism subdivision which is the part of the body posterior to the head and anterior to the tail.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0001115", ontology="TAO", source="ZFIN:curator"} [Term] id: UBERON:0002104 name: visual system namespace: uberon alt_id: UBERON:0007036 def: "The sensory system subserving the sense of vision." [NIFSTD:FMAID_7191] subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "photosensory system" EXACT [BILA:0000140] synonym: "visual organ system" EXACT [] xref: AAO:0000632 xref: BILA:0000140 xref: EMAPA:36003 xref: FMA:7191 xref: FMAID:7191 xref: http://linkedlifedata.com/resource/umls/id/C0587900 xref: http://uri.neuinfo.org/nif/nifstd/FMAID_7191 xref: http://www.snomedbrowser.com/Codes/Details/281831001 xref: MA:0002444 xref: NCIT:C12888 xref: OpenCyc:Mx4rvViCtpwpEbGdrcN5Y29ycA xref: SCTID:281831001 xref: TAO:0001127 xref: UMLS:C0587900 {source="ncithesaurus:Visual_System"} xref: Visual:system xref: Wikipedia:Visual_system xref: XAO:0003198 xref: ZFA:0001127 is_a: UBERON:0001032 ! sensory system relationship: capable_of GO:0007601 ! visual perception property_value: RO:0002171 UBERON:0002105 property_value: UBPROP:0000001 "The sensory system used for sight.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0000632", ontology="AAO", source="AAO:EJS"} [Term] id: UBERON:0002105 name: vestibulo-auditory system namespace: uberon def: "Sensory system responsible for the perception of spatial orientation and auditory stimuli." [ZFA:0001138] subset: functional_classification subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "auditory organ system" EXACT [] synonym: "auditory system" RELATED [] synonym: "auditory/vestibular system" RELATED [] synonym: "vestibuloauditory system" EXACT [] synonym: "vestibuloauditory system" RELATED [] xref: AAO:0000631 xref: EMAPA:36002 xref: EMAPA:37985 {source="MA:th"} xref: FMA:78500 xref: TAO:0001138 xref: XAO:0003195 xref: ZFA:0001138 is_a: UBERON:0001032 ! sensory system property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/d/d2/Anatomy_of_the_Human_Ear.svg xsd:anyURI property_value: UBPROP:0000001 "The sensory system used for balance and hearing.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0000631", ontology="AAO", source="AAO:EJS"} [Term] id: UBERON:0002111 name: artery smooth muscle tissue namespace: uberon def: "A portion of smooth muscle tissue that is part of an artery [Automatically generated definition]." [OBOL:automatic] synonym: "arterial smooth muscle" EXACT [BTO:0000087] synonym: "arterial smooth muscle cell" RELATED [BTO:0000087] synonym: "artery smooth muscle" EXACT [] synonym: "artery smooth muscle tissue" EXACT [] synonym: "smooth muscle of artery" EXACT [FMA:72024] xref: BTO:0000087 xref: CALOHA:TS-1198 xref: EMAPA:36285 xref: FMA:72024 xref: http://linkedlifedata.com/resource/umls/id/C1706851 xref: MA:0000708 xref: NCIT:C49195 xref: UMLS:C1706851 {source="ncithesaurus:Artery_Smooth_Muscle_Tissue"} is_a: UBERON:0004237 ! blood vessel smooth muscle is_a: UBERON:0004695 ! arterial system smooth muscle intersection_of: UBERON:0001135 ! smooth muscle tissue intersection_of: part_of UBERON:0001637 ! artery relationship: part_of UBERON:0001637 ! artery [Term] id: UBERON:0002112 name: smooth muscle of esophagus namespace: uberon def: "A portion of smooth muscle tissue that is part of a esophagus [Automatically generated definition]." [OBOL:automatic] subset: pheno_slim synonym: "esophageal smooth muscle" EXACT [] synonym: "esophagus involuntary muscle" EXACT [OBOL:automatic] synonym: "esophagus non-striated muscle" EXACT [OBOL:automatic] synonym: "esophagus smooth muscle" EXACT [] synonym: "esophagus smooth muscle tissue" EXACT [OBOL:automatic] synonym: "gullet involuntary muscle" EXACT [OBOL:automatic] synonym: "gullet non-striated muscle" EXACT [OBOL:automatic] synonym: "gullet smooth muscle" EXACT [OBOL:automatic] synonym: "gullet smooth muscle tissue" EXACT [OBOL:automatic] synonym: "involuntary muscle of esophagus" EXACT [OBOL:automatic] synonym: "involuntary muscle of gullet" EXACT [OBOL:automatic] synonym: "involuntary muscle of oesophagus" EXACT [OBOL:automatic] synonym: "non-striated muscle of esophagus" EXACT [OBOL:automatic] synonym: "non-striated muscle of gullet" EXACT [OBOL:automatic] synonym: "non-striated muscle of oesophagus" EXACT [OBOL:automatic] synonym: "oesophagus involuntary muscle" EXACT [OBOL:automatic] synonym: "oesophagus non-striated muscle" EXACT [OBOL:automatic] synonym: "oesophagus smooth muscle" RELATED [] synonym: "oesophagus smooth muscle tissue" EXACT [OBOL:automatic] synonym: "smooth muscle of gullet" EXACT [OBOL:automatic] synonym: "smooth muscle of oesophagus" EXACT [OBOL:automatic] synonym: "smooth muscle tissue of esophagus" EXACT [OBOL:automatic] synonym: "smooth muscle tissue of gullet" EXACT [OBOL:automatic] synonym: "smooth muscle tissue of oesophagus" EXACT [OBOL:automatic] xref: EMAPA:35323 xref: FMA:72025 xref: MA:0001573 is_a: UBERON:0001135 ! smooth muscle tissue intersection_of: UBERON:0001135 ! smooth muscle tissue intersection_of: part_of UBERON:0001043 ! esophagus relationship: contributes_to_morphology_of UBERON:0001043 ! esophagus relationship: part_of UBERON:0003832 ! esophagus muscle [Term] id: UBERON:0002118 name: right ovary namespace: uberon def: "An ovary that is part of a right side of organism [Automatically generated definition]." [OBOL:automatic] xref: EMAPA:37367 {source="MA:th"} xref: FMA:7213 xref: http://linkedlifedata.com/resource/umls/id/C0227873 xref: http://www.snomedbrowser.com/Codes/Details/280123002 xref: MA:0001705 xref: NCIT:C33487 xref: SCTID:280123002 xref: UMLS:C0227873 {source="ncithesaurus:Right_Ovary"} is_a: UBERON:0000992 ! ovary is_a: UBERON:0015212 ! lateral structure intersection_of: UBERON:0000992 ! ovary intersection_of: in_right_side_of UBERON:0000468 ! multicellular organism relationship: in_right_side_of UBERON:0000468 ! multicellular organism property_value: UBPROP:0000006 https://github.com/obophenotype/uberon/wiki/Modeling-paired-structures-Design-Pattern xsd:anyURI [Term] id: UBERON:0002119 name: left ovary namespace: uberon def: "An ovary that is part of a left side of organism [Automatically generated definition]." [OBOL:automatic] xref: EMAPA:37366 {source="MA:th"} xref: FMA:7214 xref: http://linkedlifedata.com/resource/umls/id/C0227874 xref: http://www.snomedbrowser.com/Codes/Details/280124008 xref: MA:0001704 xref: NCIT:C32969 xref: SCTID:280124008 xref: UMLS:C0227874 {source="ncithesaurus:Left_Ovary"} is_a: UBERON:0000992 ! ovary is_a: UBERON:0015212 ! lateral structure intersection_of: UBERON:0000992 ! ovary intersection_of: in_left_side_of UBERON:0000468 ! multicellular organism relationship: in_left_side_of UBERON:0000468 ! multicellular organism property_value: UBPROP:0000006 https://github.com/obophenotype/uberon/wiki/Modeling-paired-structures-Design-Pattern xsd:anyURI property_value: UBPROP:0000008 "In some elasmobranchs, the left ovary does not mature, with only the right ovary fully developing. In the primitive jawless fish, and some teleosts, there is only one ovary, formed by the fusion of the paired organs in the embryo" xsd:string {source="Wikipedia:Ovary#In_other_animals"} property_value: UBPROP:0000008 "In some elasmobranchs, the left ovary does not mature, with only the right ovary fully developing. In the primitive jawless fish, and some teleosts, there is only one ovary, formed by the fusion of the paired organs in the embryo" xsd:string {source="In_other_animals"} [Term] id: UBERON:0002128 name: superior olivary complex namespace: uberon def: "A collection of brainstem nuclei that functions in multiple aspects of hearing and is an important component of the ascending and descending auditory pathways of the auditory system." [ISBN:0-19-502694-2, Wikipedia:Superior_olivary_complex] subset: uberon_slim synonym: "nucleus olivaris superior" EXACT LATIN [FMA:72247, FMA:TA] synonym: "regio olivaris superioris" RELATED LATIN [NeuroNames:569] synonym: "superior olivary nuclei" EXACT [FMA:72247] synonym: "superior olivary nucleus" RELATED INCONSISTENT [FMA:72247] synonym: "superior olivary nucleus (Barr & Kiernan)" RELATED [NeuroNames:569] synonym: "superior olive" RELATED INCONSISTENT [FMA:72247, ISBN:0-19-502694-2] xref: BAMS:SOC xref: BIRNLEX:1307 xref: DHBA:12462 xref: EMAPA:35840 xref: EV:0100263 xref: FMA:72247 xref: HBA:9177 xref: http://braininfo.rprc.washington.edu/centraldirectory.aspx?ID=569 {source="BIRNLEX:1307"} xref: MA:0001026 xref: MBA:398 xref: UMLS:C0175427 {source="BIRNLEX:1307"} xref: VHOG:0001381 xref: Wikipedia:Superior_olivary_complex is_a: UBERON:0007245 ! nuclear complex of neuraxis is_a: UBERON:0019263 ! gray matter of hindbrain relationship: part_of UBERON:0003023 {source="NIFSTD"} ! pontine tegmentum relationship: part_of UBERON:0016490 ! auditory system property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/4/46/Gray713.png xsd:anyURI property_value: RO:0002171 UBERON:0002597 {source="ABA"} property_value: RO:0002171 UBERON:0006840 {source="ABA"} property_value: RO:0002171 UBERON:0007634 {source="ABA"} property_value: UBPROP:0000008 "In mice, the superior olivary nucleus is a small cylindrical mass on the dorsal surface of the lateral part of the trapezoid body of the pons, and it is situated immediately above the inferior olivary nucleus. It receives projections from the cochlear nucleus and thus is involved in the perception of sound[GO:0021718]" xsd:string property_value: UBPROP:0000008 "The SOC displays a significant interspecies variation, being largest in bats and rodents and smaller in primates." xsd:string [Term] id: UBERON:0002148 name: locus ceruleus namespace: uberon def: "The locus ceruleus is a dense cluster of neurons within the dorsorostral pons. This nucleus is the major location of neurons that release norepinephrine throughout the brain, and is responsible for physiological responses to stress and panic[GO]. Bluish region in the superior angle of the fourth ventricle floor, corresponding to melanin-like pigmented nerve cells which lie lateral to the ponto-mesencephalic central gray (griseum centrale). It is also known as nucleus pigmentosus pontis[GAID]." [GAID:577, GO:0021703, Wikipedia:Locus_ceruleus] subset: efo_slim subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "blue nucleus" EXACT [BIRNLEX:905] synonym: "caerulean nucleus" EXACT [] synonym: "loci coeruleus" RELATED PLURAL [ZFA:0000539] synonym: "locus caeruleus" EXACT [BIRNLEX:905] synonym: "locus cinereus" RELATED [BTO:0001408] synonym: "locus coeruleu" EXACT [] synonym: "locus coeruleus" EXACT [] synonym: "locus coeruleus (Vicq d'Azyr)" RELATED [NeuroNames:583] synonym: "nucleus caeruleus" EXACT LATIN [FMA:72478, FMA:TA] synonym: "nucleus loci caerulei" RELATED LATIN [NeuroNames:583] synonym: "nucleus of locus caeruleus" EXACT [] synonym: "nucleus pigmentosus pontis" EXACT [BIRNLEX:905] synonym: "substantia ferruginea" EXACT [BIRNLEX:905] xref: BAMS:CAE xref: BAMS:LC xref: BIRNLEX:905 xref: BM:Pons-LC xref: BTO:0001408 xref: DHBA:12819 xref: DMBA:16972 xref: EFO:0001963 xref: EMAPA:35502 xref: FMA:72478 xref: GAID:577 xref: HBA:9148 xref: http://braininfo.rprc.washington.edu/centraldirectory.aspx?ID=583 {source="BIRNLEX:905"} xref: MA:0001017 xref: MBA:147 xref: MESH:D008125 xref: NCIT:C97333 xref: SCTID:369016004 xref: TAO:0000539 xref: UMLS:C0023951 {source="BIRNLEX:905"} xref: UMLS:C0023951 {source="ncithesaurus:Locus_Coeruleus"} xref: Wikipedia:Locus_ceruleus xref: ZFA:0000539 is_a: UBERON:0006331 ! brainstem nucleus is_a: UBERON:0009662 ! hindbrain nucleus relationship: capable_of GO:0048243 ! norepinephrine secretion relationship: part_of UBERON:0003023 {notes="check ZFA", source="NIFSTD"} ! pontine tegmentum property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/7/77/Gray709.png xsd:anyURI property_value: editor_note "TODO - check ZFA/pons. also GO says part of dorsorostral pons" xsd:string property_value: RO:0002171 UBERON:0002047 {source="ABA"} property_value: RO:0002171 UBERON:0002267 {source="ABA"} property_value: RO:0002171 UBERON:0002587 {source="ABA"} property_value: RO:0002171 UBERON:0003004 {source="ABA"} [Term] id: UBERON:0002149 name: superior salivatory nucleus namespace: uberon def: "Nucleus containing parasympathetic neurons giving rise to the parasympathetic division of the facial nerve, innervating the salivary glands (Brodal, Neurological Anatomy, 3rd ed., 1981, pg 703)." [BIRNLEX:1131] subset: uberon_slim synonym: "nucleus salivarius superior" RELATED LATIN [NeuroNames:590] synonym: "nucleus salivatorius cranialis" RELATED LATIN [NeuroNames:590] synonym: "nucleus salivatorius rostralis" RELATED LATIN [NeuroNames:590] synonym: "nucleus salivatorius superior" RELATED LATIN [NeuroNames:590] synonym: "superior salivary nucleus" EXACT [GO:0021753] xref: BAMS:SSN xref: BAMS:SuS xref: BIRNLEX:1131 xref: DHBA:12435 xref: EHDAA2:0004646 xref: EMAPA:37756 {source="MA:th"} xref: FMA:72482 xref: HBA:9194 xref: http://braininfo.rprc.washington.edu/centraldirectory.aspx?ID=590 {source="BIRNLEX:1131"} xref: MA:0001027 xref: MBA:462 xref: SCTID:369028007 xref: UMLS:C0175447 {source="BIRNLEX:1131"} xref: Wikipedia:Superior_salivatory_nucleus is_a: UBERON:0000126 ! cranial nerve nucleus is_a: UBERON:0004133 ! salivatory nucleus is_a: UBERON:0007635 ! nucleus of medulla oblongata relationship: immediate_transformation_of UBERON:0010125 {evidence="definitional"} ! future superior salivatory nucleus relationship: part_of UBERON:0003023 ! pontine tegmentum property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/6/6b/Gray788.png xsd:anyURI property_value: RO:0002171 UBERON:0002143 {source="ABA"} property_value: RO:0002171 UBERON:0002147 {source="ABA"} property_value: RO:0002171 UBERON:0002151 {source="ABA"} property_value: RO:0002171 UBERON:0002633 {source="ABA"} property_value: RO:0002171 UBERON:0002682 {source="ABA"} property_value: RO:0002171 UBERON:0002963 {source="ABA"} property_value: RO:0002171 UBERON:0002968 {source="ABA"} property_value: RO:0002171 UBERON:0003011 {source="ABA"} property_value: RO:0002171 UBERON:0007632 {source="ABA"} [Term] id: UBERON:0002165 name: endocardium namespace: uberon alt_id: UBERON:0006225 def: "The endocardium is an anatomical structure comprised of an endothelium and an extracellular matrix that forms the innermost layer of tissue of the heart, and lines the heart chambers[GO]." [GO:0003157] comment: fixed in GO to reflect FMA. See email to David/Varsha June 18 2010 subset: efo_slim subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "endocardial lining" EXACT [EMAPA:32686] synonym: "endocardial tissue" EXACT [EMAPA:17868] synonym: "heart endocardial tissue" RELATED [VHOG:0000084] synonym: "heart endocardium" EXACT [] xref: AAO:0010408 xref: BTO:0000387 xref: CALOHA:TS-2075 xref: EFO:0000821 xref: EHDAA2:0004153 xref: EMAPA:17868 xref: EMAPA:32686 xref: EV:0100021 xref: FMA:7280 xref: GAID:550 xref: galen:Endocardium xref: http://en.wikipedia.org/wiki/Endocardium xref: http://linkedlifedata.com/resource/umls/id/C0014124 xref: http://www.snomedbrowser.com/Codes/Details/362013006 xref: MA:0000076 xref: MAT:0000455 xref: MESH:D004699 xref: NCIT:C13004 xref: OpenCyc:Mx4rsWA75K1cEduAAADggVaqvw xref: SCTID:362013006 xref: TAO:0001320 xref: UMLS:C0014124 {source="ncithesaurus:Endocardium"} xref: VHOG:0000084 xref: Wikipedia:Endocardium xref: XAO:0000066 xref: ZFA:0001320 is_a: UBERON:0002523 ! tunica intima is_a: UBERON:0005983 ! heart layer relationship: develops_from UBERON:0007280 ! presumptive endocardium relationship: has_part UBERON:0005316 ! endocardial endothelium relationship: immediate_transformation_of UBERON:0007280 {source="Bgee:AN"} ! presumptive endocardium property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/6/6c/Gray493.png xsd:anyURI property_value: UBPROP:0000001 "Layer that lines the lumen of the heart.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0001320", ontology="TAO", source="ZFIN:curator"} property_value: UBPROP:0000001 "Part of the heart comprised of thin serous membrane, composed of endothelial tissue, that lines the interior of the heart.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0010408", ontology="AAO", source="AAO:BJB"} property_value: UBPROP:0000001 "Tunica intima which has as its parts the endothelium of endocardium and the fibroelastic connective tissue that surrounds the cavity of a cardiac chamber." xsd:string {source="FMA:7280"} [Term] id: UBERON:0002166 name: endocardium of atrium namespace: uberon def: "Endocardium that is part of the atrium." [ZFIN:curator] subset: pheno_slim subset: vertebrate_core synonym: "atrial endocardium" EXACT [] synonym: "atrium endocardial tissue" RELATED [VHOG:0000606] synonym: "atrium endocardium" EXACT [] synonym: "atrium of heart endocardium" EXACT [OBOL:automatic] synonym: "Cardiac atria endocardium" EXACT [OBOL:automatic] synonym: "cardiac atrium endocardium" EXACT [OBOL:automatic] synonym: "endocardium of atrium of heart" EXACT [OBOL:automatic] synonym: "endocardium of Cardiac atria" EXACT [OBOL:automatic] synonym: "endocardium of cardiac atrium" EXACT [OBOL:automatic] synonym: "endocardium of heart atrium" EXACT [OBOL:automatic] synonym: "heart atrium endocardium" EXACT [OBOL:automatic] xref: EMAPA:32745 xref: FMA:7284 xref: http://www.snomedbrowser.com/Codes/Details/192001005 xref: MA:0000077 xref: SCTID:192001005 xref: TAO:0002169 xref: VHOG:0000606 xref: ZFA:0001614 is_a: UBERON:0002165 ! endocardium intersection_of: UBERON:0002165 ! endocardium intersection_of: part_of UBERON:0002081 ! cardiac atrium relationship: contributes_to_morphology_of UBERON:0002081 ! cardiac atrium relationship: part_of UBERON:0002081 ! cardiac atrium [Term] id: UBERON:0002167 name: right lung namespace: uberon def: "Lung which consists of the right upper lobe, middle lobe and right lower lobe.[FMA]." [FMA:FMA, Wikipedia:Right_lung] def: "Lung which consists of the right upper lobe, middle lobe and right lower lobe.[FMA]." [FMA:FMA, http://en.wikipedia.org/wiki/Right_lung] subset: pheno_slim subset: uberon_slim xref: EHDAA2:0001730 xref: EHDAA:4969 xref: EMAPA:17661 xref: FMA:7309 xref: http://linkedlifedata.com/resource/umls/id/C0225706 xref: http://www.snomedbrowser.com/Codes/Details/361967000 xref: MA:0000426 xref: NCIT:C33483 xref: OpenCyc:Mx8Ngh4rvgHsHZwpEbGdrcN5Y29ycB4rvVjKy5wpEbGdrcN5Y29ycA xref: Right:lung xref: SCTID:361967000 xref: UMLS:C0225706 {source="ncithesaurus:Right_Lung"} xref: VHOG:0000301 xref: Wikipedia:Right_lung is_a: UBERON:0002048 ! lung intersection_of: UBERON:0002048 ! lung intersection_of: in_right_side_of UBERON:0000170 ! pair of lungs relationship: in_right_side_of UBERON:0000170 ! pair of lungs property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/3/32/Gray972.png xsd:anyURI property_value: UBPROP:0000003 "Lungs had already developed as paired ventral pockets from the intestine in the ancestor of Osteognathostomata.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000301", ontology="VHOG", source="ISBN:978-0198566694 Schmidt-Rhaesa A, The evolution of organ systems (2007) p.210", source="http://bgee.unil.ch/"} property_value: UBPROP:0000003 "Lungs had already developed as paired ventral pockets from the intestine in the ancestor of Osteognathostomata.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000301", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0198566694 Schmidt-Rhaesa A, The evolution of organ systems (2007) p.210"} property_value: UBPROP:0000006 https://github.com/obophenotype/uberon/wiki/Modeling-paired-structures-Design-Pattern xsd:anyURI [Term] id: UBERON:0002168 name: left lung namespace: uberon def: "Lung which consists of the left upper lobe and left lower lobe.[FMA]." [FMA:FMA, Wikipedia:Left_lung] def: "Lung which consists of the left upper lobe and left lower lobe.[FMA]." [FMA:FMA, http://en.wikipedia.org/wiki/Left_lung] subset: pheno_slim subset: uberon_slim xref: EHDAA2:0000943 xref: EHDAA:4947 xref: EMAPA:17653 xref: FMA:7310 xref: http://linkedlifedata.com/resource/umls/id/C0225730 xref: http://www.snomedbrowser.com/Codes/Details/361982005 xref: Left:lung xref: MA:0000425 xref: NCIT:C32967 xref: OpenCyc:Mx8Ngh4rvgIFoJwpEbGdrcN5Y29ycB4rvVjKy5wpEbGdrcN5Y29ycA xref: SCTID:361982005 xref: UMLS:C0225730 {source="ncithesaurus:Left_Lung"} xref: VHOG:0000618 xref: Wikipedia:Left_lung is_a: UBERON:0002048 ! lung intersection_of: UBERON:0002048 ! lung intersection_of: in_left_side_of UBERON:0000170 ! pair of lungs relationship: in_left_side_of UBERON:0000170 ! pair of lungs property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/d/dd/Gray973.png xsd:anyURI property_value: UBPROP:0000003 "Lungs had already developed as paired ventral pockets from the intestine in the ancestor of Osteognathostomata.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000618", ontology="VHOG", source="ISBN:978-0198566694 Schmidt-Rhaesa A, The evolution of organ systems (2007) p.210", source="http://bgee.unil.ch/"} property_value: UBPROP:0000003 "Lungs had already developed as paired ventral pockets from the intestine in the ancestor of Osteognathostomata.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000618", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0198566694 Schmidt-Rhaesa A, The evolution of organ systems (2007) p.210"} property_value: UBPROP:0000006 https://github.com/obophenotype/uberon/wiki/Modeling-paired-structures-Design-Pattern xsd:anyURI [Term] id: UBERON:0002190 name: subcutaneous adipose tissue namespace: uberon alt_id: UBERON:0008875 def: "A portion of adipose tissue that is part of the hypodermis, beneath the dermis." [http://orcid.org/0000-0002-6601-2165] subset: pheno_slim synonym: "fatty layer of subcutaneous tissue" EXACT [FMA:74315] synonym: "fatty layer of superficial fascia" RELATED [FMA:74315] synonym: "hypodermis fat layer" EXACT [MP:0011156] synonym: "panniculus adiposus" BROAD [MP:0011156] synonym: "panniculus adiposus (tela subcutanea)" EXACT LATIN [FMA:74315, FMA:TA] synonym: "panniculus adiposus telae subcutaneae" EXACT LATIN [FMA:74315, FMA:TA] synonym: "subcutaneous fat" RELATED [BTO:0004042] synonym: "subcutaneous fat layer" EXACT [MP:0011156] xref: BTO:0004042 xref: EMAPA:35829 xref: FMA:74315 xref: MA:0000473 is_a: UBERON:0001013 ! adipose tissue is_a: UBERON:0004120 ! mesoderm-derived structure intersection_of: UBERON:0001013 ! adipose tissue intersection_of: part_of UBERON:0002072 ! hypodermis relationship: contributes_to_morphology_of UBERON:0002072 ! hypodermis relationship: part_of UBERON:0002072 ! hypodermis property_value: UBPROP:0000001 "the superficial portion of the subcutaneous tissue which is specialized for fat storage[MP:0011156]" xsd:string {source="MP:0011156"} [Term] id: UBERON:0002193 name: hemolymphoid system namespace: uberon def: "Anatomical cluster consisting of the hematopoietic system and the lymphoid system, or its analogs." [http://orcid.org/0000-0002-6601-2165] synonym: "haemolymphoid system" RELATED [] synonym: "hematolymphoid system" EXACT [] synonym: "lymphomyeloid complex" EXACT [] xref: CALOHA:TS-2018 xref: EHDAA2:0004615 xref: EMAPA:18765 xref: FMA:74562 xref: MA:0000013 is_a: UBERON:0000467 {source="MA"} ! anatomical system relationship: only_in_taxon NCBITaxon:33213 ! Bilateria [Term] id: UBERON:0002199 name: integument namespace: uberon def: "The dermis, epidermis and hypodermis." [http://en.wikipedia.org/wiki/Integument] def: "The dermis, epidermis and hypodermis." [Wikipedia:Integument] subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "dermal system" RELATED [BTO:0000634] synonym: "dermis plus epidermis plus hypodermis" EXACT [] synonym: "dermoid system" RELATED [BTO:0000634] synonym: "Hautsystem@de" RELATED [BTO:0000634] synonym: "integumentum commune" EXACT LATIN [FMA:74657, FMA:TA] synonym: "skin" RELATED [] synonym: "skin and subcutaneous tissue" EXACT [] synonym: "skin plus hypodermis" EXACT [] synonym: "tegument" RELATED [BTO:0000634] synonym: "the integument" EXACT [FMA:74657] synonym: "vertebrate integument" RELATED [] xref: AAO:0000239 xref: BTO:0000634 xref: EMAPA:37504 {source="MA:th"} xref: FMA:74657 xref: galen:Integument xref: http://en.wikipedia.org/wiki/Integument xref: TAO:0000368 xref: VSAO:0000029 xref: Wikipedia:Integument xref: ZFA:0000368 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0011216 {source="FMA"} ! organ system subdivision relationship: bounding_layer_of UBERON:0000468 ! multicellular organism relationship: has_part UBERON:0002072 ! hypodermis relationship: has_part UBERON:0002097 ! skin of body relationship: only_in_taxon NCBITaxon:7711 ! Chordata relationship: part_of UBERON:0002416 {source="FMA"} ! integumental system property_value: IAO:0000232 "in FMA intergument = skin+superficial fascia(hypodermis), skin=dermis+epidermis+hair_nail. Note that the definition provided here excludes the more general sense of the term 'integument' used in invertebrates; consider 'integumental system'. Note that the VSAO class appears to include adnexa by its definition." xsd:string property_value: UBPROP:0000001 "Anatomical system that protects the body from damage, comprising the skin and its appendages.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0000239", ontology="AAO", source="AAO:EJS"} property_value: UBPROP:0000001 "Surface structure that is the outer protective covering of the body.[VSAO]" xsd:string {date_retrieved="2012-08-14", external_class="VSAO:0000029", ontology="VSAO", source="PSPUB:0000170"} property_value: UBPROP:0000001 "The outer protective barrier that separates the animal from its aquatic environment. Le Guellec et al, 2004.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0000368", ontology="TAO", source="ZFIN:curator"} property_value: UBPROP:0000007 "integumental" xsd:string property_value: UBPROP:0000007 "integumentary" xsd:string [Term] id: UBERON:0002200 name: vasculature of head namespace: uberon def: "Vasculature that is part of a head [Automatically generated definition]." [OBOL:automatic] subset: efo_slim subset: vertebrate_core synonym: "adult head vascular network" EXACT [OBOL:automatic] synonym: "adult head vasculature" EXACT [OBOL:automatic] synonym: "cranial vasculature" EXACT [] synonym: "head vascular network" EXACT [OBOL:automatic] synonym: "head vasculature" RELATED [] synonym: "vascular network of adult head" EXACT [OBOL:automatic] synonym: "vascular network of head" EXACT [OBOL:automatic] synonym: "vasculature of adult head" EXACT [OBOL:automatic] xref: EFO:0003656 xref: FMA:74710 xref: TAO:0001267 xref: XAO:0004152 xref: ZFA:0001267 is_a: UBERON:0002049 ! vasculature intersection_of: UBERON:0002049 ! vasculature intersection_of: part_of UBERON:0000033 ! head relationship: part_of UBERON:0000033 ! head [Term] id: UBERON:0002201 name: vasculature of trunk namespace: uberon def: "A vasculature that is part of a trunk [Automatically generated definition]." [OBOL:automatic] subset: vertebrate_core synonym: "torso vascular network" EXACT [OBOL:automatic] synonym: "torso vasculature" EXACT [OBOL:automatic] synonym: "trunk vascular network" EXACT [OBOL:automatic] synonym: "trunk vasculature" EXACT [] synonym: "vascular network of torso" EXACT [OBOL:automatic] synonym: "vascular network of trunk" EXACT [OBOL:automatic] synonym: "vasculature of torso" EXACT [OBOL:automatic] xref: FMA:74712 xref: TAO:0005024 xref: ZFA:0005024 is_a: UBERON:0002049 ! vasculature intersection_of: UBERON:0002049 ! vasculature intersection_of: part_of UBERON:0002100 ! trunk relationship: part_of UBERON:0002100 ! trunk [Term] id: UBERON:0002203 name: vasculature of eye namespace: uberon def: "Vasculature that is part of the eye region." [https://sourceforge.net/tracker/?func=detail&aid=3489658&group_id=76834&atid=994726, OBOL:automatic] subset: pheno_slim subset: vertebrate_core synonym: "eye vascular network" EXACT [OBOL:automatic] synonym: "eye vasculature" RELATED [] synonym: "ocular blood vessel" EXACT [ZFA:0007057] synonym: "ocular vasculature" EXACT [] synonym: "optic vasculature" RELATED [] synonym: "vascular network of eye" EXACT [OBOL:automatic] xref: FMA:74743 xref: http://www.snomedbrowser.com/Codes/Details/123846009 xref: SCTID:123846009 xref: TAO:0007057 xref: ZFA:0007057 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0002200 ! vasculature of head is_a: UBERON:0006876 ! vasculature of organ intersection_of: UBERON:0002049 ! vasculature intersection_of: part_of UBERON:0000019 ! camera-type eye relationship: develops_from UBERON:0003314 {source="ISBN:0781772214"} ! eye mesenchyme relationship: part_of UBERON:0000019 ! camera-type eye property_value: UBPROP:0000012 "not part of the eye in ZFA. Note this changed to a blood vessel in ZFA" xsd:string {external_ontology="ZFA"} [Term] id: UBERON:0002204 name: musculoskeletal system namespace: uberon def: "Anatomical system that consists of the muscular and skeletal systems." [https://github.com/obophenotype/uberon/issues/77, VSAO:0000031, VSAO:curator] subset: uberon_slim synonym: "musculo-skeletal system" EXACT [] xref: AAO:0010546 xref: CALOHA:TS-1311 xref: EMAPA:32714 xref: EV:0100139 xref: FMA:7482 xref: GAID:98 xref: http://linkedlifedata.com/resource/umls/id/C0026860 xref: http://www.snomedbrowser.com/Codes/Details/278858007 xref: MA:0002418 xref: MESH:D009141 xref: Musculoskeletal:system xref: NCIT:C12754 xref: OpenCyc:Mx4rQRpVNgAKEdyHxgDggVfs8g xref: SCTID:278858007 xref: UMLS:C0026860 {source="ncithesaurus:Musculoskeletal_System"} xref: VHOG:0001275 xref: VSAO:0000031 xref: Wikipedia:Musculoskeletal_system xref: XAO:0000168 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000467 ! anatomical system disjoint_from: UBERON:0002330 ! exocrine system disjoint_from: UBERON:0002390 ! hematopoietic system disjoint_from: UBERON:0002405 ! immune system disjoint_from: UBERON:0002416 ! integumental system disjoint_from: UBERON:0004456 ! entire sense organ system relationship: capable_of_part_of GO:0040011 ! locomotion relationship: existence_ends_during UBERON:0000066 ! fully formed stage relationship: has_developmental_contribution_from UBERON:0000926 {notes="check ctenophore"} ! mesoderm relationship: has_part UBERON:0000383 ! musculature of body relationship: has_part UBERON:0001434 ! skeletal system property_value: http://purl.org/dc/elements/1.1/contributor https://github.com/cmungall property_value: UBPROP:0000001 "Anatomical system that provides locomotion and physical support to the organism.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0010546", ontology="AAO", source="AAO:EJS"} property_value: UBPROP:0000003 "There are more than 50,000 extant vertebrate species, representing over 500 million years of evolution. During that time, the vertebrate musculoskeletal systems have adapted to aquatic, terrestrial, fossorial, and arboreal lifestyles, while simultaneously retaining functionally integrated axial and appendicular skeletal systems.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001275", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1002/jez.b.21246 Shearman RM, Burke AC, The lateral somitic frontier in ontogeny and phylogeny. Journal of Experimental Zoology (2009)"} property_value: UBPROP:0000003 "There are more than 50,000 extant vertebrate species, representing over 500 million years of evolution. During that time, the vertebrate musculoskeletal systems have adapted to aquatic, terrestrial, fossorial, and arboreal lifestyles, while simultaneously retaining functionally integrated axial and appendicular skeletal systems.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001275", ontology="VHOG", source="DOI:10.1002/jez.b.21246 Shearman RM, Burke AC, The lateral somitic frontier in ontogeny and phylogeny. Journal of Experimental Zoology (2009)", source="http://bgee.unil.ch/"} property_value: UBPROP:0000007 "musculoskeletal" xsd:string [Term] id: UBERON:0002213 name: cartilaginous joint namespace: uberon def: "Nonsynovial joint in which the articulating bones or cartilages are connected by cartilage. Examples: Spheno-occipital synchondrosis, first sternocostal joint, pubic symphysis.[FMA]." [FMA:FMA, Wikipedia:Cartilaginous_joint] def: "Nonsynovial joint in which the articulating bones or cartilages are connected by cartilage. Examples: Spheno-occipital synchondrosis, first sternocostal joint, pubic symphysis.[FMA]." [FMA:FMA, http://en.wikipedia.org/wiki/Cartilaginous_joint] subset: uberon_slim subset: vertebrate_core synonym: "articulatio cartilaginea" EXACT [] synonym: "junctura cartilaginea" RELATED LATIN [http://en.wikipedia.org/wiki/Cartilaginous_joint] synonym: "junctura cartilaginea" RELATED LATIN [Wikipedia:Cartilaginous_joint] xref: Cartilaginous:joint xref: EMAPA:36581 xref: FMA:7496 xref: http://www.snomedbrowser.com/Codes/Details/58442004 xref: MA:0000320 xref: SCTID:58442004 xref: TAO:0005155 xref: Wikipedia:Cartilaginous_joint xref: ZFA:0005155 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0011134 {source="FMA"} ! nonsynovial joint intersection_of: UBERON:0011134 ! nonsynovial joint intersection_of: composed_primarily_of UBERON:0002418 ! cartilage tissue relationship: composed_primarily_of UBERON:0002418 ! cartilage tissue [Term] id: UBERON:0002217 name: synovial joint namespace: uberon def: "Joint in which the articulating bones or cartilages are connected by an articular capsule which encloses a synovial membrane and a synovial cavity. Examples: Temporomandibular joint, knee joint.[FMA]" [FMA:7501, http://en.wikipedia.org/wiki/Synovial_joint] def: "Joint in which the articulating bones or cartilages are connected by an articular capsule which encloses a synovial membrane and a synovial cavity. Examples: Temporomandibular joint, knee joint.[FMA]." [FMA:7501, http://en.wikipedia.org/wiki/Synovial_joint] def: "Joint in which the articulating bones or cartilages are connected by an articular capsule which encloses a synovial membrane and a synovial cavity. Examples: Temporomandibular joint, knee joint.[FMA]." [FMA:7501, Wikipedia:Synovial_joint] subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "articulatio synoviale" EXACT [] synonym: "diarthrodial joints" RELATED PLURAL [ZFA:0005153] synonym: "diarthroses" EXACT PLURAL [ZFA:0005153] synonym: "diarthrosis" EXACT [] synonym: "diarthrosis joint" EXACT [] xref: AEO:0000183 xref: CALOHA:TS-2138 xref: EHDAA2:0003183 xref: FMA:7501 xref: galen:SynovialJoint xref: http://www.snomedbrowser.com/Codes/Details/113234001 xref: MA:0000322 xref: NCIT:C32461 xref: OpenCyc:Mx4rv2bBV5wpEbGdrcN5Y29ycA xref: SCTID:113234001 xref: Synovial:joint xref: TAO:0005153 xref: Wikipedia:Synovial_joint xref: ZFA:0005153 is_a: UBERON:0000982 ! skeletal joint intersection_of: UBERON:0000982 ! skeletal joint intersection_of: surrounded_by UBERON:0001484 ! articular capsule disjoint_from: UBERON:0011134 ! nonsynovial joint relationship: only_in_taxon NCBITaxon:7742 ! Vertebrata relationship: surrounded_by UBERON:0001484 ! articular capsule property_value: UBPROP:0000001 "Is a joint that is located at the point of contact of articulating bones allowing movement. The joint has a capsule containing synovial fluid surrounding the articulating bone surfaces.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0005153", ontology="TAO", source="ZFIN:Curator"} [Term] id: UBERON:0002224 name: thoracic cavity namespace: uberon def: "The part of the coelemic cavity lumen that is enclosed by the walls of the thorax." [http://en.wikipedia.org/wiki/Thoracic_cavity, UBERON:cjm] def: "The part of the coelemic cavity lumen that is enclosed by the walls of the thorax." [UBERON:cjm, Wikipedia:Thoracic_cavity] subset: pheno_slim subset: uberon_slim synonym: "cavitas thoracis" EXACT LATIN [Wikipedia:Thoracic_cavity] synonym: "cavitas thoracis" EXACT LATIN [http://en.wikipedia.org/wiki/Thoracic_cavity] synonym: "cavity of chest" EXACT [] synonym: "cavity of thorax" EXACT [] synonym: "chest cavity" EXACT [] synonym: "pectoral cavity" EXACT [] synonym: "space of thoracic compartment" EXACT [FMA:7565] synonym: "thoracic lumen" EXACT [] xref: EMAPA:36497 xref: FMA:7565 xref: GAID:93 xref: http://linkedlifedata.com/resource/umls/id/C0230139 xref: http://www.snomedbrowser.com/Codes/Details/243949006 xref: MA:0000032 xref: MESH:A01.911.800 xref: NCIT:C12905 xref: OpenCyc:Mx4rmvyleLfEEduAAAACs6hRXg xref: OpenCyc:Mx4rvhU_TpwpEbGdrcN5Y29ycA xref: SCTID:243949006 xref: Thoracic:cavity xref: UMLS:C0230139 {source="ncithesaurus:Thoracic_Cavity"} xref: Wikipedia:Thoracic_cavity is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000464 ! anatomical space intersection_of: UBERON:0000464 ! anatomical space intersection_of: luminal_space_of UBERON:0000915 ! thoracic segment of trunk intersection_of: part_of UBERON:0002323 ! coelemic cavity lumen relationship: luminal_space_of UBERON:0000915 ! thoracic segment of trunk relationship: part_of UBERON:0000915 ! thoracic segment of trunk relationship: part_of UBERON:0002323 ! coelemic cavity lumen property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/c/ce/Gray846.png xsd:anyURI property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/e/ee/Scheme_body_cavities-en.svg xsd:anyURI property_value: UBPROP:0000008 "In many species, the diaphragm separates thoracic and abdominal cavities" xsd:string [Term] id: UBERON:0002240 name: spinal cord namespace: uberon def: "Part of the central nervous system located in the vertebral canal continuous with and caudal to the brain; demarcated from brain by plane of foramen magnum. It is composed of an inner core of gray matter in which nerve cells predominate, and an outer layer of white matter in which myelinated nerve fibers predominate, and surrounds the central canal. (CUMBO)" [BIRNLEX:1709] def: "Part of the central nervous system located in the vertebral canal continuous with and caudal to the brain; demarcated from brain by plane of foramen magnum. It is composed of an inner core of gray matter in which nerve cells predominate, and an outer layer of white matter in which myelinated nerve fibers predominate, and surrounds the central canal. (CUMBO)." [BIRNLEX:1709] subset: cumbo subset: efo_slim subset: major_organ subset: organ_slim subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "cerebro-cerebellar fissure" RELATED [NeuroNames:22] synonym: "cerebrocerebellar fissure" RELATED [NeuroNames:22] synonym: "fissura cerebro-cerebellaris" RELATED LATIN [NeuroNames:22] synonym: "fissura cerebrocerebellaris" RELATED LATIN [NeuroNames:22] synonym: "medulla spinalis" RELATED LATIN [Wikipedia:Spinal_cord] synonym: "medulla spinalis" RELATED [BTO:0001279] synonym: "medulla spinalis" RELATED LATIN [http://en.wikipedia.org/wiki/Spinal_cord] synonym: "SpC" RELATED ABBREVIATION [] synonym: "spinal cord structure" RELATED [ZFA:0000075] synonym: "spinal medulla" RELATED [BTO:0001279] xref: AAO:0010151 xref: BAMS:SP xref: BAMS:Spinal xref: BIRNLEX:1709 xref: BM:SpC xref: BTO:0001279 xref: CALOHA:TS-0953 xref: DHBA:12890 xref: DMBA:17651 xref: EFO:0000110 xref: EHDAA2:0001255 xref: EHDAA:2863 xref: EMAPA:17577 xref: EV:0100316 xref: FMA:7647 xref: GAID:695 xref: http://braininfo.rprc.washington.edu/centraldirectory.aspx?ID=22 {source="BIRNLEX:1709"} xref: http://braininfo.rprc.washington.edu/centraldirectory.aspx?ID=22 xref: http://linkedlifedata.com/resource/umls/id/C0037925 xref: http://www.snomedbrowser.com/Codes/Details/180959008 xref: MA:0000216 xref: MAT:0000183 xref: MESH:D013116 xref: MIAA:0000183 xref: NCIT:C12464 xref: OpenCyc:Mx4rvVjjk5wpEbGdrcN5Y29ycA xref: SCTID:180959008 xref: Spinal:cord xref: TAO:0000075 xref: UMLS:C0037925 {source="ncithesaurus:Spinal_Cord"} xref: UMLS:C0037925 {source="BIRNLEX:1709"} xref: VHOG:0000601 xref: Wikipedia:Spinal_cord xref: XAO:0000020 xref: ZFA:0000075 is_a: UBERON:0000489 ! cavitated compound organ is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0005174 ! dorsal region element is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: develops_from UBERON:0003076 ! posterior neural tube relationship: develops_from UBERON:0006241 ! future spinal cord relationship: has_developmental_contribution_from UBERON:0003853 {evidence="definitional"} ! spinal cord neural crest relationship: has_part CL:0005000 {source="ZFA"} ! spinal cord interneuron relationship: immediate_transformation_of UBERON:0006241 {evidence="definitional"} ! future spinal cord relationship: part_of UBERON:0001017 ! central nervous system property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/5/58/Spinal_cord_direv.svg xsd:anyURI property_value: editor_note "TODO - add superclass to unify with VNC?" xsd:string property_value: RO:0002171 UBERON:0000955 {exceptions="ZFA", source="https://github.com/obophenotype/uberon/issues/378", status="pending"} property_value: UBPROP:0000001 "Part of the central nervous system which descends from the hindbrain within the vertebral column.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0010151", ontology="AAO", source="AAO:BJB"} property_value: UBPROP:0000003 "(...) at some stage of its development, every chordate exhibits five uniquely derived characters or synapomorphies of the group: (...) (4) a single, tubular nerve cord that is located dorsal to the notochord (...) (reference 1); The neural tube is destined to differentiate into the brain and spinal cord (the central nervous system) (reference 2).[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000601", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.28, ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.165"} property_value: UBPROP:0000003 "(...) at some stage of its development, every chordate exhibits five uniquely derived characters or synapomorphies of the group: (...) (4) a single, tubular nerve cord that is located dorsal to the notochord (...) (reference 1); The neural tube is destined to differentiate into the brain and spinal cord (the central nervous system) (reference 2).[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000601", ontology="VHOG", source="ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.28, ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.165", source="http://bgee.unil.ch/"} [Term] id: UBERON:0002241 name: chondrocranium namespace: uberon def: "Endoskeletal elements that encase the brain, nose, inner ear[cjm]. that part of the neurocranium formed by endochondral ossification and comprising the bones of the base of the skull[TFD]." [http://en.wikipedia.org/wiki/Chondrocranium, http://medical-dictionary.thefreedictionary.com/chondrocranium] def: "Endoskeletal elements that encase the brain, nose, inner ear[cjm]. that part of the neurocranium formed by endochondral ossification and comprising the bones of the base of the skull[TFD]." [http://medical-dictionary.thefreedictionary.com/chondrocranium, Wikipedia:Chondrocranium] subset: vertebrate_core synonym: "calvarium" RELATED [MA:0000317] synonym: "neurocranium" RELATED INCONSISTENT [MA:0000317] xref: AAO:0010169 xref: EHDAA2:0000243 xref: EMAPA:17681 xref: http://en.wikipedia.org/wiki/Chondrocranium xref: TAO:0001424 xref: VHOG:0000288 xref: Wikipedia:Chondrocranium xref: ZFA:0001424 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0011159 ! primary subdivision of cranial skeletal system relationship: overlaps UBERON:0001703 ! neurocranium property_value: editor_note "we follow the standard evolutionary classification and treat this as endoskeletal. This means what MA calls 'chondrocranium' must in fact be neurocranium, as it includes parts of the dermatocranium (e.g. frontal, parietal)" xsd:string property_value: UBPROP:0000001 "Anatomical cluster that is part of the cranium and composed of cartilage and cartilage replacement bones.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0010169", ontology="AAO", source="AAO:BJB"} property_value: UBPROP:0000001 "Anatomical cluster that is part of the cranium and composed of cartilage and cartilage replacement bones.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0001424", ontology="TAO", source="ZFIN:curator"} property_value: UBPROP:0000007 "chondrocranial" xsd:string property_value: UBPROP:0000008 "covers the brain dorsally in chondrichthyans" xsd:string [Term] id: UBERON:0002257 name: ventral horn of spinal cord namespace: uberon def: "The ventral grey column of the spinal cord[MP]. The neurons of the ventral region of the mature spinal cord participate in motor output[GO]." [GO:0021517, https://sourceforge.net/tracker/?group_id=36855&atid=440764, MP:0005112, Wikipedia:Anterior_horn_of_spinal_cord] subset: pheno_slim subset: vertebrate_core synonym: "anterior column" RELATED [Wikipedia:Anterior_horn_of_spinal_cord] synonym: "anterior column of the spinal cord" RELATED [Wikipedia:Anterior_horn_of_spinal_cord] synonym: "anterior gray column of spinal cord" EXACT [FMA:256541] synonym: "anterior gray horn of spinal cord" EXACT [FMA:256541] synonym: "anterior grey column of spinal cord" EXACT [] synonym: "anterior horn" EXACT [BIRNLEX:2668] synonym: "anterior horn (spinal cord)" RELATED [Wikipedia:Anterior_horn_of_spinal_cord] synonym: "columna grisea anterior medullae spinalis" EXACT LATIN [FMA:256541, FMA:TA] synonym: "cornu anterius medullae spinalis" RELATED LATIN [Wikipedia:Anterior_horn_of_spinal_cord] synonym: "spinal cord anterior horn" EXACT [BIRNLEX:2668] synonym: "spinal cord ventral horn" EXACT [] synonym: "ventral gray column of spinal cord" EXACT [FMA:256541] synonym: "ventral gray matter of spinal cord" EXACT [FMA:256541] synonym: "ventral grey column of spinal cord" EXACT [] synonym: "ventral grey horn" EXACT [BIRNLEX:2668] synonym: "ventral horn of the spinal cord" RELATED [BAMS:VH] synonym: "ventral horn spinal cord" EXACT [ZFA:0000702] synonym: "ventral horns spinal cord" RELATED PLURAL [VHOG:0001288] synonym: "ventral region of spinal cord" EXACT [] synonym: "ventral spinal cord" EXACT [] xref: BAMS:VH xref: BIRNLEX:2668 xref: BTO:0005151 xref: EMAPA:18575 xref: EMAPA:35794 xref: FMA:256541 xref: http://braininfo.rprc.washington.edu/centraldirectory.aspx?ID=1751 xref: MA:0001134 xref: NCIT:C33859 xref: SCTID:279443000 xref: TAO:0000702 xref: UMLS:C0228569 {source="BIRNLEX:2668"} xref: UMLS:C0228590 {source="ncithesaurus:Ventral_Horn_of_the_Spinal_Cord"} xref: VHOG:0001288 xref: Wikipedia:Anterior_horn_of_spinal_cord xref: ZFA:0000702 is_a: UBERON:0016550 ! spinal cord column relationship: contributes_to_morphology_of UBERON:0002315 ! gray matter of spinal cord relationship: has_part CL:0000100 ! motor neuron relationship: in_lateral_side_of UBERON:0002315 {source="FMA-abduced-lr"} ! gray matter of spinal cord relationship: part_of UBERON:0002315 ! gray matter of spinal cord property_value: UBPROP:0000001 "The anterior horn of the spinal cord (or anterior cornu, or anterior column, or ventral horn) is the ventral (front) grey matter section of the spinal cord. The anterior horn contains motor neurons that affect the axial muscles while the posterior horn receives information regarding touch and sensation. The anterior horn is where the cell bodies of alpha motorneurons are located[Wikipedia:Anterior_horn_of_spinal_cord]." xsd:string {source="Wikipedia:Anterior_horn_of_spinal_cord"} [Term] id: UBERON:0002275 name: reticular formation namespace: uberon def: "A composite substructure of the brainstem that consists of the midbrain reticular formation, the pontine reticular formation and the medullary reticular formation ( Carpenter-1983 )." [NeuroNames:1223] subset: uberon_slim synonym: "brain stem reticular formation" EXACT [NeuroNames:1223] synonym: "brainstem reticular formation" EXACT [MA:0003185] synonym: "brainstem reticular formation" EXACT [NeuroNames:1223] synonym: "reticular formation (classical)" EXACT [NeuroNames:1223] synonym: "reticular formation of the brainstem" EXACT [NeuroNames:1223] xref: BAMS:RET xref: EMAPA:35188 xref: FMA:77719 xref: http://braininfo.rprc.washington.edu/centraldirectory.aspx?ID=1223 xref: MA:0003185 xref: MESH:D012154 xref: NLX:143558 xref: SCTID:361552007 xref: Wikipedia:Reticular_formation is_a: UBERON:0002616 ! regional part of brain relationship: part_of UBERON:0002298 ! brainstem property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/9/9b/Gray701.png xsd:anyURI property_value: IAO:0000232 "this class denotes the generic structure, and not a specific one such as medullary or pontine reticular formation." xsd:string property_value: UBPROP:0000008 "It is essential for governing some of the basic functions of higher organisms, and is one of the phylogenetically oldest portions of the brain." xsd:string property_value: UBPROP:0000012 "FMA has a spinal cord reticular formation but we follow NNs (classical) to restrict this to brainstem structures. This means we also include the MA class for brainstem reticular formation here. FMA has subtypes of reticular formation but we treat this as a composite structure" xsd:string {external_ontology="FMA"} [Term] id: UBERON:0002298 name: brainstem namespace: uberon def: "Stalk-like part of the brain that includes amongst its parts the medulla oblongata of the hindbrain and the tegmentum of the midbrain[ZFA,MP,generalized]." [ISBN:0471888893, MP:0005277, Wikipedia:Brainstem, ZFA:0001707] def: "Stalk-like part of the brain that includes amongst its parts the medulla oblongata of the hindbrain and the tegmentum of the midbrain[ZFA,MP,generalized]." [http://en.wikipedia.org/wiki/Brainstem, ISBN:0471888893, MP:0005277, ZFA:0001707] comment: 'brainstem' is a loose term that sometimes refers to the ventral parts o the brain except for any part of the telencephalon - sometimes it includes the diencephalon or subpallial telencephalon structures (ISBN:0471888893). Here we use it in a more restriced sense, to include only the medulla oblongata, pons (when present) and the midbrain tegmentum (following the ZFA definitions). subset: efo_slim subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "accessory medullary lamina of pallidum" RELATED [NeuroNames:236] synonym: "brain stem" EXACT [ABA:BS] synonym: "lamella pallidi incompleta" RELATED LATIN [NeuroNames:236] synonym: "lamina medullaris accessoria" RELATED LATIN [NeuroNames:236] synonym: "lamina medullaris incompleta pallidi" RELATED LATIN [NeuroNames:236] synonym: "lamina pallidi incompleta" RELATED LATIN [NeuroNames:236] synonym: "truncus encephali" EXACT LATIN [http://en.wikipedia.org/wiki/Brainstem] synonym: "truncus encephali" EXACT LATIN [Wikipedia:Brainstem] synonym: "truncus encephalicus" RELATED LATIN [BTO:0000146] xref: BAMS:BS xref: BIRNLEX:1565 xref: BTO:0000146 xref: CALOHA:TS-0093 xref: EFO:0001962 xref: EMAPA:32678 xref: EV:0100241 xref: FMA:79876 xref: http://braininfo.rprc.washington.edu/centraldirectory.aspx?ID=236 {source="BIRNLEX:1565"} xref: http://braininfo.rprc.washington.edu/centraldirectory.aspx?ID=236 xref: http://en.wikipedia.org/wiki/Brainstem xref: http://linkedlifedata.com/resource/umls/id/C0006121 xref: http://www.snomedbrowser.com/Codes/Details/180925009 xref: MA:0000169 xref: MBA:343 xref: MESH:D001933 xref: NCIT:C12441 xref: SCTID:180925009 xref: TAO:0002156 xref: UMLS:C0006121 {source="ncithesaurus:Brain_Stem"} xref: UMLS:C0006121 {source="BIRNLEX:1565"} xref: VHOG:0001457 xref: Wikipedia:Brainstem xref: ZFA:0001707 is_a: UBERON:0002616 ! regional part of brain is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: continuous_with UBERON:0002240 ! spinal cord relationship: contributes_to_morphology_of UBERON:0000955 ! brain relationship: has_part UBERON:0001896 ! medulla oblongata relationship: has_part UBERON:0001943 ! midbrain tegmentum property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/b/b7/Gray719.png xsd:anyURI property_value: RO:0002171 UBERON:0001890 {notes="we apply a strict definition"} property_value: RO:0002171 UBERON:0002037 {exceptions="ZFA", source="ABA", source="https://github.com/obophenotype/uberon/issues/378", status="pending"} property_value: RO:0002171 UBERON:0002314 {notes="we apply a strict definition"} property_value: UBPROP:0000001 "Multi-tissue structure that has as its parts the medulla oblongata of the hindbrain and the tegmentum of the midbrain.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0002156", ontology="TAO", source="ISBN:3764351209"} property_value: UBPROP:0000001 "Multi-tissue structure that has as its parts the medulla oblongata of the hindbrain and the tegmentum of the midbrain[ZFA,adopted][ZFA:0001707]." xsd:string {source="ZFA:0001707"} property_value: UBPROP:0000001 "the stalk-like part of the brain that comprises the midbrain (aka mesencephalon), the pons (aka pons Varolii), and the medulla oblongata, and connects the cerebral hemispheres with the cervical spinal cord[MP]" xsd:string {source="MP:0005277"} [Term] id: UBERON:0002302 name: myocardium of atrium namespace: uberon def: "the atrial part of middle layer of the heart, comprised of involuntary muscle" [ISBN:0-683-40008-8, MP:0010493] def: "The atrial part of middle layer of the heart, comprised of involuntary muscle." [ISBN:0-683-40008-8, MP:0010493] subset: efo_slim subset: pheno_slim subset: vertebrate_core synonym: "atrial myocardium" EXACT [ZFA:0001374] synonym: "atrium cardiac muscle" RELATED [VHOG:0000602] synonym: "atrium myocardium" EXACT [] xref: EFO:0003087 xref: EMAPA:32746 xref: FMA:83509 xref: http://www.snomedbrowser.com/Codes/Details/191910002 xref: MA:0000081 xref: SCTID:191910002 xref: TAO:0001374 xref: VHOG:0000602 xref: ZFA:0001374 is_a: UBERON:0002349 ! myocardium intersection_of: UBERON:0002349 ! myocardium intersection_of: part_of UBERON:0002081 ! cardiac atrium relationship: contributes_to_morphology_of UBERON:0002081 ! cardiac atrium relationship: part_of UBERON:0002081 ! cardiac atrium property_value: UBPROP:0000003 "As noted, the hearts of birds and mammals have four chambers that arises from the two chambers (atrium and ventricle) of the fish heart.[uncertain][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000602", ontology="VHOG", source="ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.481", source="http://bgee.unil.ch/"} property_value: UBPROP:0000003 "As noted, the hearts of birds and mammals have four chambers that arises from the two chambers (atrium and ventricle) of the fish heart.[uncertain][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000602", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.481"} [Term] id: UBERON:0002308 name: nucleus of brain namespace: uberon def: "A neural nucleus that is part of the brain." [http://orcid.org/0000-0002-6601-2165] synonym: "brain nuclei" RELATED PLURAL [ZFA:0005575] synonym: "brain nucleus" EXACT [] xref: EMAPA:35185 xref: FMA:83840 xref: MA:0000811 xref: NCIT:C49346 xref: SCTID:426465002 xref: UMLS:C1706993 {source="ncithesaurus:Brain_Nucleus"} xref: ZFA:0005575 is_a: UBERON:0000125 ! neural nucleus intersection_of: UBERON:0000125 ! neural nucleus intersection_of: part_of UBERON:0000955 ! brain relationship: part_of UBERON:0003528 ! brain gray matter [Term] id: UBERON:0002315 name: gray matter of spinal cord namespace: uberon def: "The ridge-shaped grey matter of the spinal cord that extends longitudunally through the center of each half of the spinal cord, and are largely or entirely composed of nerve cell bodies and their dendrites and some supportive tissue." [MP:0008503] subset: pheno_slim synonym: "gray matter of spinal cord" EXACT [OBOL:automatic] synonym: "gray substance of spinal cord" EXACT [FMA:256580] synonym: "grey matter of spinal cord" EXACT [] synonym: "grey substance of spinal cord" EXACT [] synonym: "spinal cord gray matter" EXACT [OBOL:automatic] synonym: "spinal cord grey matter" EXACT [] synonym: "spinal cord grey substance" EXACT [OBOL:automatic] synonym: "substantia grisea medullae spinalis" EXACT LATIN [FMA:256580, FMA:TA] xref: BAMS:Scgrey xref: DHBA:146035048 xref: EMAPA:35792 xref: FMA:256580 xref: http://braininfo.rprc.washington.edu/centraldirectory.aspx?ID=2619 xref: http://linkedlifedata.com/resource/umls/id/C0475853 xref: http://www.snomedbrowser.com/Codes/Details/279441003 xref: MA:0000002 xref: NCIT:C32696 xref: NLXANAT:100204 xref: SCTID:279441003 xref: UMLS:C0475853 {source="ncithesaurus:Gray_Matter_of_the_Spinal_Cord"} is_a: UBERON:0002020 ! gray matter intersection_of: UBERON:0002020 ! gray matter intersection_of: part_of UBERON:0002240 ! spinal cord relationship: contributes_to_morphology_of UBERON:0002240 ! spinal cord relationship: part_of UBERON:0002240 ! spinal cord [Term] id: UBERON:0002323 name: coelemic cavity lumen namespace: uberon alt_id: UBERON:0000169 def: "The cavity within the body of all animals higher than the coelenterates and certain primitive worms, formed by the splitting of the embryonic mesoderm into two layers. In mammals it forms the peritoneal, pleural, and pericardial cavities." [BTO:0001707] subset: uberon_slim subset: vertebrate_core synonym: "body cavity" BROAD [BTO:0001707] synonym: "celom" RELATED [BTO:0001707] synonym: "coelom" RELATED [] synonym: "coelome" RELATED [BTO:0001707] synonym: "coelomic cavity" EXACT [EHDAA2:0000267] synonym: "coelomic cavity lumen" EXACT [EHDAA2:0000267] synonym: "hemocoel" RELATED [FBbt:00005060] synonym: "main body cavity" EXACT [] synonym: "space of body compartment" EXACT [FMA:85006] synonym: "ventral body cavity" NARROW [NCBITaxon:7742] xref: AEO:0000186 xref: BTO:0001707 xref: EHDAA2:0000267 xref: FBbt:00005060 xref: FMA:85006 xref: galen:BodyCavity xref: http://linkedlifedata.com/resource/umls/id/C0333343 xref: http://www.snomedbrowser.com/Codes/Details/361348008 xref: NCIT:C25444 xref: RETIRED_EHDAA2:0003186 xref: SCTID:361348008 xref: TAO:0001438 xref: UMLS:C0333343 {source="ncithesaurus:Cavity"} xref: ZFA:0001438 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0002553 ! anatomical cavity relationship: develops_from UBERON:0003886 ! future coelemic cavity lumen relationship: luminal_space_of UBERON:0011997 ! coelom relationship: part_of UBERON:0011997 ! coelom relationship: transformation_of UBERON:0003886 {evidence="definitional"} ! future coelemic cavity lumen property_value: editor_note "check the FMA placement here; ncit placement of body cavity here probably not correct" xsd:string property_value: UBPROP:0000001 "Anatomical space, part of the trunk that contains the pericardial and pleuroperitoneal cavities[ZFA]." xsd:string {date_retrieved="2012-09-12", external_class="ZFA:0001438", ontology="ZFA", source="ZFIN:curator"} property_value: UBPROP:0000001 "The cavity within the body of all animals higher than the coelenterates and certain primitive worms, formed by the splitting of the embryonic mesoderm into two layers. In mammals it forms the peritoneal, pleural, and pericardial cavities[BTO]." xsd:string {date_retrieved="2012-09-12", external_class="BTO:0001707", ontology="BTO", source="BTO"} property_value: UBPROP:0000008 "In mammals it forms the peritoneal, pleural, and pericardial cavities" xsd:string [Term] id: UBERON:0002324 name: muscle of back namespace: uberon def: "Any muscle organ that is part of a back [Automatically generated definition]." [OBOL:automatic] synonym: "back muscle" EXACT [] synonym: "back muscle organ" EXACT [OBOL:automatic] synonym: "muscle organ of back" EXACT [OBOL:automatic] xref: EMAPA:35161 xref: FMA:85216 xref: MA:0000496 is_a: UBERON:0001774 ! skeletal muscle of trunk is_a: UBERON:0005174 ! dorsal region element intersection_of: UBERON:0014892 ! skeletal muscle organ intersection_of: part_of UBERON:0001137 ! dorsum relationship: part_of UBERON:0004469 {source="prolog"} ! musculature of back [Term] id: UBERON:0002328 name: notochord namespace: uberon def: "A flexible rod-shaped body found in embryos of all chordates. It is composed of cells derived from the mesoderm and defines the primitive axis of the embryo. In some chordates, it persists throughout life as the main axial support of the body, while in most vertebrates it becomes the nucleus pulposus of the intervertebral disc. The notochord is found ventral to the neural tube." [http://tolweb.org/Chordata/2499, https://github.com/obophenotype/uberon/issues/25, https://github.com/obophenotype/uberon/issues/271, ISBN:0815318960, Wikipedia:Notochord] def: "A flexible rod-shaped body found in embryos of all chordates. It is composed of cells derived from the mesoderm and defines the primitive axis of the embryo. In some chordates, it persists throughout life as the main axial support of the body, while in most vertebrates it becomes the nucleus pulposus of the intervertebral disc. The notochord is found ventral to the neural tube." [http://en.wikipedia.org/wiki/Notochord, http://tolweb.org/Chordata/2499, https://github.com/obophenotype/uberon/issues/25, https://github.com/obophenotype/uberon/issues/271, ISBN:0815318960] comment: The notochord appears early in embryogeny and plays an important role in promoting or organizing the embryonic development of nearby structures. In most adult chordates the notochord disappears or becomes highly modified. In some non-vertebrate chordates and fishes the notochord persists as a laterally flexible but incompressible skeletal rod that prevents telescopic collapse of the body during swimming[TOLWEB] subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "embryonic notocord" EXACT [] synonym: "notochorda" RELATED LATIN [Wikipedia:Notochord] synonym: "notochorda" RELATED LATIN [http://en.wikipedia.org/wiki/Notochord] synonym: "notocord" EXACT [ZFA:0000135] xref: AAO:0000327 xref: BTO:0001768 xref: CALOHA:TS-0690 xref: EHDAA2:0001277 xref: EHDAA:1241 xref: EHDAA:6021 xref: EMAPA:16191 xref: EV:0100002 xref: FMA:85521 xref: GAID:1311 xref: http://en.wikipedia.org/wiki/Notochord xref: http://evolution.berkeley.edu/evolibrary/images/history/notochords.jpg xref: http://linkedlifedata.com/resource/umls/id/C0028439 xref: http://www.snomedbrowser.com/Codes/Details/308820002 xref: MAT:0000281 xref: MESH:A16.254.610 xref: NCIT:C12463 xref: SCTID:308820002 xref: TAO:0000135 xref: UMLS:C0028439 {source="ncithesaurus:Notochord"} xref: VHOG:0000199 xref: VSAO:0000032 xref: Wikipedia:Notochord xref: XAO:0000055 xref: ZFA:0000135 is_a: UBERON:0000481 {source="VSAO"} ! multi-tissue structure is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0004121 ! ectoderm-derived structure relationship: develops_from UBERON:0004880 {source="ZFA"} ! chordamesoderm relationship: develops_from UBERON:0006267 {source="EHDAA2"} ! notochordal plate relationship: dorsal_to UBERON:0001555 ! digestive tract relationship: existence_starts_during UBERON:0000068 ! embryo stage relationship: only_in_taxon NCBITaxon:7711 {source="http://tolweb.org/Chordata/2499"} ! Chordata relationship: only_in_taxon NCBITaxon:7711 {source="http://tolweb.org/Chordata/2499"} ! Chordata relationship: part_of UBERON:0000922 {gci_relation="part_of", gci_filler="NCBITaxon:40674"} ! embryo relationship: part_of UBERON:0011137 ! axial skeletal system relationship: produces PR:000014841 ! sonic hedgehog protein relationship: ventral_to UBERON:0001049 ! neural tube property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/6/64/Gray19_with_color.png xsd:anyURI property_value: http://purl.org/dc/elements/1.1/contributor https://github.com/cmungall property_value: http://purl.org/dc/elements/1.1/contributor https://github.com/wdahdul property_value: UBPROP:0000001 "Avascular multi-tissue structure composed of large vacuolated epithelial cells (chordablasts) and perichordal fibrous tissue.[VSAO]" xsd:string {date_retrieved="2012-08-14", external_class="VSAO:0000032", ontology="VSAO", source="PSPUB:0000170"} property_value: UBPROP:0000001 "Rod-like principal supportive element of the embryo and larva, present in the midline just ventral to the neural tube, and differentiating during the segmentation period to form large vacuolated epithelial cells and a surrounding a sheath of fibrous and elastic layers. Layering of the sheath may differ in structure, thickness and development among groups; in cypriniforms there are actually three very thin layers to the sheath. A functional, well developed notochord is present throughout life in certain basal fish groups but not in cypriniforms. Kimmel et al, 1995.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0000135", ontology="TAO", source="ZFIN:curator"} property_value: UBPROP:0000001 "Slender rod of fibrous connective tissue surrounding a core of fluid-filled cells of mesodermal origin; it lies above the gut and directly beneath the spinal cord. The notochord is present during early development and in a few cases it is retained through life; however, usually the notochord is replaced by the vertebral column.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0000327", ontology="AAO", source="AAO:LAP"} property_value: UBPROP:0000002 "relationship type change: differentiates_from mesoderm (AAO:0000304) CHANGED TO: develops_from mesoderm (UBERON:0000926)[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0000327", ontology="AAO"} property_value: UBPROP:0000003 "(...) at some stage of its development, every chordate exhibits five uniquely derived characters or synapomorphies of the group: (...) (3) a stiff, longitudinal rod of turgid cells along the dorsal part of the body that is called a notochord (...).[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000199", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.28"} property_value: UBPROP:0000003 "(...) at some stage of its development, every chordate exhibits five uniquely derived characters or synapomorphies of the group: (...) (3) a stiff, longitudinal rod of turgid cells along the dorsal part of the body that is called a notochord (...).[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000199", ontology="VHOG", source="ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.28", source="http://bgee.unil.ch/"} property_value: UBPROP:0000007 "notochordal" xsd:string property_value: UBPROP:0000011 "In between vertebra the notochord becomes the nucleus pulposus, under it degenerates, and at anterior end in some species its tissue merges with some of the cranial bones.. Some organisms retain a post-embryonic notochord." xsd:string [Term] id: UBERON:0002329 name: somite namespace: uberon def: "Somites are spheres of epithelial cells that form sequentially along the anterior-posterior axis of the embryo through mesenchymal to epithelial transition of the presomitic mesoderm." [http://en.wikipedia.org/wiki/Somite, https://doi.org/10.1111/j.1439-0426.2012.01987.x] def: "Somites are spheres of epithelial cells that form sequentially along the anterior-posterior axis of the embryo through mesenchymal to epithelial transition of the presomitic mesoderm." [DOI:10.1111/j.1439-0426.2012.01987.x, Wikipedia:Somite] comment: When the somite becomes segmented from the segmental plate, it is composed of an epithelial sac enclosing mesenchymal somitocoel cells. Thereafter the somite differentiates into two parts, the ventro-medial mesenchymal sclerotome and the dorso-lateral epithelial dermomyotome. This change in the epithelial somite depends on surrounding tissue [PMID:15906248] subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "epimere" RELATED [ISBN:0073040584] synonym: "epimere mesoderm" RELATED [] synonym: "epithelial somite" RELATED [https://github.com/obophenotype/uberon/wiki/The-neural-crest] synonym: "mesodermal cluster" BROAD [GO:0001756] synonym: "somites" RELATED PLURAL [] synonym: "somitic mesoderm" RELATED [] synonym: "somitus" RELATED LATIN [Wikipedia:Somite] synonym: "somitus" RELATED LATIN [http://en.wikipedia.org/wiki/Somite] xref: AAO:0010569 xref: AEO:0001015 xref: BTO:0001558 xref: EHDAA2:0003436 xref: EHDAA:366 xref: EHDAA:699 xref: EMAPA:31169 xref: FMA:85522 xref: GAID:1306 xref: http://en.wikipedia.org/wiki/Somite xref: http://linkedlifedata.com/resource/umls/id/C0376449 xref: MAT:0000068 xref: MESH:A16.254.425.660.750 xref: MIAA:0000068 xref: NCIT:C34302 xref: TAO:0000155 xref: UMLS:C0376449 {source="ncithesaurus:Somite"} xref: VHOG:0000191 xref: Wikipedia:Somite xref: XAO:0000058 xref: ZFA:0000155 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0005423 ! developing anatomical structure is_a: UBERON:0007503 {source="EHDAA2"} ! epithelial vesicle relationship: develops_from UBERON:0003059 {source="ZFA"} ! presomitic mesoderm relationship: only_in_taxon NCBITaxon:7711 {source="GOTAX:0000352"} ! Chordata property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/6/64/Gray19_with_color.png xsd:anyURI property_value: editor_note "currently classified as an epithelial vesicle, consistent with EHDAA2 and https://github.com/obophenotype/uberon/wiki/The-neural-crest. Consider making 'somitic mesoderm' a separate term and correlate with regionalization processes. Consider moving ZFA term to 'trunk somite' as it is part of the trunk" xsd:string property_value: RO:0002161 NCBITaxon:7712 {source="http://www.ncbi.nlm.nih.gov/pubmed/17237766"} property_value: RO:0002161 NCBITaxon:7712 {source="PMID:17237766"} property_value: UBPROP:0000001 "Post-cranial axial segments which form sclerotome and dermomyotome.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0010569", ontology="AAO", source="AAO:EJS"} property_value: UBPROP:0000001 "Undifferentiated mesodermal components of early trunk or tail segments or metameres, derived from paraxial mesoderm; forms myotomes, sclerotomes and perhaps dermatomes. Kimmel et al, 1995.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0000155", ontology="TAO", source="ZFIN:curator"} property_value: UBPROP:0000002 "relationship loss: develops_from paraxial mesenchyme (TAO:0000942)[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0000155", ontology="TAO"} property_value: UBPROP:0000002 "relationship type change: OBO_REL:part_of trunk (TAO:0001115) CHANGED TO: develops_from trunk (UBERON:0002100)[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0000155", ontology="TAO"} property_value: UBPROP:0000002 "relationship type change: part_of paraxial mesoderm (AAO:0010568) CHANGED TO: develops_from paraxial mesoderm (UBERON:0003077)[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0010569", ontology="AAO"} property_value: UBPROP:0000003 "(...) cephalocordates and craniates belong to a group known as Somitichordata. Somitichordate synapomorphies include (1) somites (...) (reference 1); The idea that the last common ancestor of bilaterian animals (Urbilateria) was segmented has been raised recently on evidence coming from comparative molecular embryology (reference 2).[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000191", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.40, DOI:10.1093/icb/43.1.137 Balavoine G, Adoutte A, The segmented urbilateria: a testable scenario. Integrative and Comparative Biology (2003)"} property_value: UBPROP:0000003 "(...) cephalocordates and craniates belong to a group known as Somitichordata. Somitichordate synapomorphies include (1) somites (...) (reference 1); The idea that the last common ancestor of bilaterian animals (Urbilateria) was segmented has been raised recently on evidence coming from comparative molecular embryology (reference 2).[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000191", ontology="VHOG", source="ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.40, DOI:10.1093/icb/43.1.137 Balavoine G, Adoutte A, The segmented urbilateria: a testable scenario. Integrative and Comparative Biology (2003)", source="http://bgee.unil.ch/"} property_value: UBPROP:0000007 "somitic" xsd:string [Term] id: UBERON:0002330 name: exocrine system namespace: uberon def: "Anatomical system that consists of the glands and parts of glands that produce exocrine secretions and help to integrate and control bodily metabolic activity. Exocrine glands are glands that secrete their products (hormones) into ducts (duct glands). They are the counterparts to endocrine glands, which secrete their products (hormones) directly into the bloodstream (ductless glands) or release hormones (paracrines) that affect only target cells nearby the release site. [Wikipedia]." [http://en.wikipedia.org/wiki/Exocrine_gland] def: "Anatomical system that consists of the glands and parts of glands that produce exocrine secretions and help to integrate and control bodily metabolic activity. Exocrine glands are glands that secrete their products (hormones) into ducts (duct glands). They are the counterparts to endocrine glands, which secrete their products (hormones) directly into the bloodstream (ductless glands) or release hormones (paracrines) that affect only target cells nearby the release site. [Wikipedia]." [Wikipedia:Exocrine_gland] subset: pheno_slim subset: uberon_slim synonym: "exocrine glandular system" EXACT [EHDAA2:0002225] xref: CALOHA:TS-2057 xref: EHDAA2:0002225 xref: EMAPA:35329 xref: Exocrine:gland xref: FMA:85539 xref: http://linkedlifedata.com/resource/umls/id/C1516995 xref: MA:0002411 xref: NCIT:C12957 xref: UMLS:C1516995 {source="ncithesaurus:Exocrine_System"} xref: Wikipedia:Exocrine_gland xref: WikipediaCategory:Exocrine_system is_a: UBERON:0000467 ! anatomical system disjoint_from: UBERON:0002390 ! hematopoietic system disjoint_from: UBERON:0002405 ! immune system disjoint_from: UBERON:0002416 ! integumental system disjoint_from: UBERON:0004456 ! entire sense organ system relationship: composed_primarily_of UBERON:0002365 ! exocrine gland relationship: existence_ends_during UBERON:0000066 ! fully formed stage relationship: only_in_taxon NCBITaxon:6072 ! Eumetazoa [Term] id: UBERON:0002333 name: pulmonary trunk namespace: uberon def: "An arterial trunk which is continuous with the heart and branches into the pulmonary arteries." [http://orcid.org/0000-0002-6601-2165] subset: efo_slim subset: pheno_slim subset: uberon_slim synonym: "main pulmonary artery" RELATED [Wikipedia:Pulmonary_artery] synonym: "main pulmonary artery" RELATED [http://en.wikipedia.org/wiki/Pulmonary_artery] synonym: "pulmonary artery (trunk)" EXACT [] synonym: "trunk of pulmonary arterial tree" EXACT [] xref: EHDAA2:0001576 xref: EHDAA:9831 xref: EMAPA:17015 xref: FMA:8612 xref: galen:PulmonaryTrunk xref: MA:0002033 xref: NCIT:C116918 xref: OpenCyc:Mx4rv-6d0ZwpEbGdrcN5Y29ycA xref: VHOG:0001134 is_a: UBERON:0001637 {source="MA"} ! artery relationship: connected_to UBERON:0002080 {subset="human_reference_atlas"} ! heart right ventricle relationship: continuous_with UBERON:0000948 ! heart relationship: continuous_with UBERON:0002080 {gci_relation="part_of", gci_filler="NCBITaxon:40674"} ! heart right ventricle relationship: part_of RO:0002577 ! system relationship: part_of UBERON:0008886 ! pulmonary vascular system property_value: depicted:by Alveoli:diagram.png xsd:anyURI property_value: depicted:by https://upload.wikimedia.org/wikipedia/commons/d/db/Alveoli_diagram.png xsd:anyURI property_value: UBPROP:0000001 "An arterial trunk with origin from the right ventricle of the heart, and dividing into the right and left pulmonary arteries, which enter the corresponding lungs and branch with the bronchi. [TFD][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001134", ontology="VHOG", source="http://bgee.unil.ch/", source="http://medical-dictionary.thefreedictionary.com/pulmonary+trunk"} property_value: UBPROP:0000001 "An arterial trunk with origin from the right ventricle of the heart, and dividing into the right and left pulmonary arteries, which enter the corresponding lungs and branch with the bronchi. [TFD][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001134", ontology="VHOG", source="http://bgee.unil.ch/", source="http://medical-dictionary.thefreedictionary.com/pulmonary+trunk"} property_value: UBPROP:0000003 "As in birds, the conus arteriosus split during embryonic development in mammals to produce the pulmonary trunk and single aortic trunk of the adult.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001134", ontology="VHOG", source="ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.481", source="http://bgee.unil.ch/"} property_value: UBPROP:0000003 "As in birds, the conus arteriosus split during embryonic development in mammals to produce the pulmonary trunk and single aortic trunk of the adult.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001134", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.481"} [Term] id: UBERON:0002342 name: neural crest namespace: uberon def: "A specialized region of ectoderm found between the neural ectoderm (neural plate) and non-neural ectoderm and composed of highly migratory pluripotent cells that delaminate in early embryonic development from the dorsal neural tube and give rise to an astounding variety of differentiated cell types[MP]." [MP:0009846] comment: Gene notes: Many factors and genes, such as Pax3 (Tremblay et al., 1995), slug (Nieto et al., 1994), AP-2 (Zhang et al., 1996; Schorle et al., 1996), and Wnt-1/3a (Ikeya et al., 1997) are expressed in the dorsal most region of the neural tube, and have been shown to be involved in the generation of neural crest cells. subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "crista neuralis" RELATED LATIN [http://en.wikipedia.org/wiki/Neural_crest] synonym: "crista neuralis" RELATED LATIN [Wikipedia:Neural_crest] synonym: "NC" EXACT ABBREVIATION [XAO:0000048] synonym: "neural crest material" RELATED [VHOG:0000057] xref: AAO:0010578 xref: BTO:0001764 xref: CALOHA:TS-0676 xref: EHDAA2:0004419 xref: EMAPA:32737 xref: FMA:86666 xref: GAID:1310 xref: http://braininfo.rprc.washington.edu/centraldirectory.aspx?ID=1366 xref: http://linkedlifedata.com/resource/umls/id/C0027789 xref: http://www.snomedbrowser.com/Codes/Details/361462002 xref: MAT:0000066 xref: MESH:A16.254.600 xref: MIAA:0000066 xref: NCIT:C34222 xref: Neural:crest xref: SCTID:361462002 xref: TAO:0000045 xref: UMLS:C0027789 {source="ncithesaurus:Neural_Crest"} xref: VHOG:0000057 xref: Wikipedia:Neural_crest xref: XAO:0000048 xref: ZFA:0000045 is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0010314 ! structure with developmental contribution from neural crest is_a: UBERON:0010316 ! germ layer / neural crest relationship: composed_primarily_of CL:0000333 {notes="pre migratory https://github.com/obophenotype/uberon/wiki/The-neural-crest"} ! migratory neural crest cell relationship: develops_from UBERON:0003075 {source="BTO"} ! neural plate relationship: develops_from UBERON:0005062 {source="http://www.ncbi.nlm.nih.gov/pubmed/11523831"} ! neural fold relationship: develops_from UBERON:0005062 {source="PMID:11523831"} ! neural fold relationship: existence_starts_during UBERON:0000110 {source="PMID:11523831"} ! neurula stage relationship: existence_starts_during UBERON:0000110 {source="http://www.ncbi.nlm.nih.gov/pubmed/11523831"} ! neurula stage relationship: only_in_taxon NCBITaxon:89593 {notes="Hall and others restrict NC to vertebrates but we opt for a less restrictive constraint to avoid inconsistencies when areas such as P1 area of pallium in hagfishes inherit cell lineage from telecephalon-contributing NC cells", source="ISBN:0073040584"} ! Craniata relationship: part_of UBERON:0002346 {source="https://github.com/obophenotype/uberon/wiki/The-neural-crest", source="XAO"} ! neurectoderm relationship: part_of UBERON:0002346 {source="XAO", source="https://github.com/obophenotype/uberon/wiki/The-neural-crest"} ! neurectoderm property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/5/5f/Gray644.png xsd:anyURI property_value: depicted:by https://upload.wikimedia.org/wikipedia/commons/8/8f/Neural_Crest.png xsd:anyURI property_value: depicted:by Neural:Crest.png xsd:anyURI property_value: editor_note "consider including subclasses for pre- and post- migratory (e.g. sheets/paths/streams)." xsd:string property_value: RO:0002174 NCBITaxon:117565 {source="ISBN:0073040584", source="PMID:17377535"} property_value: RO:0002174 NCBITaxon:117565 {source="http://www.ncbi.nlm.nih.gov/pubmed/17377535", source="ISBN:0073040584"} property_value: UBPROP:0000001 "A cell population arising from the dorsolateral aspect of the central nervous system primordium during the segmentation period, and later migrating along stereotyped pathways to give rise to a diverse and well-defined set of cell types including pigment cells, peripheral neurons and glia, and head cartilage. Kimmel et al, 1995.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0000045", ontology="TAO", source="ZFIN:curator"} property_value: UBPROP:0000001 "Migratory cell population which delaminates from neural tube, borders surface ectoderm and neural ectoderm, and gives rise to many different tissue types.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0010578", ontology="AAO", source="AAO:EJS"} property_value: UBPROP:0000003 "A well developed neural crest population is present in lampreys (Horigome et al. 1999 ; Tomsa & Langeland, 1999) and gnathostomes. chordate fossils from the early Cambrian (Yunnanozoan and Haikouella) with apparent neural-crest derived structures (pharyngeal denticles and pharyngeal skeletons resembling the striped mucocartilage of the branchial bars in lamprey ammocoete larvae), suggests that neural crest arose very early in vertebrate evolution (Chen et al. 1999; Holland & Chen, 2001). The invertebrate chordates apparently lack defini- tive neural crest. One marker of migrating neural crest in some vertebrates, the antibody HNK1, does not recognize any cells in amphioxus embryos (Holland, unpublished). Even so, in both amphioxus and tunicates, cells at the edges of the neural plate and adjacent nonneural ectoderm share some properties of neural crest[PMID:11523831]" xsd:string {source="PMID:11523831"} property_value: UBPROP:0000003 "A well developed neural crest population is present in lampreys (Horigome et al. 1999 ; Tomsa & Langeland, 1999) and gnathostomes. chordate fossils from the early Cambrian (Yunnanozoan and Haikouella) with apparent neural-crest derived structures (pharyngeal denticles and pharyngeal skeletons resembling the striped mucocartilage of the branchial bars in lamprey ammocoete larvae), suggests that neural crest arose very early in vertebrate evolution (Chen et al. 1999; Holland & Chen, 2001). The invertebrate chordates apparently lack defini- tive neural crest. One marker of migrating neural crest in some vertebrates, the antibody HNK1, does not recognize any cells in amphioxus embryos (Holland, unpublished). Even so, in both amphioxus and tunicates, cells at the edges of the neural plate and adjacent nonneural ectoderm share some properties of neural crest[PMID:11523831]" xsd:string {source="http://www.ncbi.nlm.nih.gov/pubmed/11523831"} property_value: UBPROP:0000003 "We conclude that the neural crest is a vertebrate novelty, but that neural crest cells and their derivatives evolved and diversified in a step-wise fashion - first by elaboration of neural plate border cells, then by the innovation or co-option of new or ancient metazoan cell fates.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000057", ontology="VHOG", source="DOI:10.1111/j.1469-7580.2012.01495.x Hall BK, Gillis JA, Incremental evolution of the neural crest, neural crest cells and neural crest-derived skeletal tissues. J Anat (2012)", source="http://bgee.unil.ch/"} property_value: UBPROP:0000003 "We conclude that the neural crest is a vertebrate novelty, but that neural crest cells and their derivatives evolved and diversified in a step-wise fashion - first by elaboration of neural plate border cells, then by the innovation or co-option of new or ancient metazoan cell fates.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000057", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1111/j.1469-7580.2012.01495.x Hall BK, Gillis JA, Incremental evolution of the neural crest, neural crest cells and neural crest-derived skeletal tissues. J Anat (2012)"} [Term] id: UBERON:0002343 name: abdomen musculature namespace: uberon def: "Set of all muscles in abdomen." [OBOL:automatic] subset: pheno_slim subset: vertebrate_core synonym: "abdominal musculature" EXACT [] synonym: "muscle group of abdomen" EXACT [FMA:71294] synonym: "muscles of abdomen" EXACT [FMA:71294] synonym: "musculature of abdomen" EXACT [] synonym: "musculature of abdominal wall" EXACT [FMA:86917] synonym: "set of muscles of abdomen" EXACT [FMA:71294] xref: FMA:71294 xref: FMA:86917 xref: TAO:0001327 xref: ZFA:0001327 is_a: UBERON:0004479 ! musculature of trunk intersection_of: UBERON:0001015 ! musculature intersection_of: part_of UBERON:0000916 ! abdomen relationship: part_of UBERON:0000916 ! abdomen property_value: IAO:0000232 "distinction between abdomen muscle and abdomen musculature" xsd:string [Term] id: UBERON:0002345 name: descending thoracic aorta namespace: uberon def: "The part of the aorta that extends from the arch of the aorta to the diaphragm, and from which arises numerous branches that supply oxygenated blood to the chest cage and the organs within the chest." [MP:0009868] subset: efo_slim subset: pheno_slim xref: EFO:0002527 xref: EMAPA:18605 xref: FMA:87217 xref: http://www.snomedbrowser.com/Codes/Details/181301002 xref: MA:0002572 is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0013522 ! subdivision of tube relationship: contributes_to_morphology_of UBERON:0001514 ! descending aorta relationship: contributes_to_morphology_of UBERON:0001515 ! thoracic aorta relationship: part_of UBERON:0001514 ! descending aorta relationship: part_of UBERON:0001515 ! thoracic aorta [Term] id: UBERON:0002346 name: neurectoderm namespace: uberon def: "Embryonic ectoderm that gives rise to nervous tissue." [Wikipedia:Neuroectoderm] def: "Embryonic ectoderm that gives rise to nervous tissue." [http://en.wikipedia.org/wiki/Neuroectoderm] subset: uberon_slim subset: vertebrate_core synonym: "epithelium tubi neuralis; neuroectoderma" RELATED LATIN [http://en.wikipedia.org/wiki/Neuroectoderm] synonym: "epithelium tubi neuralis; neuroectoderma" RELATED LATIN [Wikipedia:Neuroectoderm] synonym: "neuaral ectoderm" RELATED [] synonym: "neural ectoderm" EXACT [] synonym: "neuroectoderm" EXACT [] synonym: "presumptive central nervous system" RELATED [] synonym: "ventral neurogenic region" RELATED [VHOG:0000150] xref: AAO:0011074 xref: BILA:0000039 xref: CALOHA:TS-1212 xref: EHDAA2:0001248 xref: EHDAA:1498 xref: EHDAA:255 xref: EMAPA:16073 xref: EV:0100004 xref: FBbt:00001061 xref: FMA:87657 xref: http://en.wikipedia.org/wiki/Neuroectoderm xref: http://linkedlifedata.com/resource/umls/id/C1518271 xref: MAT:0000176 xref: MIAA:0000176 xref: NCIT:C34228 xref: TAO:0001120 xref: UMLS:C1518271 {source="ncithesaurus:Neuroectoderm"} xref: VHOG:0000150 xref: Wikipedia:Neuroectoderm xref: XAO:0000042 xref: ZFA:0001120 is_a: UBERON:0000923 ! germ layer is_a: UBERON:0004121 ! ectoderm-derived structure relationship: has_part CL:0000133 ! neurectodermal cell relationship: has_part CL:0000530 {source="ZFA"} ! primary neuron property_value: UBPROP:0000003 "(...) the ability of ectoderm to produce neuronal cells is a general metazoan feature.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000150", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1046/j.1469-7580.2001.19910133.x Graham A. The development and evolution of the pharyngeal arches. J Anat (2001)"} property_value: UBPROP:0000003 "(...) the ability of ectoderm to produce neuronal cells is a general metazoan feature.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000150", ontology="VHOG", source="DOI:10.1046/j.1469-7580.2001.19910133.x Graham A. The development and evolution of the pharyngeal arches. J Anat (2001)", source="http://bgee.unil.ch/"} property_value: UBPROP:0000007 "neurectodermal" xsd:string property_value: UBPROP:0000013 "we prefer neurectoderm to neural ectoderm since placodal ectoderm is not classified here" xsd:string [Term] id: UBERON:0002348 name: epicardium namespace: uberon def: "A region of the serous membrane that forms the innermost layer of the pericardium and the outer surface of the heart." [http://orcid.org/0000-0002-6601-2165] def: "a region of the serous membrane that forms the innermost layer of the pericardium and the outer surface of the heart." [http://orcid.org/0000-0002-6601-2165] subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "heart epicardium" EXACT [] synonym: "pericardium visceral mesothelium" RELATED [EMAPA:16589] synonym: "visceral serous pericardium of heart" EXACT [FMA:9461] synonym: "visceral serous pericardium proper" EXACT [FMA:9461] xref: AAO:0010409 xref: EHDAA2:0002202 xref: FMA:9461 xref: galen:Epicardium xref: http://en.wikipedia.org/wiki/Epicardium xref: http://linkedlifedata.com/resource/umls/id/C0225968 xref: NCIT:C13164 xref: TAO:0005057 xref: UMLS:C0225968 {source="ncithesaurus:Epicardium"} xref: VHOG:0000119 xref: Wikipedia:Epicardium xref: XAO:0000316 xref: ZFA:0005057 is_a: CARO:0000003 ! connected anatomical structure is_a: UBERON:0000481 ! multi-tissue structure is_a: UBERON:0004120 ! mesoderm-derived structure relationship: attaches_to UBERON:0002349 {source="FMA"} ! myocardium relationship: connects UBERON:0002349 ! myocardium relationship: develops_from UBERON:0004160 ! proepicardium relationship: part_of UBERON:0000948 {source="multiple"} ! heart relationship: part_of UBERON:0002425 {source="FMA-inferred"} ! visceral serous pericardium property_value: editor_note "TODO - check links with UBERON:0002425 visceral serous pericardium. develops from proepicardium. WP:Epicardium -- When considered as a part of the pericardium, it is the inner layer, or visceral pericardium, continuous with the serous layer." xsd:string property_value: UBPROP:0000001 "External layer of the heart.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0005057", ontology="TAO", source="ZFIN:curator"} property_value: UBPROP:0000001 "The inner layer of the pericardium that is in contact with the surface of the heart.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0010409", ontology="AAO", source="AAO:BJB"} property_value: UBPROP:0000009 "The visceral pericardium apparently produces the pericardial fluid, which lubricates motion between the inner and outer layers of the pericardium. During ventricular contraction, the wave of depolarization moves from endocardial to epicardial surface. [Wikipedia:Epicardium]" xsd:string [Term] id: UBERON:0002349 name: myocardium namespace: uberon def: "the middle layer of the heart, comprised mainly of striated cardiac muscle fibers" [ISBN:0-683-40008-8, MP:0005329] def: "The middle layer of the heart, comprised mainly of striated cardiac muscle fibers." [ISBN:0-683-40008-8, MP:0005329] subset: efo_slim subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "cardiac muscle" RELATED [ZFA:0001319] synonym: "heart muscle" RELATED [ZFA:0001319] synonym: "heart muscle" RELATED [FMA:9462] synonym: "heart myocardium" EXACT [] synonym: "muscle of heart" EXACT [FMA:9462] xref: AAO:0010410 xref: BSA:0000089 xref: BTO:0000901 xref: CALOHA:TS-0440 xref: EFO:0000819 xref: EHDAA2:0004150 xref: EMAPA:32688 xref: EV:0100022 xref: FMA:9462 xref: GAID:173 xref: galen:Myocardium xref: http://en.wikipedia.org/wiki/Myocardium xref: http://linkedlifedata.com/resource/umls/id/C0027061 xref: http://www.snomedbrowser.com/Codes/Details/362012001 xref: MA:0000164 xref: MAT:0000453 xref: MESH:D009206 xref: NCIT:C12371 xref: OpenCyc:Mx4ro36AFrCvEduAAAAOpmP6tw xref: RETIRED_EHDAA2:0001220 xref: SCTID:362012001 xref: TAO:0001319 xref: UMLS:C0027061 {source="ncithesaurus:Myocardium"} xref: VHOG:0000083 xref: Wikipedia:Myocardium xref: XAO:0000065 xref: ZFA:0001319 is_a: UBERON:0005983 ! heart layer is_a: UBERON:0010314 ! structure with developmental contribution from neural crest is_a: UBERON:0018260 ! layer of muscle tissue intersection_of: UBERON:0005983 ! heart layer intersection_of: composed_primarily_of UBERON:0001133 ! cardiac muscle tissue relationship: composed_primarily_of UBERON:0001133 ! cardiac muscle tissue relationship: has_part UBERON:0002350 ! conducting system of heart relationship: part_of UBERON:0000383 ! musculature of body property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/6/6e/Glanzstreifen.jpg xsd:anyURI property_value: editor_note "TODO - check 'Myocardum proper' in FMA. We superclass the more generic class for now. FMA has is_a muscle layer - should we add this? ZFA and BTO both have is_a 'cardiac muscle' (tissue?). But in U we also follow FMA and have cardiac muscle tissue of myocardium (there is also Fibrocollagenous connective tissue of myocardium), which would be identical (see issue-10). Note that GO also treats left/right ventricular cardiac muscle tissue synonymous with ventricular myocardium" xsd:string property_value: UBPROP:0000001 "Robust muscular tunic of the heart which forms the basic part of its walls. Its external surface is covered by the pericardium and its internal one by the endocardium. [Dorian_AF, Elsevier's_encyclopaedic_dictionary_of_medicine, Part_B:_Anatomy_(1988)_Amsterdam_etc.:_Elsevier][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000083", ontology="VHOG", source="http://bgee.unil.ch/"} property_value: UBPROP:0000001 "Robust muscular tunic of the heart which forms the basic part of its walls. Its external surface is covered by the pericardium and its internal one by the endocardium. [Dorian_AF, Elsevier's_encyclopaedic_dictionary_of_medicine, Part_B:_Anatomy_(1988)_Amsterdam_etc.:_Elsevier][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000083", ontology="VHOG", source="http://bgee.unil.ch/"} property_value: UBPROP:0000001 "The middle layer of the heart, consisting of cardiac muscle.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0010410", ontology="AAO", source="AAO:BJB"} property_value: UBPROP:0000007 "myocardial" xsd:string [Term] id: UBERON:0002350 name: conducting system of heart namespace: uberon def: "The cardiac conduction system consists of specialized cardiomyocytes that regulate the frequency of heart beat[GO]" [GO:0003161] def: "The cardiac conduction system consists of specialized cardiomyocytes that regulate the frequency of heart beat[GO]." [GO:0003161] subset: efo_slim subset: pheno_slim subset: vertebrate_core synonym: "cardiac conducting system" EXACT [VHOG:0001271] synonym: "cardiac conduction system" EXACT [] synonym: "cardiac impulse conducting system" EXACT [GO:0003161] synonym: "cardionector" EXACT [] synonym: "central conduction system" RELATED [] synonym: "complexus stimulans cordis" EXACT LATIN [FMA:9476, FMA:TA] synonym: "heart conduction system" EXACT [GO:0003161] synonym: "impulse conducting system" EXACT [MA:0000094] synonym: "systema conducente cordis" EXACT LATIN [FMA:9476, FMA:TA] xref: EFO:0003909 xref: EHDAA2:0004185 xref: EMAPA:35428 xref: EV:0100025 xref: FMA:9476 xref: http://www.snomedbrowser.com/Codes/Details/281489000 xref: MA:0000094 xref: MESH:D006329 xref: SCTID:281489000 xref: TAO:0005063 xref: VHOG:0001271 xref: ZFA:0005063 is_a: UBERON:0004493 ! cardiac muscle tissue of myocardium is_a: UBERON:0010131 {source="FMA"} ! conducting tissue of heart relationship: contributes_to_morphology_of UBERON:0000948 ! heart relationship: has_part CL:0002068 {source="FMA"} ! Purkinje myocyte relationship: has_part CL:0002073 {source="FMA"} ! transitional myocyte relationship: has_part CL:0002074 {source="FMA"} ! myocardial endocrine cell relationship: has_part CL:1000409 {source="FMA"} ! myocyte of sinoatrial node relationship: has_part CL:1000410 {source="FMA"} ! myocyte of atrioventricular node property_value: editor_note "EHDAA2 divides the system from the tissue" xsd:string property_value: UBPROP:0000003 "The fish heart displays clear polarity of contraction in a posterior-to-anterior direction. The contraction waves originate in the sinus venosus and terminate in the conus arteriosus. The nodal phenotype persists in the inflow region of the heart, varying from the venosinus to the sinoatrial junctional areas in different species . Similar to the mammalian situation, pacemaker tissue with a lower intrinsic rhythmicity is also found at the atrioventricular junction.[uncertain][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001271", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1152/physrev.00006.2003 Moorman AFM, Christoffels VM, Cardiac Chamber Formation: Development, Genes, and Evolution. Physiological Reviews (2003)"} property_value: UBPROP:0000003 "The fish heart displays clear polarity of contraction in a posterior-to-anterior direction. The contraction waves originate in the sinus venosus and terminate in the conus arteriosus. The nodal phenotype persists in the inflow region of the heart, varying from the venosinus to the sinoatrial junctional areas in different species . Similar to the mammalian situation, pacemaker tissue with a lower intrinsic rhythmicity is also found at the atrioventricular junction.[uncertain][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001271", ontology="VHOG", source="DOI:10.1152/physrev.00006.2003 Moorman AFM, Christoffels VM, Cardiac Chamber Formation: Development, Genes, and Evolution. Physiological Reviews (2003)", source="http://bgee.unil.ch/"} [Term] id: UBERON:0002351 name: sinoatrial node namespace: uberon def: "The part of the cardiac conduction system that controls the timing of heart muscle contraction. It relays electrical signals to the AV node[GO]. Subdivision of conducting system of heart at the junction of the right atrium and the superior vena cava, around the sinoatrial nodal branch of right coronary artery and is continuous with the internodal tract[FMA]." [GO:0003163, Wikipedia:Sinoatrial_node] comment: WP:Heart states: "The SA node is found in all amniotes but not in more primitive vertebrates. In these animals, the muscles of the heart are relatively continuous and the sinus venosus coordinates the beat which passes in a wave through the remaining chambers. Indeed, since the sinus venosus is incorporated into the right atrium in amniotes, it is likely homologous with the SA node. In teleosts, with their vestigial sinus venosus, the main centre of coordination is, instead, in the atrium.". Note however that ZFA has SA node. subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "cardiac pacemaker" EXACT [FMA:9477] synonym: "Koch's node" EXACT [FMA:9477] synonym: "node of Keith-Flack" EXACT [FMA:9477] synonym: "nodus sinuatrialis" EXACT LATIN [FMA:9477, FMA:TA] synonym: "nodus sinuatrialis" RELATED LATIN [Wikipedia:Sinoatrial_node] synonym: "SA nodal muscle tissue" EXACT [FMA:9477] synonym: "SA node" EXACT [FMA:9477] synonym: "sinoatrial node" EXACT [FMA:9477] synonym: "sinu-atrial node" EXACT [FMA:9477] synonym: "sinuatrial nodal muscle tissue" EXACT [FMA:9477] synonym: "sinuatrial node" EXACT [FMA:9477] synonym: "sinus node" EXACT [FMA:9477] synonym: "sinus node of Keith and Flack" EXACT [FMA:9477] xref: BTO:0004358 xref: EHDAA2:0004184 xref: EMAPA:35772 xref: FMA:9477 xref: GAID:561 xref: MA:0000097 xref: MESH:D012849 xref: NCIT:C33555 xref: OpenCyc:Mx4rOhejDGMcEd2AAABQjYGu0g xref: SCTID:277687007 xref: TAO:0005069 xref: UMLS:C0037189 {source="ncithesaurus:Sinoatrial_Node"} xref: Wikipedia:Sinoatrial_node xref: ZFA:0005069 is_a: UBERON:0003379 ! cardiac muscle of right atrium is_a: UBERON:0010131 {source="cjm"} ! conducting tissue of heart relationship: capable_of GO:0002027 ! regulation of heart rate relationship: capable_of_part_of GO:0060048 ! cardiac muscle contraction relationship: contributes_to_morphology_of UBERON:0002350 ! conducting system of heart relationship: in_taxon NCBITaxon:7742 ! Vertebrata relationship: part_of UBERON:0002350 {source="ZFA"} ! conducting system of heart property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/d/d2/Sinoatrial_node_low_mag.jpg xsd:anyURI property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/d/de/Sinoatrial_node_2_low_mag.jpg xsd:anyURI [Term] id: UBERON:0002352 name: atrioventricular node namespace: uberon def: "An area of conducting tissue between the atria and the ventricles of the heart that conducts the normal electrical impulse from the atria to the ventricles." [UBERON:cjm, Wikipedia:Atrioventricular_node] subset: efo_slim subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "A-V node" RELATED [EMAPA:35153] synonym: "Aschoff-Tawara node" EXACT [FMA:9478] synonym: "atrio-ventricular node" RELATED [EMAPA:35153] synonym: "atrioventricular nodal muscle tissue" EXACT [FMA:9478] synonym: "atriovetricular node" RELATED [TAO:0005070] synonym: "AV nodal muscle tissue" EXACT [FMA:9478] synonym: "AV node" EXACT [FMA:9478, MA:0000095] synonym: "downstream pacemaker" RELATED [ZFA:0005070] synonym: "node of Tawara" EXACT [FMA:9478] synonym: "nodus atrioventricularis" EXACT LATIN [FMA:TA] synonym: "nodus atrioventricularis" RELATED LATIN [Wikipedia:Atrioventricular_node] xref: BTO:0005689 xref: EFO:0000276 xref: EHDAA2:0004183 xref: EMAPA:35153 xref: FMA:9478 xref: GAID:558 xref: MA:0000095 xref: MAT:0000498 xref: MESH:D001283 xref: NCIT:C32161 xref: OpenCyc:Mx4rMfD91mMcEd2AAABQjYGu0g xref: SCTID:277688002 xref: TAO:0005070 xref: UMLS:C0004247 {source="ncithesaurus:Atrioventricular_Node"} xref: VHOG:0001474 xref: Wikipedia:Atrioventricular_node xref: ZFA:0005070 is_a: UBERON:0004491 ! cardiac muscle tissue of interatrial septum is_a: UBERON:0004493 ! cardiac muscle tissue of myocardium is_a: UBERON:0010131 {source="cjm"} ! conducting tissue of heart relationship: connected_to UBERON:0002085 ! interatrial septum relationship: connected_to UBERON:0005979 ! crista terminalis relationship: contributes_to_morphology_of UBERON:0002350 ! conducting system of heart relationship: part_of UBERON:0002350 ! conducting system of heart property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/5/50/ConductionsystemoftheheartwithouttheHeart.png xsd:anyURI property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/9/92/Gray501.png xsd:anyURI property_value: UBPROP:0000003 "Three major adaptations, or 'novel cardiac components', that were not present in the ancestor chordate heart tube can be distinguished in the lower vertebrate heart: the atrium, ventricle, and possibly the muscular sinus venosus. Furthermore, within the ventricular component a compact outer myocardial component and an interiorly localized extensive trabecular component can be distinguished. The specific activation of the ventricle adds to its complexity as follows. The depolarizing impulse travels rapidly from the atrioventricular node toward the apex and then toward the conal region, achieving activation from apex to base.[uncertain][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001474", ontology="VHOG", source="DOI:10.1152/physrev.00006.2003 Moorman AFM, Christoffels VM, Cardiac Chamber Formation: Development, Genes, and Evolution. Physiological Reviews (2003)", source="http://bgee.unil.ch/"} [Term] id: UBERON:0002354 name: cardiac Purkinje fiber namespace: uberon alt_id: UBERON:0004147 def: "The cardiac Purkinje fiber is part of the cardiac conduction system that receives signals from the bundle of His and innervates the ventricular cardiac muscle." [GO:0003165] subset: pheno_slim subset: uberon_slim synonym: "cardiac Purkinje fiber" EXACT [BTO:0001735, GO:0003165] synonym: "heart Purkinje fiber" RELATED [BTO:0001735] synonym: "myofibra conducens cardiacus" EXACT LATIN [] synonym: "Purkinje fiber" EXACT [FMA:9492, MA:0000096] synonym: "subendocardial branch" EXACT [Wikipedia:Purkinje_fiber] xref: BTO:0001735 xref: EMAPA:35718 xref: FMA:9492 xref: GAID:560 xref: MA:0000096 xref: MESH:D011690 xref: NCIT:C33430 xref: UMLS:C0034144 {source="ncithesaurus:Purkinje_Fiber"} xref: Wikipedia:Purkinje_fiber is_a: UBERON:0010131 {source="FMA"} ! conducting tissue of heart is_a: UBERON:0018649 ! cardiac muscle tissue of ventricle relationship: contributes_to_morphology_of UBERON:0002350 ! conducting system of heart relationship: has_part CL:0002068 {source="FMA"} ! Purkinje myocyte relationship: part_of UBERON:8000009 {source="https://github.com/obophenotype/uberon/issues/1785", source="https://orcid.org/0000-0001-5208-3432", source="https://orcid.org/0000-0002-9791-0064"} ! Purkinje fiber network property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/9/96/Gray498.png xsd:anyURI [Term] id: UBERON:0002355 name: pelvic region of trunk namespace: uberon def: "The lower segment of the trunk, inferioposterior to the abdomen proper, in the transition area between the trunk and the lower limbs." [http://en.wikipedia.org/wiki/Pelvis, http://orcid.org/0000-0002-6601-2165, https://github.com/obophenotype/uberon/issues/720] subset: efo_slim subset: pheno_slim subset: uberon_slim synonym: "lesser pelvis" EXACT [FMA:9578] synonym: "pelvic region" EXACT [] synonym: "pelvis" EXACT [FMA:9578, MA:0000030] synonym: "pelvis region" EXACT [] synonym: "true pelvis" EXACT [FMA:9578] xref: BTO:0001006 xref: CALOHA:TS-2227 xref: EFO:0002805 xref: EMAPA:35931 xref: EV:0100012 xref: FMA:9578 xref: GAID:87 xref: galen:Pelvis xref: http://en.wikipedia.org/wiki/Pelvis xref: http://linkedlifedata.com/resource/umls/id/C0030797 xref: http://www.snomedbrowser.com/Codes/Details/229765004 xref: MA:0000030 xref: MESH:A01.673 xref: NCIT:C12767 xref: OpenCyc:Mx4rvVjiTJwpEbGdrcN5Y29ycA xref: UMLS:C0030797 {source="ncithesaurus:Pelvis"} is_a: UBERON:0000475 ! organism subdivision relationship: has_part UBERON:0007832 ! pelvic girdle skeleton relationship: part_of UBERON:0002417 ! abdominal segment of trunk property_value: UBPROP:0000007 "pelvic" xsd:string property_value: UBPROP:0000012 "MA and FMA differ in what they consider to be parts of the pelvis. MA includes ureter, urethra, urinary bladder, reproductive organs" xsd:string {external_ontology="MA"} [Term] id: UBERON:0002357 name: serous pericardium namespace: uberon def: "Serous membrane which is divided into parietal and visceral serous pericardium." [http://orcid.org/0000-0002-6601-2165, Wikipedia:Serous_pericardium] def: "Serous membrane which is divided into parietal and visceral serous pericardium." [http://en.wikipedia.org/wiki/Serous_pericardium, http://orcid.org/0000-0002-6601-2165] subset: uberon_slim synonym: "pericardium serosum" RELATED LATIN [Wikipedia:Serous_pericardium] synonym: "pericardium serosum" RELATED LATIN [http://en.wikipedia.org/wiki/Serous_pericardium] synonym: "serous portion of pericardium" EXACT [FMA:9582] xref: EMAPA:19030 xref: FMA:9582 xref: http://www.snomedbrowser.com/Codes/Details/243954002 xref: MA:0002739 xref: SCTID:243954002 xref: Serous:pericardium xref: Wikipedia:Serous_pericardium is_a: CARO:0000003 ! connected anatomical structure is_a: UBERON:0000042 ! serous membrane relationship: attaches_to UBERON:0002359 {source="FMA"} ! fibrous pericardium relationship: connects UBERON:0002359 ! fibrous pericardium relationship: has_part UBERON:0002408 ! parietal serous pericardium relationship: has_part UBERON:0002425 ! visceral serous pericardium relationship: part_of RO:0002577 ! system relationship: part_of UBERON:0002406 {source="FMA"} ! pericardial sac [Term] id: UBERON:0002358 name: peritoneum namespace: uberon def: "A serous membrane that lines the peritoneal cavity[VHOG,modified]." [VHOG:0001257] subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "peritonaeum" RELATED [VHOG:0001257] xref: AAO:0010814 xref: BTO:0001472 xref: CALOHA:TS-2072 xref: EV:0100087 xref: FMA:9584 xref: GAID:18 xref: galen:Peritoneum xref: MA:0000449 xref: MESH:A01.047.025.600 xref: NCIT:C12770 xref: OpenCyc:Mx4rvjJ72ZwpEbGdrcN5Y29ycA xref: TAO:0005120 xref: UMLS:C0031153 {source="ncithesaurus:Peritoneum"} xref: VHOG:0001257 xref: Wikipedia:Peritoneum xref: XAO:0000139 xref: ZFA:0005120 is_a: UBERON:0000042 ! serous membrane intersection_of: UBERON:0000042 ! serous membrane intersection_of: part_of UBERON:0035820 ! peritoneal sac relationship: part_of UBERON:0003697 {source="MP"} ! abdominal wall relationship: part_of UBERON:0035820 ! peritoneal sac property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/5/5f/Gray1040.png xsd:anyURI property_value: editor_note "TODO - in ZFA is_a epithelium" xsd:string property_value: UBPROP:0000001 "An epithelium that lines the peritoneal cavity.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0005120", ontology="TAO", source="ZFIN:curator"} property_value: UBPROP:0000001 "Serous membrane that forms the lining of the abdominal cavity or the coelom. It covers most of the intra-abdominal organs, supports the abdominal organs, and serves as a conduit for their blood and lymph vessels and nerves. It is composed of a layer of mesothelium.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0010814", ontology="AAO", source="AAO:JMG"} property_value: UBPROP:0000007 "peritoneal" xsd:string property_value: UBPROP:0000012 "todo: check MA/EMAPA." xsd:string {external_ontology="MA"} [Term] id: UBERON:0002359 name: fibrous pericardium namespace: uberon def: "Membrane organ which is attached to the pericardial sac proper and the central tendon of diaphragm and is continuous with the pretracheal fascia.[FMA]" [FMA:9586] def: "Membrane organ which is attached to the pericardial sac proper and the central tendon of diaphragm and is continuous with the pretracheal fascia.[FMA]." [FMA:9586] subset: organ_slim subset: uberon_slim synonym: "fibrous portion of pericardium" EXACT [] synonym: "pericardium fibrosum" RELATED LATIN [Wikipedia:Fibrous_pericardium] synonym: "pericardium fibrosum" RELATED LATIN [http://en.wikipedia.org/wiki/Fibrous_pericardium] xref: EMAPA:19029 xref: Fibrous:pericardium xref: FMA:9586 xref: http://www.snomedbrowser.com/Codes/Details/243953008 xref: MA:0002738 xref: SCTID:243953008 xref: Wikipedia:Fibrous_pericardium is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000094 {source="FMA"} ! membrane organ is_a: UBERON:0005181 ! thoracic segment organ relationship: composed_primarily_of UBERON:0006815 {source="WP"} ! areolar connective tissue relationship: continuous_with UBERON:0002408 ! parietal serous pericardium relationship: has_part UBERON:0006815 ! areolar connective tissue relationship: part_of UBERON:0002407 {source="FMA"} ! pericardium property_value: UBPROP:0000010 "most superficial part of pericardium; continuous with the outer adventitial layer of the neighboring great blood vessels. [Wikipedia:Pericardium]" xsd:string [Term] id: UBERON:0002365 name: exocrine gland namespace: uberon def: "A gland that secretes products (excluding hormones and other chemical messengers) into ducts (duct glands) which lead directly into the external environment[WP]. Typical exocrine glands include sweat glands, salivary glands, mammary glands, stomach, liver, pancreas" [http://en.wikipedia.org/wiki/Exocrine_gland] def: "A gland that secretes products (excluding hormones and other chemical messengers) into ducts (duct glands) which lead directly into the external environment[WP]. Typical exocrine glands include sweat glands, salivary glands, mammary glands, stomach, liver, pancreas." [http://en.wikipedia.org/wiki/Exocrine_gland] def: "A gland that secretes products (excluding hormones and other chemical messengers) into ducts (duct glands) which lead directly into the external environment[WP]. Typical exocrine glands include sweat glands, salivary glands, mammary glands, stomach, liver, pancreas." [Wikipedia:Exocrine_gland] subset: organ_slim subset: pheno_slim subset: uberon_slim synonym: "ducted gland" EXACT [AEO:0000097] synonym: "glandula exocrina" EXACT LATIN [http://en.wikipedia.org/wiki/Exocrine_gland] synonym: "glandula exocrina" EXACT LATIN [Wikipedia:Exocrine_gland] xref: AEO:0000097 xref: BTO:0000765 xref: CALOHA:TS-2012 xref: EHDAA2:0003097 xref: EMAPA:35327 xref: Exocrine:gland xref: FMA:9596 xref: GAID:34 xref: http://linkedlifedata.com/resource/umls/id/C0015282 xref: http://www.snomedbrowser.com/Codes/Details/115976003 xref: MA:0002564 xref: MESH:D005088 xref: NCIT:C12712 xref: SCTID:115976003 xref: UMLS:C0015282 {source="ncithesaurus:Exocrine_Gland"} xref: Wikipedia:Exocrine_gland is_a: UBERON:0002530 ! gland intersection_of: UBERON:0002530 ! gland intersection_of: part_of UBERON:0002330 ! exocrine system relationship: has_part UBERON:0000058 ! duct relationship: part_of UBERON:0002330 ! exocrine system property_value: editor_note "Currently this is logically defined by the system it belongs to, but a better system may be base this on presence/absence of ducts. However, the dual nature of the liver should be taken into consideration here. Consider adding subclasses" xsd:string [Term] id: UBERON:0002368 name: endocrine gland namespace: uberon def: "Endocrine glands are glands of the endocrine system that secrete their products directly into the circulatory system rather than through a duct.[WP, modified]." [Wikipedia:Endocrine_gland] subset: organ_slim subset: pheno_slim subset: uberon_slim synonym: "ductless gland" EXACT [AEO:0000098] synonym: "ductless gland" RELATED [Wikipedia:Ductless_gland] synonym: "glandula endocrina" EXACT [] synonym: "glandulae endocrinae" RELATED LATIN [Wikipedia:Endocrine_gland] xref: AEO:0000098 xref: BTO:0001488 xref: CALOHA:TS-1300 xref: EHDAA2:0003098 xref: EMAPA:35999 xref: FMA:9602 xref: GAID:335 xref: MA:0002563 xref: MESH:D004702 xref: NCIT:C12704 xref: OpenCyc:Mx4rvbkiRZwpEbGdrcN5Y29ycA xref: SCTID:40818001 xref: UMLS:C0014133 {source="ncithesaurus:Endocrine_Gland"} xref: Wikipedia:Endocrine_gland is_a: UBERON:0002530 ! gland intersection_of: UBERON:0002530 ! gland intersection_of: part_of UBERON:0000949 ! endocrine system relationship: capable_of GO:0060986 ! endocrine hormone secretion relationship: part_of UBERON:0000949 ! endocrine system property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/d/da/Illu_endocrine_system.png xsd:anyURI [Term] id: UBERON:0002371 name: bone marrow namespace: uberon def: "The soft tissue that fills the cavities of bones." [MGI:cwg, MP:0002397] subset: efo_slim subset: pheno_slim subset: uberon_slim synonym: "medulla of bone" RELATED [BTO:0000141] synonym: "medulla ossea" EXACT LATIN [BTO:0000141, FMA:9608] synonym: "medulla ossium" EXACT LATIN [BTO:0000141, http://en.wikipedia.org/wiki/Bone_marrow] synonym: "medulla ossium" EXACT LATIN [BTO:0000141, Wikipedia:Bone_marrow] synonym: "medullary bone" RELATED [] xref: AAO:0011007 xref: Bone:marrow xref: BTO:0000141 xref: BTO:0000829 xref: CALOHA:TS-0087 xref: EFO:0000868 xref: EMAPA:32760 xref: EV:0100046 xref: FMA:9608 xref: GAID:1287 xref: galen:BoneMarrow xref: http://linkedlifedata.com/resource/umls/id/C0005953 xref: http://www.snomedbrowser.com/Codes/Details/421320006 xref: MA:0000134 xref: MAT:0000084 xref: MESH:D001853 xref: MIAA:0000084 xref: NCIT:C12431 xref: OpenCyc:Mx4rvVm-FpwpEbGdrcN5Y29ycA xref: SCTID:421320006 xref: UMLS:C0005953 {source="ncithesaurus:Bone_Marrow"} xref: VHOG:0001218 xref: Wikipedia:Bone_marrow xref: XAO:0000123 is_a: UBERON:0000479 ! tissue is_a: UBERON:0004120 ! mesoderm-derived structure intersection_of: UBERON:0000479 ! tissue intersection_of: has_part UBERON:0012429 ! hematopoietic tissue intersection_of: part_of UBERON:0001474 ! bone element relationship: has_part CL:0002092 ! bone marrow cell relationship: has_part UBERON:0012429 ! hematopoietic tissue relationship: part_of UBERON:0001474 ! bone element relationship: part_of UBERON:0002390 {source="FMA", source="MA"} ! hematopoietic system relationship: part_of UBERON:0002405 ! immune system property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/7/74/Gray72-en.svg xsd:anyURI property_value: editor_note "consider placement of NCIT:C53466 medullary bone" xsd:string property_value: editor_note "TODO - create superclass for bone marrow / head kidney. both are portions of tissue in the hematopoetic system. also consider adding as subclass of zone of bone organ for consistency with FMA. See also: Leydig and epigonal organs" xsd:string property_value: UBPROP:0000003 "The bone marrow is the hematopoietic organ in all vertebrates but fishes, in which hematopoiesis occurs in the kidney.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001218", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1146/annurev.cellbio.22.010605.093317 Hartenstein V, Blood Cells and Blood Cell Development in the Animal Kingdom. Annual Review of Cell and Developmental Biology (2006)"} property_value: UBPROP:0000003 "The bone marrow is the hematopoietic organ in all vertebrates but fishes, in which hematopoiesis occurs in the kidney.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001218", ontology="VHOG", source="DOI:10.1146/annurev.cellbio.22.010605.093317 Hartenstein V, Blood Cells and Blood Cell Development in the Animal Kingdom. Annual Review of Cell and Developmental Biology (2006)", source="http://bgee.unil.ch/"} property_value: UBPROP:0000009 "In adults, marrow in large bones produces new blood cells[Wikipedia:Bone_marrow]" xsd:string [Term] id: UBERON:0002376 name: cranial muscle namespace: uberon alt_id: UBERON:0003899 def: "Any skeletal muscle that is part of the head region." [http://orcid.org/0000-0002-6601-2165] comment: defined generically so could in theory encompass FBbt:00003260 'skeletal muscle of head', or the muscle of a starfish Aristotle's lantern, but we restrict this to craniates. Skeletal muscles of the head originate from the non-segmented head mesoderm (Noden, 1983; Wachtler et al., 1984) subset: efo_slim subset: uberon_slim subset: vertebrate_core synonym: "adult head muscle organ" NARROW [OBOL:automatic] synonym: "cephalic muscle" EXACT [ZFA:0001652] synonym: "cephalic musculature" EXACT [] synonym: "cranial muscle" RELATED [ZFA:0001652] synonym: "head muscle" EXACT [MA:0000578] synonym: "head muscle organ" EXACT [OBOL:automatic] synonym: "head muscles" RELATED [] synonym: "muscle of head" EXACT [FMA:9616] synonym: "muscle organ of adult head" EXACT [OBOL:automatic] synonym: "muscle organ of head" EXACT [OBOL:automatic] synonym: "musculus caput" EXACT [] xref: AAO:0000107 xref: BTO:0000021 xref: EFO:0003524 xref: EHDAA2:0000322 xref: EMAPA:18172 xref: FMA:9616 xref: http://www.snomedbrowser.com/Codes/Details/244718003 xref: MA:0000578 xref: SCTID:244718003 xref: ZFA:0001652 is_a: CARO:0000003 ! connected anatomical structure is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0010959 ! craniocervical muscle intersection_of: UBERON:0014892 ! skeletal muscle organ intersection_of: attaches_to UBERON:0003129 ! skull intersection_of: part_of UBERON:0000033 ! head relationship: attaches_to UBERON:0003129 ! skull relationship: develops_from UBERON:0006904 {source="EHDAA2-abduced"} ! head mesenchyme from mesoderm relationship: has_developmental_contribution_from UBERON:0002342 {gci_relation="part_of", gci_filler="NCBITaxon:7742", source="https://github.com/obophenotype/uberon/wiki/The-neural-crest"} ! neural crest relationship: has_developmental_contribution_from UBERON:0002342 {gci_relation="part_of", gci_filler="NCBITaxon:7742", source="https://github.com/obophenotype/uberon/wiki/The-neural-crest"} ! neural crest relationship: part_of UBERON:0004461 {source="https://github.com/obophenotype/uberon/wiki/Inferring-part-of-relationships"} ! skeletal musculature of head relationship: part_of UBERON:0004461 {source="https://github.com/obophenotype/uberon/wiki/Inferring-part-of-relationships"} ! skeletal musculature of head [Term] id: UBERON:0002377 name: muscle of neck namespace: uberon def: "Any muscle that is part of the cervical (neck) region." [http://orcid.org/0000-0002-6601-2165] subset: pheno_slim subset: uberon_slim synonym: "muscle organ of neck" EXACT [OBOL:automatic] synonym: "muscle organ of neck (volume)" EXACT [OBOL:automatic] synonym: "neck (volume) muscle organ" EXACT [OBOL:automatic] synonym: "neck muscle" EXACT [] synonym: "neck muscle organ" EXACT [OBOL:automatic] xref: EMAPA:36050 xref: FMA:9617 xref: GAID:149 xref: http://linkedlifedata.com/resource/umls/id/C0027532 xref: MA:0000587 xref: MESH:D009334 xref: NCIT:C33163 xref: UMLS:C0027532 {source="ncithesaurus:Neck_Muscle"} is_a: UBERON:0010959 ! craniocervical muscle intersection_of: UBERON:0014892 ! skeletal muscle organ intersection_of: part_of UBERON:0000974 ! neck relationship: part_of UBERON:0004465 {source="prolog"} ! musculature of neck [Term] id: UBERON:0002378 name: muscle of abdomen namespace: uberon def: "Muscle (organ) which is a part of the abdomen. Examples: external oblique, rectus abdominis." [Wikipedia:Abdominal_muscle] def: "Muscle (organ) which is a part of the abdomen. Examples: external oblique, rectus abdominis." [http://en.wikipedia.org/wiki/Abdominal_muscle] subset: pheno_slim subset: uberon_slim synonym: "abdomen muscle" EXACT [] synonym: "abdomen muscle organ" EXACT [OBOL:automatic] synonym: "abdominal muscle" EXACT [] synonym: "abdominal wall muscle" EXACT [] synonym: "abdominal wall musculature" RELATED [EMAPA:35103] synonym: "muscle organ of abdomen" EXACT [OBOL:automatic] xref: Abdominal:muscle xref: BTO:0001261 xref: EMAPA:35103 xref: FMA:9620 xref: GAID:89 xref: http://linkedlifedata.com/resource/umls/id/C0000739 xref: http://www.snomedbrowser.com/Codes/Details/361352008 xref: MA:0000520 xref: MESH:D000009 xref: NCIT:C32040 xref: OpenCyc:Mx4rvlygNJwpEbGdrcN5Y29ycA xref: SCTID:361352008 xref: UMLS:C0000739 {source="ncithesaurus:Abdominal_Muscle"} xref: Wikipedia:Abdominal_muscle is_a: UBERON:0003833 ! abdominal segment muscle is_a: UBERON:0005172 ! abdomen element intersection_of: UBERON:0014892 ! skeletal muscle organ intersection_of: part_of UBERON:0000916 ! abdomen relationship: part_of UBERON:0002343 {source="prolog"} ! abdomen musculature relationship: part_of UBERON:0003697 ! abdominal wall [Term] id: UBERON:0002384 name: connective tissue namespace: uberon def: "Tissue with cells that deposit non-polarized extracellular matrix including connective tissue fibers and ground substance." [GO_REF:0000034, http://dx.plos.org/10.1371/journal.pone.0051070, https://github.com/obophenotype/uberon/issues/23, PSPUB:0000170, VSAO:0000017] subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "Bindegewebe" RELATED [BTO:0000421] synonym: "portion of connective tissue" EXACT [FMA:9640] synonym: "textus connectivus" EXACT [] xref: AAO:0000098 xref: BTO:0000421 xref: CALOHA:TS-2009 xref: EFO:0000952 xref: EMAPA:35251 xref: FMA:9640 xref: GAID:100 xref: galen:ConnectiveTissue xref: http://linkedlifedata.com/resource/umls/id/C0009780 xref: http://www.snomedbrowser.com/Codes/Details/361919005 xref: MA:0000011 xref: MAT:0000301 xref: MESH:D003238 xref: MIAA:0000301 xref: NCIT:C12374 xref: OpenCyc:Mx4rv-aBgZwpEbGdrcN5Y29ycA xref: SCTID:361919005 xref: TAO:0001641 xref: UMLS:C0009780 {source="ncithesaurus:Connective_Tissue"} xref: VSAO:0000017 xref: XAO:0001017 xref: ZFA:0001632 is_a: UBERON:0000479 ! tissue relationship: only_in_taxon NCBITaxon:6072 ! Eumetazoa property_value: http://purl.org/dc/elements/1.1/contributor https://github.com/cmungall property_value: http://purl.org/dc/elements/1.1/contributor https://github.com/wdahdul property_value: UBPROP:0000001 "One of the four types of tissue in traditional classifications. It is largely a category of exclusion rather than one with a precise definition, but there are certain characteristics shared by all or most tissues in this category, such as involvement in structure and support, derived from mesoderm, and characterized largely by the traits of non-living tissue.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0000098", ontology="AAO", source="AAO:LAP"} property_value: UBPROP:0000001 "Portion of tissue that consists of mesodermally derived cells and intercellular matrix comprised of protein fibers and carbohydrates, which supports, ensheathes and binds together other tissues.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0001641", ontology="TAO", source="TAO:wd"} property_value: UBPROP:0000001 "Tissue with cells that deposit non-polarized extracellular matrix including connective tissue fibers and ground substance.[VSAO]" xsd:string {date_retrieved="2012-08-14", external_class="VSAO:0000017", ontology="VSAO", source="GO_REF:0000034, http://dx.plos.org/10.1371/journal.pone.0051070", source="PSPUB:0000170"} property_value: UBPROP:0000012 "MA also has set of connective tissues" xsd:string {external_ontology="MA"} [Term] id: UBERON:0002385 name: muscle tissue namespace: uberon def: "Muscle tissue is a contractile tissue made up of actin and myosin fibers[GO]." [GO:0060537, http://en.wikipedia.org/wiki/Muscle_tissue, https://sourceforge.net/tracker/index.php?func=detail&aid=2801266&group_id=36855&atid=440764] def: "Muscle tissue is a contractile tissue made up of actin and myosin fibers[GO]." [GO:0060537, https://sourceforge.net/tracker/index.php?func=detail&aid=2801266&group_id=36855&atid=440764, Wikipedia:Muscle_tissue] comment: Vertebrate muscle is categorized into three major muscle types defined by their structural and functional properties: skeletal, cardiac and smooth. In Dmel the counterparts are somatic, heart/cardiac and visceral. Here we take a cell type based approach. subset: uberon_slim synonym: "muscular tissue" EXACT SENSU [] synonym: "portion of muscle tissue" EXACT [FMA:9641] synonym: "textus muscularis" EXACT [] xref: AAO:0000306 xref: AEO:0000122 xref: CALOHA:TS-0642 xref: EHDAA2:0003122 xref: EMAPA:32715 xref: FMA:9641 xref: galen:MuscleTissue xref: http://linkedlifedata.com/resource/umls/id/C2328219 xref: http://www.snomedbrowser.com/Codes/Details/91727004 xref: MA:0002437 xref: MESH:D009132 xref: Muscle:tissue xref: NCIT:C12435 xref: SCTID:91727004 xref: UMLS:C2328219 {source="ncithesaurus:Muscle_Tissue"} xref: Wikipedia:Muscle_tissue is_a: UBERON:0000479 ! tissue is_a: UBERON:0004120 ! mesoderm-derived structure intersection_of: UBERON:0000479 ! tissue intersection_of: composed_primarily_of CL:0000187 ! muscle cell disjoint_from: UBERON:0003714 ! neural tissue relationship: capable_of GO:0006936 ! muscle contraction relationship: composed_primarily_of CL:0000187 ! muscle cell relationship: only_in_taxon NCBITaxon:6072 ! Eumetazoa relationship: part_of UBERON:0001015 ! musculature property_value: RO:0002171 UBERON:0003714 property_value: UBPROP:0000001 "One of the four types of tissue in traditional classifications. Tissue that contains cells with contractile filaments that move past each other and change the size of the cell. Muscle tissue also is separated into three distinct categories.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0000306", ontology="AAO", source="AAO:LAP"} [Term] id: UBERON:0002390 name: hematopoietic system namespace: uberon def: "Anatomical system that is involved in the production of hematopoietic cells." [Wikipedia:Haematopoiesis] def: "Anatomical system that is involved in the production of hematopoietic cells." [http://en.wikipedia.org/wiki/Haematopoiesis] subset: efo_slim subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "Blutbildungssystem" RELATED [BTO:0000570] synonym: "haematological system" EXACT [] synonym: "haematopoietic system" RELATED [] synonym: "haemopoietic system" EXACT [] synonym: "hematological system" RELATED [] synonym: "hematolymphoid system" RELATED [] synonym: "hemopoietic system" RELATED [] synonym: "organa haemopoietica" EXACT [] xref: AAO:0011002 xref: BTO:0000570 xref: CALOHA:TS-0449 xref: EFO:0000798 xref: EMAPA:35402 xref: EV:0100045 xref: FMA:9667 xref: GAID:1008 xref: http://en.wikipedia.org/wiki/Haematopoiesis xref: http://linkedlifedata.com/resource/umls/id/C0018957 xref: http://www.snomedbrowser.com/Codes/Details/362587009 xref: MA:0002434 xref: MAT:0000022 xref: MESH:D006413 xref: MIAA:0000022 xref: NCIT:C12909 xref: SCTID:362587009 xref: TAO:0005023 xref: UMLS:C0018957 {source="ncithesaurus:Hematopoietic_System"} xref: VHOG:0001624 xref: Wikipedia:Haematopoiesis xref: XAO:0000122 xref: ZFA:0005023 is_a: UBERON:0000467 ! anatomical system is_a: UBERON:0004120 ! mesoderm-derived structure disjoint_from: UBERON:0002405 ! immune system disjoint_from: UBERON:0002416 ! integumental system disjoint_from: UBERON:0004456 ! entire sense organ system relationship: develops_from UBERON:0003061 {evidence="definitional"} ! blood island relationship: only_in_taxon NCBITaxon:7711 ! Chordata relationship: part_of UBERON:0002193 {source="FMA"} ! hemolymphoid system property_value: UBPROP:0000001 "Anatomical system that consists of the blood and blood forming tissues.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0011002", ontology="AAO", source="AAO:EJS"} property_value: UBPROP:0000003 "Zebrafish developmental hematopoiesis shows close correspondence to the development of the mammalian hematopoietic system and is regulated by conserved molecular pathways.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001624", ontology="VHOG", source="DOI:10.1016/j.coph.2010.05.004 Ellett F, Lieschke GJ, Zebrafish as a model for vertebrate hematopoiesis. Current Opinion in Pharmacology (2010)", source="http://bgee.unil.ch/"} property_value: UBPROP:0000003 "Zebrafish developmental hematopoiesis shows close correspondence to the development of the mammalian hematopoietic system and is regulated by conserved molecular pathways.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001624", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1016/j.coph.2010.05.004 Ellett F, Lieschke GJ, Zebrafish as a model for vertebrate hematopoiesis. Current Opinion in Pharmacology (2010)"} property_value: UBPROP:0000007 "hematopoietic" xsd:string property_value: UBPROP:0000008 "In humans this is primarily the bone marrow, spleen, tonsils, and lymph nodes" xsd:string {source="WP"} [Term] id: UBERON:0002400 name: parietal pleura namespace: uberon def: "The outer serous membrane of the pulmonary pleural." [UBERON:cjm, Wikipedia:Pulmonary_pleurae] comment: the part of the pleura external to the visceral pleura. It lines the inner surface of the chest wall, covers the diaphragm, and is reflected over the structures occupying the middle of the thorax subset: pheno_slim subset: uberon_slim synonym: "pleura parietalis" RELATED LATIN [Wikipedia:Parietal_pleura] xref: EMAPA:16776 xref: FMA:9733 xref: MA:0002488 xref: NCIT:C33273 xref: OpenCyc:Mx4rvv2Uq5wpEbGdrcN5Y29ycA xref: SCTID:361998003 xref: UMLS:C0225777 {source="ncithesaurus:Parietal_Pleura"} xref: VHOG:0001495 xref: Wikipedia:Parietal_pleura is_a: UBERON:0000077 ! mixed endoderm/mesoderm-derived structure is_a: UBERON:0004923 ! organ component layer intersection_of: UBERON:0004923 ! organ component layer intersection_of: adjacent_to UBERON:0002224 ! thoracic cavity intersection_of: part_of UBERON:0000977 ! pleura relationship: adjacent_to UBERON:0002224 ! thoracic cavity relationship: contributes_to_morphology_of UBERON:0000977 ! pleura relationship: innervated_by UBERON:0003727 ! intercostal nerve relationship: part_of UBERON:0000977 ! pleura [Term] id: UBERON:0002401 name: visceral pleura namespace: uberon def: "The inner serous membrane of the pulmonary pleural. The visceral pleura lines the lungs." [UBERON:cjm, Wikipedia:Pulmonary_pleurae] subset: pheno_slim subset: uberon_slim synonym: "lung mesothelium" RELATED [EHDAA2:0002205] synonym: "lung pleura" RELATED [] synonym: "pleura pulmonalis" EXACT LATIN [FMA:9734, FMA:TA] synonym: "pleura visceralis" EXACT LATIN [Wikipedia:Visceral_pleura] synonym: "pleura visceralis (pulmonalis)" EXACT [] synonym: "pulmonary pleura" RELATED INCONSISTENT [FMA:9734] synonym: "pulmonary visceral pleura" EXACT [] xref: EHDAA2:0002205 xref: EMAPA:16777 xref: FMA:9734 xref: MA:0002489 xref: NCIT:C33881 xref: OpenCyc:Mx4rwNFqppwpEbGdrcN5Y29ycA xref: SCTID:361997008 xref: UMLS:C0225776 {source="ncithesaurus:Visceral_Pleura"} xref: VHOG:0001496 is_a: CARO:0000003 ! connected anatomical structure is_a: UBERON:0000077 ! mixed endoderm/mesoderm-derived structure is_a: UBERON:0022350 ! visceral serous membrane intersection_of: UBERON:0004923 ! organ component layer intersection_of: adjacent_to UBERON:0002048 ! lung intersection_of: part_of UBERON:0000977 ! pleura relationship: adjacent_to UBERON:0002048 ! lung relationship: attaches_to UBERON:0008946 ! lung parenchyma relationship: contributes_to_morphology_of UBERON:0000977 ! pleura relationship: part_of UBERON:0000977 ! pleura relationship: part_of UBERON:0002048 {source="FMA"} ! lung property_value: UBPROP:0000001 "Each lung is invested by an exceedingly delicate serous membrane, the pleura, which is arranged in the form of a closed invaginated sac. A portion of the serous membrane covers the surface of the lung and dips into the fissures between its lobes; it is called the pulmonary pleura (or visceral pleura). The visceral pleura is attached directly to the lungs[Wikipedia:Visceral_pleura]." xsd:string {source="Wikipedia:Visceral_pleura"} property_value: UBPROP:0000012 "FMA treats this as part of the lungs" xsd:string {external_ontology="FMA"} [Term] id: UBERON:0002402 name: pleural cavity namespace: uberon def: "The fluid-filled cavity that lies between the visceral and parietal pleurae." [https://github.com/obophenotype/uberon/issues/86, Wikipedia:Pleural_cavity] subset: pheno_slim subset: uberon_slim synonym: "cavitas pleuralis" EXACT LATIN [Wikipedia:Pleural_cavity] synonym: "cavitum pleuralae" RELATED LATIN [Wikipedia:Pleural_cavity] synonym: "cavitum pleurale" RELATED LATIN [Wikipedia:Pleural_cavity] xref: BTO:0004422 xref: EHDAA2:0001475 xref: EMAPA:16773 xref: EMAPA:16774 xref: FMA:9740 xref: GAID:95 xref: MA:0000055 xref: MESH:A01.911.800.650 xref: NCIT:C12840 xref: OpenCyc:Mx4rwCKAppwpEbGdrcN5Y29ycA xref: SCTID:361999006 xref: UMLS:C0178802 {source="ncithesaurus:Pleural_Cavity"} xref: VHOG:0000581 xref: Wikipedia:Pleural_cavity is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0035809 ! serous cavity intersection_of: UBERON:0002553 ! anatomical cavity intersection_of: luminal_space_of UBERON:0009778 ! pleural sac relationship: adjacent_to UBERON:0002400 ! parietal pleura relationship: adjacent_to UBERON:0002401 ! visceral pleura relationship: develops_from UBERON:0003887 {source="Wikipedia"} ! intraembryonic coelom relationship: luminal_space_of UBERON:0009778 ! pleural sac property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/a/ab/Gray965.png xsd:anyURI property_value: UBPROP:0000003 "In hagfishes a transverse septum extends upward from the ventral body wall posterior to the heart, partly separating an anterior pericardial cavity from a larger peritoneal cavity. (...) These basic relationships have not been modified by urodeles. The small pericardial cavity remains far forward where it is separated by a transverse septum from the principal coelom, which may now be called a pleuroperitoneal cavity because slender lungs are present. (...) The heart [of other tetrapods] is separated from the lungs (and liver if present) by more or less horizontal partitions that have their origin in the embryo as folds on the serous membrane of the right and left lateral body walls. These grow out to join in the midline of the body. They are called lateral mesocardia (birds) or pleuropericardial membranes. Posteriorly they join the transverse septum to form the adult pericardial membrane, or pericardium. (...) In their partitioning of their coelom, embryonic mammals resemble first early fishes (incomplete partition, posterior to heart, consisting of the transverse septum) and then reptiles (pericardium derived from transverse septum and pleuropericardial membranes). Mammals then separate paired pleural cavities from the peritoneal cavity by a diaphragm. The ventral portion of this organ comes from the transverse septum. The dorsal portion is derived from the dorsal mesentery and from still another pair of outgrowths from the lateral body wall, the pleuroperitoneal membranes.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000581", ontology="VHOG", source="ISBN:978-0471090588 Hildebrand M, Analysis of vertebrate structure (1983) p.205-206", source="http://bgee.unil.ch/"} property_value: UBPROP:0000009 "The contraction of the diaphragm creates a negative pressure within the pleural cavity which forces the lungs to expand resulting in passive exhalation and active inhalation. This breathing process can be made forceful through the contraction of the external intercostal muscles which forces the rib cage to expand and add to the negative pressure in the pleural cavity causing the lungs to fill with air. The fluid in the cavity provides lubrication and cushioning" xsd:string property_value: UBPROP:0000012 "the EHDAA2 class of the same is not equivalent. See https://github.com/obophenotype/uberon/issues/86" xsd:string {external_ontology="EHDAA2"} [Term] id: UBERON:0002405 name: immune system namespace: uberon def: "Anatomical system that protects the body from foreign substances, cells, and tissues by producing the immune response and that includes especially the thymus, spleen, lymphoid tissue, lymphocytes including the B cells and T cells, and antibodies." [http://en.wikipedia.org/wiki/Immune_system] def: "Anatomical system that protects the body from foreign substances, cells, and tissues by producing the immune response and that includes especially the thymus, spleen, lymphoid tissue, lymphocytes including the B cells and T cells, and antibodies." [Wikipedia:Immune_system] subset: pheno_slim subset: uberon_slim subset: vertebrate_core xref: AAO:0011003 xref: BILA:0000104 xref: BTO:0005810 xref: FMA:9825 xref: GAID:328 xref: http://linkedlifedata.com/resource/umls/id/C0020962 xref: http://www.snomedbrowser.com/Codes/Details/362590003 xref: Immune:system xref: MA:0002711 xref: MESH:D007107 xref: NCIT:C12735 xref: OpenCyc:Mx4rvWNkm5wpEbGdrcN5Y29ycA xref: SCTID:362590003 xref: TAO:0001159 xref: UMLS:C0020962 {source="ncithesaurus:Immune_System"} xref: VHOG:0001247 xref: Wikipedia:Immune_system xref: XAO:0003152 xref: ZFA:0001159 is_a: UBERON:0000467 ! anatomical system disjoint_from: UBERON:0002416 ! integumental system disjoint_from: UBERON:0004456 ! entire sense organ system relationship: capable_of GO:0002376 ! immune system process relationship: existence_ends_during UBERON:0000066 ! fully formed stage relationship: protects UBERON:0000468 ! multicellular organism property_value: UBPROP:0000003 "The antibody-based immune system defined by the presence of the major histocompatibility complex (MHC), T cell receptor (TCR), B cell receptor (BCR) or recombination activating genes (RAGs) is known beginning from jawed fishes.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001247", ontology="VHOG", source="http://bgee.unil.ch/", source="PMID:21046016 Dzik JM, The ancestry and cumulative evolution of immune reactions. Acta biochimica Polonica (2010)"} property_value: UBPROP:0000003 "The antibody-based immune system defined by the presence of the major histocompatibility complex (MHC), T cell receptor (TCR), B cell receptor (BCR) or recombination activating genes (RAGs) is known beginning from jawed fishes.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001247", ontology="VHOG", source="PMID:21046016 Dzik JM, The ancestry and cumulative evolution of immune reactions. Acta biochimica Polonica (2010)", source="http://bgee.unil.ch/"} [Term] id: UBERON:0002406 name: pericardial sac namespace: uberon def: "A double-walled sac containing the heart and the roots of the great vessels." [http://en.wikipedia.org/wiki/Pericardium, https://github.com/obophenotype/uberon/issues/86] def: "A double-walled sac containing the heart and the roots of the great vessels." [https://github.com/obophenotype/uberon/issues/86, Wikipedia:Pericardium] def: "a double-walled sac containing the heart and the roots of the great vessels." [http://en.wikipedia.org/wiki/Pericardium, https://github.com/obophenotype/uberon/issues/86] subset: uberon_slim subset: vertebrate_core synonym: "pericardium" RELATED [] xref: FMA:9868 xref: http://www.snomedbrowser.com/Codes/Details/361326002 xref: RETIRED_EHDAA2:0001443 xref: SCTID:361326002 xref: TAO:0000054 is_a: UBERON:0005181 ! thoracic segment organ is_a: UBERON:0005906 ! serous sac intersection_of: UBERON:0005906 ! serous sac intersection_of: has_part UBERON:0001074 ! pericardial cavity intersection_of: has_part UBERON:0002357 ! serous pericardium relationship: has_part UBERON:0001074 ! pericardial cavity relationship: has_part UBERON:0002357 ! serous pericardium relationship: part_of UBERON:0002407 ! pericardium relationship: surrounded_by UBERON:0002359 {source="FMA"} ! fibrous pericardium property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/7/7e/Gray489.png xsd:anyURI [Term] id: UBERON:0002407 name: pericardium namespace: uberon def: "The combination of pericardial sac (a double-walled sac containing the heart and the roots of the great vessels) plus fibrous pericardium." [http://orcid.org/0000-0002-6601-2165, Wikipedia:Pericardium] def: "The combination of pericardial sac (a double-walled sac containing the heart and the roots of the great vessels) plus fibrous pericardium." [http://en.wikipedia.org/wiki/Pericardium, http://orcid.org/0000-0002-6601-2165] subset: efo_slim subset: pheno_slim subset: uberon_slim subset: vertebrate_core xref: AAO:0010817 xref: BSA:0000090 xref: BTO:0000717 xref: CALOHA:TS-0761 xref: EFO:0000820 xref: EHDAA:5376 xref: EMAPA:16133 xref: EV:0100023 xref: FMA:9869 xref: GAID:569 xref: galen:Pericardium xref: http://en.wikipedia.org/wiki/Pericardium xref: http://linkedlifedata.com/resource/umls/id/C0031050 xref: http://www.snomedbrowser.com/Codes/Details/181295003 xref: MA:0000099 xref: MAT:0000454 xref: MESH:D010496 xref: NCIT:C13005 xref: OpenCyc:Mx4rvoCLgJwpEbGdrcN5Y29ycA xref: RETIRED_EHDAA2:0001443 xref: SCTID:181295003 xref: TAO:0000054 xref: UMLS:C0031050 {source="ncithesaurus:Pericardium"} xref: VHOG:0001280 xref: Wikipedia:Pericardium xref: XAO:0004182 xref: ZFA:0000054 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000481 ! multi-tissue structure relationship: has_part UBERON:0002359 ! fibrous pericardium relationship: has_part UBERON:0002406 ! pericardial sac relationship: part_of UBERON:0015410 {source="MA"} ! heart plus pericardium relationship: surrounds UBERON:0002349 ! myocardium property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/7/7e/Gray489.png xsd:anyURI property_value: UBPROP:0000001 "Peritoneum that surrounds the heart.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0010817", ontology="AAO", source="AAO:JMG"} property_value: UBPROP:0000007 "pericardial" xsd:string property_value: UBPROP:0000012 "In GO the concept of pericardium is developmental implicitly epithelial, but here it represents a multi-tissue structure encompassing the sac (epithelium plus connective) and cavity" xsd:string {external_ontology="FMA"} property_value: UBPROP:0000012 "this class denotes a combination of fibrous PC + PC sac (itself a combination of cavity, epithelium and connective tissue). Many sources use the term 'pericardium' to denote either just the serous membrane (ZFA) or the epithelium (GO)" xsd:string {external_ontology="ZFA"} property_value: UBPROP:0000012 "we follow FMA in dividing pericardium into pericardial sac and fibrous pericardium" xsd:string {external_ontology="FMA"} [Term] id: UBERON:0002408 name: parietal serous pericardium namespace: uberon def: "Parietal serous membrane which is part of the pericardium and forms the outer layer of the pericardial sac." [http://orcid.org/0000-0002-6601-2165] subset: pheno_slim subset: uberon_slim synonym: "lamina parietalis (pericardii serosum)" EXACT [] synonym: "lamina parietalis pericardii" EXACT LATIN [FMA:9870, FMA:TA] synonym: "parietal layer of serous pericardium" EXACT [] synonym: "parietal pericardium" EXACT [VHOG:0000537] synonym: "pericardial sac" RELATED INCONSISTENT [https://doi.org/10.5962/bhl.title.1013] synonym: "pericardial sac" RELATED INCONSISTENT [DOI:10.5962/bhl.title.1013] xref: EHDAA:3422 xref: EHDAA:5378 xref: EMAPA:19031 xref: FMA:9870 xref: http://linkedlifedata.com/resource/umls/id/C0225969 xref: http://www.snomedbrowser.com/Codes/Details/243956000 xref: MA:0000483 xref: NCIT:C94500 xref: Parietal:pericardium xref: SCTID:243956000 xref: UMLS:C0225969 {source="ncithesaurus:Parietal_Pericardium"} xref: VHOG:0000537 xref: Wikipedia:Parietal_pericardium is_a: UBERON:0022351 ! parietal serous membrane intersection_of: UBERON:0022351 ! parietal serous membrane intersection_of: part_of UBERON:0002357 ! serous pericardium relationship: attaches_to UBERON:0006670 {gci_relation="part_of", gci_filler="NCBITaxon:40674", source="FMA"} ! central tendon of diaphragm relationship: part_of UBERON:0002357 ! serous pericardium property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/7/7e/Gray489.png xsd:anyURI [Term] id: UBERON:0002409 name: pericardial fluid namespace: uberon def: "Transudate contained in the pericardial cavity.[FMA]" [FMA:9887, http://en.wikipedia.org/wiki/Pericardial_fluid] def: "Transudate contained in the pericardial cavity.[FMA]." [FMA:9887, Wikipedia:Pericardial_fluid] def: "Transudate contained in the pericardial cavity.[FMA]." [FMA:9887, http://en.wikipedia.org/wiki/Pericardial_fluid] subset: uberon_slim xref: BTO:0001016 xref: FMA:9887 xref: MA:0002530 xref: Pericardial:fluid xref: Wikipedia:Pericardial_fluid is_a: UBERON:0007794 {source="FMA"} ! secretion of serous gland is_a: UBERON:0036217 ! coelomic fluid intersection_of: UBERON:0000463 ! organism substance intersection_of: produced_by UBERON:0002425 ! visceral serous pericardium relationship: located_in UBERON:0001074 ! pericardial cavity relationship: produced_by UBERON:0002425 ! visceral serous pericardium [Term] id: UBERON:0002410 name: autonomic nervous system namespace: uberon def: "The autonomic nervous system is composed of neurons that are not under conscious control, and is comprised of two antagonistic components, the sympathetic and parasympathetic nervous systems. The autonomic nervous system regulates key functions including the activity of the cardiac (heart) muscle, smooth muscles (e.g. of the gut), and glands[GO]." [GO:0048483] subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "ANS" RELATED ABBREVIATION [] synonym: "autonomic division of peripheral nervous system" EXACT [FMA:65553] synonym: "autonomic part of peripheral nervous system" EXACT [FMA:65553] synonym: "divisio autonomica systematis nervosi peripherici" EXACT [FMA:TA] synonym: "divisio autonomica systematis nervosi peripherici" RELATED LATIN [Wikipedia:Autonomic_nervous_system] synonym: "pars autonomica systematis nervosi peripherici" EXACT [FMA:TA] synonym: "peripheral autonomic nervous system" EXACT [FMA:65553] synonym: "visceral nervous system" EXACT [] xref: AAO:0000033 xref: BIRNLEX:1123 xref: BTO:0002507 xref: CALOHA:TS-2001 xref: EHDA:10095 xref: EHDAA2:0000158 xref: EHDAA:3767 xref: EMAPA:16984 xref: FMA:65553 xref: GAID:706 xref: http://braininfo.rprc.washington.edu/centraldirectory.aspx?ID=2054 xref: MA:0000219 xref: MESH:D001341 xref: NCIT:C12673 xref: SCTID:362481007 xref: TAO:0001574 xref: UMLS:C0004388 {source="ncithesaurus:Autonomic_Nervous_System"} xref: UMLS:C0004388 {source="BIRNLEX:1123"} xref: UMLS:C1305381 {source="BIRNLEX:1123"} xref: VHOG:0000396 xref: Wikipedia:Autonomic_nervous_system xref: ZFA:0001574 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0011216 {source="cjm"} ! organ system subdivision relationship: contributes_to_morphology_of UBERON:0001016 ! nervous system relationship: only_in_taxon NCBITaxon:7742 ! Vertebrata relationship: part_of UBERON:0000010 {source="EMAPA", source="MA", source="NIFSTD", source="ZFA-modified-from-isa"} ! peripheral nervous system property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/f/f7/Gray839.png xsd:anyURI property_value: UBPROP:0000001 "Nervous system including a portion of the central and peripheral systems and presiding over the control and coordination of the vegetative functions of the organism. It innervates smooth and cardiac muscles and glandular tissues and is responsible for many actions which are more or less automatic (e.g. secretion, vasoconstriction etc.). It consists of the sympathetic and parasympathetic nervous systems. [Dorian_AF, Elsevier's_encyclopaedic_dictionary_of_medicine, Part_B:_Anatomy_(1988)_Amsterdam_etc.:_Elsevier][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000396", ontology="VHOG", source="http://bgee.unil.ch/"} property_value: UBPROP:0000001 "Part of the peripheral nervous system which regulates involuntary functions of the body and consists of the sympathetic and parasympathetic system.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0000033", ontology="AAO", source="AAO:BJB"} property_value: UBPROP:0000003 "From comparative analyses of craniate brains, a morphotype of the brain in the earliest craniate stock can be constructed. In marked contrast to cephalochordates, the ancestral craniate morphotype had a plethora of unique features, which included a telencephalon with pallial and subpallial parts, paired olfactory bulbs with substantial projections to most or all of the telencephalic pallium, paired lateral eyes and ears, a lateral line system for both electroreception and mechanoreception, spinal cord dorsal root ganglia, and an autonomic nervous system.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000396", ontology="VHOG", source="DOI:10.1002/1097-0185(20000615)261:3<111::AID-AR6>3.0.CO;2-F Butler AB, Chordate evolution and the origin of craniates: An old brain in a new head. AnaT Rec (New Anat) (2000)", source="http://bgee.unil.ch/"} property_value: UBPROP:0000012 "FMA splits this into peripheral and nervous parts; GO has ANS directly under NS; PNS is a sib" xsd:string {external_ontology="FMA"} [Term] id: UBERON:0002416 name: integumental system namespace: uberon alt_id: UBERON:0007029 def: "Connected anatomical system that forms a barrier between an animal and its environment. In vertebrates, the integumental system consists of the epidermis, dermis plus associated glands and adnexa such as hair and scales. In invertebrates, the integumental system may include cuticle." [CARO:0002001, http://orcid.org/0000-0002-6601-2165, https://github.com/obophenotype/uberon/issues/29] subset: efo_slim subset: grouping_class subset: pheno_slim synonym: "body surface" RELATED [] synonym: "dermal system" RELATED [MIAA:0000033] synonym: "external covering of organism" RELATED [] synonym: "integumentary system" EXACT [FMA:72979] synonym: "integumentum commune" RELATED LATIN [Wikipedia:Integumentary_system] synonym: "integumentum commune" RELATED LATIN [http://en.wikipedia.org/wiki/Integumentary_system] synonym: "organism surface" RELATED [EHDAA2:0003154] synonym: "surface" RELATED [BILA:0000118] xref: AEO:0000154 xref: BILA:0000118 xref: CALOHA:TS-1299 xref: CARO:0002001 xref: EFO:0000807 xref: EHDAA2:0000836 xref: EHDAA2_RETIRED:0003154 xref: EHDAA:6520 xref: EMAPA:17524 xref: EV:0100151 xref: FBbt:00004969 xref: FMA:72979 xref: galen:Surface xref: HAO:0000421 xref: http://linkedlifedata.com/resource/umls/id/C0037267 xref: http://www.snomedbrowser.com/Codes/Details/361692004 xref: Integumentary:system xref: MA:0000014 xref: MAT:0000033 xref: MESH:D034582 xref: MIAA:0000033 xref: NCIT:C12907 xref: SCTID:361692004 xref: TADS:0000108 xref: UMLS:C0037267 {source="ncithesaurus:Integumentary_System"} xref: VHOG:0000403 xref: Wikipedia:Integumentary_system xref: XAO:0000176 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000467 ! anatomical system disjoint_from: UBERON:0004456 ! entire sense organ system relationship: bounding_layer_of UBERON:0000468 ! multicellular organism relationship: existence_ends_during UBERON:0000066 ! fully formed stage relationship: has_part UBERON:0007376 ! outer epithelium relationship: surrounded_by UBERON:0013514 ! space surrounding organism property_value: http://purl.org/dc/elements/1.1/contributor https://github.com/cmungall property_value: http://purl.org/dc/elements/1.1/contributor https://github.com/tfhayamizu property_value: UBPROP:0000003 "(...) the integument of many tetrapods is reinforced by a morphologically and structurally diverse assemblage of skeletal elements. These elements are widely understood to be derivatives of the once all-encompassing dermal skeleton of stem-gnathostomes (...).[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000403", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1111/j.1469-7580.2008.01043.x Vickaryous MK, Sire JY, The integumentary skeleton of tetrapods: origin, evolution, and development. J Anat (2009)"} property_value: UBPROP:0000003 "(...) the integument of many tetrapods is reinforced by a morphologically and structurally diverse assemblage of skeletal elements. These elements are widely understood to be derivatives of the once all-encompassing dermal skeleton of stem-gnathostomes (...).[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000403", ontology="VHOG", source="DOI:10.1111/j.1469-7580.2008.01043.x Vickaryous MK, Sire JY, The integumentary skeleton of tetrapods: origin, evolution, and development. J Anat (2009)", source="http://bgee.unil.ch/"} [Term] id: UBERON:0002417 name: abdominal segment of trunk namespace: uberon def: "The abdominal segment of the torso." [http://en.wikipedia.org/wiki/Lumbar] def: "The abdominal segment of the torso." [Wikipedia:Lumbar] synonym: "abdomen/pelvis/perineum" RELATED [MA:0000021] synonym: "lower body" RELATED [MA:0000021] synonym: "lower trunk" RELATED [FMA:259211] synonym: "lumbar region" RELATED [https://orcid.org/0000-0002-6601-2165] xref: EMAPA:35104 xref: FMA:259211 xref: http://en.wikipedia.org/wiki/Lumbar xref: http://www.snomedbrowser.com/Codes/Details/362875007 xref: MA:0000021 xref: SCTID:362875007 xref: Wikipedia:Lumbar is_a: UBERON:0009569 {source="FMA"} ! subdivision of trunk is_a: UBERON:0011676 ! subdivision of organism along main body axis [Term] id: UBERON:0002418 name: cartilage tissue namespace: uberon def: "Skeletal tissue that is avascular, rich in glycosaminoglycans (GAGs) and typically includes chondrocytes within isolated lacunae. Cartilage tissue is deposited by chondroblasts." [GO_REF:0000034, http://dx.plos.org/10.1371/journal.pone.0051070, https://github.com/obophenotype/uberon/issues/37, https://sourceforge.net/p/obo/vertebrate-skeletal-anatomy-vsao-term-requests/5, PSPUB:0000170, VSAO:0000040] comment: Previous: "A portion of connective tissue dominated by extracellular matrix containing collagen type II and large amounts of proteoglycan, particularly chondroitin sulfate[GO]. Regular connective tissue, which consists of chondrocytes and related cells, the intercellular matrix of which is chondrified. Examples: hyaline cartilage, fibrocartilage, elastic cartilage[FMA]. an avascular supporting and articular skeletal tissue. It also functions as the primary endoskeletal support in vertebrate embryos. Cartilage is deposited by and is composed of chondroblasts and chondrocytes separated by an extracellular matrix, which may or may not mineralize depending on cartilage type, age, or taxon[Hall and Witten]." See also FMA:71500 Set of cartilages, FMA:55107 Cartilage organ, FMA:12264 Articular cartilage. // elements made from cartilage, cartilage-like, or chondroid tissues evolved in invertebrates[H&W] subset: efo_slim subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "cartilage" RELATED [] synonym: "cartilage tissue" EXACT [FMA:37377] synonym: "cartilages" RELATED [VHOG:0001207] synonym: "cartilaginous tissue" EXACT [] synonym: "chondrogenic tissue" EXACT [VSAO:0000040] synonym: "portion of cartilage tissue" RELATED [FMA:37377] xref: AAO:0000060 xref: AEO:0000087 xref: BTO:0000206 xref: EFO:0000949 xref: EHDAA2:0003087 xref: EMAPA:32730 xref: EV:0100141 xref: FMA:37377 xref: GAID:99 xref: galen:Cartilage xref: http://en.wikipedia.org/wiki/Cartilage xref: http://linkedlifedata.com/resource/umls/id/C0007301 xref: http://www.snomedbrowser.com/Codes/Details/309312004 xref: MA:0000104 xref: MAT:0000189 xref: MESH:D002356 xref: MIAA:0000189 xref: NCIT:C12373 xref: NCIT:C32268 xref: OpenCyc:Mx4rvVjeOZwpEbGdrcN5Y29ycA xref: SCTID:309312004 xref: TAO:0001501 xref: UMLS:C0007301 {source="ncithesaurus:Cartilage"} xref: VHOG:0001207 xref: VSAO:0000040 xref: Wikipedia:Cartilage xref: XAO:0000170 xref: ZFA:0005622 is_a: UBERON:0004755 ! skeletal tissue disjoint_from: UBERON:0002481 {source="https://github.com/obophenotype/uberon/issues/117"} ! bone tissue disjoint_from: UBERON:0002481 {source="https://github.com/obophenotype/uberon/issues/117"} ! bone tissue relationship: contributes_to_morphology_of UBERON:0001434 ! skeletal system relationship: has_part CHEBI:18085 ! glycosaminoglycan relationship: has_part CL:0000138 ! chondrocyte relationship: only_in_taxon NCBITaxon:33213 ! Bilateria property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/e/ee/Hypertrophic_Zone_of_Epiphyseal_Plate.jpg xsd:anyURI property_value: http://purl.org/dc/elements/1.1/contributor https://github.com/cmungall property_value: http://purl.org/dc/elements/1.1/contributor https://github.com/mellybelly property_value: UBPROP:0000001 "A type of dense connective tissue. It is composed of cells called chondrocytes which are dispersed in a firm gel-like ground substance, called the matrix. Cartilage is avascular (contains no blood vessels) and nutrients are diffused through the matrix. Cartilage is found in the joints, the rib cage, the ear, the nose, in the throat and between intervertebral disks. It makes up virtually the entire skeleton in chondrichthyes.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0000060", ontology="AAO", source="AAO:LAP"} property_value: UBPROP:0000001 "Portion of tissue which is connective tissue composed of collagen and/or elastin fibers and chondrocytes. Cartilage is avascular and provides both skeletal functions and a framework upon which bone is deposited.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0001501", ontology="TAO", source="ZFIN:curator"} property_value: UBPROP:0000001 "Skeletal tissue that is avascular, rich in glycosaminoglycans (GAGs) and typically includes chondrocytes within isolated lacunae. Cartilage tissue is deposited by chondroblasts.[VSAO]" xsd:string {date_retrieved="2012-08-14", external_class="VSAO:0000040", ontology="VSAO", source="GO_REF:0000034, http://dx.plos.org/10.1371/journal.pone.0051070", source="PSPUB:0000170"} property_value: UBPROP:0000002 "relationship loss: subclass specialized connective tissue (AAO:0000571)[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0000060", ontology="AAO"} property_value: UBPROP:0000003 "Phylogenetic analysis suggests that cartilage arose independently in cnidarians, hemichordates, vertebrates, arthropods, annelids, brachiopods, and molluscs - or a common ancestor of brachiopods and molluscs (...). Analyses of cartilage as a tissue and of the development of invertebrate cartilages are consistent with homology between invertebrate and vertebrate cartilage. From the discussion above, it will be clear that understanding genetic changes underlying cartilage evolution is key to determining whether the multiple origins of cartilage represent parallel evolution.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001207", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1111/j.1525-142X.2011.00520.x Hall BK, Parallelism, deep homology, and evo-devo. Evolution and Development (2012)"} property_value: UBPROP:0000003 "Phylogenetic analysis suggests that cartilage arose independently in cnidarians, hemichordates, vertebrates, arthropods, annelids, brachiopods, and molluscs - or a common ancestor of brachiopods and molluscs (...). Analyses of cartilage as a tissue and of the development of invertebrate cartilages are consistent with homology between invertebrate and vertebrate cartilage. From the discussion above, it will be clear that understanding genetic changes underlying cartilage evolution is key to determining whether the multiple origins of cartilage represent parallel evolution.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001207", ontology="VHOG", source="DOI:10.1111/j.1525-142X.2011.00520.x Hall BK, Parallelism, deep homology, and evo-devo. Evolution and Development (2012)", source="http://bgee.unil.ch/"} [Term] id: UBERON:0002419 name: skin gland namespace: uberon def: "A gland that is part of a skin of body [Automatically generated definition]." [OBOL:automatic] subset: organ_slim synonym: "glandulae cutis" EXACT LATIN [FMA:71878, FMA:TA] synonym: "set of skin glands" RELATED [FMA:71878] synonym: "skin glands" RELATED PLURAL [] synonym: "skin glands set" RELATED PLURAL [] xref: EMAPA:35774 xref: FMA:71878 xref: http://www.snomedbrowser.com/Codes/Details/110485007 xref: MA:0000146 xref: SCTID:110485007 is_a: UBERON:0003297 ! gland of integumental system is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0006003 ! integumentary adnexa intersection_of: UBERON:0002530 ! gland intersection_of: part_of UBERON:0002097 ! skin of body relationship: part_of UBERON:0002097 ! skin of body property_value: editor_note "check FMA, use plural for now as general class not there" xsd:string [Term] id: UBERON:0002424 name: oral epithelium namespace: uberon def: "An epithelium that is part of the mouth and lines the oral cavity, typically stratified squamous, and may be para-, ortho- or non- keratinized. Primary barrier between oral environment and deeper tissues" [https://orcid.org/0000-0002-6601-2165] def: "An epithelium that is part of the mouth and lines the oral cavity, typically stratified squamous, and may be para-, ortho- or non- keratinized. Primary barrier between oral environment and deeper tissues." [https://orcid.org/0000-0002-6601-2165] subset: vertebrate_core synonym: "epithelium of mucosa of mouth" EXACT [FMA:265152] synonym: "epithelium of oral mucosa" EXACT [FMA:265152] xref: AAO:0010357 xref: BTO:0001775 xref: CALOHA:TS-0715 xref: EHDAA2:0001325 xref: EHDAA:2187 xref: EMAPA:16839 xref: EMAPA:26942 xref: FMA:265152 xref: http://linkedlifedata.com/resource/umls/id/C1709332 xref: MA:0000344 xref: NCIT:C49595 xref: TAO:0000816 xref: UMLS:C1709332 {source="ncithesaurus:Oral_Cavity_Epithelium"} xref: VHOG:0000187 xref: XAO:0003201 xref: ZFA:0000816 is_a: UBERON:0003350 ! epithelium of mucosa is_a: UBERON:0003929 ! digestive tract epithelium intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0003729 ! mouth mucosa relationship: adjacent_to UBERON:0000167 {source="AAO-modified"} ! oral cavity relationship: part_of UBERON:0003729 ! mouth mucosa property_value: editor_note "consider including separate class for developmental structure (adult human is stratified; in EHDAA2 is unilaminar)" xsd:string property_value: UBPROP:0000001 "The epithelium that lines the oral cavity. The oral epithelium epithelial cells with many short microvilli as well as mucous cells, rodlet cells and taste buds[ZFIN:ZDB-PUB-060921-12, ZFIN:ZDB-PUB-091204-24]." xsd:string {source="ZFA:0000816"} property_value: UBPROP:0000011 "the avian oral epithelium has the developmental capacity to initiate tooth developmental programs with underlying grafts of non-avian oral ectomesenchyme" xsd:string {source="PMID:16488870"} property_value: UBPROP:0000011 "the avian oral epithelium has the developmental capacity to initiate tooth developmental programs with underlying grafts of non-avian oral ectomesenchyme" xsd:string {source="http://www.ncbi.nlm.nih.gov/pubmed/16488870"} [Term] id: UBERON:0002425 name: visceral serous pericardium namespace: uberon def: "Visceral serous membrane which is continuous with the parietal serous pericardium and is attached to the myocardium[FMA]." [http://en.wikipedia.org/wiki/Visceral_pericardium] def: "Visceral serous membrane which is continuous with the parietal serous pericardium and is attached to the myocardium[FMA]." [Wikipedia:Visceral_pericardium] subset: pheno_slim subset: uberon_slim synonym: "epicardium" RELATED [MA:0000484] synonym: "lamina visceralis pericardii serosi" EXACT LATIN [Wikipedia:Epicardium] synonym: "lamina visceralis pericardii serosi" EXACT LATIN [http://en.wikipedia.org/wiki/Epicardium] synonym: "pericardium visceral mesothelium" RELATED [EMAPA:16589] synonym: "serous visceral pericardium" EXACT [] synonym: "visceral lamina of serous pericardium" EXACT [] synonym: "visceral layer of serous pericardium" EXACT [] synonym: "visceral pericardium" EXACT [VHOG:0000538] xref: EMAPA:16589 xref: EMAPA:19032 xref: FMA:84882 xref: http://www.snomedbrowser.com/Codes/Details/243955001 xref: MA:0000484 xref: SCTID:243955001 xref: VHOG:0000538 xref: Visceral:pericardium xref: Wikipedia:Visceral_pericardium is_a: CARO:0000003 ! connected anatomical structure is_a: UBERON:0022350 ! visceral serous membrane intersection_of: UBERON:0022350 ! visceral serous membrane intersection_of: part_of UBERON:0002357 ! serous pericardium relationship: attaches_to UBERON:0002349 {source="FMA"} ! myocardium relationship: connects UBERON:0002349 ! myocardium relationship: contributes_to_morphology_of UBERON:0002407 ! pericardium relationship: has_part UBERON:0002348 {source="cjm"} ! epicardium relationship: part_of UBERON:0002357 ! serous pericardium [Term] id: UBERON:0002443 name: choroidal blood vessel namespace: uberon def: "A blood vessel that is part of a choroid [Automatically generated definition]." [OBOL:automatic] comment: cannot find singular in FMA, using Set class subset: pheno_slim synonym: "blood vessel of choroid" EXACT [OBOL:automatic] synonym: "blood vessel of choroid coat" EXACT [OBOL:automatic] synonym: "blood vessel of choroidea" EXACT [OBOL:automatic] synonym: "blood vessel of posterior uvea" EXACT [OBOL:automatic] synonym: "choroid blood vessel" EXACT [OBOL:automatic] synonym: "choroid blood vessels" EXACT [] synonym: "choroid blood vessels set" EXACT [] synonym: "choroid coat blood vessel" EXACT [OBOL:automatic] synonym: "choroidea blood vessel" EXACT [OBOL:automatic] synonym: "posterior uvea blood vessel" EXACT [OBOL:automatic] synonym: "set of choroid blood vessels" RELATED [FMA:76550] synonym: "vasa sanguinea choroideae" EXACT LATIN [FMA:76550, FMA:TA] xref: EMAPA:17828 xref: FMA:76550 xref: MA:0001237 is_a: UBERON:0003496 ! head blood vessel is_a: UBERON:0010313 ! neural crest-derived structure intersection_of: UBERON:0001981 ! blood vessel intersection_of: part_of UBERON:0001776 ! optic choroid relationship: part_of UBERON:0001776 ! optic choroid [Term] id: UBERON:0002457 name: intersomitic artery namespace: uberon alt_id: UBERON:0006001 def: "The small branching sprouts of the dorsal aorta that grow across the medial surface of the somite, turn right angles to grow over that surface and then fuse with other sprouts and form the vertebral arteries adjacent to the neural tube; the intersomitic arteries supply the body wall and persist in the adult as the posterior intercostal, subcostal and the lumbar arteries." [MP:0010662] subset: pheno_slim subset: vertebrate_core synonym: "intersegmental arteries" RELATED PLURAL [ZFA:0001061] synonym: "intersegmental artery" EXACT [ZFA:0001061] xref: EHDAA2:0000882 xref: EHDAA:4340 xref: EMAPA:17616 xref: http://www.snomedbrowser.com/Codes/Details/360401001 xref: MA:0001985 xref: TAO:0001061 xref: VHOG:0000225 xref: XAO:0004165 xref: ZFA:0001061 is_a: UBERON:0001637 ! artery is_a: UBERON:0014907 ! intersomitic vessel property_value: UBPROP:0000001 "Arteries that connect the dorsal aorta and the dorsal longitudinal anastomotic vessel. They run along the vertical myotomal boundaries. At early stages these vessels don't have venous or arteriproperty_value external_definitionmarkers. They form from the primary sprouts from the dorsal aorta[ZFA:0001061]." xsd:string {source="ZFA:0001061"} property_value: UBPROP:0000003 "Few changes of evolutionary significance occur in the branching pattern of the dorsal aorta. All vertebrates have (...) paired intersegmental arteries to the trunk, tail, and paired appendages.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000225", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.612"} [Term] id: UBERON:0002458 name: spinal artery namespace: uberon def: "Arteries that supply the spinal cord." [https://orcid.org/0000-0002-6601-2165, Wikipedia:Spinal_artery] def: "Arteries that supply the spinal cord." [http://en.wikipedia.org/wiki/Spinal_artery, https://orcid.org/0000-0002-6601-2165] subset: uberon_slim subset: vertebrate_core synonym: "spinal arteries" EXACT PLURAL [ZFA:0000682] xref: EHDAA2:0001890 xref: EHDAA:4355 xref: EMAPA:18241 xref: http://linkedlifedata.com/resource/umls/id/C0447043 xref: http://www.snomedbrowser.com/Codes/Details/244228006 xref: MA:0002043 xref: NCIT:C33587 xref: SCTID:244228006 xref: Spinal:artery xref: TAO:0000682 xref: UMLS:C0447043 {source="ncithesaurus:Spinal_Artery"} xref: Wikipedia:Spinal_artery xref: ZFA:0000682 is_a: UBERON:0004573 ! systemic artery intersection_of: UBERON:0001637 ! artery intersection_of: supplies UBERON:0002240 ! spinal cord relationship: part_of RO:0002577 ! system relationship: supplies UBERON:0002240 ! spinal cord [Term] id: UBERON:0002469 name: esophagus mucosa namespace: uberon alt_id: UBERON:0003345 def: "A mucosa that is part of a esophagus [Automatically generated definition]." [OBOL:automatic] synonym: "esophageal mucosa" EXACT [] synonym: "esophageal mucous membrane" EXACT [] synonym: "esophagus mucosa" EXACT [FMA:62996] synonym: "esophagus mucous membrane" EXACT [OBOL:automatic] synonym: "lamina muscularis mucosae oesophageae" EXACT LATIN [FMA:62996, FMA:TA] synonym: "mucosa of esophagus" EXACT [OBOL:automatic] synonym: "mucosa of oesophagus" EXACT [OBOL:automatic] synonym: "mucous membrane of esophagus" EXACT [] synonym: "mucous membrane of oesophagus" EXACT [FMA:62996] synonym: "muscularis mucosae of oesophagus" RELATED INCONSISTENT [FMA:62996] synonym: "oesophageal mucosa" EXACT [FMA:62996] synonym: "oesophagus mucosa" EXACT [] synonym: "oesophagus mucous membrane" EXACT [OBOL:automatic] synonym: "tunica mucosa esophagi" EXACT [] synonym: "tunica mucosa oesophageae" EXACT LATIN [FMA:62996, FMA:TA] synonym: "tunica mucosa oesophagi" EXACT [] synonym: "tunica mucosa oesophagi" RELATED [BTO:0002859] xref: BTO:0002859 xref: EMAPA:26981 xref: FMA:62996 xref: http://linkedlifedata.com/resource/umls/id/C0227176 xref: http://www.snomedbrowser.com/Codes/Details/362127004 xref: MA:0002680 xref: NCIT:C32538 xref: SCTID:362127004 xref: UMLS:C0227176 {source="ncithesaurus:Esophageal_Mucosa"} is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000344 ! mucosa intersection_of: UBERON:0000344 ! mucosa intersection_of: part_of UBERON:0001043 ! esophagus relationship: part_of UBERON:0001096 ! wall of esophagus [Term] id: UBERON:0002481 name: bone tissue namespace: uberon def: "Skeletal tissue with a collagen-rich extracellular matrix vascularized, mineralized with hydroxyapatite and typically including osteocytes located in lacunae that communicate with one another by cell processes (in canaliculi). Bone is deposited by osteoblasts." [GO_REF:0000034, http://dx.plos.org/10.1371/journal.pone.0051070, PSPUB:0000170, VSAO:0000047] subset: pheno_slim subset: uberon_slim synonym: "bone" RELATED [MESH:A02.835.232] synonym: "calcium tissue" EXACT [] synonym: "mineralized bone tissue" NARROW [XAO:0004040] synonym: "osseous tissue" EXACT [] synonym: "osteogenic tissue" EXACT [VSAO:curator] synonym: "portion of bone tissue" RELATED [FMA:224804] xref: Bone:tissue xref: CALOHA:TS-2011 xref: EMAPA:35179 xref: FMA:224804 xref: galen:BoneTissue xref: http://linkedlifedata.com/resource/umls/id/C0391978 xref: MA:0002780 xref: MESH:D001842 xref: NCIT:C13076 xref: UMLS:C0391978 {source="ncithesaurus:Bone_Tissue"} xref: VSAO:0000047 xref: Wikipedia:Bone_tissue xref: XAO:0004040 xref: ZFA:0005621 is_a: UBERON:0004755 {source="VSAO"} ! skeletal tissue disjoint_from: UBERON:0005090 ! muscle structure relationship: only_in_taxon NCBITaxon:7742 ! Vertebrata relationship: part_of UBERON:0001474 ! bone element property_value: editor_note "see https://github.com/obophenotype/uberon/issues/27" xsd:string property_value: UBPROP:0000001 "Skeletal tissue with a collagen-rich extracellular matrix vascularized, mineralized with hydroxyapatite and typically including osteocytes located in lacunae that communicate with one another by cell processes (in canaliculi). Bone is deposited by osteoblasts.[VSAO]" xsd:string {date_retrieved="2012-08-14", external_class="VSAO:0000047", ontology="VSAO", source="GO_REF:0000034, http://dx.plos.org/10.1371/journal.pone.0051070", source="PSPUB:0000170"} [Term] id: UBERON:0002506 name: iris epithelium namespace: uberon def: "An epithelium that is part of a iris [Automatically generated definition]." [OBOL:automatic] subset: pheno_slim synonym: "epithelial tissue of iris" EXACT [OBOL:automatic] synonym: "epithelium of iris" EXACT [OBOL:automatic] synonym: "epithelium pigmentosum (iris)" EXACT [FMA:58517] synonym: "epithelium pigmentosum iridis" EXACT LATIN [FMA:58517, FMA:TA] synonym: "iris epithelial tissue" EXACT [OBOL:automatic] synonym: "iris epithelium" EXACT [FMA:58517] synonym: "iris pigmented epithelium" RELATED [MA:0002826] synonym: "pigmented epithelium of iris" EXACT [FMA:58517] xref: EMAPA:35447 xref: FMA:58517 xref: MA:0002826 is_a: UBERON:0000488 {source="FMA"} ! atypical epithelium is_a: UBERON:0015808 ! eye epithelium intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0001769 ! iris relationship: contributes_to_morphology_of UBERON:0001769 ! iris relationship: has_part GO:0048770 {source="MP"} ! pigment granule relationship: part_of UBERON:0001769 {source="MA"} ! iris [Term] id: UBERON:0002513 name: endochondral bone namespace: uberon def: "Replacement bone that forms within cartilage." [GO:0001958, GO_REF:0000034, http://dx.plos.org/10.1371/journal.pone.0051070, https://github.com/obophenotype/uberon/issues/54, VSAO:0000145] subset: uberon_slim subset: vertebrate_core synonym: "cartilaginous bone" RELATED [BTO:0002157] synonym: "endochondral bones" RELATED PLURAL [ZFA:0001591] synonym: "ossified chondrogenic bone" EXACT [VSAO:0000145] xref: AAO:0010776 xref: AEO:0000083 xref: BTO:0002157 xref: EHDAA2:0003083 xref: FMA:24321 xref: TAO:0001591 xref: VSAO:0000145 xref: XAO:0004018 xref: ZFA:0001591 is_a: UBERON:0001474 ! bone element is_a: UBERON:0010363 {source="VSAO"} ! endochondral element intersection_of: UBERON:0001474 ! bone element intersection_of: develops_from UBERON:0005863 ! cartilaginous condensation relationship: developmentally_replaces UBERON:0002418 ! cartilage tissue relationship: develops_from UBERON:0007844 {source="VSAO"} ! cartilage element property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/e/ee/Hypertrophic_Zone_of_Epiphyseal_Plate.jpg xsd:anyURI property_value: editor_note "placement in this class to be inferred" xsd:string property_value: http://purl.org/dc/elements/1.1/contributor https://github.com/cmungall property_value: http://purl.org/dc/elements/1.1/contributor https://github.com/mellybelly property_value: http://purl.org/dc/elements/1.1/contributor https://github.com/wdahdul property_value: seeAlso https://github.com/obophenotype/uberon/wiki/Modeling-endochondral-elements-Design-Pattern xsd:anyURI property_value: UBPROP:0000001 "Replacement bone that forms within cartilage.[VSAO]" xsd:string {date_retrieved="2012-08-14", external_class="VSAO:0000145", ontology="VSAO", source="GO_REF:0000034, http://dx.plos.org/10.1371/journal.pone.0051070", source="PSPUB:0000170"} property_value: UBPROP:0000012 "some structures, e.g. in ZFA are both intramembrane and endochondral" xsd:string {external_ontology="ZFA"} [Term] id: UBERON:0002514 name: intramembranous bone namespace: uberon def: "Bone tissue forms directly within mesenchyme, and does not replace other tissues[TAO]. Intramembranous ossification is the formation of bone in which osteoblasts secrete a collagen-proteoglycan matrix that binds calcium salts and becomes calcified[GO]. Intramembranous ossification is the way flat bones and the shell of a turtle are formed[GO]. Unlike endochondral ossification, cartilage is not present during intramembranous ossification[WP]." [GO:0001957, http://en.wikipedia.org/wiki/Intramembranous_ossification, https://github.com/obophenotype/uberon/issues/267] def: "Bone tissue forms directly within mesenchyme, and does not replace other tissues[TAO]. Intramembranous ossification is the formation of bone in which osteoblasts secrete a collagen-proteoglycan matrix that binds calcium salts and becomes calcified[GO]. Intramembranous ossification is the way flat bones and the shell of a turtle are formed[GO]. Unlike endochondral ossification, cartilage is not present during intramembranous ossification[WP]." [GO:0001957, https://github.com/obophenotype/uberon/issues/267, Wikipedia:Intramembranous_ossification] synonym: "intramembranous bones" RELATED PLURAL [ZFA:0001635] synonym: "membrane bone" RELATED [AEO:0000085] xref: EMAPA:36615 xref: Intramembranous:ossification xref: TAO:0001644 xref: Wikipedia:Intramembranous_ossification xref: ZFA:0001635 is_a: UBERON:0001474 {source="VSAO"} ! bone element relationship: develops_from UBERON:0003104 ! mesenchyme relationship: output_of GO:0001957 ! intramembranous ossification property_value: UBPROP:0000001 "Bone that forms directly within mesenchyme, and does not replace other tissues.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0001644", ontology="TAO", source="TAO:wd"} property_value: UBPROP:0000005 "[In TAO], This term was made obsolete because it is considered a synonym of membrane bone (VSAO:0000023).[TAO]" xsd:string {date_retrieved="2012-09-06", external_class="TAO:0001644", ontology="TAO", source="Curator"} [Term] id: UBERON:0002521 name: elastic tissue namespace: uberon def: "Connective tissue composed of elastic fibers." [http://orcid.org/0000-0002-6601-2165] subset: uberon_slim synonym: "elastic connective tissue" EXACT [] synonym: "elastic fiber" NARROW [] synonym: "textus connectivus elasticus" EXACT LATIN [] xref: Elastic:fiber xref: FMA:20113 xref: GAID:926 xref: http://www.snomedbrowser.com/Codes/Details/27197004 xref: MA:0002853 xref: MESH:D004547 xref: NCIT:C32495 xref: SCTID:27197004 xref: Wikipedia:Elastic_fiber is_a: UBERON:0002384 ! connective tissue intersection_of: UBERON:0002384 ! connective tissue intersection_of: composed_primarily_of GO:0071953 ! elastic fiber relationship: composed_primarily_of GO:0071953 ! elastic fiber relationship: has_quality PATO:0001171 ! elastic property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/c/cb/Gray377.png xsd:anyURI [Term] id: UBERON:0002522 name: tunica media namespace: uberon def: "The middle layer of an artery or vein. [WP,unvetted]." [http://en.wikipedia.org/wiki/Tunica_media] def: "The middle layer of an artery or vein. [WP,unvetted]." [Wikipedia:Tunica_media] comment: May be composed of smooth muscle and elastic tissue subset: uberon_slim synonym: "tunica media vasorum" RELATED LATIN [Wikipedia:Tunica_media] synonym: "tunica media vasorum" RELATED [BTO:0002011] synonym: "tunica media vasorum" RELATED LATIN [http://en.wikipedia.org/wiki/Tunica_media] xref: BTO:0002011 xref: EMAPA:36298 xref: FMA:55590 xref: GAID:170 xref: http://linkedlifedata.com/resource/umls/id/C0162867 xref: http://www.snomedbrowser.com/Codes/Details/61695000 xref: MA:0002855 xref: MESH:D017540 xref: NCIT:C33821 xref: SCTID:61695000 xref: Tunica:media xref: UMLS:C0162867 {source="ncithesaurus:Tunica_Media"} xref: Wikipedia:Tunica_media is_a: UBERON:0004797 {source="MA"} ! blood vessel layer relationship: has_part UBERON:0002521 {source="cjm"} ! elastic tissue relationship: has_part UBERON:0004237 {source="cjm"} ! blood vessel smooth muscle relationship: surrounded_by UBERON:0005734 ! tunica adventitia of blood vessel property_value: depicted:by https://upload.wikimedia.org/wikipedia/commons/3/32/Illu_artery.jpg xsd:anyURI property_value: depicted:by Illu:artery.jpg xsd:anyURI [Term] id: UBERON:0002523 name: tunica intima namespace: uberon def: "The innermost layer of a blood vessel which is a lining of endothelial cells facing the lumen[Kardong]." [ISBN:0073040584, NCIT:C33820, Wikipedia:Tunica_intima] def: "The innermost layer of a blood vessel which is a lining of endothelial cells facing the lumen[Kardong]." [http://en.wikipedia.org/wiki/Tunica_intima, ISBN:0073040584, NCIT:C33820] subset: uberon_slim synonym: "Bichat's tunic" RELATED [BTO:0002012] synonym: "intima" RELATED [BTO:0002012] synonym: "tunica intima vasorum" RELATED [BTO:0002012] xref: BTO:0002012 xref: EMAPA:36297 xref: FMA:55589 xref: GAID:523 xref: http://linkedlifedata.com/resource/umls/id/C0162864 xref: http://www.snomedbrowser.com/Codes/Details/8361002 xref: http://www.snomedbrowser.com/Codes/Details/87483006 xref: MA:0002861 xref: MESH:D017539 xref: NCIT:C33820 xref: SCTID:8361002 xref: SCTID:87483006 xref: Tunica:intima xref: UMLS:C0162864 {source="ncithesaurus:Tunica_Intima"} xref: Wikipedia:Tunica_intima is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0004923 {source="FMA"} ! organ component layer relationship: adjacent_to UBERON:0010161 {source="ISBN:0073040584"} ! lumen of blood vessel relationship: has_part UBERON:0001986 ! endothelium relationship: surrounded_by UBERON:0002522 {notes="check for exceptions, e.g. capillaries"} ! tunica media property_value: depicted:by https://upload.wikimedia.org/wikipedia/commons/3/32/Illu_artery.jpg xsd:anyURI property_value: depicted:by Illu:artery.jpg xsd:anyURI property_value: editor_note "the FMA class represents a more generic layer which is the superclass of the layer found in both blood vessels and lymph vessels (and also endocardium) - we should probably follow this structure" xsd:string property_value: editor_note "the FMA class represents a structure which may have both epithelium and fibroelastic connective tissue as parts" xsd:string property_value: UBPROP:0000001 "The tunica intima (or just intima) is the innermost layer of an artery or vein. It is made up of one layer of endothelial cells and is supported by an internal elastic lamina. The endothelial cells are in direct contact with the blood flow. The inner coat (tunica intima) can be separated from the middle by a little maceration, or it may be stripped off in small pieces; but, on account of its friability, it cannot be separated as a complete membrane. It is a fine, transparent, colorless structure which is highly elastic, and, after death, is commonly corrugated into longitudinal wrinkles. The inner coat consists of: A layer of pavement endothelium, the cells of which are polygonal, oval, or fusiform, and have very distinct round or oval nuclei. This endothelium is brought into view most distinctly by staining with silver nitrate. A subendothelial layer, consisting of delicate connective tissue with branched cells lying in the interspaces of the tissue; in arteries of less than 2 mm. in diameter the subendothelial layer consists of a single stratum of stellate cells, and the connective tissue is only largely developed in vessels of a considerable size. An elastic or fenestrated layer, which consists of a membrane containing a net-work of elastic fibers, having principally a longitudinal direction, and in which, under the microscope, small elongated apertures or perforations may be seen, giving it a fenestrated appearance. It was therefore called by Henle the fenestrated membrane. This membrane forms the chief thickness of the inner coat, and can be separated into several layers, some of which present the appearance of a network of longitudinal elastic fibers, and others a more membranous character, marked by pale lines having a longitudinal direction. In minute arteries the fenestrated membrane is a very thin layer; but in the larger arteries, and especially in the aorta, it has a very considerable thickness. [WP,unvetted].[Wikipedia]" xsd:string {ontology="Wikipedia", source="Wikipedia:Tunica_intima"} property_value: UBPROP:0000001 "The tunica intima (or just intima) is the innermost layer of an artery or vein. It is made up of one layer of endothelial cells and is supported by an internal elastic lamina. The endothelial cells are in direct contact with the blood flow. The inner coat (tunica intima) can be separated from the middle by a little maceration, or it may be stripped off in small pieces; but, on account of its friability, it cannot be separated as a complete membrane. It is a fine, transparent, colorless structure which is highly elastic, and, after death, is commonly corrugated into longitudinal wrinkles. The inner coat consists of: A layer of pavement endothelium, the cells of which are polygonal, oval, or fusiform, and have very distinct round or oval nuclei. This endothelium is brought into view most distinctly by staining with silver nitrate. A subendothelial layer, consisting of delicate connective tissue with branched cells lying in the interspaces of the tissue; in arteries of less than 2 mm. in diameter the subendothelial layer consists of a single stratum of stellate cells, and the connective tissue is only largely developed in vessels of a considerable size. An elastic or fenestrated layer, which consists of a membrane containing a net-work of elastic fibers, having principally a longitudinal direction, and in which, under the microscope, small elongated apertures or perforations may be seen, giving it a fenestrated appearance. It was therefore called by Henle the fenestrated membrane. This membrane forms the chief thickness of the inner coat, and can be separated into several layers, some of which present the appearance of a network of longitudinal elastic fibers, and others a more membranous character, marked by pale lines having a longitudinal direction. In minute arteries the fenestrated membrane is a very thin layer; but in the larger arteries, and especially in the aorta, it has a very considerable thickness. [WP,unvetted].[Wikipedia]" xsd:string {ontology="Wikipedia", source="Tunica:intima"} [Term] id: UBERON:0002530 name: gland namespace: uberon alt_id: UBERON:MIAA_0000021 def: "an organ that functions as a secretory or excretory organ" [MGI:csmith, MP:0002163] def: "An organ that functions as a secretory or excretory organ." [MGI:csmith, MP:0002163] subset: efo_slim subset: pheno_slim subset: uberon_slim synonym: "Druese" RELATED [BTO:0000522] synonym: "glandula" RELATED [BTO:0000522] synonym: "glandula" RELATED LATIN [Wikipedia:Gland] synonym: "glandula" RELATED LATIN [http://en.wikipedia.org/wiki/Gland] synonym: "glandular organ" EXACT [http://orcid.org/0000-0002-6601-2165] xref: AAO:0000212 xref: AEO:0000096 xref: BTO:0000522 xref: EFO:0000797 xref: EHDAA2:0003096 xref: EHDAA:2161 xref: EHDAA:4475 xref: EHDAA:6522 xref: EMAPA:18425 xref: FBbt:00100317 xref: FMA:7146 xref: FMA:86294 xref: galen:Gland xref: HAO:0000375 xref: http://en.wikipedia.org/wiki/Gland xref: http://linkedlifedata.com/resource/umls/id/C1285092 xref: http://www.snomedbrowser.com/Codes/Details/134358001 xref: MA:0003038 xref: MAT:0000021 xref: MIAA:0000021 xref: NCIT:C13319 xref: OpenCyc:Mx4rwP3vyJwpEbGdrcN5Y29ycA xref: SCTID:134358001 xref: UMLS:C1285092 {source="ncithesaurus:Gland"} xref: Wikipedia:Gland xref: WikipediaCategory:Glands is_a: UBERON:0000062 ! organ relationship: capable_of GO:0046903 ! secretion relationship: only_in_taxon NCBITaxon:6072 ! Eumetazoa relationship: produces UBERON:0000463 ! organism substance property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/a/a1/Gray1026.png xsd:anyURI property_value: RO:0002171 UBERON:0001434 property_value: UBPROP:0000007 "glandular" xsd:string [Term] id: UBERON:0002532 name: epiblast (generic) namespace: uberon def: "In amniote animal embryology, the epiblast is a tissue type derived either from the inner cell mass in mammals or the blastodisc in birds and reptiles. It lies above the hypoblast. In mammalian embryogenesis, the columnar cells of the epiblast are adjacent to the trophoblast, while the cuboidal cells of the hypoblast are closer to the blastocoele. The epiblast, whilst referred to as the primary ectoderm, differentiates to form all three layers of the trilaminar germ disc in a process called gastrulation[WP]. The outer of the two layers of the blastoderm that form during gastrulation, corresponding to primitive ectoderm during gastrulation and to the definitive ectoderm after gastrulation[ZFA]" [http://en.wikipedia.org/wiki/Epiblast, ZFIN:curator] def: "In amniote animal embryology, the epiblast is a tissue type derived either from the inner cell mass in mammals or the blastodisc in birds and reptiles. It lies above the hypoblast. In mammalian embryogenesis, the columnar cells of the epiblast are adjacent to the trophoblast, while the cuboidal cells of the hypoblast are closer to the blastocoele. The epiblast, whilst referred to as the primary ectoderm, differentiates to form all three layers of the trilaminar germ disc in a process called gastrulation[WP]. The outer of the two layers of the blastoderm that form during gastrulation, corresponding to primitive ectoderm during gastrulation and to the definitive ectoderm after gastrulation[ZFA]." [http://en.wikipedia.org/wiki/Epiblast, ZFIN:curator] def: "In amniote animal embryology, the epiblast is a tissue type derived either from the inner cell mass in mammals or the blastodisc in birds and reptiles. It lies above the hypoblast. In mammalian embryogenesis, the columnar cells of the epiblast are adjacent to the trophoblast, while the cuboidal cells of the hypoblast are closer to the blastocoele. The epiblast, whilst referred to as the primary ectoderm, differentiates to form all three layers of the trilaminar germ disc in a process called gastrulation[WP]. The outer of the two layers of the blastoderm that form during gastrulation, corresponding to primitive ectoderm during gastrulation and to the definitive ectoderm after gastrulation[ZFA]." [Wikipedia:Epiblast, ZFIN:curator] subset: early_development subset: grouping_class subset: uberon_slim subset: vertebrate_core synonym: "blastocyst" RELATED [] synonym: "ectoblast" RELATED [MP:0003886] synonym: "epiblast" EXACT [VHOG:0000243] synonym: "epiblastus" RELATED LATIN [http://en.wikipedia.org/wiki/Epiblast] synonym: "epiblastus" RELATED LATIN [Wikipedia:Epiblast] synonym: "primitive ectoderm" RELATED [VHOG:0000243] xref: BTO:0004593 xref: FMA:296704 xref: http://en.wikipedia.org/wiki/Epiblast xref: MAT:0000067 xref: MIAA:0000067 xref: VHOG:0000243 xref: Wikipedia:Epiblast is_a: UBERON:0002050 ! embryonic structure relationship: has_part CL:0000352 ! epiblast cell property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/e/e3/Gray21.png xsd:anyURI property_value: editor_note "MP says - tissue that gives rise to the ectoderm, endoderm and mesoderm of the embryo proper. In HOG, epiblast is part of primitive streak/blastpore, which is inconsistent with the MP definition of primitive streak as a ridge of the epiblast. Note that these terms, epiblast and hypoblast, are also used to describe layers of the avian embryonic blastoderm, but the layers so-named seem to be altogether different in these two kinds of vertebrate embryos(CVS). Consider obsoleting this as a grouping class" xsd:string property_value: UBPROP:0000003 "In pregastrula zebrafish embryos, the epiblast is an inverted cup of cells that sits on top of a large yolk cell. (...) In amniote embryos (mammals and birds), gastrulation initiates in an epithelial layer called the epiblast. Cells in the epiblast undergo an epithelial to mesenchymal transition (EMT), migrate through the primitive streak (PS), and incorporate in the middle (mesoderm) or outer (endoderm) layer. The presumptive definitive endoderm (DE) cells invade and displace an outer layer of extraembryonic tissue cells, the hypoblast in chick and the visceral endoderm (VE) in mouse, which form supporting structures such as the yolk sac.[uncertain][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000243", ontology="VHOG", source="DOI:10.1146/annurev.cellbio.042308.113344 Zorn AM, Wells JM, Vertebrate endoderm development and organ formation. Annual Review of Cell Developmental Biology (2009)", source="http://bgee.unil.ch/"} property_value: UBPROP:0000003 "In pregastrula zebrafish embryos, the epiblast is an inverted cup of cells that sits on top of a large yolk cell. (...) In amniote embryos (mammals and birds), gastrulation initiates in an epithelial layer called the epiblast. Cells in the epiblast undergo an epithelial to mesenchymal transition (EMT), migrate through the primitive streak (PS), and incorporate in the middle (mesoderm) or outer (endoderm) layer. The presumptive definitive endoderm (DE) cells invade and displace an outer layer of extraembryonic tissue cells, the hypoblast in chick and the visceral endoderm (VE) in mouse, which form supporting structures such as the yolk sac.[uncertain][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000243", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1146/annurev.cellbio.042308.113344 Zorn AM, Wells JM, Vertebrate endoderm development and organ formation. Annual Review of Cell Developmental Biology (2009)"} [Term] id: UBERON:0002536 name: arthropod sensillum namespace: uberon def: "Sense organ embedded in the integument and consisting of one or a cluster of sensory neurons and associated sensory structures, support cells and glial cells forming a single organised unit with a largely bona-fide boundary.[FBbt]." [FBbt:00007152, Wikipedia:Sensillum] subset: efo_slim subset: uberon_slim synonym: "sensillum" EXACT [FBbt:00007152, HAO:0000933] xref: BTO:0001237 xref: EFO:0000939 xref: FBbt:00007152 xref: HAO:0000933 xref: MAT:0000163 xref: MIAA:0000163 xref: TGMA:0000540 xref: Wikipedia:Sensillum is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000020 ! sense organ relationship: only_in_taxon NCBITaxon:6656 ! Arthropoda relationship: part_of UBERON:0001016 ! nervous system property_value: editor_note "this term should be ceded to the arthropod anatomy ontology" xsd:string [Term] id: UBERON:0002539 name: pharyngeal arch namespace: uberon def: "One of a series of paired bulges that develop along the lateral walls of the foregut. The pharyngeal arches have developmental contributions from endoderm, mesoderm, and neural crest cells and are separated by anterior lateral endoderm out-pockets known as pharyngeal pouches." [http://orcid.org/0000-0002-6601-2165, PMID:16313389, ZFA:yb] def: "One of a series of paired bulges that develop along the lateral walls of the foregut. The pharyngeal arches have developmental contributions from endoderm, mesoderm, and neural crest cells and are separated by anterior lateral endoderm out-pockets known as pharyngeal pouches." [http://orcid.org/0000-0002-6601-2165, http://www.ncbi.nlm.nih.gov/pubmed/16313389, ZFA:yb] subset: efo_slim subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "arcus pharyngei" RELATED LATIN [http://en.wikipedia.org/wiki/Pharyngeal_arch] synonym: "arcus pharyngei" RELATED LATIN [Wikipedia:Pharyngeal_arch] synonym: "branchial arch" NARROW [BTO:0001785, MP:0002884] synonym: "pharyngeal arches" EXACT PLURAL [] synonym: "visceral arch" RELATED [] xref: AAO:0010359 xref: BTO:0001785 xref: EFO:0000959 xref: EHDAA:571 xref: EMAPA:16117 xref: FMA:293015 xref: GAID:1292 xref: http://linkedlifedata.com/resource/umls/id/C0080322 xref: http://www.snomedbrowser.com/Codes/Details/308766004 xref: MAT:0000242 xref: MESH:A16.254.160 xref: MIAA:0000242 xref: NCIT:C34249 xref: Pharyngeal:arch xref: SCTID:308766004 xref: TAO:0001306 xref: UMLS:C0080322 {source="ncithesaurus:Pharyngeal_Arch"} xref: VHOG:0000155 xref: Wikipedia:Pharyngeal_arch xref: XAO:0000096 xref: ZFA:0001306 is_a: CARO:0000003 ! connected anatomical structure is_a: UBERON:0000481 ! multi-tissue structure is_a: UBERON:0010188 {source="EHDAA2"} ! protuberance is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: developmentally_induced_by UBERON:0007690 {source="http://www.ncbi.nlm.nih.gov/pubmed/16313389"} ! early pharyngeal endoderm relationship: developmentally_induced_by UBERON:0007690 {source="PMID:16313389"} ! early pharyngeal endoderm relationship: only_in_taxon NCBITaxon:7711 {source="http://tolweb.org/Chordata/2499"} ! Chordata relationship: only_in_taxon NCBITaxon:7711 {source="http://tolweb.org/Chordata/2499"} ! Chordata relationship: part_of UBERON:0008814 ! pharyngeal arch system relationship: part_of UBERON:0008816 {source="PMID:16313389"} ! embryonic head relationship: part_of UBERON:0008816 {source="http://www.ncbi.nlm.nih.gov/pubmed/16313389"} ! embryonic head property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/8/8b/Gray41.png xsd:anyURI property_value: UBPROP:0000001 "One of a series of bony or cartilaginous arches that develop in the walls of the mouth cavity and pharynx of the embryo.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0010359", ontology="AAO", source="NLM:branchial+arch"} property_value: UBPROP:0000003 "A conserved feature of all vertebrate embryos is the presence of a series of bulges on the lateral surface of the head, the pharyngeal arches; it is within these structures that the nerves, muscles and skeletal components of the pharyngeal apparatus are laid down.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000155", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1111/j.1469-7580.2005.00472.x Graham A, Okabe M and Quinlan R, The role of the endoderm in the development and evolution of the pharyngeal arches. J Anat (2005)"} property_value: UBPROP:0000003 "A conserved feature of all vertebrate embryos is the presence of a series of bulges on the lateral surface of the head, the pharyngeal arches; it is within these structures that the nerves, muscles and skeletal components of the pharyngeal apparatus are laid down.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000155", ontology="VHOG", source="DOI:10.1111/j.1469-7580.2005.00472.x Graham A, Okabe M and Quinlan R, The role of the endoderm in the development and evolution of the pharyngeal arches. J Anat (2005)", source="http://bgee.unil.ch/"} property_value: UBPROP:0000013 "Numbered cranial to caudal. different in mammals. branchial arch = ZFA:0001613 pharyngeal arch 3-7. generally gill arch 1 = pharyngeal arch 3. terminology varies as to whether branchial arch follows gill or pharyngeal numbering" xsd:string [Term] id: UBERON:0002546 name: cranial placode namespace: uberon def: "Ectodermal placode that develops in the head into a part of the sensory nervous system. With a few exceptions (lens, adenohypophyseal), cranial placodes are neurogenic." [http://www.ncbi.nlm.nih.gov/books/NBK53175/, https://github.com/obophenotype/uberon/issues/135, https://github.com/seger/aao/issues/4, https://orcid.org/0000-0002-6601-2165, https://sourceforge.net/p/obo/xenopus-anatomy-xao-term-requests/11/] subset: efo_slim synonym: "cranial placodes" RELATED PLURAL [XAO:0000305] synonym: "ectodermal cranial placode" EXACT [UBERON:cjm] synonym: "ectodermal placode" BROAD INCONSISTENT [FMA:293966, http://www.ncbi.nlm.nih.gov/pubmed/22512454] synonym: "ectodermal placode" BROAD INCONSISTENT [FMA:293966, PMID:22512454] synonym: "placode" BROAD [http://en.wikipedia.org/wiki/Placode] synonym: "placode" BROAD [Wikipedia:Placode] xref: AAO:0010466 xref: EFO:0001650 xref: FMA:293966 xref: MAT:0000369 xref: MIAA:0000369 xref: XAO:0000305 is_a: UBERON:0005085 {source="cjm"} ! ectodermal placode relationship: only_in_taxon NCBITaxon:7711 {source="PMID:11523831", source="PMID:22512454"} ! Chordata relationship: only_in_taxon NCBITaxon:7711 {source="http://www.ncbi.nlm.nih.gov/pubmed/11523831", source="http://www.ncbi.nlm.nih.gov/pubmed/22512454"} ! Chordata relationship: part_of UBERON:0000033 ! head property_value: editor_note "Do not merge with neurogenic placode" xsd:string property_value: UBPROP:0000008 "Comparisons of developmental gene expression suggest that the anterior ectoderm in amphioxus may be homologous to the vertebrate olfactory placode, the only vertebrate placode with primary, not secondary, neurons" xsd:string {source="http://www.ncbi.nlm.nih.gov/pubmed/11523831"} property_value: UBPROP:0000008 "Comparisons of developmental gene expression suggest that the anterior ectoderm in amphioxus may be homologous to the vertebrate olfactory placode, the only vertebrate placode with primary, not secondary, neurons" xsd:string {source="PMID:11523831"} property_value: UBPROP:0000013 "The term placode or placodes also applies to developing organs such as teeth, mammary glands, hair follicles, feathers and scales. We include a separate parent class for this. to avoid confusion, we include neurogenic placode as a subclass" xsd:string [Term] id: UBERON:0002548 name: larva namespace: uberon def: "A distinct juvenile form many animals undergo before metamorphosis into adults. Animals with indirect development such as insects, amphibians, or cnidarians typically have a larval phase of their life cycle." [http://en.wikipedia.org/wiki/Larva] subset: uberon_slim synonym: "ammocoete" NARROW [http://en.wikipedia.org/wiki/Larva] synonym: "bipinnaria" NARROW [http://en.wikipedia.org/wiki/Larva] synonym: "caterpillar" NARROW [http://en.wikipedia.org/wiki/Larva] synonym: "glochidium" NARROW [http://en.wikipedia.org/wiki/Larva] synonym: "grub" NARROW [http://en.wikipedia.org/wiki/Larva] synonym: "larval organism" EXACT [TAO:0002048] synonym: "leptocephalus" NARROW [http://en.wikipedia.org/wiki/Larva] synonym: "maggot" NARROW [http://en.wikipedia.org/wiki/Larva] synonym: "naiad" NARROW [http://en.wikipedia.org/wiki/Larva] synonym: "nymph" NARROW [http://en.wikipedia.org/wiki/Larva] synonym: "planula" NARROW [http://en.wikipedia.org/wiki/Larva] synonym: "tadpole" NARROW [http://en.wikipedia.org/wiki/Larva] synonym: "trochophore" NARROW [http://en.wikipedia.org/wiki/Larva] synonym: "veliger" NARROW [http://en.wikipedia.org/wiki/Larva] synonym: "wriggler" NARROW [http://en.wikipedia.org/wiki/Larva] synonym: "zoea" NARROW [http://en.wikipedia.org/wiki/Larva] xref: AEO:0000126 xref: BTO:0000707 xref: FBbt:00001727 xref: HAO:0000459 xref: http://en.wikipedia.org/wiki/Larva xref: OpenCyc:Mx4rwQCBvZwpEbGdrcN5Y29ycA xref: TAO:0002048 is_a: UBERON:0000468 ! multicellular organism intersection_of: UBERON:0000468 ! multicellular organism intersection_of: existence_starts_and_ends_during UBERON:0000069 ! larval stage relationship: existence_starts_and_ends_during UBERON:0000069 ! larval stage relationship: has_quality PATO:0001185 ! larval property_value: editor_note "TODO discriminate between stages and organisms" xsd:string property_value: UBPROP:0000001 "Whole organism that is premetamorphic or a very immature individual.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0002048", ontology="TAO", source="TAO:wd"} property_value: UBPROP:0000007 "larval" xsd:string [Term] id: UBERON:0002553 name: anatomical cavity namespace: uberon def: "Anatomical space which contains portions of one or more body substances and is bounded by the internal surface of one maximally connected anatomical structure. Examples: cranial cavity, pharyngeal recess space, nasal cavity, tooth socket, cavity of serous sac, lumen of stomach, lumen of artery, fornix of vagina." [FMA:67552] subset: upper_level synonym: "cavity" BROAD [] xref: BIRNLEX:1011 xref: EMAPA:37442 {source="MA:th"} xref: FMA:67552 xref: galen:Cavity xref: MA:0002447 xref: NCIT:C34007 is_a: UBERON:0000464 ! anatomical space relationship: location_of UBERON:0000463 ! organism substance [Term] id: UBERON:0002616 name: regional part of brain namespace: uberon def: "Anatomical divisons of the brain according to one or more criteria, e.g. cytoarchitectural, gross anatomy. Parts may be contiguous in 3D or not, e.g., basal ganglia." [BIRNLEX:1167] subset: non_informative synonym: "anatomical structure of brain" EXACT [OBOL:automatic] synonym: "biological structure of brain" EXACT [OBOL:automatic] synonym: "brain anatomical structure" EXACT [OBOL:automatic] synonym: "brain biological structure" EXACT [OBOL:automatic] synonym: "brain part" EXACT [] synonym: "neuraxis segment" EXACT [FMA:55676] synonym: "neuroanatomical region" EXACT [] synonym: "segment of brain" EXACT [BIRNLEX:1167] xref: BIRNLEX:1167 xref: FMA:55676 xref: http://linkedlifedata.com/resource/umls/id/C0445620 xref: http://www.snomedbrowser.com/Codes/Details/384763002 xref: NCIT:C13031 xref: SCTID:384763002 xref: UMLS:C0445620 {source="ncithesaurus:Brain_Part"} is_a: UBERON:0000073 ! regional part of nervous system is_a: UBERON:0004121 ! ectoderm-derived structure intersection_of: UBERON:0000481 ! multi-tissue structure intersection_of: part_of UBERON:0000955 ! brain relationship: composed_primarily_of UBERON:0003714 ! neural tissue relationship: part_of UBERON:0000955 ! brain [Term] id: UBERON:0002726 name: cervical spinal cord namespace: uberon def: "A spinal cord segment that adjacent_to a cervical region." [OBOL:automatic] synonym: "cervical segment of spinal cord" EXACT [FMA:71166] synonym: "cervical segments of spinal cord [1-8]" EXACT [FMA:71166] synonym: "cervical spinal cord" EXACT [FMA:71166] synonym: "pars cervicalis medullae spinalis" EXACT LATIN [FMA:71166, FMA:TA] synonym: "segmenta cervicalia medullae spinalis [1-8" EXACT LATIN [FMA:71166, FMA:TA] xref: BIRNLEX:1499 xref: FMA:71166 xref: http://braininfo.rprc.washington.edu/centraldirectory.aspx?ID=1654 xref: MA:0003081 xref: NCIT:C12892 xref: SCTID:180960003 xref: UMLS:C0581619 {source="BIRNLEX:1499"} xref: UMLS:C0581619 {source="ncithesaurus:Cervical_Spinal_Cord"} xref: UMLS:C1278837 {source="BIRNLEX:1499"} is_a: UBERON:0005844 ! spinal cord segment intersection_of: UBERON:0005844 ! spinal cord segment intersection_of: adjacent_to UBERON:0005434 ! cervical region relationship: adjacent_to UBERON:0005434 ! cervical region relationship: only_in_taxon NCBITaxon:8287 ! Sarcopterygii [Term] id: UBERON:0002925 name: trigeminal nucleus namespace: uberon def: "A nucleus of brain that is part of a trigeminal nuclear complex." [OBOL:automatic] subset: uberon_slim synonym: "nucleus mesencephalicus nervi trigemini" RELATED [BTO:0001074] synonym: "nucleus mesencephalicus trigeminalis" RELATED [BTO:0001074] synonym: "nucleus of trigeminal nuclear complex" EXACT [FMA:71247] synonym: "nucleus tractus mesencephali nervi trigeminalis" RELATED [BTO:0001074] synonym: "trigeminal nuclear complex nucleus" EXACT [FMA:71247] synonym: "trigeminal nucleus" EXACT [FMA:71248] synonym: "trigeminal V nucleus" EXACT [MA:0001028] xref: BM:V xref: BTO:0001074 xref: CALOHA:TS-2077 xref: EMAPA:35883 xref: EV:0100271 xref: FMA:71247 xref: GAID:604 xref: http://uri.neuinfo.org/nif/nifstd/nifext_11 xref: MA:0001028 xref: MESH:D014278 xref: NCIT:C12807 xref: SCTID:280164007 xref: UMLS:C0040999 {source="ncithesaurus:Trigeminal_Nucleus"} xref: VHOG:0001353 is_a: UBERON:0000126 ! cranial nerve nucleus intersection_of: UBERON:0002308 ! nucleus of brain intersection_of: part_of UBERON:0007641 ! trigeminal nuclear complex relationship: extends_fibers_into UBERON:0001645 ! trigeminal nerve relationship: part_of UBERON:0007641 ! trigeminal nuclear complex property_value: UBPROP:0000012 "massive inconsistencies between GO, MA, wikipedia. Part of pons in MA, but this leads to inconsistencies with ABA." xsd:string {external_ontology="GO", url="https://github.com/obophenotype/mouse-anatomy-ontology/issues/58"} [Term] id: UBERON:0003023 name: pontine tegmentum namespace: uberon def: "Dorsal portion of the pons, containing cranial nervee nuclei, ascending and descending tracts and reticular nuclei. It is continuous with the reticular formation of the medulla (Carpenter, A Core Text of Neuroanatomy, 3rd ed, 1985, pg 133)." [BIRNLEX:923] subset: uberon_slim synonym: "dorsal pons" EXACT [] synonym: "dorsal portion of pons" EXACT [FMA:71108] synonym: "pars dorsalis pontis" RELATED LATIN [NeuroNames:557] synonym: "pars posterior pontis" RELATED LATIN [NeuroNames:557] synonym: "tegmental portion of pons" EXACT [FMA:71108] synonym: "tegmentum of pons" EXACT [FMA:71108] synonym: "tegmentum pontis" EXACT LATIN [FMA:71108, FMA:TA] synonym: "tegmentum pontis" RELATED LATIN [Wikipedia:Pontine_tegmentum] xref: BAMS:PTg xref: BIRNLEX:923 xref: DHBA:12416 xref: FMA:71108 xref: HBA:9135 xref: http://braininfo.rprc.washington.edu/centraldirectory.aspx?ID=557 {source="BIRNLEX:923"} xref: SCTID:362401009 xref: UMLS:C0228426 {source="BIRNLEX:923"} xref: Wikipedia:Pontine_tegmentum is_a: UBERON:0000064 ! organ part is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: has_part UBERON:0002047 ! pontine raphe nucleus relationship: has_part UBERON:0002128 ! superior olivary complex relationship: has_part UBERON:0002148 ! locus ceruleus relationship: has_part UBERON:0002149 ! superior salivatory nucleus relationship: part_of UBERON:0000988 ! pons property_value: depicted:by Brainstem:Abducens.png xsd:anyURI property_value: UBPROP:0000009 "involved in the initiation of REM sleep [Wikipedia:Pontine_tegmentum]" xsd:string [Term] id: UBERON:0003037 name: septum namespace: uberon def: "A wall, dividing a cavity or structure into smaller ones[WP]." [Wikipedia:Septum] def: "A wall, dividing a cavity or structure into smaller ones[WP]." [http://en.wikipedia.org/wiki/Septum] comment: general anatomical term in FMA subset: pheno_slim synonym: "septa" EXACT PLURAL [] xref: AAO:0011127 xref: FMA:86461 xref: http://en.wikipedia.org/wiki/Septum xref: OpenCyc:Mx4rrqot_on_EdaAAAACs0uFOQ xref: Wikipedia:Septum is_a: UBERON:0000061 ! anatomical structure relationship: located_in UBERON:0002553 ! anatomical cavity property_value: UBPROP:0000007 "septal" xsd:string [Term] id: UBERON:0003038 name: thoracic spinal cord namespace: uberon def: "The thoracic nerves are the spinal nerves emerging from the thoracic vertebrae. [WP,unvetted]." [Wikipedia:Thoracic_spinal_cord] subset: uberon_slim synonym: "pars thoracica medullae spinalis" EXACT LATIN [FMA:71167, FMA:TA] synonym: "segmenta thoracica medullae spinalis [1-12]" EXACT LATIN [FMA:71167, FMA:TA] synonym: "thoracic region of spinal cord" EXACT [FMA:71167] synonym: "thoracic segment of spinal cord" EXACT [FMA:71167] synonym: "thoracic segments of spinal cord [1-12]" EXACT [FMA:71167] synonym: "thoracic spinal cord" EXACT [FMA:71167] xref: BIRNLEX:966 xref: FMA:71167 xref: http://braininfo.rprc.washington.edu/centraldirectory.aspx?ID=1718 xref: MA:0003082 xref: NCIT:C12894 xref: SCTID:278750009 xref: UMLS:C0581620 {source="ncithesaurus:Thoracic_Spinal_Cord"} xref: UMLS:C0581620 {source="BIRNLEX:966"} xref: Wikipedia:Thoracic_spinal_cord is_a: UBERON:0005844 ! spinal cord segment intersection_of: UBERON:0005844 ! spinal cord segment intersection_of: part_of UBERON:0000915 ! thoracic segment of trunk relationship: part_of UBERON:0008231 ! dorsal thoracic segment of trunk property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/6/68/Gray820.png xsd:anyURI [Term] id: UBERON:0003052 name: midbrain-hindbrain boundary namespace: uberon def: "The part of the brain that is the morphological boundary between the midbrain and hindbrain and that is the location of an organizing center which patterns the midbrain and hindbrain primordia of the neural plate." [GO:0021555] subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "isthmic organizer territory" RELATED [XAO:0000016] synonym: "isthmo-cerebellar region" RELATED [VHOG:0000649] synonym: "isthmus" RELATED [] synonym: "isthmus/MHB" RELATED [Geisha:syn, NCBITaxon:8782] synonym: "MHB" EXACT [] synonym: "mid-hindbrain boundary" EXACT [] synonym: "mid-hindbrain junction" EXACT [] synonym: "midbrain hindbrain boundary" EXACT [] xref: AAO:0011064 xref: DMBA:16810 xref: EHDAA2:0004395 xref: EHDAA:5789 xref: EMAPA:32857 xref: http://braininfo.rprc.washington.edu/centraldirectory.aspx?ID=2076 xref: NCIT:C93172 xref: TAO:0000042 xref: VHOG:0000649 xref: XAO:0000016 xref: ZFA:0000042 is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0007651 {inconsistent_with="ZFA", source="https://sourceforge.net/p/obo/zebrafish-anatomy-zfa-term-requests/106/"} ! anatomical junction is_a: UBERON:0007651 {inconsistent_with="ZFA", source="https://sourceforge.net/p/obo/zebrafish-anatomy-zfa-term-requests/106/"} ! anatomical junction is_a: UBERON:0010314 ! structure with developmental contribution from neural crest intersection_of: UBERON:0007651 ! anatomical junction intersection_of: UBERON:0007651 ! anatomical junction intersection_of: overlaps UBERON:0001891 ! midbrain intersection_of: overlaps UBERON:0002028 ! hindbrain relationship: develops_from UBERON:0009615 ! midbrain hindbrain boundary neural plate relationship: immediate_transformation_of UBERON:0009615 {source="ZFA"} ! midbrain hindbrain boundary neural plate relationship: overlaps UBERON:0001891 ! midbrain relationship: overlaps UBERON:0002028 ! hindbrain relationship: part_of UBERON:0000955 {source="ZFA"} ! brain property_value: editor_note "consider adding class for organizer. Consider adding separate class for isthmus as a structure" xsd:string property_value: UBPROP:0000003 "Lampreys also have an MHB [midbrain hindbrain boundary], expressing a similar repertoire of regulatory gene cognates as in gnathostomes.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000649", ontology="VHOG", source="DOI:10.1016/j.ydbio.2005.02.008 Murakami Y, Uchida K, Rijli FM and Kuratani S, Evolution of the brain developmental plan: Insights from agnathans. Developmental Biology (2005)", source="http://bgee.unil.ch/"} property_value: UBPROP:0000003 "Lampreys also have an MHB [midbrain hindbrain boundary], expressing a similar repertoire of regulatory gene cognates as in gnathostomes.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000649", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1016/j.ydbio.2005.02.008 Murakami Y, Uchida K, Rijli FM and Kuratani S, Evolution of the brain developmental plan: Insights from agnathans. Developmental Biology (2005)"} [Term] id: UBERON:0003055 name: periderm namespace: uberon def: "A temporary epithelium that derives from the outer layer of the ectdoerm and is shed once the inner layer differentiates to form a true epidermis." [ISBN:9780878932504] subset: pheno_slim subset: uberon_slim synonym: "epidermis epithelial layer" RELATED [] synonym: "epidermis outer layer" RELATED [] synonym: "epitrichium" RELATED [MP:0013530] synonym: "EVL" RELATED [ZFA:0001185] synonym: "periderm" RELATED [] synonym: "skin periderm" EXACT [EHDAA2:0001846] xref: EHDAA2:0001846 xref: EHDAA:6538 xref: FMA:295662 xref: http://linkedlifedata.com/resource/umls/id/C1518973 xref: NCIT:C34247 xref: TAO:0001185 xref: UMLS:C1518973 {source="ncithesaurus:Periderm"} xref: VHOG:0001680 xref: XAO:0000029 xref: ZFA:0001185 is_a: UBERON:0000487 {source="EHDAA2"} ! simple squamous epithelium is_a: UBERON:0010371 ! ecto-epithelium relationship: develops_from UBERON:0007383 {source="ZFA"} ! enveloping layer of ectoderm relationship: part_of UBERON:0002199 {source="EHDAA2"} ! integument property_value: UBPROP:0000001 "The outermost epidermal layer covering the fish at embryonic stages; derived from the EVL and thought to eventually be replaced by the superficial stratum of the epidermis. Sometimes used synonymously with EVL. Le Guellec et al, 2004.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0001185", ontology="TAO", source="ZFIN:curator"} property_value: UBPROP:0000002 "relationship type change: OBO_REL:part_of ectoderm (TAO:0000016) CHANGED TO: develops_from ectoderm (UBERON:0000924)[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0001185", ontology="TAO"} property_value: UBPROP:0000008 "In mice, the first non-basal layer formed at ~E9.5; it is a temporary structure composed of simple squamous epithelium that serves as the first barrier to the embryo's physical environment, exists throughout the entire keratinocyte stratification process, and sheds off at ~E17, when it is replaced by corneocytes[MP]" xsd:string property_value: UBPROP:0000011 "In some mammals, Eyelid Fusion is thought to be driven by a population of cells which are derived from the periderm, the outermost layer of the developing epidermis" xsd:string property_value: UBPROP:0000011 "Originally the epidermis is one layer thick, in most vertebrates it soon becomes a two-layered structure. The outer layer gives rise to the periderm. The periderm goes through distinct developmental phases and is ultimately sloughed into the amniotic fluid when differentiation of the underlying epidermal layers is complete. The function of the periderm is not known, but is thought to be related to transport/exchange between the fetus and the amniotic fluid (http://courses.washington.edu/hubio567/devbio/periderm.html)" xsd:string [Term] id: UBERON:0003056 name: pre-chordal neural plate namespace: uberon def: "The portion of neural plate anterior to the mid-hindbrain junction." [XB:curator] synonym: "anterior neural plate" RELATED [] xref: AAO:0011084 xref: TAO:0007016 xref: VHOG:0001200 xref: XAO:0000045 xref: ZFA:0007016 is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0005291 ! embryonic tissue relationship: anterior_to UBERON:0009615 ! midbrain hindbrain boundary neural plate relationship: part_of UBERON:0003075 ! neural plate property_value: UBPROP:0000003 "(...) at some stage of its development, every chordate exhibits five uniquely derived characters or synapomorphies of the group: (...) (4) a single, tubular nerve cord that is located dorsal to the notochord (...).[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001200", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.28"} property_value: UBPROP:0000003 "(...) at some stage of its development, every chordate exhibits five uniquely derived characters or synapomorphies of the group: (...) (4) a single, tubular nerve cord that is located dorsal to the notochord (...).[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001200", ontology="VHOG", source="ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.28", source="http://bgee.unil.ch/"} [Term] id: UBERON:0003057 name: chordal neural plate namespace: uberon def: "The portion of neural plate posterior to the mid-hindbrain junction." [XB:curator] synonym: "posterior neural plate" RELATED [] xref: TAO:0007017 xref: VHOG:0001201 xref: XAO:0000046 xref: ZFA:0007017 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0002050 ! embryonic structure relationship: part_of UBERON:0003075 ! neural plate relationship: posterior_to UBERON:0009615 ! midbrain hindbrain boundary neural plate property_value: UBPROP:0000003 "(...) at some stage of its development, every chordate exhibits five uniquely derived characters or synapomorphies of the group: (...) (4) a single, tubular nerve cord that is located dorsal to the notochord (...).[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001201", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.28"} property_value: UBPROP:0000003 "(...) at some stage of its development, every chordate exhibits five uniquely derived characters or synapomorphies of the group: (...) (4) a single, tubular nerve cord that is located dorsal to the notochord (...).[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001201", ontology="VHOG", source="ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.28", source="http://bgee.unil.ch/"} [Term] id: UBERON:0003059 name: presomitic mesoderm namespace: uberon def: "Unsegmented field of paraxial mesoderm present posterior to the most recently formed somite pair, from which somites will form." [ZFIN:curator] subset: efo_slim subset: pheno_slim synonym: "presumptive somite mesoderm" RELATED [] synonym: "PSM" RELATED [] synonym: "segmental plate" EXACT [] synonym: "somitogenic mesoderm" RELATED [] synonym: "somitomeric mesoderm" RELATED [GO:0002075] synonym: "unsegmented mesenchyme" RELATED [VHOG:0000559] synonym: "unsegmented paraxial mesoderm" EXACT [https://orcid.org/0000-0002-6601-2165] xref: AAO:0011086 xref: EFO:0001982 xref: EMAPA:16189 xref: EMAPA:16752 xref: TAO:0000279 xref: VHOG:0000559 xref: XAO:0000057 xref: ZFA:0000279 is_a: UBERON:0006598 ! presumptive structure intersection_of: UBERON:0005423 ! developing anatomical structure intersection_of: has_potential_to_develop_into UBERON:0002329 ! somite intersection_of: immediate_transformation_of UBERON:0007282 ! presumptive segmental plate relationship: develops_from UBERON:0007282 ! presumptive segmental plate relationship: has_potential_to_develop_into UBERON:0002329 ! somite relationship: immediate_transformation_of UBERON:0007282 {source="Bgee:AN"} ! presumptive segmental plate relationship: part_of UBERON:0003077 ! paraxial mesoderm property_value: UBPROP:0000001 "Unsegmented field of paraxial mesoderm present posterior to the most recently formed somite pair, from which somites will form. Kimmel et al, 1995.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0000279", ontology="TAO", source="ZFIN:curator"} property_value: UBPROP:0000003 "It is reasonable to assume that the proximate invertebrate ancestor of the vertebrates had an amphioxus-like tail bud in its larval stage. This archetypal tail bud would have (...) (3) lacked any component of mesenchyme cells, (4) budded off new mesodermal segments directly, without any intervening zone of presomitic mesoderm (...). Then, early in vertebrate evolution, epithelium-to-mesenchyme interconversions (and the gene networks for effecting them) became prominent features of development. (...) In any case, conspicuous mesenchymal components tended to be added to the vertebrate tail bud itself. In addition, a mesenchymatous presomitic mesoderm (not a part of the tail bud proper) came to intervene between the tail bud and the forming somites.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000559", ontology="VHOG", source="DOI:10.1006/dbio.2001.0460 Schubert M, Holland LZ, Dale Stokes M and Holland ND, Three Amphoxius Wnt Genes (AmphiWnt3, AmphiWnt5, and AmphiWnt6) Associated with the Tail Bud: the Evolution of Somitogenesis in Chordates. Developmental Biology (2001)", source="http://bgee.unil.ch/"} property_value: UBPROP:0000003 "It is reasonable to assume that the proximate invertebrate ancestor of the vertebrates had an amphioxus-like tail bud in its larval stage. This archetypal tail bud would have (...) (3) lacked any component of mesenchyme cells, (4) budded off new mesodermal segments directly, without any intervening zone of presomitic mesoderm (...). Then, early in vertebrate evolution, epithelium-to-mesenchyme interconversions (and the gene networks for effecting them) became prominent features of development. (...) In any case, conspicuous mesenchymal components tended to be added to the vertebrate tail bud itself. In addition, a mesenchymatous presomitic mesoderm (not a part of the tail bud proper) came to intervene between the tail bud and the forming somites.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000559", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1006/dbio.2001.0460 Schubert M, Holland LZ, Dale Stokes M and Holland ND, Three Amphoxius Wnt Genes (AmphiWnt3, AmphiWnt5, and AmphiWnt6) Associated with the Tail Bud: the Evolution of Somitogenesis in Chordates. Developmental Biology (2001)"} [Term] id: UBERON:0003061 name: blood island namespace: uberon def: "Blood islands are structures in the developing embryo which lead to many different parts of the circulatory system. They primarily derive from plexuses formed from angioblasts. Within them, vacuoles appear through liquefaction of the central part of the syncytium into plasma. The lumen of the blood vessels thus formed is probably intracellular. The flattened cells at the periphery form the endothelium. The nucleated red blood corpuscles develop either from small masses of the original angioblast left attached to the inner wall of the lumen or directly from the flat endothelial cells. In either case the syncytial mass thus formed projects from and is attached to the wall of the vessel. Such a mass is known as a blood island and hemoglobin gradually accumulates within it. Later the cells on the surface round up, giving the mass a mulberry-like appearance. Then the red blood cells break loose and are carried away in the plasma. Such free blood cells continue to divide. Blood islands have been seen in the area vasculosa in the omphalomesenteric vein and arteries, and in the dorsal aorta[WP, unvetted]." [Wikipedia:Blood_island_of_umbilical_vesicle] def: "Blood islands are structures in the developing embryo which lead to many different parts of the circulatory system. They primarily derive from plexuses formed from angioblasts. Within them, vacuoles appear through liquefaction of the central part of the syncytium into plasma. The lumen of the blood vessels thus formed is probably intracellular. The flattened cells at the periphery form the endothelium. The nucleated red blood corpuscles develop either from small masses of the original angioblast left attached to the inner wall of the lumen or directly from the flat endothelial cells. In either case the syncytial mass thus formed projects from and is attached to the wall of the vessel. Such a mass is known as a blood island and hemoglobin gradually accumulates within it. Later the cells on the surface round up, giving the mass a mulberry-like appearance. Then the red blood cells break loose and are carried away in the plasma. Such free blood cells continue to divide. Blood islands have been seen in the area vasculosa in the omphalomesenteric vein and arteries, and in the dorsal aorta[WP, unvetted]." [http://en.wikipedia.org/wiki/Blood_island_of_umbilical_vesicle] subset: efo_slim subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "blood islands" EXACT PLURAL [] synonym: "caudal hematopoietic tissue" RELATED [] synonym: "posterior blood island" RELATED [] synonym: "posterior ICM" RELATED [] synonym: "VBI" RELATED [] synonym: "ventral blood island" RELATED [] synonym: "ventral lateral plate mesoderm" BROAD [] xref: AAO:0011006 xref: EFO:0003489 xref: EHDAA:207 xref: http://en.wikipedia.org/wiki/Blood_island_of_umbilical_vesicle xref: http://linkedlifedata.com/resource/umls/id/C1511224 xref: NCIT:C34113 xref: TAO:0000094 xref: TE:E5.11.2.0.0.0.4 xref: UMLS:C1511224 {source="ncithesaurus:Blood_Island"} xref: VHOG:0000085 xref: Wikipedia:Blood_island_of_umbilical_vesicle xref: XAO:0000067 xref: ZFA:0000094 is_a: UBERON:0006598 ! presumptive structure relationship: contains_process GO:0001525 {source="ISBN:0073040584"} ! angiogenesis relationship: contains_process GO:0030097 {source="ISBN:0073040584"} ! hemopoiesis relationship: develops_from UBERON:0003081 ! lateral plate mesoderm relationship: has_potential_to_develop_into UBERON:0002390 ! hematopoietic system property_value: UBPROP:0000001 "Nests of developing blood cells arising late in the segmentation period from the intermediate mass, and located in the anterior-ventral tail, just posterior to the yolk extension. Kimmel et al, 1995.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0000094", ontology="TAO", source="ZFIN:curator"} property_value: UBPROP:0000001 "Region located on the ventral surface of the developing embryo that is a site of hematopoiesis and that is analogous to the yolk sac blood islands of higher vertebrates.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0011006", ontology="AAO", source="AAO:EJS"} property_value: UBPROP:0000002 "relationship loss: part_of intermediate cell mass of mesoderm (TAO:0000033)[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0000094", ontology="TAO"} property_value: UBPROP:0000003 "Small clusters of mesodermal cells called blood islands mark the embryonic debut of the cardiovascular system (in vertebrates) (reference 1); In birds and mammals, primitive hemangioblasts are extraembryonic, populating the yolk sac as the so-called blood islands (reference 2).[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000085", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.450, DOI:10.1146/annurev.cellbio.22.010605.093317 Hartenstein V, Blood cells and blood cell development in the animal kingdom. Annual Review of Cell and Developmental Biology (2006)"} property_value: UBPROP:0000003 "Small clusters of mesodermal cells called blood islands mark the embryonic debut of the cardiovascular system (in vertebrates) (reference 1); In birds and mammals, primitive hemangioblasts are extraembryonic, populating the yolk sac as the so-called blood islands (reference 2).[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000085", ontology="VHOG", source="ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.450, DOI:10.1146/annurev.cellbio.22.010605.093317 Hartenstein V, Blood cells and blood cell development in the animal kingdom. Annual Review of Cell and Developmental Biology (2006)", source="http://bgee.unil.ch/"} property_value: UBPROP:0000012 "EHDAA2 distinguishes 3 types, but does not have a superclass. The VHOG class may refer to yolk sac" xsd:string {external_ontology="EHDAA2"} [Term] id: UBERON:0003063 name: prechordal plate namespace: uberon alt_id: UBERON:0004881 def: "A horseshoe-shaped thickening of the endoderm at the cranial (rostral) end of the primitive streak formed by the involution of Spemann's organizer cells which, together with the notochord, induces the formation of the neural plate from the overlying ectodermal cells and contributes mesodermal type cells to the surrounding tissue" [ISBN:0838580343, MP:0004387] def: "A horseshoe-shaped thickening of the endoderm at the cranial (rostral) end of the primitive streak formed by the involution of Spemann's organizer cells which, together with the notochord, induces the formation of the neural plate from the overlying ectodermal cells and contributes mesodermal type cells to the surrounding tissue." [ISBN:0838580343, MP:0004387] subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "head mesenchyme" BROAD [XAO:0000079] synonym: "head mesoderm" BROAD [XAO:0000079] xref: AAO:0011085 xref: EHDAA2:0001493 xref: EHDAA:181 xref: FMA:295532 xref: Prechordal:plate xref: TAO:0000060 xref: VHOG:0000086 xref: Wikipedia:Prechordal_plate xref: XAO:0000079 xref: ZFA:0000060 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0002050 ! embryonic structure relationship: develops_from UBERON:0034878 ! prechordal mesoderm relationship: part_of UBERON:0003068 {source="ZFA"} ! axial mesoderm relationship: transformation_of UBERON:0034878 {todo="PMID:16313393"} ! prechordal mesoderm property_value: editor_note "TODO - check; developmental relationship to anterior hypoblast in ZFA?" xsd:string property_value: UBPROP:0000001 "Axial hypoblast located anterior to the chorda mesoderm; the polster is its most anterior region. Kimmel et al, 1995.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0000060", ontology="TAO", source="ZFIN:curator"} property_value: UBPROP:0000001 "Axial mesoderm that lies anterior to the notochord and that underlies the forebrain. [Amphioxus_goosecoid_and_the_evolution_of_the_head_organizer_and_prechordal_plate._Evolution_and_Development_(2008)_2(6):303-310, Neidert_AH, Panopoulou_G_and_Langeland_JA][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000086", ontology="VHOG", source="http://bgee.unil.ch/"} property_value: UBPROP:0000001 "Axial mesoderm that lies anterior to the notochord and that underlies the forebrain. [Amphioxus_goosecoid_and_the_evolution_of_the_head_organizer_and_prechordal_plate._Evolution_and_Development_(2008)_2(6):303-310, Neidert_AH, Panopoulou_G_and_Langeland_JA][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000086", ontology="VHOG", source="http://bgee.unil.ch/"} property_value: UBPROP:0000003 "There are two opposing models that can potentially explain the differences in gsc (goosecoid) expression between amphioxus and vertebrates. In one model, the vertebrate gsc expression pattern more closely resembles the common ancestral state and the amphioxus gsc expression pattern is a derivation associated with its unique morphology. (...) In an alternate model, the amphioxus gsc expression pattern most closely represents the common ancestral state and the vertebrate pattern is derived. This model suggests that the evolution of vertebrates was accompanied by the segregation of gsc expression, from a more general domain underlying the entire brain anlage to a distinct forebrain organizer domain and subsequent prechordal plate. We feel this second model is more parsimonious than the first model in that what would be novel anterior gsc expression in vertebrates directly correlates with a novel vertebrate anterior structure, the prechordal plate.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000086", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1046/j.1525-142x.2000.00073.x Neidert AH, Panopoulou G and Langeland JA, Amphioxus goosecoid and the evolution of the head organizer and prechordal plate. Evolution and Development (2008)"} property_value: UBPROP:0000003 "There are two opposing models that can potentially explain the differences in gsc (goosecoid) expression between amphioxus and vertebrates. In one model, the vertebrate gsc expression pattern more closely resembles the common ancestral state and the amphioxus gsc expression pattern is a derivation associated with its unique morphology. (...) In an alternate model, the amphioxus gsc expression pattern most closely represents the common ancestral state and the vertebrate pattern is derived. This model suggests that the evolution of vertebrates was accompanied by the segregation of gsc expression, from a more general domain underlying the entire brain anlage to a distinct forebrain organizer domain and subsequent prechordal plate. We feel this second model is more parsimonious than the first model in that what would be novel anterior gsc expression in vertebrates directly correlates with a novel vertebrate anterior structure, the prechordal plate.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000086", ontology="VHOG", source="DOI:10.1046/j.1525-142x.2000.00073.x Neidert AH, Panopoulou G and Langeland JA, Amphioxus goosecoid and the evolution of the head organizer and prechordal plate. Evolution and Development (2008)", source="http://bgee.unil.ch/"} [Term] id: UBERON:0003064 name: intermediate mesoderm namespace: uberon def: "The intermediate mesoderm is located between the lateral mesoderm and the paraxial mesoderm. It develops into the kidney and gonads." [GOC:curators, http://en.wikipedia.org/wiki/Intermediate_mesoderm] def: "The intermediate mesoderm is located between the lateral mesoderm and the paraxial mesoderm. It develops into the kidney and gonads." [GOC:curators, Wikipedia:Intermediate_mesoderm] subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "IM" RELATED [] synonym: "intermediate mesenchyme" RELATED [https://github.com/obophenotype/uberon/wiki/The-neural-crest] synonym: "intermediate plate" RELATED [EMAPA:16178] synonym: "intermediate plate mesoderm" RELATED [https://orcid.org/0000-0002-6601-2165] synonym: "mesenchyma intermedium" RELATED LATIN [Wikipedia:Intermediate_mesoderm] synonym: "mesenchyma intermedium" RELATED LATIN [http://en.wikipedia.org/wiki/Intermediate_mesoderm] xref: AAO:0010575 xref: EMAPA:16056 xref: EMAPA:16178 xref: FMA:293147 xref: http://linkedlifedata.com/resource/umls/id/C1284010 xref: http://www.snomedbrowser.com/Codes/Details/361476001 xref: Intermediate:mesoderm xref: NCIT:C34193 xref: SCTID:361476001 xref: TAO:0001206 xref: UMLS:C1284010 {source="ncithesaurus:Intermediate_Mesoderm"} xref: VHOG:0000087 xref: Wikipedia:Intermediate_mesoderm xref: XAO:0000085 xref: ZFA:0001206 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0002050 ! embryonic structure relationship: adjacent_to UBERON:0003077 ! paraxial mesoderm relationship: adjacent_to UBERON:0003081 ! lateral plate mesoderm relationship: develops_from UBERON:0000926 {source="XAO"} ! mesoderm relationship: part_of UBERON:0000926 {source="AAO"} ! mesoderm relationship: part_of UBERON:0005256 {source="EMAPA"} ! trunk mesenchyme property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/6/64/Gray19_with_color.png xsd:anyURI property_value: UBPROP:0000001 "Mesoderm between somite and lateral plate. Traditionally thought to give rise to the urogenital system.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0010575", ontology="AAO", source="AAO:EJS"} property_value: UBPROP:0000003 "(...)the mesoderm of a developing vertebrate transitionally differentiates into the following sub-types: Chordamesoderm (also known as axial mesoderm) which later on gives rise to notochord in all chordates, Paraxial mesoderm, Intermediate mesoderm, Lateral plate mesoderm (reference 1); The mesoderm is present in Bilateria, therefore they are sometimes called triploblasts. Ectoderm and endoderm are usually organized as epithelial layers, while mesoderm can be epithelial or a compact, three-dimensional tissue.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000087", ontology="VHOG", source="http://bgee.unil.ch/", source="Wikipedia:Mesoderm, ISBN:978-0198566694 Schmidt-Rhaesa A, The evolution of organ systems (2007) p.43"} property_value: UBPROP:0000003 "(...)the mesoderm of a developing vertebrate transitionally differentiates into the following sub-types: Chordamesoderm (also known as axial mesoderm) which later on gives rise to notochord in all chordates, Paraxial mesoderm, Intermediate mesoderm, Lateral plate mesoderm (reference 1); The mesoderm is present in Bilateria, therefore they are sometimes called triploblasts. Ectoderm and endoderm are usually organized as epithelial layers, while mesoderm can be epithelial or a compact, three-dimensional tissue.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000087", ontology="VHOG", source="Wikipedia:Mesoderm, ISBN:978-0198566694 Schmidt-Rhaesa A, The evolution of organ systems (2007) p.43", source="http://bgee.unil.ch/"} property_value: UBPROP:0000012 "all AOs differ in the relationship between this structure and the mesoderm; in ZFA it is a subclass (and this is implied by the GO definition and GO relationships), in AAO it is part of, and in EHDAA2 it develops from the mesoderm (but in EHDAA2 the naming convention is to use 'paraxial mesenchyme', rather than 'paraxial mesoderm')." xsd:string {external_ontology="ZFA"} [Term] id: UBERON:0003067 name: dorsolateral placode namespace: uberon def: "Lateral neurogenic placodes positioned dorsal of the epibranchial placodes." [ZFIN:curator] comment: The only remaining dorsolateral placode in land vertebrates is the otic/octaval placode synonym: "dorsolateral placodes" EXACT PLURAL [ZFA:0001310] xref: TAO:0001310 xref: VHOG:0000103 xref: XAO:0000187 xref: ZFA:0001310 is_a: UBERON:0009955 {source="NCBIBook:NBK53175"} ! neurogenic placode relationship: dorsal_to UBERON:0003078 ! epibranchial placode property_value: UBPROP:0000003 "In summary, the collective term 'placodes' refers to some rather different structures, probably with different evolutionary origins. Some sensory placodes (at least the otic and olfactory) may have homologues in basal chordates. Even if this is so, it is apparent that they were elaborated considerably during early vertebrate evolution. Epibranchial and dorsolateral placodes appear to be new; we infer that their origin depended on the evolution of specific inductive signals.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000103", ontology="VHOG", source="DOI:10.1073/pnas.97.9.4449 Shimeld SM and Holland PW. Vertebrate innovations. PNAS (2000)", source="http://bgee.unil.ch/"} [Term] id: UBERON:0003068 name: axial mesoderm namespace: uberon def: "The axial mesoderm includes the prechordal mesoderm and the chordamesoderm. It gives rise to the prechordal plate and to the notochord." [GO:0048318, http://en.wikipedia.org/wiki/Chordamesoderm] def: "The axial mesoderm includes the prechordal mesoderm and the chordamesoderm. It gives rise to the prechordal plate and to the notochord." [GO:0048318, Wikipedia:Chordamesoderm] subset: efo_slim subset: uberon_slim synonym: "chordamesoderm" RELATED [http://en.wikipedia.org/wiki/Chordamesoderm] synonym: "chordamesoderm" RELATED [Wikipedia:Chordamesoderm] xref: AAO:0011017 xref: EFO:0003647 xref: http://en.wikipedia.org/wiki/Chordamesoderm xref: TAO:0001204 xref: VHOG:0000107 xref: Wikipedia:Chordamesoderm xref: XAO:0000205 xref: ZFA:0001204 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0002050 ! embryonic structure relationship: develops_from UBERON:0000926 ! mesoderm relationship: only_in_taxon NCBITaxon:7711 ! Chordata relationship: part_of UBERON:0000926 ! mesoderm property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/6/64/Gray19_with_color.png xsd:anyURI property_value: UBPROP:0000001 "The portion of the mesoderm underlying the midline of the embryo. [Gastrulation:_From_cells_to_embryo_(2004)_Cold_Spring_Harbor, Glossary_XV, New_York:_Cold_Spring_Harbor_Laboratory_Press, Stern_CD][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000107", ontology="VHOG", source="http://bgee.unil.ch/"} property_value: UBPROP:0000001 "The portion of the mesoderm underlying the midline of the embryo. [Gastrulation:_From_cells_to_embryo_(2004)_Cold_Spring_Harbor, Glossary_XV, New_York:_Cold_Spring_Harbor_Laboratory_Press, Stern_CD][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000107", ontology="VHOG", source="http://bgee.unil.ch/"} [Term] id: UBERON:0003070 name: trigeminal placode complex namespace: uberon def: "A neurogenic placode that arises at the level of the midbrain-hindbrain boundary and develops into a trigeminal ganglion." [http://orcid.org/0000-0002-6601-2165, https://github.com/obophenotype/uberon/issues/693, PMID:22512454] subset: efo_slim synonym: "profundus placode" RELATED INCONSISTENT [ISBN:0471888893] synonym: "profundus V placode" RELATED INCONSISTENT [ISBN:0471888893] synonym: "trigeminal placode" EXACT [EHDAA2:0004209, VHOG:0000109, XAO:0000225, ZFA:0000162] synonym: "trigeminal placodes" RELATED PLURAL [ZFA:0000162] synonym: "trigeminal V placode" EXACT [] xref: EFO:0003433 xref: EHDAA2:0004209 xref: TAO:0000162 xref: VHOG:0000109 xref: XAO:0000225 xref: ZFA:0000162 is_a: UBERON:0003067 {source="ISBN:0471888893"} ! dorsolateral placode relationship: has_potential_to_developmentally_contribute_to UBERON:0003942 ! somatic sensory system property_value: UBPROP:0000001 "The ectodermal precursor of the trigeminal ganglion. The profundal and the trigeminal ganglia are separate distally but fused at their proximal end as they condense around NF stage 24.[XAO]" xsd:string {ontology="XAO"} property_value: UBPROP:0000001 "The ectodermal rudiment of the trigeminal ganglion, distinguishable during much of the segmentation period. Kimmel et al, 1995.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0000162", ontology="TAO", source="ZFIN:curator"} property_value: UBPROP:0000003 "The dorsolateral placodes (trigeminal and vestibular) develop from ectoderm lateral to the brain (...). In summary, the collective term 'placodes' refers to some rather different structures, probably with different evolutionary origins. Some sensory placodes (at least the otic and olfactory) may have homologues in basal chordates. Even if this is so, it is apparent that they were elaborated considerably during early vertebrate evolution. Epibranchial and dorsolateral placodes appear to be new; we infer that their origin depended on the evolution of specific inductive signals.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000109", ontology="VHOG", source="DOI:10.1073/pnas.97.9.4449 Shimeld SM and Holland PW. Vertebrate innovations. PNAS (2000)", source="http://bgee.unil.ch/"} property_value: UBPROP:0000013 "Consider naming this 'trigeminal placode complex'. Also, Fig9-5 of ISBN:0471888893 calls this the profundus placode; XAO says 'profundal and the trigeminal ganglia are separate distally but fused at their proximal end...'" xsd:string [Term] id: UBERON:0003071 name: eye primordium namespace: uberon alt_id: UBERON:0005060 def: "Portion of tissue that is part of the anterior neural keel and will form the optic vesicle[ZFA]. A paired ectodermal placode that becomes invaginated to form the embryonic lens vesicles." [GO:0046619, ZFA:0000570] subset: efo_slim synonym: "eye anlage" RELATED [XAO:0000227] synonym: "eye field" RELATED [] synonym: "eye placode" EXACT [OBOL:automatic] synonym: "occular primordium" EXACT [] synonym: "ocular primordium" EXACT [] synonym: "optic field" RELATED [] synonym: "optic placode" EXACT [GO:0046619] synonym: "optic placode of camera-type eye" EXACT [GO:0046619, https://orcid.org/0000-0002-6601-2165] synonym: "optic placodes" RELATED PLURAL [] synonym: "optic primordium" EXACT [] xref: AAO:0011038 xref: EFO:0003541 xref: EHDAA2:0004431 xref: TAO:0000570 xref: XAO:0000227 xref: XAO:0004090 xref: ZFA:0000570 is_a: UBERON:0000490 {source="EHDAA2"} ! unilaminar epithelium is_a: UBERON:0001048 ! primordium is_a: UBERON:0005291 ! embryonic tissue is_a: UBERON:0006598 ! presumptive structure is_a: UBERON:0010371 ! ecto-epithelium intersection_of: UBERON:0001048 ! primordium intersection_of: has_potential_to_develop_into UBERON:0000019 ! camera-type eye relationship: develops_from UBERON:0003056 ! pre-chordal neural plate relationship: has_potential_to_develop_into UBERON:0000019 ! camera-type eye relationship: part_of UBERON:0003056 {source="PMID:16496288", source="XAO"} ! pre-chordal neural plate relationship: part_of UBERON:0003056 {source="http://www.ncbi.nlm.nih.gov/pubmed/16496288", source="XAO"} ! pre-chordal neural plate property_value: UBPROP:0000012 "TODO - check that GO's optic placode is the same as ZFA's eye primordium; we may want to have separate term for ocular primordium precursor. XAO has both optic field and eye primordium." xsd:string {external_ontology="GO"} [Term] id: UBERON:0003072 name: optic cup namespace: uberon def: "Multi-tissue structure that is comprised of neural and non-neural epithelial layers which will form the retina and retinal pigmented epithelium of the mature eye[ZFA]. double walled structured formed by expansion and invagination of the distal end of the optic vesicle that develops into the pigmented and sensory layers of the retina while the mouth of the optic cup eventually forms the pupil of the eye[MP]." [http://en.wikipedia.org/wiki/Optic_cup_(embryology), MP:0004269, ZFA:0001202] def: "Multi-tissue structure that is comprised of neural and non-neural epithelial layers which will form the retina and retinal pigmented epithelium of the mature eye[ZFA]. double walled structured formed by expansion and invagination of the distal end of the optic vesicle that develops into the pigmented and sensory layers of the retina while the mouth of the optic cup eventually forms the pupil of the eye[MP]." [MP:0004269, Wikipedia:Optic_cup_(embryology), ZFA:0001202] subset: pheno_slim subset: vertebrate_core synonym: "eye cup" RELATED [] synonym: "eyecup" RELATED [BTO:0005351] synonym: "ocular cup" RELATED [VHOG:0000167] synonym: "ophtalmic cup" RELATED [BTO:0005351] xref: BTO:0005351 xref: EHDAA2:0001303 xref: EHDAA:2912 xref: EMAPA:16674 xref: http://linkedlifedata.com/resource/umls/id/C0231109 xref: http://www.snomedbrowser.com/Codes/Details/308789007 xref: NCIT:C34233 xref: SCTID:308789007 xref: TAO:0001202 xref: UMLS:C0231109 {source="ncithesaurus:Optic_Cup"} xref: VHOG:0000167 xref: ZFA:0001202 is_a: CARO:0000003 ! connected anatomical structure is_a: UBERON:0000481 ! multi-tissue structure is_a: UBERON:0004121 ! ectoderm-derived structure relationship: developmentally_induced_by UBERON:0003073 ! lens placode relationship: develops_from UBERON:0004128 {source="ZFA"} ! optic vesicle relationship: part_of UBERON:0010312 {source="ZFA"} ! immature eye property_value: UBPROP:0000003 "(...) an essentially similar sequence of events occurs during the embryonic development of the vertebrate eye. The eye initially develops as a single median evagination of the diencephalon that soon bifurcates to form the paired optic vesicles. As each optic vesicle grows towards the body surface, its proximal part narrows as the optic stalk, and its distal part invaginates to form a two-layered optic cup.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000167", ontology="VHOG", source="ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.429", source="http://bgee.unil.ch/"} property_value: UBPROP:0000003 "(...) an essentially similar sequence of events occurs during the embryonic development of the vertebrate eye. The eye initially develops as a single median evagination of the diencephalon that soon bifurcates to form the paired optic vesicles. As each optic vesicle grows towards the body surface, its proximal part narrows as the optic stalk, and its distal part invaginates to form a two-layered optic cup.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000167", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.429"} [Term] id: UBERON:0003073 name: lens placode namespace: uberon def: "A thickened portion of ectoderm which serves as the precursor to the lens. SOX2 and Pou2f1 are involved in its development[WP]." [Wikipedia:Lens_placode, ZFIN:curator] def: "A thickened portion of ectoderm which serves as the precursor to the lens. SOX2 and Pou2f1 are involved in its development[WP]." [http://en.wikipedia.org/wiki/Lens_placode, ZFIN:curator] subset: efo_slim subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "lens placodes" RELATED PLURAL [ZFA:0000122] synonym: "placoda lentis" RELATED LATIN [Wikipedia:Lens_placode] synonym: "placoda lentis" RELATED LATIN [http://en.wikipedia.org/wiki/Lens_placode] xref: AAO:0011055 xref: EFO:0003494 xref: EHDAA2:0000982 xref: EHDAA:2908 xref: EMAPA:16672 xref: FMA:296767 xref: http://linkedlifedata.com/resource/umls/id/C1517770 xref: Lens:placode xref: NCIT:C34202 xref: TAO:0000122 xref: UMLS:C1517770 {source="ncithesaurus:Lens_Placodes"} xref: VHOG:0000166 xref: Wikipedia:Lens_placode xref: XAO:0000240 xref: ZFA:0000122 is_a: CARO:0000003 ! connected anatomical structure is_a: UBERON:0002546 ! cranial placode is_a: UBERON:0006598 ! presumptive structure is_a: UBERON:0010312 ! immature eye is_a: UBERON:0011814 {source="NCBIBook:NBK53175"} ! non-neurogenic ectodermal placode intersection_of: UBERON:0005085 ! ectodermal placode intersection_of: has_potential_to_develop_into UBERON:0000965 ! lens of camera-type eye relationship: developmentally_induced_by UBERON:0004128 ! optic vesicle relationship: has_potential_to_develop_into UBERON:0000965 ! lens of camera-type eye relationship: part_of UBERON:0010312 {source="ZFA"} ! immature eye property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/2/2f/Gray864.png xsd:anyURI property_value: UBPROP:0000001 "Ectodermal primordium of the lens of the eye. Kimmel et al, 1995.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0000122", ontology="TAO", source="ZFIN:curator"} property_value: UBPROP:0000003 "(...) an essentially similar sequence of events occurs during the embryonic development of the vertebrate eye. The eye initially develops as a single median evagination of the diencephalon that soon bifurcates to form the paired optic vesicles. As each optic vesicle grows towards the body surface, its proximal part narrows as the optic stalk, and its distal part invaginates to form a two-layered optic cup. (...) The optic cup induces the overlying surface ectoderm first to thicken as a lens placode and then to invaginate and form a lens vesicle that differentiates into the lens.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000166", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.429"} property_value: UBPROP:0000003 "(...) an essentially similar sequence of events occurs during the embryonic development of the vertebrate eye. The eye initially develops as a single median evagination of the diencephalon that soon bifurcates to form the paired optic vesicles. As each optic vesicle grows towards the body surface, its proximal part narrows as the optic stalk, and its distal part invaginates to form a two-layered optic cup. (...) The optic cup induces the overlying surface ectoderm first to thicken as a lens placode and then to invaginate and form a lens vesicle that differentiates into the lens.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000166", ontology="VHOG", source="ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.429", source="http://bgee.unil.ch/"} property_value: UBPROP:0000011 "Classical transplantation experiments using amphibian embryos suggested that the optic vesicle is the source of lens-inducing signals sufficient to generate lens tissues in competent ectoderm (reviewed in Grainger et al., 1996). More recent findings suggest a multistep model for lens induction. There is now good evidence that lens specification occurs at the neurula stage, before the optic vesicle contact the surface ectoderm, and that neural crest cell migration in the frontonasal region is required to restrict the position of the lens placode (Bailey et al., 2006)" xsd:string {source="NCBIBook:NBK53175"} [Term] id: UBERON:0003075 name: neural plate namespace: uberon def: "A region of embryonic ectodermal cells that lie directly above the notochord. During neurulation, they change shape and produce an infolding of the neural plate (the neural fold) that then seals to form the neural tube[XAO]. The earliest recognizable dorsal ectodermal primordium of the central nervous system present near the end of gastrulation before infolding to form the neural keel; consists of a thickened pseudostratified epithelium[ZFA]" [http://en.wikipedia.org/wiki/Neural_plate, ISBN:0815318960, OMD:neural+plate, ZFIN:curator] def: "A region of embryonic ectodermal cells that lie directly above the notochord. During neurulation, they change shape and produce an infolding of the neural plate (the neural fold) that then seals to form the neural tube[XAO]. The earliest recognizable dorsal ectodermal primordium of the central nervous system present near the end of gastrulation before infolding to form the neural keel; consists of a thickened pseudostratified epithelium[ZFA]." [ISBN:0815318960, OMD:neural+plate, Wikipedia:Neural_plate, ZFIN:curator] def: "A region of embryonic ectodermal cells that lie directly above the notochord. During neurulation, they change shape and produce an infolding of the neural plate (the neural fold) that then seals to form the neural tube[XAO]. The earliest recognizable dorsal ectodermal primordium of the central nervous system present near the end of gastrulation before infolding to form the neural keel; consists of a thickened pseudostratified epithelium[ZFA]." [http://en.wikipedia.org/wiki/Neural_plate, ISBN:0815318960, OMD:neural+plate, ZFIN:curator] subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "lamina neuralis" RELATED LATIN [Wikipedia:Neural_plate] synonym: "lamina neuralis" RELATED LATIN [http://en.wikipedia.org/wiki/Neural_plate] synonym: "presumptive central nervous system" RELATED [] xref: AAO:0011072 xref: BTO:0001765 xref: DHBA:10153 xref: DMBA:15565 xref: EHDAA:346 xref: EHDAA:902 xref: EMAPA:35593 xref: FMA:293879 xref: http://braininfo.rprc.washington.edu/centraldirectory.aspx?ID=1362 xref: http://linkedlifedata.com/resource/umls/id/C0920623 xref: NCIT:C34225 xref: Neural:plate xref: RETIRED_EHDAA2:0001252 xref: TAO:0000132 xref: UMLS:C0920623 {source="ncithesaurus:Neural_Plate"} xref: VHOG:0000068 xref: Wikipedia:Neural_plate xref: XAO:0000249 xref: ZFA:0000132 is_a: CARO:0000003 ! connected anatomical structure is_a: UBERON:0005291 ! embryonic tissue is_a: UBERON:0010371 ! ecto-epithelium is_a: UBERON:0016879 ! future central nervous system relationship: developmentally_induced_by UBERON:0002328 {source="Wikipedia"} ! notochord relationship: develops_from UBERON:0007284 ! presumptive neural plate relationship: immediate_transformation_of UBERON:0007284 {source="Bgee:AN"} ! presumptive neural plate relationship: only_in_taxon NCBITaxon:7711 {source="GOTAX:0000352"} ! Chordata property_value: depicted:by https://upload.wikimedia.org/wikipedia/commons/8/8f/Neural_Crest.png xsd:anyURI property_value: depicted:by Neural:Crest.png xsd:anyURI property_value: UBPROP:0000001 "The earliest recognizable dorsal ectodermal primordium of the central nervous system present near the end of gastrulation before infolding to form the neural keel; consists of a thickened pseudostratified epithelium. Kimmel et al, 1995.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0000132", ontology="TAO", source="ZFIN:curator"} property_value: UBPROP:0000003 "(...) at some stage of its development, every chordate exhibits five uniquely derived characters or synapomorphies of the group: (...) (4) a single, tubular nerve cord that is located dorsal to the notochord (...).[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000068", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.28"} property_value: UBPROP:0000003 "(...) at some stage of its development, every chordate exhibits five uniquely derived characters or synapomorphies of the group: (...) (4) a single, tubular nerve cord that is located dorsal to the notochord (...).[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000068", ontology="VHOG", source="ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.28", source="http://bgee.unil.ch/"} [Term] id: UBERON:0003076 name: posterior neural tube namespace: uberon xref: AAO:0011082 xref: TAO:0007037 xref: VHOG:0001383 xref: XAO:0000250 xref: ZFA:0007037 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0002050 ! embryonic structure disjoint_from: UBERON:0003080 {source="lexical"} ! anterior neural tube relationship: develops_from UBERON:0003057 ! chordal neural plate relationship: part_of UBERON:0001049 ! neural tube property_value: UBPROP:0000003 "(...) at some stage of its development, every chordate exhibits five uniquely derived characters or synapomorphies of the group: (...) (4) a single, tubular nerve cord that is located dorsal to the notochord (...).[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001383", ontology="VHOG", source="ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.28", source="http://bgee.unil.ch/"} property_value: UBPROP:0000003 "(...) at some stage of its development, every chordate exhibits five uniquely derived characters or synapomorphies of the group: (...) (4) a single, tubular nerve cord that is located dorsal to the notochord (...).[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001383", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.28"} [Term] id: UBERON:0003077 name: paraxial mesoderm namespace: uberon def: "The paraxial mesoderm is the mesoderm located bilaterally adjacent to the notochord and neural tube[GO]" [GO:0048339, https://github.com/obophenotype/uberon/issues/30] def: "The paraxial mesoderm is the mesoderm located bilaterally adjacent to the notochord and neural tube[GO]." [GO:0048339, https://github.com/obophenotype/uberon/issues/30] subset: efo_slim subset: uberon_slim subset: vertebrate_core synonym: "mesoderma paraxiale" RELATED LATIN [Wikipedia:Paraxial_mesoderm] synonym: "mesoderma paraxiale" RELATED LATIN [http://en.wikipedia.org/wiki/Paraxial_mesoderm] synonym: "paraxial mesenchyme" EXACT [https://github.com/obophenotype/uberon/issues/30, https://github.com/obophenotype/uberon/wiki/The-neural-crest, ZFA:0000255] synonym: "somitic mesoderm" EXACT [ISBN:9780878932504] xref: AAO:0010568 xref: EFO:0003515 xref: EMAPA:16183 xref: EMAPA:16751 xref: FMA:293145 xref: http://linkedlifedata.com/resource/umls/id/C1284009 xref: http://www.snomedbrowser.com/Codes/Details/361475002 xref: NCIT:C34244 xref: Paraxial:mesoderm xref: SCTID:361475002 xref: TAO:0000255 xref: UMLS:C1284009 {source="ncithesaurus:Paraxial_Mesoderm"} xref: VHOG:0000114 xref: Wikipedia:Paraxial_mesoderm xref: XAO:0000259 xref: ZFA:0000255 is_a: UBERON:0005291 ! embryonic tissue is_a: UBERON:0007524 {source="EHDAA2"} ! dense mesenchyme tissue is_a: UBERON:0015212 ! lateral structure relationship: develops_from UBERON:0007285 ! presumptive paraxial mesoderm relationship: existence_starts_during UBERON:0000109 ! gastrula stage relationship: immediate_transformation_of UBERON:0007285 {source="Bgee:AN"} ! presumptive paraxial mesoderm relationship: in_lateral_side_of UBERON:0000922 ! embryo property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/6/64/Gray19_with_color.png xsd:anyURI property_value: UBPROP:0000001 "Mesoderm lateral to the neural tube and notochord that is divided into cranial and post-cranial portions. The trunk portions further segment into somites.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0010568", ontology="AAO", source="AAO:EJS"} property_value: UBPROP:0000003 "Presently, Cephalochordata, Urochordata, and Vertebrata are placed as subphyla of the phylum Chordata, in which the overall organization of embryonic tissues (dorsal hollow nerve cord, ventral digestive tract, axial notochord, and bilateral paraxial mesoderm) is largely conserved. In contrast, the echinoderms and hemichordates are sister groups of the chordates and they lack the notochord and paraxial mesoderm. Thus, the basic mesodermal organization of vertebrates must have appeared first in the common ancestor of the chordates.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000114", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1002/dvdy.21177 Kusakabe R and Kuratani S. Evolutionary perspectives from development of mesodermal components in the lamprey. Developmental dynamics (2007)"} property_value: UBPROP:0000003 "Presently, Cephalochordata, Urochordata, and Vertebrata are placed as subphyla of the phylum Chordata, in which the overall organization of embryonic tissues (dorsal hollow nerve cord, ventral digestive tract, axial notochord, and bilateral paraxial mesoderm) is largely conserved. In contrast, the echinoderms and hemichordates are sister groups of the chordates and they lack the notochord and paraxial mesoderm. Thus, the basic mesodermal organization of vertebrates must have appeared first in the common ancestor of the chordates.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000114", ontology="VHOG", source="DOI:10.1002/dvdy.21177 Kusakabe R and Kuratani S. Evolutionary perspectives from development of mesodermal components in the lamprey. Developmental dynamics (2007)", source="http://bgee.unil.ch/"} property_value: UBPROP:0000012 "note that all AOs differ in the relationship between this structure and the mesoderm; in ZFA it is a subclass (and this is implied by the GO definition and GO relationships), in AAO it is part of, and in EHDAA2 it develops from the mesoderm (but in EHDAA2 the naming convention is to use 'paraxial mesenchyme', rather than 'paraxial mesoderm'). Also in ZFA it is part of the trunk whereas this conflicts with the division into head and trunk in ehdaa2 (which we follow here)" xsd:string {external_ontology="ZFA"} [Term] id: UBERON:0003078 name: epibranchial placode namespace: uberon def: "Focal thickenings of the embryonic ectoderm that form immediately dorsal and caudal of the clefts between the pharyngeal arches and that produce the neuroblasts that migrate and condense to form the distal cranial ganglia." [VHOG:0000117] subset: efo_slim synonym: "epibranchial placodes" EXACT PLURAL [ZFA:0001294] synonym: "ventrolateral placode" RELATED [ISBN:0471888893] xref: AAO:0011036 xref: EFO:0003455 xref: FMA:293968 xref: TAO:0001294 xref: VHOG:0000117 xref: XAO:0000284 xref: ZFA:0001294 is_a: UBERON:0009955 {source="NCBIBook:NBK53175", source="ZFA"} ! neurogenic placode relationship: develops_from UBERON:0000076 {source="EHDAA2-abduced"} ! external ectoderm relationship: has_potential_to_developmentally_contribute_to UBERON:0002410 ! autonomic nervous system relationship: part_of UBERON:0000010 {source="ZFA"} ! peripheral nervous system property_value: UBPROP:0000001 "Focal thickenings of the embryonic ectoderm that form immediately dorsal and caudal of the clefts between the pharyngeal arches and that produce the neuroblasts that migrate and condense to form the distal cranial ganglia. [Graham_A, The_development_and_evolution_of_the_pharyngeal_arches._J_Anat_(2001)_199:_133-141][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000117", ontology="VHOG", source="http://bgee.unil.ch/"} property_value: UBPROP:0000003 "These (the epibranchial placodes) are focal thickenings of the embryonic ectoderm that form immediately dorsal and caudal of the clefts between the pharyngeal arches in all vertebrates, and they produce the neuroblasts which migrate and condense to form the distal cranial ganglia: the geniculate, petrosal and nodose ganglia. (...) The one substantial difference between the vertebrate pharyngeal arches and those of the protochordates is the presence of the epibranchial placodes but the evolution of these structures was undoubtedly driven by the endoderm.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000117", ontology="VHOG", source="DOI:10.1046/j.1469-7580.2001.19910133.x Graham A, The development and evolution of the pharyngeal arches. J Anat (2001)", source="http://bgee.unil.ch/"} property_value: UBPROP:0000011 "Epibranchial placodes-derived neurons innervate internal organs to transmit information such as heart rate, blood pressure, and visceral distension from the periphery to the central nervous system (Baker and Bronner-Fraser, 2001). From rostral to caudal the epibranchial placodes comprise the geniculate, petrosal, and nodose placodes, each associated in sequence with the first, second and third branchial clefts. Each placode contributes sensory neurons to cranial nerves VII (facial nerve), IX (glossopharyngeal nerve), and X (vagal nerve), respectively" xsd:string {source="NCBIBook:NBK53175"} property_value: UBPROP:0000012 "in XAO this develops_from dorsolateral placode, but in NBK53175, this is a separate group" xsd:string {external_ontology="XAO"} [Term] id: UBERON:0003080 name: anterior neural tube namespace: uberon xref: AAO:0011012 xref: TAO:0007038 xref: VHOG:0001384 xref: XAO:0000307 xref: ZFA:0007038 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0002050 ! embryonic structure relationship: develops_from UBERON:0003056 ! pre-chordal neural plate relationship: part_of UBERON:0001049 ! neural tube property_value: editor_note "TODO - add grouping class for the anterior end of the neural tube at all stages" xsd:string property_value: UBPROP:0000003 "(...) at some stage of its development, every chordate exhibits five uniquely derived characters or synapomorphies of the group: (...) (4) a single, tubular nerve cord that is located dorsal to the notochord (...).[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001384", ontology="VHOG", source="ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.28", source="http://bgee.unil.ch/"} property_value: UBPROP:0000003 "(...) at some stage of its development, every chordate exhibits five uniquely derived characters or synapomorphies of the group: (...) (4) a single, tubular nerve cord that is located dorsal to the notochord (...).[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001384", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.28"} [Term] id: UBERON:0003081 name: lateral plate mesoderm namespace: uberon alt_id: UBERON:0006258 def: "Portion of the middle of the three primary germ layers of the embryo that resides on the periphery of the embryo, is continuous with the extra-embryonic mesoderm, splits into two layers enclosing the intra-embryonic coelom, and gives rise to body wall structures[MP]." [MP:0010117, Wikipedia:Lateral_plate_mesoderm] def: "Portion of the middle of the three primary germ layers of the embryo that resides on the periphery of the embryo, is continuous with the extra-embryonic mesoderm, splits into two layers enclosing the intra-embryonic coelom, and gives rise to body wall structures[MP]." [http://en.wikipedia.org/wiki/Lateral_plate_mesoderm, MP:0010117] subset: pheno_slim subset: uberon_slim synonym: "lateral mesoderm" EXACT [GO:0048368] synonym: "lateral plate" RELATED [] synonym: "lateral plate mesenchyme" RELATED [EHDAA2:0000919] synonym: "LPM" EXACT ABBREVIATION [ZFA:0000121] synonym: "mesoderma laminae lateralis" RELATED LATIN [Wikipedia:Lateral_plate_mesoderm] synonym: "mesoderma laminae lateralis" RELATED LATIN [http://en.wikipedia.org/wiki/Lateral_plate_mesoderm] xref: AAO:0010574 xref: EHDAA2:0000919 xref: EHDAA:379 xref: EMAPA:16179 xref: FMA:293149 xref: http://en.wikipedia.org/wiki/Lateral_plate_mesoderm xref: http://linkedlifedata.com/resource/umls/id/C1517749 xref: http://www.snomedbrowser.com/Codes/Details/361477005 xref: NCIT:C34199 xref: SCTID:361477005 xref: TAO:0000121 xref: UMLS:C1517749 {source="ncithesaurus:Lateral_Mesoderm"} xref: VHOG:0000118 xref: Wikipedia:Lateral_plate_mesoderm xref: XAO:0000311 xref: ZFA:0000121 is_a: UBERON:0002050 ! embryonic structure is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0005291 ! embryonic tissue is_a: UBERON:0007524 {source="EHDAA2"} ! dense mesenchyme tissue relationship: only_in_taxon NCBITaxon:33213 ! Bilateria relationship: part_of UBERON:0000926 {source="EHDAA2", source="VHOG"} ! mesoderm relationship: surrounds UBERON:0003887 ! intraembryonic coelom property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/6/64/Gray19_with_color.png xsd:anyURI property_value: UBPROP:0000001 "Portion of mesoderm traditionally thought to give rise to limb bones and parts of the girdles.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0010574", ontology="AAO", source="AAO:EJS"} property_value: UBPROP:0000001 "The portion of the mesoderm of the trunk of vertebrate embryos lying lateral to the intermediate mesoderm. [...] [It] subdivides into two plates: one dorsal, called the somatopleure, and one ventral, called the splanchnopleure. [Gastrulation:_From_cells_to_embryo_(2004)_Cold_Spring_Harbor, Glossary_XV, New_York:_Cold_Spring_Harbor_Laboratory_Press, Stern_CD][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000118", ontology="VHOG", source="http://bgee.unil.ch/"} property_value: UBPROP:0000001 "The portion of the mesoderm of the trunk of vertebrate embryos lying lateral to the intermediate mesoderm. [...] [It] subdivides into two plates: one dorsal, called the somatopleure, and one ventral, called the splanchnopleure. [Gastrulation:_From_cells_to_embryo_(2004)_Cold_Spring_Harbor, Glossary_XV, New_York:_Cold_Spring_Harbor_Laboratory_Press, Stern_CD][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000118", ontology="VHOG", source="http://bgee.unil.ch/"} property_value: UBPROP:0000003 "A ventrolateral zone of amphioxus mesoderm grows down to surround the gut. Homology of this zone to the lateral plate mesoderm of vertebrates is supported by site of origin and fate.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000118", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1073/pnas.97.9.4449 Shimeld SM and Holland PW. Vertebrate innovations. PNAS (2000)"} property_value: UBPROP:0000003 "A ventrolateral zone of amphioxus mesoderm grows down to surround the gut. Homology of this zone to the lateral plate mesoderm of vertebrates is supported by site of origin and fate.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000118", ontology="VHOG", source="DOI:10.1073/pnas.97.9.4449 Shimeld SM and Holland PW. Vertebrate innovations. PNAS (2000)", source="http://bgee.unil.ch/"} property_value: UBPROP:0000012 "subclass of mesoderm in ZFA." xsd:string {external_ontology="ZFA"} [Term] id: UBERON:0003082 name: myotome namespace: uberon def: "A transitional population of migrating mesenchymal cells that derive from somites and that will become muscle cells." [AEO:0001018] subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "muscle plate" RELATED [] synonym: "myomere" RELATED [] synonym: "myomeres" EXACT PLURAL [TAO:0001056] synonym: "myotome region" RELATED [] synonym: "myotomes" RELATED [] synonym: "myotomus" RELATED LATIN [Wikipedia:Myotome] synonym: "myotomus" RELATED LATIN [http://en.wikipedia.org/wiki/Myotome] xref: AAO:0011067 xref: AEO:0001018 xref: BTO:0000742 xref: EHDAA2_RETIRED:0003431 xref: EHDAA:1721 xref: EHDAA:1727 xref: EHDAA:1733 xref: EHDAA:1739 xref: EMAPA:32841 xref: FMA:295658 xref: http://en.wikipedia.org/wiki/Myotome xref: http://linkedlifedata.com/resource/umls/id/C1513802 xref: http://www.snomedbrowser.com/Codes/Details/344535001 xref: NCIT:C34214 xref: SCTID:344535001 xref: TAO:0001056 xref: UMLS:C1513802 {source="ncithesaurus:Myotome_Region"} xref: VHOG:0001244 xref: Wikipedia:Myotome xref: XAO:0000315 xref: ZFA:0001056 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0017650 {source="AEO"} ! developing mesenchymal structure relationship: contributes_to_morphology_of UBERON:0001630 ! muscle organ relationship: develops_from UBERON:0004290 {source="EHDAA2-abduced"} ! dermomyotome property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/9/96/Gray65.png xsd:anyURI property_value: editor_note "The term 'myotome' is also used to describe the muscles served by a single nerve root / spinal segment - consider adding new class, myomere." xsd:string property_value: UBPROP:0000001 "Portion of the somites giving rise to body wall muscle masses. Kimmel et al, 1995.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0001056", ontology="TAO", source="ZFIN:curator"} property_value: UBPROP:0000003 "In all vertebrates, the skeletal muscle of the body axis is chiefly derived from an early embryonic compartment, known as the myotome.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001244", ontology="VHOG", source="DOI:10.1038/sj.embor.embor920 Hollway GE, Currie PD, Myotome meanderings. Cellular morphogenesis and the making of muscle. EMBO Rep.(2003)", source="http://bgee.unil.ch/"} property_value: UBPROP:0000003 "In all vertebrates, the skeletal muscle of the body axis is chiefly derived from an early embryonic compartment, known as the myotome.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001244", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1038/sj.embor.embor920 Hollway GE, Currie PD, Myotome meanderings. Cellular morphogenesis and the making of muscle. EMBO Rep.(2003)"} [Term] id: UBERON:0003083 name: trunk neural crest namespace: uberon def: "Trunk portion of the neural crest. The trunk neural crest lies between the vagal and sacral neural crest and gives rise to two groups of cells. One group migrates dorsolateral and populates the skin, forming pigment cells and the other migrates ventrolateral through the anterior sclerotome to become the epinephrine-producing cells of the adrenal gland and the neurons of the sympathetic nervous system. Some cells remain in the sclerotome to form the dorsal root ganglia [Wikipedia]." [ISBN:0815318960, Wikipedia:Trunk_neural_crest] subset: efo_slim subset: uberon_slim synonym: "TNC" EXACT ABBREVIATION [XAO:0000319] synonym: "trunk crest" RELATED [] xref: AAO:0010582 xref: EFO:0003605 xref: EHDAA2:0001901 xref: TAO:0001024 xref: VHOG:0000062 xref: Wikipedia:Trunk_neural_crest xref: XAO:0000319 xref: ZFA:0001024 is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0005291 ! embryonic tissue is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: has_part CL:0000011 {source="ZFA"} ! migratory trunk neural crest cell relationship: part_of UBERON:0002342 ! neural crest property_value: UBPROP:0000001 "Post-cranial portion of the neural crest. Exact anatomical derivations not experimentally resolved in amphibians.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0010582", ontology="AAO", source="AAO:EJS"} property_value: UBPROP:0000003 "We conclude this section by listing some of the many synapomorphies of craniates, including (1) the neural crest (...).[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000062", ontology="VHOG", source="ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.43", source="http://bgee.unil.ch/"} [Term] id: UBERON:0003084 name: heart primordium namespace: uberon def: "Bilateral groups of cells consisting of three rows: one row of endocardial precursors medially and two rows of myocardical precursors laterally. The two populations fuse at the midline to form the heart rudiment or cone." [ZFIN:curator] subset: uberon_slim synonym: "cardiac field" RELATED [ZFA:0000028] synonym: "fused heart primordium" RELATED [] xref: AAO:0011044 xref: BTO:0001887 xref: http://linkedlifedata.com/resource/umls/id/C1514450 xref: NCIT:C34276 xref: TAO:0000028 xref: UMLS:C1514450 {source="ncithesaurus:Primordium_of_the_Heart"} xref: XAO:0000336 xref: ZFA:0000028 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0001048 {source="Obol"} ! primordium relationship: develops_from UBERON:0003081 {source="ZFA"} ! lateral plate mesoderm relationship: develops_from UBERON:0004140 ! primary heart field relationship: develops_from UBERON:0007005 {source="XAO"} ! cardiogenic splanchnic mesoderm relationship: part_of UBERON:0004535 {source="ZFA"} ! cardiovascular system property_value: editor_note "should probably be merged with heart rudiment." xsd:string property_value: UBPROP:0000001 "Bilateral groups of cells consisting of three rows: one row of endocardial precursors medially and two rows of myocardical precursors laterally. The two populations fuse at the midline between 21 and 26 somites to form the heart rudiment or cone. Stainier 2001.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0000028", ontology="TAO", source="ZFIN:curator"} property_value: UBPROP:0000001 "The fused aspects of ventral mesoderm, which have migrated from either side of the prechordal plate, and fused ventrally, just behind the cement gland. They will give rise to the endocardium at NF stage 27&28.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0011044", ontology="AAO", source="XAO:curator"} property_value: UBPROP:0000002 "relationship loss: develops_from lateral mesoderm (TAO:0001065)[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0000028", ontology="TAO"} [Term] id: UBERON:0003089 name: sclerotome namespace: uberon def: "Ventral somitic compartment that is a precursor of the axial skeleton[XAO]. Sclerotomes eventually differentiate into the vertebrae and most of the skull. The caudal (posterior) half of one sclerotome fuses with the rostral (anterior) half of the adjacent one to form each vertebra. From their initial location within the somite, the sclerotome cells migrate medially towards the notochord. These cells meet the sclerotome cells from the other side to form the vertebral body. From this vertebral body, sclerotome cells move dorsally and surround the developing spinal cord, forming the vertebral arch[WP]." [http://en.wikipedia.org/wiki/Sclerotome, https://github.com/obophenotype/uberon/issues/316, XB:curator] def: "Ventral somitic compartment that is a precursor of the axial skeleton[XAO]. Sclerotomes eventually differentiate into the vertebrae and most of the skull. The caudal (posterior) half of one sclerotome fuses with the rostral (anterior) half of the adjacent one to form each vertebra. From their initial location within the somite, the sclerotome cells migrate medially towards the notochord. These cells meet the sclerotome cells from the other side to form the vertebral body. From this vertebral body, sclerotome cells move dorsally and surround the developing spinal cord, forming the vertebral arch[WP]." [https://github.com/obophenotype/uberon/issues/316, Wikipedia:Sclerotome, XB:curator] subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "sclerotomes" EXACT PLURAL [TAO:0001080] synonym: "sclerotomus" RELATED LATIN [Wikipedia:Sclerotome] synonym: "sclerotomus" RELATED LATIN [http://en.wikipedia.org/wiki/Sclerotome] xref: AAO:0010571 xref: AEO:0000212 xref: EHDAA2:0003439 xref: EMAPA:31159 xref: FMA:295652 xref: http://en.wikipedia.org/wiki/Sclerotome xref: http://linkedlifedata.com/resource/umls/id/C0183176 xref: NCIT:C34287 xref: TAO:0001080 xref: UMLS:C0183176 {source="ncithesaurus:Sclerotome"} xref: VHOG:0000680 xref: Wikipedia:Sclerotome xref: XAO:0000397 xref: ZFA:0001080 is_a: UBERON:0005856 {source="EHDAA2"} ! developing mesenchymal condensation is_a: UBERON:0007530 {source="EHDAA2"} ! migrating mesenchyme population relationship: develops_from UBERON:0002329 {source="ZFA"} ! somite relationship: only_in_taxon NCBITaxon:7742 {source="VHOG:0000680"} ! Vertebrata property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/9/96/Gray65.png xsd:anyURI property_value: UBPROP:0000001 "Skeletogenic portion of somites.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0010571", ontology="AAO", source="AAO:EJS"} property_value: UBPROP:0000003 "The vertebrate sclerotome has no equivalent in amphioxus and is a novelty linked with the evolution of the axial skeleton.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000680", ontology="VHOG", source="DOI:10.1073/pnas.97.9.4449 Shimeld SM and Holland PW. Vertebrate innovations. PNAS (2000)", source="http://bgee.unil.ch/"} property_value: UBPROP:0000003 "The vertebrate sclerotome has no equivalent in amphioxus and is a novelty linked with the evolution of the axial skeleton.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000680", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1073/pnas.97.9.4449 Shimeld SM and Holland PW. Vertebrate innovations. PNAS (2000)"} property_value: UBPROP:0000012 "part_of somite in XAO" xsd:string {external_ontology="XAO"} [Term] id: UBERON:0003099 name: cranial neural crest namespace: uberon def: "Neural crest cells (NCCs) originating in the anterior part of the developing embryo and residing between the mid-diencephalon and the forming hindbrain; cranial NCCs migrate dorsolaterally to form the craniofacial mesenchyme that differentiates into various craniofacial cartilages and bones, cranial neurons, glia, and connective tissues of the face; these cells enter the pharyngeal pouches and arches where they give rise to thymic cells, bones of the middle ear and jaw (mandible), and the odontoblasts of the tooth primordia; like their counterparts in the trunk, cranial NCCs also contribute to the developing peripheral nervous system, along with the pigmented cell (i.e. melanocyte) lineage." [MGI:anna] def: "neural crest cells (NCCs) originating in the anterior part of the developing embryo and residing between the mid-diencephalon and the forming hindbrain; cranial NCCs migrate dorsolaterally to form the craniofacial mesenchyme that differentiates into various craniofacial cartilages and bones, cranial neurons, glia, and connective tissues of the face; these cells enter the pharyngeal pouches and arches where they give rise to thymic cells, bones of the middle ear and jaw (mandible), and the odontoblasts of the tooth primordia; like their counterparts in the trunk, cranial NCCs also contribute to the developing peripheral nervous system, along with the pigmented cell (i.e. melanocyte) lineage." [MGI:anna] subset: efo_slim subset: uberon_slim subset: vertebrate_core synonym: "cephalic neural crest" EXACT [EMAPA:16091] synonym: "CNC" EXACT ABBREVIATION [XAO:0001001] synonym: "cranial NCC population" EXACT [] synonym: "crista neuralis cranialis" RELATED LATIN [http://en.wikipedia.org/wiki/Cranial_neural_crest] synonym: "crista neuralis cranialis" RELATED LATIN [Wikipedia:Cranial_neural_crest] synonym: "head crest" RELATED [] synonym: "head NCC population" EXACT [] synonym: "head neural crest" RELATED [] xref: AAO:0010580 xref: EFO:0003645 xref: EHDAA2:0004420 xref: EMAPA:16091 xref: http://en.wikipedia.org/wiki/Cranial_neural_crest xref: TAO:0001194 xref: VHOG:0000063 xref: Wikipedia:Cranial_neural_crest xref: XAO:0001001 xref: ZFA:0001194 is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0005291 ! embryonic tissue is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: has_part CL:0000008 ! migratory cranial neural crest cell relationship: part_of UBERON:0002342 ! neural crest property_value: UBPROP:0000001 "Anterior most portion of the neural crest. Migrates in three highly conserved streams: mandibular, hyoid and branchial.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0010580", ontology="AAO", source="AAO:EJS"} property_value: UBPROP:0000001 "Neural crest that is part of the head.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0001194", ontology="TAO", source="ZFIN:curator"} property_value: UBPROP:0000003 "We conclude this section by listing some of the many synapomorphies of craniates, including (1) the neural crest (...).[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000063", ontology="VHOG", source="ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.43", source="http://bgee.unil.ch/"} property_value: UBPROP:0000003 "We conclude this section by listing some of the many synapomorphies of craniates, including (1) the neural crest (...).[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000063", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.43"} [Term] id: UBERON:0003100 name: female organism namespace: uberon def: "Gonochoristic organism that can produce female gametes." [CARO:0000028] subset: pheno_slim subset: vertebrate_core synonym: "female" RELATED [TAO:0000303] synonym: "female human body" NARROW SENSU [FMA:67812] xref: AAO:0010030 xref: BILA:0000028 xref: CARO:0000028 xref: FBbt:00007011 xref: FMA:67812 xref: HAO:0000028 xref: http://www.snomedbrowser.com/Codes/Details/362608006 xref: SCTID:362608006 xref: TAO:0000303 xref: TGMA:0001839 xref: XAO:0003005 xref: ZFA:0000303 is_a: UBERON:0000468 ! multicellular organism property_value: RO:0002171 UBERON:0003101 [Term] id: UBERON:0003102 name: surface structure namespace: uberon def: "Anatomical structure that overlaps the outer epithelial layer and is adjacent to the space surrounding the organism." [http://orcid.org/0000-0002-6601-2165, https://github.com/obophenotype/uberon/issues/24] subset: upper_level synonym: "anatomical surface feature" EXACT [EHDAA2:0003010] synonym: "surface feature" RELATED [] synonym: "surface region" RELATED [] synonym: "surface structures" RELATED PLURAL [ZFA:0000292] xref: AAO:0010337 xref: AEO_RETIRED:0000010 xref: EHDAA2_RETIRED:0003010 xref: galen:SurfaceRegion xref: Surface:structure xref: TAO:0000292 xref: VSAO:0000001 xref: Wikipedia:Surface_structure xref: XAO:0003028 xref: ZFA:0000292 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000061 ! anatomical structure relationship: adjacent_to UBERON:0013514 ! space surrounding organism relationship: overlaps UBERON:0007376 ! outer epithelium relationship: part_of UBERON:0002416 ! integumental system property_value: editor_note "consider obsoleting. See issue/1305" xsd:string property_value: http://purl.org/dc/elements/1.1/contributor https://github.com/cmungall property_value: http://purl.org/dc/elements/1.1/contributor https://github.com/wdahdul property_value: UBPROP:0000001 "Organism subdivision which is the collection of anatomical structures on the body surface.[ZFA]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0000292", ontology="TAO", source="ZFIN:curator"} [Term] id: UBERON:0003103 name: compound organ namespace: uberon def: "Anatomical structure that has as its parts two or more multi-tissue structures of at least two different types and which through specific morphogenetic processes forms a single distinct structural unit demarcated by bona fide boundaries from other distinct anatomical structures of different types." [CARO:0000024] subset: organ_slim subset: upper_level synonym: "organ" RELATED [] xref: AAO:0010015 xref: AEO:0000024 xref: BILA:0000024 xref: CARO:0000024 xref: EHDAA2:0003024 xref: HAO:0000024 xref: TADS:0000598 xref: TAO:0000496 xref: TGMA:0001837 xref: VHOG:0001723 xref: XAO:0003041 xref: ZFA:0000496 is_a: UBERON:0000062 ! organ relationship: only_in_taxon NCBITaxon:6072 ! Eumetazoa property_value: IAO:0000232 "this class was introduced for consistency with CARO. However, in this ontology we typically classify organs directly under 'organ' rather than subdividing into compound and simple organs" xsd:string [Term] id: UBERON:0003104 name: mesenchyme namespace: uberon def: "Portion of tissue composed of mesenchymal cells (motile cells that develop from epthelia via an epithelial to mesenchymal transition) and surrounding extracellular material. Mesenchyme has different embryological origins in different metazoan taxa - in many invertebrates it derives in whole or part from ectoderm. In vertebrates it derives largely from mesoderm, and sometimes the terms are used interchangeably, e.g. lateral plate mesoderm/mesenchyme." [https://archive.org/details/invertebratesnde00brus/page/n240/mode/2up, https://en.wikipedia.org/wiki/Mesenchyme, https://github.com/obophenotype/uberon/issues/1641] subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "mesenchyma" RELATED LATIN [Wikipedia:Mesenchyme] synonym: "mesenchyma" RELATED LATIN [http://en.wikipedia.org/wiki/Mesenchyme] synonym: "mesenchymal tissue" EXACT [] synonym: "mesenchyme tissue" EXACT [] synonym: "portion of mesenchymal tissue" EXACT [] synonym: "portion of mesenchyme tissue" EXACT [] xref: AAO:0010427 xref: AEO:0000145 xref: BTO:0001393 xref: CALOHA:TS-0620 xref: EHDAA2:0003145 xref: EV:0100007 xref: http://en.wikipedia.org/wiki/Mesenchyme xref: http://linkedlifedata.com/resource/umls/id/C0162415 xref: NCIT:C13301 xref: TAO:0000393 xref: UMLS:C0162415 {source="ncithesaurus:Mesenchyme"} xref: VHOG:0000170 xref: Wikipedia:Mesenchyme xref: XAO:0003046 xref: ZFA:0000393 is_a: UBERON:0000479 ! tissue intersection_of: UBERON:0000479 ! tissue intersection_of: composed_primarily_of CL:0008019 ! mesenchymal cell relationship: composed_primarily_of CL:0008019 ! mesenchymal cell relationship: functionally_related_to GO:0032502 ! developmental process relationship: has_developmental_contribution_from UBERON:0000926 {gci_relation="part_of", gci_filler="NCBITaxon:7711"} ! mesoderm relationship: only_in_taxon NCBITaxon:6072 ! Eumetazoa property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/f/f4/Mesenchymal_Stem_Cell.jpg xsd:anyURI property_value: editor_note "the relationship to mesoderm is weaker than develops_from in order to have classes such as 'head mesenchyme from mesoderm' make sense" xsd:string property_value: UBPROP:0000001 "A mesh-like cell arrangement, less compact than an epithelium. Kimmel et al, 1995.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0000393", ontology="TAO", source="ZFIN:curator"} property_value: UBPROP:0000001 "Portion of tissue consisting of loosely organized undifferentiated mesodermal cells that give rise to such structures as connective tissues, blood, lymphatics, bone, and cartilage.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0010427", ontology="AAO", source="AAO:EJS"} property_value: UBPROP:0000007 "mesenchymal" xsd:string [Term] id: UBERON:0003113 name: dermatocranium namespace: uberon def: "Subdivision of skeleton that includes all dermal bones in the cranial skeleton[ZFA,modified]." [Wikipedia:Skull_roof, ZFA:0000863] def: "Subdivision of skeleton that includes all dermal bones in the cranial skeleton[ZFA,modified]." [http://en.wikipedia.org/wiki/Skull_roof, ZFA:0000863] synonym: "dendrocranium" EXACT [TAO:0000863] synonym: "dermal bone cranium" RELATED [ZFA:0000863] synonym: "dermal part of skull" RELATED [] synonym: "dermal skull bones" RELATED [] synonym: "dermal skull roof" NARROW [PMID:11523816, Wikipedia:Skull_roof] synonym: "dermal skull roof" NARROW [http://en.wikipedia.org/wiki/Skull_roof, http://www.ncbi.nlm.nih.gov/pubmed/11523816] synonym: "dermatocranial cover" NARROW [] synonym: "exocranium" EXACT [UBERONREF:0000007] synonym: "roof of skull" NARROW [Wikipedia:Skull_roof] synonym: "roof of skull" NARROW [http://en.wikipedia.org/wiki/Skull_roof] synonym: "roofing bones of the skull" RELATED [Wikipedia:Skull_roof] synonym: "roofing bones of the skull" RELATED [http://en.wikipedia.org/wiki/Skull_roof] synonym: "skull exoskeleton" RELATED [] synonym: "skull roof" NARROW [PMID:11523816, Wikipedia:Skull_roof] synonym: "skull roof" NARROW [http://en.wikipedia.org/wiki/Skull_roof, http://www.ncbi.nlm.nih.gov/pubmed/11523816] xref: AAO:0010154 xref: Skull:roof xref: TAO:0000863 xref: VHOG:0001665 xref: Wikipedia:Skull_roof xref: XAO:0003169 xref: ZFA:0000863 is_a: UBERON:0011159 ! primary subdivision of cranial skeletal system relationship: only_in_taxon NCBITaxon:7776 ! Gnathostomata relationship: part_of UBERON:0010364 ! dermal skeleton property_value: editor_note "wikipedia treats skull roof and dermatocranium as synonymous, but some sources treat the roof as being part of the dermatocranium - see UBERONREF:0000007" xsd:string property_value: RO:0002161 NCBITaxon:7777 {source="ISBN:0073040584"} property_value: UBPROP:0000001 "Anatomical cluster that is part of the cranium and composed of dermally derived bones.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0000863", ontology="TAO", source="ZFIN:curator"} property_value: UBPROP:0000001 "Anatomical cluster that is part of the cranium which consists of dermally derived bones.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0010154", ontology="AAO", source="AAO:BJB"} [Term] id: UBERON:0003115 name: pharyngeal arch 4 namespace: uberon def: "Contributes to development of the cartilage of the larynx, laryngeal, pharyngeal, and soft palate muscles, superior parathyroid gland, and C-cells of the thymus." [MP:0006340] subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "4th arch" RELATED [EHDAA2:0000086] synonym: "4th branchial arch" EXACT SENSU [] synonym: "4th pharyngeal arch" EXACT [] synonym: "4th visceral arch" EXACT [] synonym: "branchial arch 2" RELATED SENSU [AAO:0010366, ZFA:0001607] synonym: "fourth pharyngeal arch" EXACT [] synonym: "fourth visceral arch" RELATED [VHOG:0000299] synonym: "gill arch 2" EXACT SENSU [ZFA:0001607] synonym: "second branchial arch" RELATED SENSU [ZFA:0001607] synonym: "second gill arch" EXACT SENSU [ZFA:0001607] synonym: "visceral arch 4" EXACT [] xref: AAO:0010366 xref: EHDAA2:0000086 xref: EHDAA:1663 xref: EMAPA:16760 xref: FMA:293035 xref: http://www.snomedbrowser.com/Codes/Details/308770007 xref: TAO:0001599 xref: VHOG:0000299 xref: XAO:0000449 xref: ZFA:0001607 is_a: UBERON:0002539 ! pharyngeal arch property_value: UBPROP:0000001 "The second pharyngeal/branchial arch; arises as a thickening of the pharygeal wall between the first and second branchial clefts; contains the second aortic arch; forms part of the hyoid bone, tongue and facial musculature.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0010366", ontology="AAO", source="ISBN:0-02-377110-0"} property_value: UBPROP:0000003 "A conserved feature of all vertebrate embryos is the presence of a series of bulges on the lateral surface of the head, the pharyngeal arches; it is within these structures that the nerves, muscles and skeletal components of the pharyngeal apparatus are laid down. The pharyngeal arches are separated by endodermal outpocketings, the pharyngeal pouches.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000299", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1111/j.1469-7580.2005.00472.x Graham A, Okabe M and Quinlan R, The role of the endoderm in the development and evolution of the pharyngeal arches. J Anat (2005)"} property_value: UBPROP:0000012 "in XAO, called branchial arch 2 and df VP4" xsd:string {external_ontology="XAO"} property_value: UBPROP:0000103 "4" xsd:nonNegativeInteger [Term] id: UBERON:0003117 name: pharyngeal arch 6 namespace: uberon alt_id: UBERON:0004349 def: "The 6th pharyngeal arch. contributes to the development of the sternocleidomastoid and trapezius muscles." [MP:0006347] subset: pheno_slim synonym: "6th arch" EXACT [EHDAA2:0004075] synonym: "6th pharyngeal arch" RELATED [VHOG:0001205] synonym: "6th visceral arch" RELATED [VHOG:0001205] synonym: "branchial arch 4" RELATED SENSU [AAO:0010368, ZFA:0001609] synonym: "fourth branchial arch" RELATED SENSU [] synonym: "gill arch 4" EXACT [ZFA:0001609] synonym: "sixth branchial arch" EXACT [] synonym: "sixth pharyngeal arch" RELATED [VHOG:0001205] synonym: "sixth visceral arch" RELATED [XAO:0000453] synonym: "visceral arch 6" EXACT [ZFA:0001609] xref: AAO:0010368 xref: EHDAA2:0004075 xref: EMAPA:32766 xref: FMA:293047 xref: http://www.snomedbrowser.com/Codes/Details/308772004 xref: SCTID:308772004 xref: TAO:0001601 xref: VHOG:0001205 xref: XAO:0000453 xref: ZFA:0001609 is_a: UBERON:0002539 ! pharyngeal arch property_value: UBPROP:0000001 "The forth in a series of paired bars in the wall of the pharynx, within which are formed the forth aortic arch and the cartilage bar of the visceral skeleton, forms and supports the gills.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0010368", ontology="AAO", source="ISBN:0-02-377110-0"} property_value: UBPROP:0000003 "A conserved feature of all vertebrate embryos is the presence of a series of bulges on the lateral surface of the head, the pharyngeal arches; it is within these structures that the nerves, muscles and skeletal components of the pharyngeal apparatus are laid down. The pharyngeal arches are separated by endodermal outpocketings, the pharyngeal pouches.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001205", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1111/j.1469-7580.2005.00472.x Graham A, Okabe M, Quinlan R, The role of the endoderm in the development and evolution of the pharyngeal arches. J Anat (2005)"} property_value: UBPROP:0000003 "A conserved feature of all vertebrate embryos is the presence of a series of bulges on the lateral surface of the head, the pharyngeal arches; it is within these structures that the nerves, muscles and skeletal components of the pharyngeal apparatus are laid down. The pharyngeal arches are separated by endodermal outpocketings, the pharyngeal pouches.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001205", ontology="VHOG", source="DOI:10.1111/j.1469-7580.2005.00472.x Graham A, Okabe M, Quinlan R, The role of the endoderm in the development and evolution of the pharyngeal arches. J Anat (2005)", source="http://bgee.unil.ch/"} property_value: UBPROP:0000103 "6" xsd:nonNegativeInteger [Term] id: UBERON:0003118 name: pharyngeal arch artery 1 namespace: uberon alt_id: UBERON:0004371 def: "The vessels formed within the first pair of branchial arches in embryogenesis." [MP:0010355] subset: pheno_slim subset: vertebrate_core synonym: "1st aortic arch artery" RELATED [EMAPA:16685] synonym: "1st arch artery" EXACT [EMAPA:16685] synonym: "1st branchial arch artery" RELATED [EMAPA:16685] synonym: "1st pharyngeal arch artery" RELATED [EMAPA:16685] synonym: "AA1" EXACT [ZFA:0005005] synonym: "aortic arch 1" EXACT [ZFA:0005005] synonym: "first aortic arch" EXACT [XAO:0000342] synonym: "first arch artery" RELATED [EMAPA:16685] synonym: "first branchial arch artery" EXACT [] synonym: "mandibular aortic arch" EXACT [ZFA:0005005] xref: AAO:0010415 xref: EHDAA2:0000007 xref: EMAPA:16202 xref: EMAPA:16685 xref: http://www.snomedbrowser.com/Codes/Details/308774003 xref: SCTID:308774003 xref: TAO:0005005 xref: VHOG:0000149 xref: XAO:0000342 xref: ZFA:0005005 is_a: UBERON:0004363 ! pharyngeal arch artery intersection_of: UBERON:0004363 ! pharyngeal arch artery intersection_of: part_of UBERON:0004362 ! pharyngeal arch 1 relationship: contributes_to_morphology_of UBERON:0004362 ! pharyngeal arch 1 relationship: part_of UBERON:0004362 ! pharyngeal arch 1 property_value: UBPROP:0000008 "Disappears early in development in tetrapods" xsd:string property_value: UBPROP:0000012 "ZFA states that The paired aortic arch 1 arteries branch off of the ventral aorta, and empty into the right and left lateral dorsal aortas" xsd:string {external_ontology="ZFA"} [Term] id: UBERON:0003121 name: pharyngeal arch artery 4 namespace: uberon alt_id: UBERON:0004350 def: "The vessels formed within the fourth pair of branchial arches in embryogenesis." [MP:0006354] comment: proximal right subclavian subset: pheno_slim subset: vertebrate_core synonym: "4th aortic arch artery" RELATED [EMAPA:17004] synonym: "4th arch artery" EXACT [EHDAA2:0000087] synonym: "4th branchial arch artery" RELATED [EMAPA:17004] synonym: "4th pharyngeal arch artery" RELATED [EMAPA:17004] synonym: "AA4" EXACT [ZFA:0005008] synonym: "aortic arch 4" EXACT [ZFA:0005008] synonym: "fourth aortic arch" EXACT [XAO:0000355] synonym: "fourth branchial arch artery" EXACT [] synonym: "systemic arch" RELATED [ISBN:0073040584, XAO:0000355] xref: AAO:0010420 xref: Arch_4 xref: EHDAA2:0000087 xref: EMAPA:17004 xref: http://www.snomedbrowser.com/Codes/Details/308777005 xref: TAO:0005008 xref: XAO:0000355 xref: ZFA:0005008 is_a: UBERON:0004363 ! pharyngeal arch artery intersection_of: UBERON:0004363 ! pharyngeal arch artery intersection_of: part_of UBERON:0003115 ! pharyngeal arch 4 relationship: part_of UBERON:0003115 ! pharyngeal arch 4 property_value: UBPROP:0000001 "Aortic arches 3 and 4 are not remodeled but are retained largely intact as the branchial arteries providing circulation through the gills. These areches are direct branches from the ventral aorta to the lateral dorsal aorta. Isogai et al. 2001.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0005008", ontology="TAO", source="ZFIN:curator"} property_value: UBPROP:0000001 "The forth in a series paired arterial connections between the dorsal and ventral aortae, lies within the 4th branchial arch. The paired aortic arch 4 arteries branch directly from the ventral aorta to the lateral dorsal aorta, and are retained as the branchial arteries providing circulation through the gills in the adult.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0010420", ontology="AAO", source="ISBN:0-02-377110-0"} property_value: UBPROP:0000001 "The fourth right arch forms the right subclavian as far as the origin of its internal mammary branch; while the fourth left arch constitutes the arch of the aorta between the origin of the left carotid artery and the termination of the ductus arteriosus[WP][Wikipedia:Aortic_arches#Arch_4]." xsd:string {source="Arch_4"} property_value: UBPROP:0000011 "Normally, the left fourth arch becomes the aortic arch, the right fourth arch contributes to the innominate artery[http://emedicine.medscape.com/article/899609-overview] in birds it is the right fourth arch which forms the permanent aorta" xsd:string [Term] id: UBERON:0003123 name: pharyngeal arch artery 6 namespace: uberon alt_id: UBERON:0004351 def: "The vessels formed within the sixth pair of branchial arches in embryogenesis." [MP:0006355] subset: pheno_slim subset: vertebrate_core synonym: "6th aortic arch artery" RELATED [EMAPA:17005] synonym: "6th arch artery" EXACT [EMAPA:17005] synonym: "6th branchial arch artery" RELATED [EMAPA:17005] synonym: "6th pharyngeal arch artery" RELATED [EMAPA:17005] synonym: "AA6" EXACT [ZFA:0005016] synonym: "aortic arch 6" EXACT [ZFA:0005016] synonym: "pulmonary arch" RELATED [ISBN:0073040584] synonym: "sixth aortic arch" EXACT [XAO:0000353] synonym: "sixth branchial arch artery" EXACT [] xref: AAO:0010422 xref: Arch_6 xref: EHDAA2:0000102 xref: EMAPA:17005 xref: http://www.snomedbrowser.com/Codes/Details/308779008 xref: SCTID:308779008 xref: TAO:0005016 xref: VHOG:0000144 xref: Wikipedia:Aortic_arches#Arch_6 xref: XAO:0000353 xref: ZFA:0005016 is_a: UBERON:0004363 ! pharyngeal arch artery intersection_of: UBERON:0004363 ! pharyngeal arch artery intersection_of: part_of UBERON:0003117 ! pharyngeal arch 6 relationship: part_of UBERON:0003117 ! pharyngeal arch 6 property_value: UBPROP:0000001 "The fifth and sixth arches, which come on-line at approximately 2.5 dpf, have a common trunk from the ventral aorta and drain to the midline dorsal aorta via an independent route. The fifth and sixth aortic arches supply the trunk and tail with oxigenated blood. Isogai et al. 2001.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0005016", ontology="TAO", source="ZFIN:curator"} property_value: UBPROP:0000001 "The sixth in a series paired arterial connections between the dorsal and ventral aortae. Aortic arch 6 artery is paired and has a common trunk with aortic arch 5 from the ventral aorta, and drains via a separate branch of the lateral dorsal aorta. It forms part of the pulmonary arteries, and in the later embryo, the ductus arteriosis. Aortic arches 5 and 6 together supply the trunk and tail with oxygenated blood.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0010422", ontology="AAO", source="ISBN:0-02-377110-0"} property_value: UBPROP:0000001 "The sixth right arch disappears; the sixth left arch gives off the pulmonary arteries and forms the ductus arteriosus; this duct remains pervious during the whole of fetal life, but then closes within the first few days after birth due to increased O2 concentration. Oxygen concentration causes the production of bradykinin which causes the ductus to constrict occluding all flow. Within 1-3 months, the ductus is obliterated and becomes the ligamentum arteriosus. His showed that in the early embryo the right and left arches each gives a branch to the lungs, but that later both pulmonary arteries take origin from the left arch[WP][Wikipedia:Aortic_arches#Arch_6]." xsd:string {source="Arch_6"} property_value: UBPROP:0000001 "The sixth right arch disappears; the sixth left arch gives off the pulmonary arteries and forms the ductus arteriosus; this duct remains pervious during the whole of fetal life, but then closes within the first few days after birth due to increased O2 concentration. Oxygen concentration causes the production of bradykinin which causes the ductus to constrict occluding all flow. Within 1-3 months, the ductus is obliterated and becomes the ligamentum arteriosus. His showed that in the early embryo the right and left arches each gives a branch to the lungs, but that later both pulmonary arteries take origin from the left arch[WP][Wikipedia:Aortic_arches#Arch_6]." xsd:string {source="Wikipedia:Aortic_arches#Arch_6"} property_value: UBPROP:0000011 "the distal left sixth arch becomes the ductus arteriosus, the proximal sixth arches bilaterally contribute to the proximal branch pulmonary arteries" xsd:string {source="http://emedicine.medscape.com/article/899609-overview"} property_value: UBPROP:0000011 "the distal left sixth arch becomes the ductus arteriosus, the proximal sixth arches bilaterally contribute to the proximal branch pulmonary arteries" xsd:string {source="http://emedicine.medscape.com/article/899609-overview"} [Term] id: UBERON:0003128 name: cranium namespace: uberon def: "Upper portion of the skull that excludes the mandible (when present in the organism)." [http://orcid.org/0000-0002-6601-2165, Wikipedia:Cranium_(anatomy)] def: "Upper portion of the skull that excludes the mandible (when present in the organism)." [http://en.wikipedia.org/wiki/Cranium_(anatomy), http://orcid.org/0000-0002-6601-2165] subset: efo_slim subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "bones of cranium" EXACT [FMA:71325] synonym: "calvarium" RELATED [BTO:0001328] synonym: "epicranial plate" RELATED [] synonym: "ossa cranii" EXACT LATIN [FMA:71325, FMA:TA] synonym: "set of bones of cranium" EXACT [FMA:71325] synonym: "skeletal system of head" RELATED [] synonym: "skull minus mandible" EXACT [] synonym: "upper part of skull" EXACT [] xref: BTO:0001328 xref: Cranium:(anatomy) xref: EFO:0000831 xref: EHDAA:6029 xref: EMAPA:17680 xref: FMA:71325 xref: http://www.snomedbrowser.com/Codes/Details/181889008 xref: MA:0000316 xref: MAT:0000340 xref: MIAA:0000340 xref: OpenCyc:Mx4rvVlEyJwpEbGdrcN5Y29ycA xref: SCTID:181889008 xref: VHOG:0000334 xref: Wikipedia:Cranium_(anatomy) is_a: UBERON:0000075 {source="FMA-inferred"} ! subdivision of skeletal system relationship: part_of UBERON:0003129 ! skull property_value: RO:0002171 UBERON:0003278 property_value: UBPROP:0000007 "cranial" xsd:string property_value: UBPROP:0000012 "the inclusion of the FMA class here is probably not quite correct, as this class includes as parts sutures, whereas this is not part of the bones of the cranium" xsd:string {external_ontology="FMA"} property_value: UBPROP:0000013 "The term cranium can be ambiguous, in that it can refer to the neurocranium, or the neurocranium and the Facial skeleton" xsd:string {source="WP"} [Term] id: UBERON:0003129 name: skull namespace: uberon def: "Anatomical structure that is part of the head consisting entirely of cranium and mandible[WP]." [http://sourceforge.net/tracker/?func=detail&aid=2962656&group_id=76834&atid=1205376, PMID:11523816, Wikipedia:Skull] def: "Anatomical structure that is part of the head consisting entirely of cranium and mandible[WP]." [http://en.wikipedia.org/wiki/Skull, http://sourceforge.net/tracker/?func=detail&aid=2962656&group_id=76834&atid=1205376, http://www.ncbi.nlm.nih.gov/pubmed/11523816] subset: pheno_slim subset: uberon_slim synonym: "cranial skeleton" RELATED [] synonym: "skeletal system of head" RELATED [] xref: BTO:0001295 xref: CALOHA:TS-2344 xref: EHDAA2:0000325 xref: EMAPA:17680 xref: FMA:46565 xref: GAID:82 xref: galen:Skull xref: http://en.wikipedia.org/wiki/Skull xref: http://linkedlifedata.com/resource/umls/id/C0037303 xref: http://www.snomedbrowser.com/Codes/Details/110530005 xref: MESH:D012886 xref: NCIT:C12789 xref: OpenCyc:Mx4rvVjOsZwpEbGdrcN5Y29ycA xref: SCTID:110530005 xref: UMLS:C0037303 {source="ncithesaurus:Skull"} xref: Wikipedia:Skull xref: WikipediaCategory:Skull is_a: UBERON:0000075 {source="FMA"} ! subdivision of skeletal system is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: has_part UBERON:0003128 ! cranium relationship: has_part UBERON:0003278 ! skeleton of lower jaw relationship: only_in_taxon NCBITaxon:89593 ! Craniata relationship: part_of UBERON:0000033 ! head relationship: part_of UBERON:0010323 ! cranial skeletal system property_value: RO:0002175 NCBITaxon:7762 property_value: UBPROP:0000012 "in FMA the skull is divided into orbit, neurocranium (8 parts), viscerocranium (26 parts). Here we have a separate overlapping division into cranium and mandible." xsd:string {external_ontology="FMA"} property_value: UBPROP:0000012 "in many ontologies, the structure called the cranium is inclusive of the mandible/lower jaw skeleton" xsd:string property_value: UBPROP:0000013 "A skull that is missing a mandible is only a cranium; this is the source of a very commonly made error in terminology. Those animals having skulls are called craniates" xsd:string {source="WP"} [Term] id: UBERON:0003133 name: reproductive organ namespace: uberon def: "An organ involved in reproduction." [UBERON:xp] subset: functional_classification subset: organ_slim subset: pheno_slim synonym: "genital organ" EXACT [] synonym: "genitalia" RELATED PLURAL [] synonym: "reproductive system organ" EXACT [] synonym: "sex organ" EXACT [] xref: EMAPA:17381 xref: EMAPA:37731 {source="MA:th"} xref: http://linkedlifedata.com/resource/umls/id/C0017420 xref: http://www.snomedbrowser.com/Codes/Details/128181006 xref: MA:0001752 xref: MESH:D005835 xref: NCIT:C25177 xref: OpenCyc:Mx4rwO39aJwpEbGdrcN5Y29ycA xref: SCTID:128181006 xref: TGMA:0000591 xref: UMLS:C0017420 {source="ncithesaurus:Genitalia"} xref: WBbt:0008422 is_a: UBERON:0000062 ! organ is_a: UBERON:0005156 ! reproductive structure intersection_of: UBERON:0000062 ! organ intersection_of: capable_of GO:0000003 ! reproduction relationship: capable_of GO:0000003 ! reproduction property_value: UBPROP:0000012 "GO uses genitalia for the singular organ" xsd:string {external_ontology="GO"} [Term] id: UBERON:0003134 name: female reproductive organ namespace: uberon def: "A female organ involved in reproduction." [UBERON:xp] subset: organ_slim subset: pheno_slim synonym: "female organism reproductive organ" EXACT [OBOL:automatic] synonym: "female organism reproductive structure" EXACT [OBOL:automatic] synonym: "female organism reproductive system organ" EXACT [OBOL:automatic] synonym: "female organism sex organ" EXACT [OBOL:automatic] synonym: "female reproductive gland/organ" EXACT [MA:0000544] synonym: "female reproductive system organ" EXACT [] synonym: "female sex organ" EXACT [] synonym: "reproductive organ of female organism" EXACT [OBOL:automatic] synonym: "reproductive structure of female organism" EXACT [OBOL:automatic] synonym: "reproductive system organ of female organism" EXACT [OBOL:automatic] synonym: "sex organ of female organism" EXACT [OBOL:automatic] xref: EMAPA:28540 xref: MA:0000544 is_a: UBERON:0003133 ! reproductive organ intersection_of: UBERON:0003133 ! reproductive organ intersection_of: part_of UBERON:0003100 ! female organism relationship: part_of UBERON:0000474 ! female reproductive system [Term] id: UBERON:0003218 name: ovary septum namespace: uberon def: "Septum that divides the ovary, the basal portion of a carpel or group of fused carpels, that encloses the ovule(s)[GO]." [GO:0080126] is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0003037 ! septum intersection_of: UBERON:0003037 ! septum intersection_of: part_of UBERON:0000992 ! ovary relationship: part_of UBERON:0000992 ! ovary [Term] id: UBERON:0003236 name: epithelium of lower jaw namespace: uberon def: "An epithelium that is part of a lower jaw [Automatically generated definition]." [OBOL:automatic] synonym: "epithelial tissue of lower jaw" EXACT [OBOL:automatic] synonym: "epithelial tissue of ventral mandibular arch" EXACT [OBOL:automatic] synonym: "epithelium of ventral mandibular arch" EXACT [OBOL:automatic] synonym: "lower jaw epithelial tissue" EXACT [OBOL:automatic] synonym: "lower jaw epithelium" EXACT [OBOL:automatic] synonym: "ventral mandibular arch epithelial tissue" EXACT [OBOL:automatic] synonym: "ventral mandibular arch epithelium" EXACT [OBOL:automatic] xref: EHDAA2:0001019 xref: EHDAA:7999 xref: EMAPA:35516 xref: VHOG:0000802 is_a: UBERON:0010314 ! structure with developmental contribution from neural crest is_a: UBERON:0035037 ! jaw epithelium intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0001710 ! lower jaw region relationship: part_of UBERON:0001710 ! lower jaw region [Term] id: UBERON:0003258 name: endoderm of foregut namespace: uberon def: "An endoderm that is part of a foregut [Automatically generated definition]." [OBOL:automatic] synonym: "foregut endoderm" EXACT [OBOL:automatic] xref: EHDAA2:0004568 xref: EHDAA:524 is_a: UBERON:0000490 ! unilaminar epithelium is_a: UBERON:0005911 ! endo-epithelium is_a: UBERON:0015833 ! foregut epithelium intersection_of: UBERON:0000490 ! unilaminar epithelium intersection_of: develops_from UBERON:0000925 ! endoderm intersection_of: part_of UBERON:0001041 ! foregut property_value: editor_note "TODO - check" xsd:string [Term] id: UBERON:0003269 name: skeletal muscle tissue of eye namespace: uberon def: "A portion of skeletal muscle tissue that is part of a eye [Automatically generated definition]." [OBOL:automatic] synonym: "eye skeletal muscle" EXACT [OBOL:automatic] synonym: "eye skeletal muscle group" RELATED [EHDAA2:0000486] synonym: "eye skeletal muscle tissue" EXACT [OBOL:automatic] synonym: "skeletal muscle tissue of eye" EXACT [OBOL:automatic] xref: EHDAA2:0000486 xref: EHDAA:2923 xref: EMAPA:17844 is_a: UBERON:0001134 ! skeletal muscle tissue is_a: UBERON:0004121 ! ectoderm-derived structure intersection_of: UBERON:0001134 ! skeletal muscle tissue intersection_of: part_of UBERON:0000019 ! camera-type eye relationship: part_of UBERON:0000019 ! camera-type eye [Term] id: UBERON:0003278 name: skeleton of lower jaw namespace: uberon def: "A subdivision of the skeleton that corresponds to the lower part of the mouth. The lower jaw skeleton includes the following elements, when present: lower jaw teeth, the mandible and other lower jaw bones, and Meckel's cartilage." [http://orcid.org/0000-0002-6601-2165] subset: pheno_slim synonym: "lower jaw" BROAD [MA:0001906] synonym: "lower jaw" BROAD [ZFA:0001273] synonym: "lower jaw skeleton" EXACT [AAO:0000274] synonym: "mandible" BROAD [ZFA:0001273] synonym: "mandibles" RELATED PLURAL [TAO:0001273] synonym: "mandibular series" RELATED [ZFA:0001273] xref: AAO:0000274 xref: EHDAA2:0004606 xref: EHDAA:8005 xref: EMAPA:17906 xref: EMAPA:17910 xref: FMA:54398 xref: MA:0001906 xref: TAO:0001273 xref: VHOG:0000428 xref: XAO:0003084 xref: ZFA:0001273 is_a: CARO:0000003 ! connected anatomical structure is_a: UBERON:0010313 ! neural crest-derived structure is_a: UBERON:0010912 ! subdivision of skeleton intersection_of: UBERON:0010912 ! subdivision of skeleton intersection_of: skeleton_of UBERON:0001710 ! lower jaw region relationship: overlaps UBERON:0008895 {source="VHOG-modified"} ! splanchnocranium relationship: part_of UBERON:0001708 ! jaw skeleton relationship: part_of UBERON:0001710 {source="EHDAA2"} ! lower jaw region relationship: skeleton_of UBERON:0001710 ! lower jaw region property_value: UBPROP:0000001 "The ventral portion of the first pharyngeal arch, comprising the lower jaw.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0001273", ontology="TAO", source="ZFIN:curator"} property_value: UBPROP:0000003 "The jaw joint of all jawed vertebrates, except for mammals, involves the quadrate and articular bones, or the posterior ends of the palatoquadrate and mandibular cartilages; A correlate of the conversion of the articular and quadrate bones to the malleus and incus is that all adult mammals have a jaw joint that lies between the dentary of the lower jaw and the squamosal bone of the skull roof.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000428", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.241 and p.101"} property_value: UBPROP:0000003 "The jaw joint of all jawed vertebrates, except for mammals, involves the quadrate and articular bones, or the posterior ends of the palatoquadrate and mandibular cartilages; A correlate of the conversion of the articular and quadrate bones to the malleus and incus is that all adult mammals have a jaw joint that lies between the dentary of the lower jaw and the squamosal bone of the skull roof.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000428", ontology="VHOG", source="ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.241 and p.101", source="http://bgee.unil.ch/"} property_value: UBPROP:0000012 "Inclusion of the FMA class 'lower jaw' is debatable - this mostly corresponds to the lower jaw skeleton (with 'maxillary part of mouth' corresponding to the upper jaw region); however, the FMA class also includes gingiva. See also: https://github.com/obophenotype/mouse-anatomy-ontology/issues/102" xsd:string {external_ontology="FMA"} [Term] id: UBERON:0003294 name: gland of foregut namespace: uberon def: "A gland that is part of a foregut [Automatically generated definition]." [OBOL:automatic] synonym: "foregut gland" EXACT [OBOL:automatic] xref: EHDAA2:0000567 xref: EHDAA:950 xref: EMAPA:16557 xref: VHOG:0000650 is_a: UBERON:0003408 ! gland of digestive tract intersection_of: UBERON:0002530 ! gland intersection_of: part_of UBERON:0001041 ! foregut relationship: part_of UBERON:0001041 ! foregut [Term] id: UBERON:0003295 name: pharyngeal gland namespace: uberon def: "Racemose mucous glands beneath the mucous membrane of the pharynx." [http://www.biology-online.org/dictionary/] subset: organ_slim synonym: "glandulae pharyngeae" RELATED [BTO:0004849] synonym: "pharynx gland" EXACT [EHDAA2:0001461] xref: BTO:0004849 xref: EHDAA2:0001461 xref: EHDAA:2967 xref: FMA:55075 is_a: UBERON:0003408 ! gland of digestive tract is_a: UBERON:0036225 ! respiratory system gland intersection_of: UBERON:0002530 ! gland intersection_of: part_of UBERON:0001042 ! chordate pharynx relationship: part_of UBERON:0001042 {source="BTO"} ! chordate pharynx [Term] id: UBERON:0003297 name: gland of integumental system namespace: uberon def: "A gland that is part of a integumental system [Automatically generated definition]." [OBOL:automatic] synonym: "integumental gland" EXACT [http://orcid.org/0000-0002-6601-2165] synonym: "integumental system gland" EXACT [http://orcid.org/0000-0002-6601-2165] synonym: "integumentary gland" EXACT [http://orcid.org/0000-0002-6601-2165] xref: EHDAA2:0000837 xref: EHDAA:6522 xref: EMAPA:17758 xref: MA:0000144 xref: VHOG:0000654 is_a: UBERON:0002530 ! gland intersection_of: UBERON:0002530 ! gland intersection_of: part_of UBERON:0002416 ! integumental system relationship: part_of UBERON:0002416 ! integumental system [Term] id: UBERON:0003304 name: mesoderm blood island namespace: uberon alt_id: UBERON:0003305 def: "A blood island that is part of a mesoderm." [OBOL:automatic] synonym: "mesenchyme blood island" RELATED [OBOL:automatic] synonym: "mesoderm blood islands" EXACT PLURAL [EHDAA2:0003241] xref: EHDAA2:0003241 xref: EHDAA:170 xref: EMAPA:16115 is_a: UBERON:0003061 ! blood island is_a: UBERON:0005291 ! embryonic tissue is_a: UBERON:0007503 {source="EHDAA2"} ! epithelial vesicle is_a: UBERON:0012275 ! meso-epithelium intersection_of: UBERON:0003061 ! blood island intersection_of: part_of UBERON:0000926 ! mesoderm relationship: part_of UBERON:0000926 ! mesoderm relationship: part_of UBERON:0007798 {source="EHDAA2"} ! vascular system property_value: UBPROP:0000012 "in EHDAA2, gives rise to blood and dorsal aorta" xsd:string {external_ontology="EHDAA2"} [Term] id: UBERON:0003314 name: eye mesenchyme namespace: uberon def: "Mesenchyme that is part of a developing camera-type eye." [OBOL:automatic] synonym: "mesenchyme of eye" EXACT [OBOL:automatic] xref: EHDAA2:0000485 xref: EHDAA:2910 xref: EMAPA:16673 xref: VHOG:0001084 is_a: UBERON:0007213 ! mesenchyme derived from head neural crest is_a: UBERON:0009891 ! facial mesenchyme intersection_of: UBERON:0003104 ! mesenchyme intersection_of: part_of UBERON:0000019 ! camera-type eye relationship: develops_from UBERON:0009920 {source="EHDAA2"} ! optic neural crest relationship: part_of UBERON:0000019 ! camera-type eye property_value: editor_note "TODO - change mesenchyme relationships to precursor_of" xsd:string [Term] id: UBERON:0003315 name: mesenchyme of ovary namespace: uberon def: "Mesenchyme that is part of a developing ovary [Automatically generated definition]." [OBOL:automatic] synonym: "female reproductive system gonad mesenchyme" EXACT [OBOL:automatic] synonym: "female reproductive system gonada mesenchyme" EXACT [OBOL:automatic] synonym: "gonad of female reproductive system mesenchyme" EXACT [OBOL:automatic] synonym: "gonada of female reproductive system mesenchyme" EXACT [OBOL:automatic] synonym: "mesenchyme of female reproductive system gonad" EXACT [OBOL:automatic] synonym: "mesenchyme of female reproductive system gonada" EXACT [OBOL:automatic] synonym: "mesenchyme of gonad of female reproductive system" EXACT [OBOL:automatic] synonym: "mesenchyme of gonada of female reproductive system" EXACT [OBOL:automatic] synonym: "ovary mesenchyme" EXACT [OBOL:automatic] xref: EHDAA2:0001362 xref: EHDAA:8128 xref: VHOG:0001441 is_a: UBERON:0003855 ! gonad mesenchyme intersection_of: UBERON:0003104 ! mesenchyme intersection_of: part_of UBERON:0000992 ! ovary relationship: part_of UBERON:0000992 ! ovary [Term] id: UBERON:0003324 name: mesenchyme of lower jaw namespace: uberon def: "Mesenchyme that is part of a developing lower jaw [Automatically generated definition]." [OBOL:automatic] synonym: "lower jaw mesenchyme" EXACT [OBOL:automatic] synonym: "mesenchyme of ventral mandibular arch" EXACT [OBOL:automatic] synonym: "ventral mandibular arch mesenchyme" EXACT [OBOL:automatic] xref: EHDAA2:0001024 xref: EHDAA:8003 xref: EMAPA:17916 xref: VHOG:0001069 is_a: UBERON:0010314 ! structure with developmental contribution from neural crest is_a: UBERON:0034995 ! jaw mesenchyme intersection_of: UBERON:0003104 ! mesenchyme intersection_of: part_of UBERON:0001710 ! lower jaw region relationship: develops_from UBERON:0006905 {source="EHDAA2"} ! mandibular process mesenchyme relationship: part_of UBERON:0001710 ! lower jaw region [Term] id: UBERON:0003338 name: ganglion of peripheral nervous system namespace: uberon def: "A spatially aggregated collection of nerve cell bodies in the PNS, consisting of one or more subpopulations that share cell type, chemical phenotype, and connections. (CUMBO)." [BIRNLEX:2548] subset: cumbo synonym: "peripheral nervous system ganglion" EXACT [OBOL:automatic] xref: BIRNLEX:2548 xref: BTO:0001123 xref: EMAPA:32814 xref: MA:0001161 is_a: UBERON:0000045 ! ganglion intersection_of: UBERON:0000045 ! ganglion intersection_of: part_of UBERON:0000010 ! peripheral nervous system relationship: part_of UBERON:0000010 ! peripheral nervous system property_value: UBPROP:0000012 "we follow MA in including separate classes for ganglion and peripheral nervous system, even though for vertebrates gangia are always in the PNS" xsd:string {external_ontology="MA"} [Term] id: UBERON:0003339 name: ganglion of central nervous system namespace: uberon def: "A ganglion that is part of a central nervous system [Automatically generated definition]." [OBOL:automatic] synonym: "central nervous system ganglion" EXACT [OBOL:automatic] synonym: "ganglion of neuraxis" EXACT [OBOL:automatic] synonym: "neuraxis ganglion" EXACT [OBOL:automatic] xref: EHDAA2:0000227 xref: EMAPA:16658 xref: FMA:83843 is_a: UBERON:0000045 ! ganglion is_a: UBERON:0004121 ! ectoderm-derived structure intersection_of: UBERON:0000045 ! ganglion intersection_of: part_of UBERON:0001017 ! central nervous system relationship: part_of UBERON:0001017 ! central nervous system property_value: UBPROP:0000012 "this has no subclasses in FMA. In EHDAA2 and EMAPA it has only the cranial ganglia" xsd:string {external_ontology="FMA"} [Term] id: UBERON:0003343 name: mucosa of oral region namespace: uberon def: "A mucosa that is part of a oral opening [Automatically generated definition]." [OBOL:automatic] synonym: "mucosa of oral opening" EXACT [OBOL:automatic] synonym: "mucosa of oral part of face" EXACT [OBOL:automatic] synonym: "mucosa of organ of oral opening" EXACT [OBOL:automatic] synonym: "mucosa of organ of oral part of face" EXACT [OBOL:automatic] synonym: "mucosa of organ of oral region" EXACT [OBOL:automatic] synonym: "mucosa of organ of subdivision of mouth" EXACT [OBOL:automatic] synonym: "mucosa of subdivision of mouth" EXACT [OBOL:automatic] synonym: "mucous membrane of oral opening" EXACT [OBOL:automatic] synonym: "mucous membrane of oral part of face" EXACT [OBOL:automatic] synonym: "mucous membrane of oral region" EXACT [OBOL:automatic] synonym: "mucous membrane of subdivision of mouth" EXACT [OBOL:automatic] synonym: "oral opening mucosa" EXACT [OBOL:automatic] synonym: "oral opening mucosa of organ" EXACT [OBOL:automatic] synonym: "oral opening mucous membrane" EXACT [OBOL:automatic] synonym: "oral opening organ mucosa" EXACT [OBOL:automatic] synonym: "oral part of face mucosa" EXACT [OBOL:automatic] synonym: "oral part of face mucosa of organ" EXACT [OBOL:automatic] synonym: "oral part of face mucous membrane" EXACT [OBOL:automatic] synonym: "oral part of face organ mucosa" EXACT [OBOL:automatic] synonym: "oral region mucosa" EXACT [OBOL:automatic] synonym: "oral region mucosa of organ" EXACT [OBOL:automatic] synonym: "oral region mucous membrane" EXACT [OBOL:automatic] synonym: "oral region organ mucosa" EXACT [OBOL:automatic] synonym: "organ mucosa of oral opening" EXACT [OBOL:automatic] synonym: "organ mucosa of oral part of face" EXACT [OBOL:automatic] synonym: "organ mucosa of oral region" EXACT [OBOL:automatic] synonym: "organ mucosa of subdivision of mouth" EXACT [OBOL:automatic] synonym: "subdivision of mouth mucosa" EXACT [OBOL:automatic] synonym: "subdivision of mouth mucosa of organ" EXACT [OBOL:automatic] synonym: "subdivision of mouth mucous membrane" EXACT [OBOL:automatic] synonym: "subdivision of mouth organ mucosa" EXACT [OBOL:automatic] xref: EMAPA:26937 xref: http://www.snomedbrowser.com/Codes/Details/362083000 xref: SCTID:362083000 is_a: UBERON:0003729 ! mouth mucosa intersection_of: UBERON:0000344 ! mucosa intersection_of: part_of UBERON:0000166 ! oral opening relationship: part_of UBERON:0000166 ! oral opening [Term] id: UBERON:0003350 name: epithelium of mucosa namespace: uberon def: "A layer of epithelial cells on the surface of the mucosa." [BTO:0003752] comment: lies on top of lamina propria synonym: "lamina epithelialis mucosa" RELATED [BTO:0003752] synonym: "lamina epithelialis mucosae" RELATED [BTO:0003752] xref: BTO:0003752 is_a: UBERON:0000483 ! epithelium intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0000344 ! mucosa relationship: part_of UBERON:0000344 ! mucosa [Term] id: UBERON:0003351 name: pharyngeal epithelium namespace: uberon def: "An epithelium that is part of a pharynx [Automatically generated definition]." [OBOL:automatic] subset: vertebrate_core synonym: "epithelial tissue of pharynx" EXACT [OBOL:automatic] synonym: "epithelium of pharynx" EXACT [OBOL:automatic] synonym: "pharynx epithelial tissue" EXACT [OBOL:automatic] synonym: "pharynx epithelium" EXACT [OBOL:automatic] xref: BSA:0000112 xref: BTO:0005240 xref: EMAPA:16708 xref: MA:0002725 xref: RETIRED_EHDAA2:0001460 xref: TAO:0001174 xref: XAO:0003202 xref: ZFA:0001174 is_a: UBERON:0003929 ! digestive tract epithelium is_a: UBERON:0004807 ! respiratory system epithelium is_a: UBERON:0005911 ! endo-epithelium intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0001042 ! chordate pharynx relationship: develops_from UBERON:0007690 {source="ZFA"} ! early pharyngeal endoderm relationship: part_of UBERON:0001042 {source="ZFA"} ! chordate pharynx property_value: UBPROP:0000001 "Epithelium lining the pharynx consisting largely of simple columnar epithelium with a short segment (1mm) of stratified squamous epithelium on the ventral side. Chen et al, 2007.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0001174", ontology="TAO", source="ZFIN:curator"} [Term] id: UBERON:0003364 name: epithelium of right lung namespace: uberon def: "An epithelium that is part of a right lung [Automatically generated definition]." [OBOL:automatic] synonym: "epithelial tissue of right lung" EXACT [OBOL:automatic] synonym: "right lung epithelial tissue" EXACT [OBOL:automatic] synonym: "right lung epithelium" EXACT [OBOL:automatic] xref: EMAPA:17663 xref: MA:0003132 is_a: UBERON:0000115 ! lung epithelium intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0002167 ! right lung relationship: part_of UBERON:0002167 ! right lung [Term] id: UBERON:0003365 name: epithelium of left lung namespace: uberon def: "An epithelium that is part of a left lung [Automatically generated definition]." [OBOL:automatic] synonym: "epithelial tissue of left lung" EXACT [OBOL:automatic] synonym: "left lung epithelial tissue" EXACT [OBOL:automatic] synonym: "left lung epithelium" EXACT [OBOL:automatic] xref: EMAPA:17655 xref: MA:0003131 is_a: UBERON:0000115 ! lung epithelium intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0002168 ! left lung relationship: part_of UBERON:0002168 ! left lung [Term] id: UBERON:0003371 name: pelvic appendage bud ectoderm namespace: uberon alt_id: UBERON:0005232 def: "An unilaminar epithelium that surrounds a pelvic appendage bud." [OBOL:automatic] synonym: "hindlimb bud ectoderm" NARROW SENSU [EMAPA:16780] synonym: "hindlimb bud ectoderm" NARROW SENSU [] synonym: "hindlimb ectoderm" EXACT [VHOG:0001048] synonym: "hindlimb ectoderm" NARROW SENSU [VHOG:0001048] synonym: "leg ectoderm" RELATED [OBOL:automatic] synonym: "lower limb bud ectoderm" NARROW SENSU [EHDAA2:0001034] synonym: "pelvic fin bud ectoderm" NARROW SENSU [] xref: EHDAA2:0001034 xref: EMAPA:16780 xref: VHOG:0001048 is_a: UBERON:0000490 ! unilaminar epithelium is_a: UBERON:0005291 ! embryonic tissue is_a: UBERON:0010371 ! ecto-epithelium intersection_of: UBERON:0000490 ! unilaminar epithelium intersection_of: bounding_layer_of UBERON:0005420 ! pelvic appendage bud relationship: bounding_layer_of UBERON:0005420 ! pelvic appendage bud relationship: develops_from UBERON:0000076 {source="EHDAA2"} ! external ectoderm relationship: part_of UBERON:0000076 {source="EHDAA2"} ! external ectoderm relationship: part_of UBERON:0005420 ! pelvic appendage bud [Term] id: UBERON:0003372 name: pectoral appendage bud ectoderm namespace: uberon alt_id: UBERON:0005231 alt_id: UBERON:0005663 def: "An unilaminar epithelium that surrounds a pectoral appendage bud." [OBOL:automatic] synonym: "arm ectoderm" RELATED [OBOL:automatic] synonym: "forelimb bud ectoderm" NARROW SENSU [EMAPA:16407] synonym: "forelimb bud ectoderm" NARROW SENSU [] synonym: "forelimb ectoderm" NARROW SENSU [VHOG:0001047] synonym: "pectoral fin bud ectoderm" NARROW SENSU [] synonym: "upper limb bud ectoderm" NARROW SENSU [EHDAA2:0002134] synonym: "wing ectoderm" NARROW SENSU [Geisha:syn, NCBITaxon:8782] xref: EHDAA2:0002134 xref: EMAPA:16407 xref: VHOG:0001047 is_a: UBERON:0000490 ! unilaminar epithelium is_a: UBERON:0005291 ! embryonic tissue is_a: UBERON:0010371 ! ecto-epithelium intersection_of: UBERON:0000490 ! unilaminar epithelium intersection_of: bounding_layer_of UBERON:0005419 ! pectoral appendage bud relationship: bounding_layer_of UBERON:0005419 ! pectoral appendage bud relationship: develops_from UBERON:0000076 {source="EHDAA2"} ! external ectoderm relationship: part_of UBERON:0000076 {source="EHDAA2"} ! external ectoderm relationship: part_of UBERON:0005419 ! pectoral appendage bud [Term] id: UBERON:0003379 name: cardiac muscle of right atrium namespace: uberon def: "A portion of cardiac muscle tissue that is part of a right atrium [Automatically generated definition]." [OBOL:automatic] synonym: "cardiac muscle of cardiac right atrium" EXACT [OBOL:automatic] synonym: "cardiac muscle of heart right atrium" EXACT [OBOL:automatic] synonym: "cardiac muscle tissue of heart right atrium" EXACT [OBOL:automatic] synonym: "cardiac muscle tissue of right atrium" EXACT [OBOL:automatic] synonym: "cardiac muscle tissue of right atrium of heart" EXACT [OBOL:automatic] synonym: "myocardium of right atrium" EXACT [] synonym: "right atrium heart muscle" EXACT [EHDAA2:0004155] synonym: "right atrium myocardium" EXACT [VHOG:0001227] synonym: "textus muscularis of myocardium of right atrium" EXACT [OBOL:automatic] synonym: "textus muscularis of myocardium of right atrium of heart" EXACT [OBOL:automatic] synonym: "textus muscularis of myocardium of right cardiac atrium" EXACT [OBOL:automatic] xref: EHDAA2:0004155 xref: EMAPA:17326 xref: FMA:7282 xref: http://www.snomedbrowser.com/Codes/Details/362018002 xref: SCTID:362018002 xref: VHOG:0001227 is_a: UBERON:0004490 ! cardiac muscle tissue of atrium intersection_of: UBERON:0001133 ! cardiac muscle tissue intersection_of: part_of UBERON:0002078 ! right cardiac atrium relationship: part_of UBERON:0002078 ! right cardiac atrium [Term] id: UBERON:0003380 name: cardiac muscle of left atrium namespace: uberon def: "A portion of cardiac muscle tissue that is part of a left atrium [Automatically generated definition]." [OBOL:automatic] synonym: "cardiac left atrium cardiac muscle" EXACT [OBOL:automatic] synonym: "cardiac left atrium cardiac muscle tissue" EXACT [OBOL:automatic] synonym: "cardiac muscle of cardiac left atrium" EXACT [OBOL:automatic] synonym: "cardiac muscle of heart left atrium" EXACT [OBOL:automatic] synonym: "cardiac muscle of left atrium of heart" EXACT [OBOL:automatic] synonym: "left atrium heart muscle" EXACT [EHDAA2:0004154] synonym: "left atrium myocardium" EXACT [VHOG:0001225] synonym: "myocardium of left atrium" EXACT [] synonym: "textus muscularis of myocardium of cardiac left atrium" EXACT [OBOL:automatic] synonym: "textus muscularis of myocardium of heart left atrium" EXACT [OBOL:automatic] synonym: "textus muscularis of myocardium of left atrium" EXACT [OBOL:automatic] synonym: "textus muscularis of myocardium of left atrium of heart" EXACT [OBOL:automatic] synonym: "textus muscularis of myocardium of left cardiac atrium" EXACT [OBOL:automatic] xref: EHDAA2:0004154 xref: EMAPA:17320 xref: FMA:7285 xref: http://www.snomedbrowser.com/Codes/Details/189936008 xref: SCTID:189936008 xref: VHOG:0001225 is_a: UBERON:0004490 ! cardiac muscle tissue of atrium intersection_of: UBERON:0001133 ! cardiac muscle tissue intersection_of: part_of UBERON:0002079 ! left cardiac atrium relationship: part_of UBERON:0002079 ! left cardiac atrium [Term] id: UBERON:0003381 name: cardiac muscle of right ventricle namespace: uberon def: "A portion of cardiac muscle tissue that is part of a right ventricle [Automatically generated definition]." [OBOL:automatic] synonym: "cardiac muscle tissue of right ventricle" EXACT [FMA:83452] synonym: "right ventricle cardiac muscle" RELATED [VHOG:0001236] synonym: "right ventricular cardiac muscle tissue" EXACT [GO:0003221] xref: EMAPA:17342 xref: FMA:83452 xref: VHOG:0001236 is_a: UBERON:0018649 ! cardiac muscle tissue of ventricle intersection_of: UBERON:0001133 ! cardiac muscle tissue intersection_of: part_of UBERON:0002080 ! heart right ventricle relationship: part_of UBERON:0002080 ! heart right ventricle [Term] id: UBERON:0003382 name: cardiac muscle of left ventricle namespace: uberon def: "A portion of cardiac muscle tissue that is part of a left ventricle [Automatically generated definition]." [OBOL:automatic] synonym: "cardiac muscle tissue of left ventricle" EXACT [FMA:83453] synonym: "left ventricle cardiac muscle" RELATED [VHOG:0001234] synonym: "left ventricular cardiac muscle tissue" EXACT [GO:0003220] xref: EMAPA:17339 xref: FMA:83453 xref: VHOG:0001234 is_a: UBERON:0018649 ! cardiac muscle tissue of ventricle intersection_of: UBERON:0001133 ! cardiac muscle tissue intersection_of: part_of UBERON:0002084 ! heart left ventricle relationship: part_of UBERON:0002084 ! heart left ventricle [Term] id: UBERON:0003383 name: cardiac muscle tissue of interventricular septum namespace: uberon def: "A portion of cardiac muscle tissue that is part of an interventricular septum [Automatically generated definition]." [OBOL:automatic] synonym: "cardiac muscle of interventricular septum" EXACT [] synonym: "cardiac muscle tissue of interventricular septum" EXACT [FMA:84084] synonym: "interventricular septum cardiac muscle" EXACT [VHOG:0000999] synonym: "interventricular septum heart muscle" EXACT [EHDAA2:0004158] synonym: "interventricular septum muscle" RELATED [http://orcid.org/0000-0002-6601-2165] synonym: "interventricular septum myocardium" EXACT [VHOG:0000999] xref: EHDAA2:0004158 xref: EMAPA:17335 xref: FMA:84084 xref: VHOG:0000999 is_a: UBERON:0004492 ! cardiac muscle tissue of cardiac septum is_a: UBERON:0004667 ! interventricular septum muscular part intersection_of: UBERON:0001133 ! cardiac muscle tissue intersection_of: part_of UBERON:0002094 ! interventricular septum [Term] id: UBERON:0003384 name: skeletal muscle tissue of pharynx namespace: uberon def: "A portion of skeletal muscle tissue that is part of a pharynx [Automatically generated definition]." [OBOL:automatic] synonym: "pharynx skeletal muscle" EXACT [OBOL:automatic] synonym: "pharynx skeletal muscle tissue" EXACT [OBOL:automatic] synonym: "skeletal muscle tissue of pharynx" EXACT [OBOL:automatic] xref: EMAPA:18963 is_a: UBERON:0004830 ! respiratory system skeletal muscle intersection_of: UBERON:0001134 ! skeletal muscle tissue intersection_of: part_of UBERON:0001042 ! chordate pharynx relationship: part_of UBERON:0001042 ! chordate pharynx [Term] id: UBERON:0003386 name: smooth muscle of eye namespace: uberon def: "any of the striated muscles that move the eye and include: superior rectus, inferior rectus, medial rectus, lateral rectus, superior oblique, inferior oblique, retractor bulbi" [MGI:cwg, MP:0005247] def: "Any of the striated muscles that move the eye and include: superior rectus, inferior rectus, medial rectus, lateral rectus, superior oblique, inferior oblique, retractor bulbi." [MGI:cwg, MP:0005247] subset: pheno_slim synonym: "ocular smooth muscle" EXACT [MA:0001268] xref: EMAPA:18807 xref: MA:0001268 is_a: UBERON:0001135 ! smooth muscle tissue is_a: UBERON:0004121 ! ectoderm-derived structure intersection_of: UBERON:0001135 ! smooth muscle tissue intersection_of: part_of UBERON:0000019 ! camera-type eye relationship: contributes_to_morphology_of UBERON:0001015 ! musculature relationship: part_of UBERON:0000019 ! camera-type eye property_value: editor_note "Not clear if we need this and intra-ocular muscle. See issue #331. MA includes ciliary and iris smooth muscle" xsd:string [Term] id: UBERON:0003388 name: mesothelium of pericardial cavity namespace: uberon def: "A mesothelium that is part of a pericardium [Automatically generated definition]." [OBOL:automatic] synonym: "cavity of pericardial sac meso-epithelium" EXACT [OBOL:automatic] synonym: "cavity of pericardial sac mesothelium" EXACT [OBOL:automatic] synonym: "meso-epithelium of cavity of pericardial sac" EXACT [OBOL:automatic] synonym: "meso-epithelium of pericardial cavity" EXACT [OBOL:automatic] synonym: "mesothelium of cavity of pericardial sac" EXACT [OBOL:automatic] synonym: "pericardial cavity meso-epithelium" EXACT [OBOL:automatic] synonym: "pericardial cavity mesothelium" EXACT [OBOL:automatic] xref: RETIRED_EHDAA2:0001436 is_a: UBERON:0001136 ! mesothelium intersection_of: UBERON:0001136 ! mesothelium intersection_of: part_of UBERON:0002407 ! pericardium relationship: part_of UBERON:0002407 ! pericardium [Term] id: UBERON:0003389 name: mesothelium of diaphragm namespace: uberon def: "A mesothelium that is part of a diaphragm [Automatically generated definition]." [OBOL:automatic] synonym: "diaphragm meso-epithelium" EXACT [OBOL:automatic] synonym: "diaphragm mesothelium" EXACT [OBOL:automatic] synonym: "meso-epithelium of diaphragm" EXACT [OBOL:automatic] synonym: "meso-epithelium of thoracic diaphragm" EXACT [OBOL:automatic] synonym: "mesothelium of thoracic diaphragm" EXACT [OBOL:automatic] synonym: "thoracic diaphragm meso-epithelium" EXACT [OBOL:automatic] synonym: "thoracic diaphragm mesothelium" EXACT [OBOL:automatic] xref: EMAPA:18429 is_a: UBERON:0001136 ! mesothelium is_a: UBERON:0004807 ! respiratory system epithelium intersection_of: UBERON:0001136 ! mesothelium intersection_of: part_of UBERON:0001103 ! diaphragm relationship: part_of UBERON:0001103 ! diaphragm [Term] id: UBERON:0003390 name: mesothelium of pleural cavity namespace: uberon def: "A mesothelium that is part of a pleural cavity [Automatically generated definition]." [OBOL:automatic] synonym: "meso-epithelium of pleural cavity" EXACT [OBOL:automatic] synonym: "mesothelium of pleura" EXACT [FMA:18148] synonym: "pleura" RELATED [EMAPA:16775] synonym: "pleural cavity meso-epithelium" EXACT [OBOL:automatic] synonym: "pleural cavity mesothelium" EXACT [OBOL:automatic] synonym: "pleural mesothelium" EXACT [EMAPA:16775] xref: BTO:0003155 xref: EHDAA2:0001476 xref: EMAPA:16775 xref: FMA:18148 is_a: UBERON:0001136 ! mesothelium intersection_of: UBERON:0001136 ! mesothelium intersection_of: located_in UBERON:0002402 ! pleural cavity relationship: located_in UBERON:0002402 ! pleural cavity [Term] id: UBERON:0003406 name: cartilage of respiratory system namespace: uberon def: "A cartilage element that is part of a respiratory system [Automatically generated definition]." [OBOL:automatic] synonym: "apparatus respiratorius cartilage" EXACT [OBOL:automatic] synonym: "cartilage of apparatus respiratorius" EXACT [OBOL:automatic] synonym: "respiratory system cartilage" EXACT [OBOL:automatic] xref: EMAPA:18694 xref: MA:0001818 is_a: UBERON:0007844 ! cartilage element intersection_of: UBERON:0007844 ! cartilage element intersection_of: part_of UBERON:0001004 ! respiratory system relationship: part_of UBERON:0001004 ! respiratory system [Term] id: UBERON:0003408 name: gland of digestive tract namespace: uberon def: "A gland that is part of a digestive tract [Automatically generated definition]." [OBOL:automatic] synonym: "digestive tract gland" EXACT [OBOL:automatic] synonym: "gland of digestive tract" EXACT [OBOL:automatic] synonym: "gland of lower gastrointestinal tract" EXACT [OBOL:automatic] synonym: "gut gland" EXACT [MA:0003202] synonym: "lower gastrointestinal tract gland" EXACT [OBOL:automatic] xref: EMAPA:18815 xref: MA:0003202 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0002530 ! gland is_a: UBERON:0013765 ! digestive system element intersection_of: UBERON:0002530 ! gland intersection_of: part_of UBERON:0001555 ! digestive tract relationship: part_of UBERON:0001555 ! digestive tract [Term] id: UBERON:0003412 name: pelvic appendage bud mesenchyme namespace: uberon def: "Mesenchyme that is part of a pelvic appendage bud." [OBOL:automatic] synonym: "hindlimb bud mesenchyme" NARROW SENSU [EMAPA:16781] synonym: "leg mesenchyme" EXACT [OBOL:automatic] synonym: "lower limb bud mesenchyme" EXACT [EHDAA2:0001035] synonym: "mesoderm pelvic fin bud" NARROW SENSU [ZFA:0001386] synonym: "pelvic fin bud mesenchyme" NARROW SENSU [] xref: EHDAA2:0001035 xref: EMAPA:16781 xref: TAO:0001386 xref: ZFA:0001386 is_a: UBERON:0010329 ! paired limb/fin bud mesenchyme intersection_of: UBERON:0003104 ! mesenchyme intersection_of: part_of UBERON:0005420 ! pelvic appendage bud relationship: develops_from UBERON:0005730 ! pelvic appendage field relationship: part_of UBERON:0005420 ! pelvic appendage bud property_value: UBPROP:0000001 "Mesoderm part of pelvic fin bud.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0001386", ontology="TAO", source="ZFIN:curator"} [Term] id: UBERON:0003413 name: pectoral appendage bud mesenchyme namespace: uberon alt_id: UBERON:0005703 def: "Mesenchyme that is part of a pectoral appendage bud." [OBOL:automatic] synonym: "arm mesenchyme" NARROW [OBOL:automatic] synonym: "forelimb bud mesenchyme" NARROW SENSU [EMAPA:16408] synonym: "mesoderm pectoral fin bud" NARROW SENSU [ZFA:0000789] synonym: "pectoral fin bud mesenchyme" NARROW SENSU [] synonym: "upper limb bud mesenchyme" NARROW [EHDAA2:0002135] synonym: "wing mesenchyme" NARROW [OBOL:automatic] xref: EHDAA2:0002135 xref: EHDAA:1703 xref: EMAPA:16408 xref: TAO:0000789 xref: ZFA:0000789 is_a: UBERON:0010329 ! paired limb/fin bud mesenchyme intersection_of: UBERON:0003104 ! mesenchyme intersection_of: part_of UBERON:0005419 ! pectoral appendage bud relationship: develops_from UBERON:0005729 ! pectoral appendage field relationship: part_of UBERON:0005419 ! pectoral appendage bud property_value: UBPROP:0000001 "Mesoderm that is part of the pectoral fin bud.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0000789", ontology="TAO", source="ZFIN:curator"} [Term] id: UBERON:0003426 name: dermis adipose tissue namespace: uberon def: "An adipose tissue that is part of a dermis [Automatically generated definition]." [OBOL:automatic] subset: pheno_slim synonym: "adipose tissue of dermis" EXACT [OBOL:automatic] synonym: "dermis fat tissue" EXACT [OBOL:automatic] synonym: "dermis fatty tissue" EXACT [OBOL:automatic] synonym: "fat tissue of dermis" EXACT [OBOL:automatic] synonym: "fatty tissue of dermis" EXACT [OBOL:automatic] xref: MA:0000798 is_a: UBERON:0001013 ! adipose tissue is_a: UBERON:0003585 ! dermis connective tissue intersection_of: UBERON:0001013 ! adipose tissue intersection_of: part_of UBERON:0002067 ! dermis [Term] id: UBERON:0003429 name: abdomen nerve namespace: uberon def: "A nerve that is part of an abdomen [Automatically generated definition]." [OBOL:automatic] synonym: "nerve of abdomen" EXACT [OBOL:automatic] xref: MA:0000521 is_a: UBERON:0003825 ! nerve of abdominal segment intersection_of: UBERON:0001021 ! nerve intersection_of: part_of UBERON:0000916 ! abdomen relationship: part_of UBERON:0000916 ! abdomen [Term] id: UBERON:0003430 name: neck nerve namespace: uberon def: "A nerve that is part of a neck [Automatically generated definition]." [OBOL:automatic] synonym: "neck (volume) nerve" EXACT [OBOL:automatic] synonym: "nerve of neck" EXACT [OBOL:automatic] synonym: "nerve of neck (volume)" EXACT [OBOL:automatic] xref: EMAPA:37263 {source="MA:th"} xref: MA:0000588 is_a: UBERON:0001021 ! nerve intersection_of: UBERON:0001021 ! nerve intersection_of: part_of UBERON:0000974 ! neck relationship: part_of UBERON:0000974 ! neck [Term] id: UBERON:0003438 name: iris nerve namespace: uberon def: "Any nerve that innervates the iris." [UBERON:cjm] synonym: "ciliary nerve" NARROW [] synonym: "nerve of iris" EXACT [OBOL:automatic] xref: EMAPA:35449 xref: MA:0001291 is_a: UBERON:0001021 ! nerve intersection_of: UBERON:0001021 ! nerve intersection_of: innervates UBERON:0001769 ! iris relationship: innervates UBERON:0001769 ! iris property_value: editor_note "added for consistency with mouse ontologies. The term 'ciliary nerve' is usually used to denote either of the two nerves (with different origins) that innervate the iris, as well as ciliary muscles and cornea" xsd:string [Term] id: UBERON:0003439 name: nerve of trunk region namespace: uberon def: "A nerve that is part of the trunk region of the body (not to be confused with a nerve trunk)." [http://orcid.org/0000-0002-6601-2165] subset: grouping_class subset: non_informative synonym: "nerve of torso" EXACT [OBOL:automatic] synonym: "nerve of trunk" EXACT [OBOL:automatic] synonym: "torso nerve" EXACT [OBOL:automatic] synonym: "trunk nerve" RELATED [MA:0000515] xref: EMAPA:37264 {source="MA:th"} xref: MA:0000515 is_a: UBERON:0001021 ! nerve intersection_of: UBERON:0001021 ! nerve intersection_of: part_of UBERON:0002100 ! trunk relationship: part_of UBERON:0002100 ! trunk [Term] id: UBERON:0003443 name: thoracic cavity nerve namespace: uberon def: "A nerve that is located in a thoracic cavity [Automatically generated definition]." [OBOL:automatic] synonym: "cavity of chest nerve" EXACT [OBOL:automatic] synonym: "cavity of thorax nerve" EXACT [OBOL:automatic] synonym: "chest cavity nerve" EXACT [OBOL:automatic] synonym: "nerve of cavity of chest" EXACT [OBOL:automatic] synonym: "nerve of cavity of thorax" EXACT [OBOL:automatic] synonym: "nerve of chest cavity" EXACT [OBOL:automatic] synonym: "nerve of pectoral cavity" EXACT [OBOL:automatic] synonym: "nerve of thoracic cavity" EXACT [OBOL:automatic] synonym: "pectoral cavity nerve" EXACT [OBOL:automatic] xref: EMAPA:37267 {source="MA:th"} xref: MA:0000556 is_a: UBERON:0001021 ! nerve intersection_of: UBERON:0001021 ! nerve intersection_of: located_in UBERON:0002224 ! thoracic cavity relationship: located_in UBERON:0002224 ! thoracic cavity property_value: editor_note "consider merging with thoracic nerve. In MA the only subclass is the phrenic nerve, which arises from a cervical nerve" xsd:string [Term] id: UBERON:0003444 name: pelvis nerve namespace: uberon def: "A nerve that is part of a pelvis [Automatically generated definition]." [OBOL:automatic] synonym: "nerve of pelvis" EXACT [OBOL:automatic] xref: EMAPA:37269 {source="MA:th"} xref: MA:0000542 is_a: UBERON:0003825 ! nerve of abdominal segment intersection_of: UBERON:0001021 ! nerve intersection_of: part_of UBERON:0002355 ! pelvic region of trunk relationship: part_of UBERON:0002355 ! pelvic region of trunk [Term] id: UBERON:0003457 name: head bone namespace: uberon def: "A bone that is part of a head [Automatically generated definition]." [OBOL:automatic] comment: Different sources vary regarding which bones are craniofacial; e.g. hyoid bone subset: pheno_slim synonym: "adult head bone" EXACT [OBOL:automatic] synonym: "adult head bone organ" EXACT [OBOL:automatic] synonym: "bone of adult head" EXACT [OBOL:automatic] synonym: "bone of head" EXACT [OBOL:automatic] synonym: "bone organ of adult head" EXACT [OBOL:automatic] synonym: "bone organ of head" EXACT [OBOL:automatic] synonym: "craniofacial bone" RELATED [http://orcid.org/0000-0002-6601-2165] synonym: "head bone organ" EXACT [OBOL:automatic] xref: EMAPA:35996 xref: http://www.snomedbrowser.com/Codes/Details/118646007 xref: MA:0000576 xref: SCTID:118646007 is_a: UBERON:0007914 ! bone of craniocervical region intersection_of: UBERON:0001474 ! bone element intersection_of: part_of UBERON:0000033 ! head relationship: part_of UBERON:0000033 ! head [Term] id: UBERON:0003458 name: neck bone namespace: uberon def: "A bone that is part of a neck [Automatically generated definition]." [OBOL:automatic] synonym: "bone of neck" EXACT [OBOL:automatic] synonym: "bone of neck (volume)" EXACT [OBOL:automatic] synonym: "bone organ of neck" EXACT [OBOL:automatic] synonym: "bone organ of neck (volume)" EXACT [OBOL:automatic] synonym: "neck (volume) bone" EXACT [OBOL:automatic] synonym: "neck (volume) bone organ" EXACT [OBOL:automatic] synonym: "neck bone organ" EXACT [OBOL:automatic] xref: EMAPA:37246 {source="MA:th"} xref: MA:0000584 xref: OpenCyc:Mx4rvnpJSJwpEbGdrcN5Y29ycA is_a: UBERON:0007914 ! bone of craniocervical region intersection_of: UBERON:0001474 ! bone element intersection_of: part_of UBERON:0000974 ! neck relationship: part_of UBERON:0000974 ! neck [Term] id: UBERON:0003462 name: facial bone namespace: uberon def: "A bone that is part of a facial skeleton [Automatically generated definition]." [OBOL:automatic] subset: pheno_slim synonym: "bone of facial skeleton" EXACT [OBOL:automatic] synonym: "bone of viscerocranium" RELATED [OBOL:automatic] synonym: "facial bone" EXACT [EMAPA:19019] synonym: "facial skeleton bone" EXACT [OBOL:automatic] synonym: "viscerocranium bone" RELATED [OBOL:automatic] xref: EMAPA:19019 xref: EMAPA:35924 xref: http://linkedlifedata.com/resource/umls/id/C0015455 xref: http://www.snomedbrowser.com/Codes/Details/181799005 xref: MA:0001482 xref: MA:0003159 xref: NCIT:C63706 xref: SCTID:181799005 xref: UMLS:C0015455 {source="ncithesaurus:Facial_Bone"} is_a: UBERON:0003457 ! head bone is_a: UBERON:0010313 ! neural crest-derived structure intersection_of: UBERON:0001474 ! bone element intersection_of: part_of UBERON:0011156 ! facial skeleton relationship: part_of UBERON:0011156 {source="MA"} ! facial skeleton property_value: editor_note "test whether 'facial bone' is an exact synonym" xsd:string [Term] id: UBERON:0003463 name: trunk bone namespace: uberon def: "A bone that is part of a trunk [Automatically generated definition]." [OBOL:automatic] synonym: "bone of torso" EXACT [OBOL:automatic] synonym: "bone of trunk" EXACT [OBOL:automatic] synonym: "bone organ of torso" EXACT [OBOL:automatic] synonym: "bone organ of trunk" EXACT [OBOL:automatic] synonym: "torso bone" EXACT [OBOL:automatic] synonym: "torso bone organ" EXACT [OBOL:automatic] synonym: "trunk bone organ" EXACT [OBOL:automatic] xref: EMAPA:36583 xref: http://www.snomedbrowser.com/Codes/Details/427358002 xref: MA:0000512 xref: SCTID:427358002 is_a: UBERON:0001474 ! bone element is_a: UBERON:0005177 ! trunk region element intersection_of: UBERON:0001474 ! bone element intersection_of: part_of UBERON:0002100 ! trunk [Term] id: UBERON:0003469 name: respiratory system artery namespace: uberon def: "An artery that is part of a respiratory system [Automatically generated definition]." [OBOL:automatic] xref: EMAPA:37569 {source="MA:th"} xref: MA:0001804 is_a: UBERON:0001637 ! artery is_a: UBERON:0003643 ! respiratory system arterial blood vessel intersection_of: UBERON:0001637 ! artery intersection_of: part_of UBERON:0001004 ! respiratory system [Term] id: UBERON:0003471 name: artery of lower lip namespace: uberon def: "The inferior labial artery (inferior labial branch of facial artery) arises near the angle of the mouth; it passes upward and forward beneath the Triangularis and, penetrating the Orbicularis oris, runs in a tortuous course along the edge of the lower lip between this muscle and the mucous membrane. It supplies the labial glands, the mucous membrane, and the muscles of the lower lip; and anastomoses with the artery of the opposite side, and with the mental branch of the inferior alveolar artery." [Wikipedia:Inferior_labial_artery] def: "The inferior labial artery (inferior labial branch of facial artery) arises near the angle of the mouth; it passes upward and forward beneath the Triangularis and, penetrating the Orbicularis oris, runs in a tortuous course along the edge of the lower lip between this muscle and the mucous membrane. It supplies the labial glands, the mucous membrane, and the muscles of the lower lip; and anastomoses with the artery of the opposite side, and with the mental branch of the inferior alveolar artery." [http://en.wikipedia.org/wiki/Inferior_labial_artery] synonym: "arteria labialis inferior" EXACT LATIN [http://en.wikipedia.org/wiki/Inferior_labial_artery] synonym: "arteria labialis inferior" EXACT LATIN [Wikipedia:Inferior_labial_artery] synonym: "inferior labial artery" EXACT [FMA:49567] synonym: "inferior labial branch of facial artery" EXACT [FMA:49567] synonym: "ramus labialis inferior (arteria facialis)" EXACT [FMA:TA] synonym: "ramus labialis inferior arteriae facialis" EXACT LATIN [Wikipedia:Inferior_labial_artery] synonym: "ramus labialis inferior arteriae facialis" EXACT LATIN [http://en.wikipedia.org/wiki/Inferior_labial_artery] xref: EMAPA:37429 {source="MA:th"} xref: FMA:49567 xref: http://en.wikipedia.org/wiki/Inferior_labial_artery xref: http://www.snomedbrowser.com/Codes/Details/145036002 xref: MA:0001916 xref: SCTID:145036002 xref: Wikipedia:Inferior_labial_artery is_a: UBERON:0003496 ! head blood vessel is_a: UBERON:0004573 ! systemic artery is_a: UBERON:0009657 ! artery of lip is_a: UBERON:0010314 ! structure with developmental contribution from neural crest intersection_of: UBERON:0001637 ! artery intersection_of: supplies UBERON:0001835 ! lower lip relationship: branching_part_of UBERON:0001612 {source="FMA"} ! facial artery relationship: part_of UBERON:0001612 ! facial artery relationship: supplies UBERON:0001835 ! lower lip [Term] id: UBERON:0003473 name: thoracic cavity artery namespace: uberon def: "An artery that is part of a thoracic cavity[cjm]." [https://sourceforge.net/tracker/index.php?func=detail&aid=3317815&group_id=76834&atid=1205376] synonym: "thoracic artery" RELATED [MESH:A07.231.114.891] xref: EMAPA:37241 {source="MA:th"} xref: MA:0001902 xref: MESH:D013895 is_a: UBERON:0001637 ! artery is_a: UBERON:0003519 ! thoracic cavity blood vessel intersection_of: UBERON:0001637 ! artery intersection_of: located_in UBERON:0002224 ! thoracic cavity property_value: UBPROP:0000012 "in MA, aorta is classified here - but this is problematic because the abdominal aorta is not in the thoracic cavity" xsd:string {external_ontology="MA"} [Term] id: UBERON:0003476 name: respiratory system venous blood vessel namespace: uberon def: "A vein that is part of a respiratory system [Automatically generated definition]." [OBOL:automatic] synonym: "apparatus respiratorius vein" EXACT [OBOL:automatic] synonym: "respiratory system vein" EXACT [OBOL:automatic] synonym: "vein of apparatus respiratorius" EXACT [OBOL:automatic] synonym: "vein of respiratory system" EXACT [OBOL:automatic] xref: EMAPA:37584 {source="MA:th"} xref: MA:0001809 xref: MA:0001810 is_a: UBERON:0001638 ! vein intersection_of: UBERON:0001638 ! vein intersection_of: drains UBERON:0001004 ! respiratory system relationship: drains UBERON:0001004 ! respiratory system relationship: part_of RO:0002577 ! system [Term] id: UBERON:0003478 name: vein of lower lip namespace: uberon def: "The inferior labial vein is the vein receiving blood from the lower lip." [http://en.wikipedia.org/wiki/Inferior_labial_vein] def: "The inferior labial vein is the vein receiving blood from the lower lip." [Wikipedia:Inferior_labial_vein] synonym: "inferior labial vein" EXACT [FMA:52541] synonym: "lower lip vein" EXACT [OBOL:automatic] synonym: "vena labialis inferior" EXACT LATIN [] synonym: "venae labiales inferiores" RELATED LATIN [http://en.wikipedia.org/wiki/Inferior_labial_vein] synonym: "venae labiales inferiores" RELATED LATIN [Wikipedia:Inferior_labial_vein] xref: EMAPA:37202 {source="MA:th"} xref: FMA:52541 xref: http://en.wikipedia.org/wiki/Inferior_labial_vein xref: http://www.snomedbrowser.com/Codes/Details/422955002 xref: MA:0002253 xref: SCTID:422955002 xref: Wikipedia:Inferior_labial_vein is_a: UBERON:0013136 ! vein of lip intersection_of: UBERON:0001638 ! vein intersection_of: drains UBERON:0001835 ! lower lip relationship: drains UBERON:0001835 ! lower lip property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/8/8c/Gray557.png xsd:anyURI [Term] id: UBERON:0003479 name: thoracic cavity vein namespace: uberon def: "A vein that is part of a thoracic cavity [Automatically generated definition]." [OBOL:automatic] synonym: "cavity of chest vein" EXACT [OBOL:automatic] synonym: "cavity of thorax vein" EXACT [OBOL:automatic] synonym: "chest cavity vein" EXACT [OBOL:automatic] synonym: "pectoral cavity vein" EXACT [OBOL:automatic] synonym: "vein of cavity of chest" EXACT [OBOL:automatic] synonym: "vein of cavity of thorax" EXACT [OBOL:automatic] synonym: "vein of chest cavity" EXACT [OBOL:automatic] synonym: "vein of pectoral cavity" EXACT [OBOL:automatic] synonym: "vein of thoracic cavity" EXACT [OBOL:automatic] xref: EMAPA:37242 {source="MA:th"} xref: MA:0001903 is_a: UBERON:0001638 ! vein is_a: UBERON:0003519 ! thoracic cavity blood vessel intersection_of: UBERON:0001638 ! vein intersection_of: located_in UBERON:0002224 ! thoracic cavity [Term] id: UBERON:0003489 name: respiratory system capillary endothelium namespace: uberon def: "An endothelium of capillary that is part of a respiratory system [Automatically generated definition]." [OBOL:automatic] synonym: "apparatus respiratorius blood capillary endothelium" EXACT [OBOL:automatic] synonym: "apparatus respiratorius capillary endothelium" EXACT [OBOL:automatic] synonym: "apparatus respiratorius capillary vessel endothelium" EXACT [OBOL:automatic] synonym: "apparatus respiratorius endothelium of blood capillary" EXACT [OBOL:automatic] synonym: "apparatus respiratorius endothelium of capillary" EXACT [OBOL:automatic] synonym: "apparatus respiratorius endothelium of capillary vessel" EXACT [OBOL:automatic] synonym: "blood capillary endothelium of apparatus respiratorius" EXACT [OBOL:automatic] synonym: "blood capillary endothelium of respiratory system" EXACT [OBOL:automatic] synonym: "capillary endothelium of apparatus respiratorius" EXACT [OBOL:automatic] synonym: "capillary endothelium of respiratory system" EXACT [OBOL:automatic] synonym: "capillary vessel endothelium of apparatus respiratorius" EXACT [OBOL:automatic] synonym: "capillary vessel endothelium of respiratory system" EXACT [OBOL:automatic] synonym: "endothelium of blood capillary of apparatus respiratorius" EXACT [OBOL:automatic] synonym: "endothelium of blood capillary of respiratory system" EXACT [OBOL:automatic] synonym: "endothelium of capillary of apparatus respiratorius" EXACT [OBOL:automatic] synonym: "endothelium of capillary of respiratory system" EXACT [OBOL:automatic] synonym: "endothelium of capillary vessel of apparatus respiratorius" EXACT [OBOL:automatic] synonym: "endothelium of capillary vessel of respiratory system" EXACT [OBOL:automatic] synonym: "respiratory system blood capillary endothelium" EXACT [OBOL:automatic] synonym: "respiratory system capillary vessel endothelium" EXACT [OBOL:automatic] synonym: "respiratory system endothelium of blood capillary" EXACT [OBOL:automatic] synonym: "respiratory system endothelium of capillary" EXACT [OBOL:automatic] synonym: "respiratory system endothelium of capillary vessel" EXACT [OBOL:automatic] xref: EMAPA:37575 {source="MA:th"} xref: MA:0001808 is_a: UBERON:0001915 ! endothelium of capillary is_a: UBERON:0004702 ! respiratory system blood vessel endothelium intersection_of: UBERON:0001915 ! endothelium of capillary intersection_of: part_of UBERON:0001004 ! respiratory system relationship: part_of UBERON:0003526 {is_inferred="true", source="https://github.com/obophenotype/uberon/wiki/Inferring-part-of-relationships"} ! respiratory system capillary relationship: part_of UBERON:0003526 {is_inferred="true", source="https://github.com/obophenotype/uberon/wiki/Inferring-part-of-relationships"} ! respiratory system capillary [Term] id: UBERON:0003494 name: respiratory system venule namespace: uberon def: "A venule that is part of a respiratory system [Automatically generated definition]." [OBOL:automatic] synonym: "apparatus respiratorius venule" EXACT [OBOL:automatic] synonym: "venule of apparatus respiratorius" EXACT [OBOL:automatic] synonym: "venule of respiratory system" EXACT [OBOL:automatic] xref: EMAPA:37587 {source="MA:th"} xref: MA:0001813 is_a: UBERON:0001979 ! venule is_a: UBERON:0003504 ! respiratory system blood vessel intersection_of: UBERON:0001979 ! venule intersection_of: part_of UBERON:0001004 ! respiratory system [Term] id: UBERON:0003495 name: respiratory system arteriole namespace: uberon def: "An arteriole that is part of a respiratory system [Automatically generated definition]." [OBOL:automatic] xref: EMAPA:37568 {source="MA:th"} xref: MA:0001803 is_a: UBERON:0001980 ! arteriole is_a: UBERON:0003643 ! respiratory system arterial blood vessel intersection_of: UBERON:0001980 ! arteriole intersection_of: part_of UBERON:0001004 ! respiratory system relationship: part_of UBERON:0003469 {is_inferred="true", source="https://github.com/obophenotype/uberon/wiki/Inferring-part-of-relationships"} ! respiratory system artery relationship: part_of UBERON:0003469 {is_inferred="true", source="https://github.com/obophenotype/uberon/wiki/Inferring-part-of-relationships"} ! respiratory system artery [Term] id: UBERON:0003496 name: head blood vessel namespace: uberon def: "A blood vessel that is part of a head [Automatically generated definition]." [OBOL:automatic] synonym: "adult head blood vessel" EXACT [OBOL:automatic] synonym: "blood vessel of adult head" EXACT [OBOL:automatic] synonym: "blood vessel of head" EXACT [OBOL:automatic] xref: EMAPA:36610 xref: http://www.snomedbrowser.com/Codes/Details/127865000 xref: MA:0000575 xref: SCTID:127865000 is_a: UBERON:0001981 ! blood vessel intersection_of: UBERON:0001981 ! blood vessel intersection_of: part_of UBERON:0000033 ! head relationship: part_of UBERON:0011362 {is_inferred="true", source="https://github.com/obophenotype/uberon/wiki/Inferring-part-of-relationships"} ! cranial blood vasculature relationship: part_of UBERON:0011362 {is_inferred="true", source="https://github.com/obophenotype/uberon/wiki/Inferring-part-of-relationships"} ! cranial blood vasculature [Term] id: UBERON:0003497 name: abdomen blood vessel namespace: uberon def: "A blood vessel that is part of an abdomen [Automatically generated definition]." [OBOL:automatic] synonym: "blood vessel of abdomen" EXACT [OBOL:automatic] xref: MA:0000518 is_a: UBERON:0003835 ! abdominal segment blood vessel intersection_of: UBERON:0001981 ! blood vessel intersection_of: part_of UBERON:0000916 ! abdomen relationship: part_of UBERON:0000916 ! abdomen property_value: seeAlso UBERON:0012254 xsd:string {notes="abdominal aorta artery"} [Term] id: UBERON:0003498 name: heart blood vessel namespace: uberon def: "A blood vessel that is part of a heart [Automatically generated definition]." [OBOL:automatic] subset: pheno_slim synonym: "blood vessel of heart" EXACT [OBOL:automatic] synonym: "cardiac blood vessel" RELATED [EMAPA:35397] xref: EMAPA:35397 xref: MA:0002483 is_a: UBERON:0003834 ! thoracic segment blood vessel is_a: UBERON:0005985 ! coronary vessel intersection_of: UBERON:0001981 ! blood vessel intersection_of: part_of UBERON:0000948 ! heart relationship: part_of UBERON:0018674 ! heart vasculature [Term] id: UBERON:0003499 name: brain blood vessel namespace: uberon def: "A blood vessel that is part of a brain [Automatically generated definition]." [OBOL:automatic] subset: pheno_slim synonym: "blood vessel of brain" EXACT [OBOL:automatic] xref: EMAPA:35182 xref: MA:0002769 is_a: UBERON:0001981 ! blood vessel is_a: UBERON:0004121 ! ectoderm-derived structure intersection_of: UBERON:0001981 ! blood vessel intersection_of: part_of UBERON:0000955 ! brain relationship: part_of UBERON:0008998 ! vasculature of brain [Term] id: UBERON:0003500 name: corneal blood vessel namespace: uberon def: "A blood vessel that is part of a cornea [Automatically generated definition]." [https://orcid.org/0000-0002-6601-2165, https://sourceforge.net/tracker/index.php?func=detail&aid=3564332&group_id=36855&atid=440764] synonym: "blood vessel of cornea" EXACT [OBOL:automatic] synonym: "cornea blood vessel" EXACT [OBOL:automatic] xref: EMAPA:36611 xref: MA:0001241 is_a: UBERON:0003496 ! head blood vessel is_a: UBERON:0010313 ! neural crest-derived structure intersection_of: UBERON:0001981 ! blood vessel intersection_of: part_of UBERON:0000964 ! cornea relationship: part_of UBERON:0000964 ! cornea property_value: editor_note "follow up on tracker item" xsd:string property_value: RO:0002175 NCBITaxon:9775 {source="http://www.ncbi.nlm.nih.gov/pubmed/17051153"} property_value: RO:0002175 NCBITaxon:9775 {source="PMID:17051153"} [Term] id: UBERON:0003501 name: retina blood vessel namespace: uberon def: "A blood vessel that is part of a retina [Automatically generated definition]." [OBOL:automatic] subset: pheno_slim synonym: "blood vessel of inner layer of eyeball" EXACT [OBOL:automatic] synonym: "blood vessel of retina" EXACT [OBOL:automatic] synonym: "blood vessel of tunica interna of eyeball" EXACT [OBOL:automatic] synonym: "inner layer of eyeball blood vessel" EXACT [OBOL:automatic] synonym: "retinal blood vessel" EXACT [OBOL:automatic] synonym: "tunica interna of eyeball blood vessel" EXACT [OBOL:automatic] xref: EMAPA:36520 xref: GAID:509 xref: http://www.snomedbrowser.com/Codes/Details/280692003 xref: MA:0001317 xref: MESH:D012171 xref: SCTID:280692003 xref: XAO:0004153 is_a: UBERON:0003496 ! head blood vessel is_a: UBERON:0010313 ! neural crest-derived structure intersection_of: UBERON:0001981 ! blood vessel intersection_of: part_of UBERON:0000966 ! retina relationship: contributes_to_morphology_of UBERON:0000966 ! retina relationship: part_of UBERON:0004864 ! vasculature of retina [Term] id: UBERON:0003502 name: neck blood vessel namespace: uberon def: "A blood vessel that is part of a neck [Automatically generated definition]." [OBOL:automatic] synonym: "blood vessel of neck" EXACT [OBOL:automatic] synonym: "blood vessel of neck (volume)" EXACT [OBOL:automatic] synonym: "neck (volume) blood vessel" EXACT [OBOL:automatic] xref: EMAPA:37236 {source="MA:th"} xref: MA:0000583 is_a: UBERON:0001981 ! blood vessel intersection_of: UBERON:0001981 ! blood vessel intersection_of: part_of UBERON:0000974 ! neck relationship: part_of UBERON:0000974 ! neck [Term] id: UBERON:0003504 name: respiratory system blood vessel namespace: uberon def: "A blood vessel that is part of a respiratory system [Automatically generated definition]." [OBOL:automatic] synonym: "apparatus respiratorius blood vessel" EXACT [OBOL:automatic] synonym: "blood vessel of apparatus respiratorius" EXACT [OBOL:automatic] synonym: "blood vessel of respiratory system" EXACT [OBOL:automatic] xref: EMAPA:35731 xref: EMAPA:35995 xref: MA:0001799 is_a: UBERON:0001981 ! blood vessel intersection_of: UBERON:0001981 ! blood vessel intersection_of: part_of UBERON:0001004 ! respiratory system relationship: part_of UBERON:0001004 ! respiratory system [Term] id: UBERON:0003509 name: arterial blood vessel namespace: uberon def: "A blood vessel that is part of the arterial system. Includes artery, arteriole and aorta." [https://orcid.org/0000-0002-6601-2165] comment: only in MA - supertype of artery, arteriole, aorta. subset: pheno_slim xref: EMAPA:35144 xref: MA:0000061 is_a: UBERON:0001981 ! blood vessel intersection_of: UBERON:0001981 ! blood vessel intersection_of: part_of UBERON:0004572 ! arterial system relationship: part_of UBERON:0004572 ! arterial system [Term] id: UBERON:0003511 name: iris blood vessel namespace: uberon def: "A blood vessel that is part of a iris [Automatically generated definition]." [OBOL:automatic] subset: vertebrate_core synonym: "blood vessel of iris" EXACT [OBOL:automatic] xref: EMAPA:37387 {source="MA:th"} xref: MA:0001290 xref: ZFA:0005568 is_a: UBERON:0003496 ! head blood vessel is_a: UBERON:0010313 ! neural crest-derived structure intersection_of: UBERON:0001981 ! blood vessel intersection_of: part_of UBERON:0001769 ! iris relationship: part_of UBERON:0004118 ! vasculature of iris [Term] id: UBERON:0003512 name: lung blood vessel namespace: uberon def: "A blood vessel that is part of a lung [Automatically generated definition]." [OBOL:automatic] subset: pheno_slim synonym: "blood vessel of lung" EXACT [OBOL:automatic] synonym: "pulmonary vascular element" RELATED [EMAPA:32867] xref: EMAPA:32867 xref: MA:0002457 is_a: UBERON:0000077 ! mixed endoderm/mesoderm-derived structure is_a: UBERON:0003504 ! respiratory system blood vessel is_a: UBERON:0003834 ! thoracic segment blood vessel intersection_of: UBERON:0001981 ! blood vessel intersection_of: part_of UBERON:0002048 ! lung relationship: contributes_to_morphology_of UBERON:0002048 ! lung relationship: part_of UBERON:0002048 ! lung [Term] id: UBERON:0003513 name: trunk blood vessel namespace: uberon def: "A blood vessel that is part of a trunk [Automatically generated definition]." [OBOL:automatic] synonym: "blood vessel of torso" EXACT [OBOL:automatic] synonym: "blood vessel of trunk" EXACT [OBOL:automatic] synonym: "torso blood vessel" EXACT [OBOL:automatic] xref: EMAPA:37237 {source="MA:th"} xref: MA:0000511 is_a: UBERON:0001981 ! blood vessel intersection_of: UBERON:0001981 ! blood vessel intersection_of: part_of UBERON:0002100 ! trunk relationship: part_of UBERON:0002100 ! trunk [Term] id: UBERON:0003519 name: thoracic cavity blood vessel namespace: uberon def: "A blood vessel that is part of a thoracic cavity [Automatically generated definition]." [OBOL:automatic] synonym: "blood vessel of cavity of chest" EXACT [OBOL:automatic] synonym: "blood vessel of cavity of thorax" EXACT [OBOL:automatic] synonym: "blood vessel of chest cavity" EXACT [OBOL:automatic] synonym: "blood vessel of pectoral cavity" EXACT [OBOL:automatic] synonym: "blood vessel of thoracic cavity" EXACT [OBOL:automatic] synonym: "cavity of chest blood vessel" EXACT [OBOL:automatic] synonym: "cavity of thorax blood vessel" EXACT [OBOL:automatic] synonym: "chest cavity blood vessel" EXACT [OBOL:automatic] synonym: "pectoral cavity blood vessel" EXACT [OBOL:automatic] xref: EMAPA:37240 {source="MA:th"} xref: MA:0000554 is_a: UBERON:0001981 ! blood vessel intersection_of: UBERON:0001981 ! blood vessel intersection_of: located_in UBERON:0002224 ! thoracic cavity relationship: located_in UBERON:0002224 ! thoracic cavity [Term] id: UBERON:0003520 name: pelvis blood vessel namespace: uberon def: "A blood vessel that is part of a pelvis [Automatically generated definition]." [OBOL:automatic] synonym: "blood vessel of pelvis" EXACT [OBOL:automatic] xref: EMAPA:37244 {source="MA:th"} xref: MA:0000531 is_a: UBERON:0003835 ! abdominal segment blood vessel intersection_of: UBERON:0001981 ! blood vessel intersection_of: part_of UBERON:0002355 ! pelvic region of trunk relationship: part_of UBERON:0002355 ! pelvic region of trunk [Term] id: UBERON:0003526 name: respiratory system capillary namespace: uberon def: "A capillary that is part of a respiratory system [Automatically generated definition]." [OBOL:automatic] synonym: "apparatus respiratorius blood capillary" EXACT [OBOL:automatic] synonym: "apparatus respiratorius capillary" EXACT [OBOL:automatic] synonym: "apparatus respiratorius capillary vessel" EXACT [OBOL:automatic] synonym: "blood capillary of apparatus respiratorius" EXACT [OBOL:automatic] synonym: "blood capillary of respiratory system" EXACT [OBOL:automatic] synonym: "capillary of apparatus respiratorius" EXACT [OBOL:automatic] synonym: "capillary of respiratory system" EXACT [OBOL:automatic] synonym: "capillary vessel of apparatus respiratorius" EXACT [OBOL:automatic] synonym: "capillary vessel of respiratory system" EXACT [OBOL:automatic] synonym: "respiratory system blood capillary" EXACT [OBOL:automatic] synonym: "respiratory system capillary vessel" EXACT [OBOL:automatic] xref: EMAPA:37574 {source="MA:th"} xref: MA:0001807 is_a: UBERON:0001982 ! capillary is_a: UBERON:0003504 ! respiratory system blood vessel intersection_of: UBERON:0001982 ! capillary intersection_of: part_of UBERON:0001004 ! respiratory system [Term] id: UBERON:0003528 name: brain gray matter namespace: uberon def: "A gray matter that is part of a brain [Automatically generated definition]." [OBOL:automatic] synonym: "brain grey matter" EXACT [MA:0000810] synonym: "brain grey substance" EXACT [OBOL:automatic] synonym: "gray matter of brain" EXACT [OBOL:automatic] synonym: "grey matter of brain" EXACT [OBOL:automatic] synonym: "grey substance of brain" EXACT [OBOL:automatic] xref: EMAPA:35184 xref: http://linkedlifedata.com/resource/umls/id/C1707348 xref: MA:0000810 xref: NCIT:C49333 xref: UMLS:C1707348 {source="ncithesaurus:Cerebral_Gray_Matter"} is_a: UBERON:0002020 ! gray matter intersection_of: UBERON:0002020 ! gray matter intersection_of: part_of UBERON:0000955 ! brain relationship: part_of UBERON:0000955 ! brain [Term] id: UBERON:0003566 name: head connective tissue namespace: uberon def: "A portion of connective tissue that is part of a head [Automatically generated definition]." [OBOL:automatic] synonym: "adult head connective tissue" EXACT [OBOL:automatic] synonym: "adult head portion of connective tissue" EXACT [OBOL:automatic] synonym: "adult head textus connectivus" EXACT [OBOL:automatic] synonym: "connective tissue of adult head" EXACT [OBOL:automatic] synonym: "connective tissue of head" EXACT [OBOL:automatic] synonym: "head portion of connective tissue" EXACT [OBOL:automatic] synonym: "head textus connectivus" EXACT [OBOL:automatic] synonym: "portion of connective tissue of adult head" EXACT [OBOL:automatic] synonym: "portion of connective tissue of head" EXACT [OBOL:automatic] synonym: "textus connectivus of adult head" EXACT [OBOL:automatic] synonym: "textus connectivus of head" EXACT [OBOL:automatic] xref: EMAPA:16098 xref: MA:0000577 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0002384 ! connective tissue intersection_of: UBERON:0002384 ! connective tissue intersection_of: part_of UBERON:0000033 ! head relationship: develops_from UBERON:0005253 ! head mesenchyme relationship: part_of UBERON:0000033 ! head relationship: transformation_of UBERON:0005253 ! head mesenchyme [Term] id: UBERON:0003567 name: abdomen connective tissue namespace: uberon def: "A portion of connective tissue that is part of an abdomen [Automatically generated definition]." [OBOL:automatic] synonym: "abdomen portion of connective tissue" EXACT [OBOL:automatic] synonym: "abdomen textus connectivus" EXACT [OBOL:automatic] synonym: "connective tissue of abdomen" EXACT [OBOL:automatic] synonym: "portion of connective tissue of abdomen" EXACT [OBOL:automatic] synonym: "textus connectivus of abdomen" EXACT [OBOL:automatic] xref: MA:0000519 is_a: UBERON:0003838 ! abdominal segment connective tissue intersection_of: UBERON:0002384 ! connective tissue intersection_of: part_of UBERON:0000916 ! abdomen relationship: part_of UBERON:0000916 ! abdomen [Term] id: UBERON:0003568 name: neck connective tissue namespace: uberon def: "A portion of connective tissue that is part of a neck [Automatically generated definition]." [OBOL:automatic] synonym: "connective tissue of neck" EXACT [OBOL:automatic] synonym: "connective tissue of neck (volume)" EXACT [OBOL:automatic] synonym: "neck (volume) connective tissue" EXACT [OBOL:automatic] synonym: "neck (volume) portion of connective tissue" EXACT [OBOL:automatic] synonym: "neck (volume) textus connectivus" EXACT [OBOL:automatic] synonym: "neck portion of connective tissue" EXACT [OBOL:automatic] synonym: "neck textus connectivus" EXACT [OBOL:automatic] synonym: "portion of connective tissue of neck" EXACT [OBOL:automatic] synonym: "portion of connective tissue of neck (volume)" EXACT [OBOL:automatic] synonym: "textus connectivus of neck" EXACT [OBOL:automatic] synonym: "textus connectivus of neck (volume)" EXACT [OBOL:automatic] xref: EMAPA:37250 {source="MA:th"} xref: MA:0000585 is_a: UBERON:0002384 ! connective tissue intersection_of: UBERON:0002384 ! connective tissue intersection_of: part_of UBERON:0000974 ! neck relationship: part_of UBERON:0000974 ! neck [Term] id: UBERON:0003570 name: respiratory system connective tissue namespace: uberon def: "A portion of connective tissue that is part of a respiratory system [Automatically generated definition]." [OBOL:automatic] synonym: "apparatus respiratorius connective tissue" EXACT [OBOL:automatic] synonym: "apparatus respiratorius portion of connective tissue" EXACT [OBOL:automatic] synonym: "apparatus respiratorius textus connectivus" EXACT [OBOL:automatic] synonym: "connective tissue of apparatus respiratorius" EXACT [OBOL:automatic] synonym: "connective tissue of respiratory system" EXACT [OBOL:automatic] synonym: "portion of connective tissue of apparatus respiratorius" EXACT [OBOL:automatic] synonym: "portion of connective tissue of respiratory system" EXACT [OBOL:automatic] synonym: "respiratory system portion of connective tissue" EXACT [OBOL:automatic] synonym: "respiratory system textus connectivus" EXACT [OBOL:automatic] synonym: "textus connectivus of apparatus respiratorius" EXACT [OBOL:automatic] synonym: "textus connectivus of respiratory system" EXACT [OBOL:automatic] xref: EMAPA:35968 xref: EMAPA:35977 xref: MA:0001814 is_a: UBERON:0002384 ! connective tissue intersection_of: UBERON:0002384 ! connective tissue intersection_of: part_of UBERON:0001004 ! respiratory system relationship: part_of UBERON:0001004 ! respiratory system [Term] id: UBERON:0003580 name: lower respiratory tract connective tissue namespace: uberon def: "A portion of connective tissue that is part of a lower respiratory tract [Automatically generated definition]." [OBOL:automatic] synonym: "connective tissue of lower respiratory tract" EXACT [OBOL:automatic] synonym: "lower respiratory tract portion of connective tissue" EXACT [OBOL:automatic] synonym: "lower respiratory tract textus connectivus" EXACT [OBOL:automatic] synonym: "portion of connective tissue of lower respiratory tract" EXACT [OBOL:automatic] synonym: "textus connectivus of lower respiratory tract" EXACT [OBOL:automatic] xref: EMAPA:37548 {source="MA:th"} xref: MA:0002409 is_a: UBERON:0003570 ! respiratory system connective tissue is_a: UBERON:0004119 ! endoderm-derived structure intersection_of: UBERON:0002384 ! connective tissue intersection_of: part_of UBERON:0001558 ! lower respiratory tract relationship: part_of UBERON:0001558 ! lower respiratory tract [Term] id: UBERON:0003585 name: dermis connective tissue namespace: uberon def: "A portion of connective tissue that is part of a dermis [Automatically generated definition]." [OBOL:automatic] subset: pheno_slim synonym: "connective tissue of dermis" EXACT [OBOL:automatic] synonym: "dermis portion of connective tissue" EXACT [OBOL:automatic] synonym: "dermis textus connectivus" EXACT [OBOL:automatic] synonym: "portion of connective tissue of dermis" EXACT [OBOL:automatic] synonym: "textus connectivus of dermis" EXACT [OBOL:automatic] xref: EMAPA:36509 xref: MA:0000799 is_a: UBERON:0002384 ! connective tissue is_a: UBERON:0010313 ! neural crest-derived structure intersection_of: UBERON:0002384 ! connective tissue intersection_of: part_of UBERON:0002067 ! dermis relationship: develops_from UBERON:0004016 ! dermatome relationship: part_of UBERON:0002067 ! dermis [Term] id: UBERON:0003586 name: trunk connective tissue namespace: uberon def: "A portion of connective tissue that is part of a trunk [Automatically generated definition]." [OBOL:automatic] synonym: "connective tissue of torso" EXACT [OBOL:automatic] synonym: "connective tissue of trunk" EXACT [OBOL:automatic] synonym: "portion of connective tissue of torso" EXACT [OBOL:automatic] synonym: "portion of connective tissue of trunk" EXACT [OBOL:automatic] synonym: "textus connectivus of torso" EXACT [OBOL:automatic] synonym: "textus connectivus of trunk" EXACT [OBOL:automatic] synonym: "torso connective tissue" EXACT [OBOL:automatic] synonym: "torso portion of connective tissue" EXACT [OBOL:automatic] synonym: "torso textus connectivus" EXACT [OBOL:automatic] synonym: "trunk portion of connective tissue" EXACT [OBOL:automatic] synonym: "trunk textus connectivus" EXACT [OBOL:automatic] xref: EMAPA:37252 {source="MA:th"} xref: MA:0000513 is_a: UBERON:0002384 ! connective tissue intersection_of: UBERON:0002384 ! connective tissue intersection_of: part_of UBERON:0002100 ! trunk relationship: part_of UBERON:0002100 ! trunk [Term] id: UBERON:0003593 name: thoracic cavity connective tissue namespace: uberon def: "A portion of connective tissue that is part of a thoracic cavity [Automatically generated definition]." [OBOL:automatic] synonym: "cavity of chest connective tissue" EXACT [OBOL:automatic] synonym: "cavity of chest portion of connective tissue" EXACT [OBOL:automatic] synonym: "cavity of chest textus connectivus" EXACT [OBOL:automatic] synonym: "cavity of thorax connective tissue" EXACT [OBOL:automatic] synonym: "cavity of thorax portion of connective tissue" EXACT [OBOL:automatic] synonym: "cavity of thorax textus connectivus" EXACT [OBOL:automatic] synonym: "chest cavity connective tissue" EXACT [OBOL:automatic] synonym: "chest cavity portion of connective tissue" EXACT [OBOL:automatic] synonym: "chest cavity textus connectivus" EXACT [OBOL:automatic] synonym: "connective tissue of cavity of chest" EXACT [OBOL:automatic] synonym: "connective tissue of cavity of thorax" EXACT [OBOL:automatic] synonym: "connective tissue of chest cavity" EXACT [OBOL:automatic] synonym: "connective tissue of pectoral cavity" EXACT [OBOL:automatic] synonym: "connective tissue of thoracic cavity" EXACT [OBOL:automatic] synonym: "pectoral cavity connective tissue" EXACT [OBOL:automatic] synonym: "pectoral cavity portion of connective tissue" EXACT [OBOL:automatic] synonym: "pectoral cavity textus connectivus" EXACT [OBOL:automatic] synonym: "portion of connective tissue of cavity of chest" EXACT [OBOL:automatic] synonym: "portion of connective tissue of cavity of thorax" EXACT [OBOL:automatic] synonym: "portion of connective tissue of chest cavity" EXACT [OBOL:automatic] synonym: "portion of connective tissue of pectoral cavity" EXACT [OBOL:automatic] synonym: "portion of connective tissue of thoracic cavity" EXACT [OBOL:automatic] synonym: "textus connectivus of cavity of chest" EXACT [OBOL:automatic] synonym: "textus connectivus of cavity of thorax" EXACT [OBOL:automatic] synonym: "textus connectivus of chest cavity" EXACT [OBOL:automatic] synonym: "textus connectivus of pectoral cavity" EXACT [OBOL:automatic] synonym: "textus connectivus of thoracic cavity" EXACT [OBOL:automatic] synonym: "thoracic cavity portion of connective tissue" EXACT [OBOL:automatic] synonym: "thoracic cavity textus connectivus" EXACT [OBOL:automatic] xref: EMAPA:37255 {source="MA:th"} xref: MA:0000555 is_a: UBERON:0002384 ! connective tissue intersection_of: UBERON:0002384 ! connective tissue intersection_of: located_in UBERON:0002224 ! thoracic cavity relationship: located_in UBERON:0002224 ! thoracic cavity [Term] id: UBERON:0003594 name: pelvis connective tissue namespace: uberon def: "A portion of connective tissue that is part of a pelvis [Automatically generated definition]." [OBOL:automatic] synonym: "connective tissue of pelvis" EXACT [OBOL:automatic] synonym: "pelvis portion of connective tissue" EXACT [OBOL:automatic] synonym: "pelvis textus connectivus" EXACT [OBOL:automatic] synonym: "portion of connective tissue of pelvis" EXACT [OBOL:automatic] synonym: "textus connectivus of pelvis" EXACT [OBOL:automatic] xref: EMAPA:37257 {source="MA:th"} xref: MA:0000533 is_a: UBERON:0003838 ! abdominal segment connective tissue intersection_of: UBERON:0002384 ! connective tissue intersection_of: part_of UBERON:0002355 ! pelvic region of trunk relationship: part_of UBERON:0002355 ! pelvic region of trunk [Term] id: UBERON:0003601 name: neck cartilage namespace: uberon def: "A cartilage that is part of a neck [Automatically generated definition]." [OBOL:automatic] synonym: "cartilage of neck" EXACT [OBOL:automatic] synonym: "cartilage of neck (volume)" EXACT [OBOL:automatic] synonym: "neck (volume) cartilage" EXACT [OBOL:automatic] xref: EMAPA:37251 {source="MA:th"} xref: MA:0000586 is_a: UBERON:0007844 ! cartilage element intersection_of: UBERON:0007844 ! cartilage element intersection_of: part_of UBERON:0000974 ! neck relationship: part_of UBERON:0000974 ! neck [Term] id: UBERON:0003603 name: lower respiratory tract cartilage namespace: uberon def: "A cartilage that is part of a lower respiratory tract [Automatically generated definition]." [OBOL:automatic] synonym: "cartilage of lower respiratory tract" EXACT [OBOL:automatic] xref: EMAPA:37547 {source="MA:th"} xref: http://linkedlifedata.com/resource/umls/id/C1708759 xref: MA:0001819 xref: NCIT:C49256 xref: UMLS:C1708759 {source="ncithesaurus:Lower_Respiratory_Tract_Cartilage"} is_a: UBERON:0003406 ! cartilage of respiratory system is_a: UBERON:0004119 ! endoderm-derived structure intersection_of: UBERON:0007844 ! cartilage element intersection_of: part_of UBERON:0001558 ! lower respiratory tract relationship: part_of UBERON:0001558 ! lower respiratory tract [Term] id: UBERON:0003605 name: eye skin gland namespace: uberon def: "A skin gland that is part of a camera-type eye [Automatically generated definition]." [OBOL:automatic] subset: organ_slim synonym: "camera-type eye skin gland" EXACT [OBOL:automatic] synonym: "camera-type eye skin glands" EXACT [OBOL:automatic] synonym: "camera-type eye skin glands set" EXACT [OBOL:automatic] synonym: "skin gland of camera-type eye" EXACT [OBOL:automatic] synonym: "skin gland of vertebrate eye" EXACT [OBOL:automatic] synonym: "skin glands of camera-type eye" EXACT [OBOL:automatic] synonym: "skin glands of vertebrate eye" EXACT [OBOL:automatic] synonym: "skin glands set of camera-type eye" EXACT [OBOL:automatic] synonym: "skin glands set of vertebrate eye" EXACT [OBOL:automatic] synonym: "vertebrate eye skin gland" EXACT [OBOL:automatic] synonym: "vertebrate eye skin glands" EXACT [OBOL:automatic] synonym: "vertebrate eye skin glands set" EXACT [OBOL:automatic] xref: EMAPA:37530 {source="MA:th"} xref: MA:0002451 is_a: UBERON:0002419 ! skin gland is_a: UBERON:0004859 ! eye gland is_a: UBERON:0015152 ! gland of ocular region intersection_of: UBERON:0002419 ! skin gland intersection_of: part_of UBERON:0000019 ! camera-type eye relationship: part_of UBERON:0000019 ! camera-type eye [Term] id: UBERON:0003609 name: aorta elastic tissue namespace: uberon def: "The dense connective tissue which contains predominantly elastic fibers and is found in the tunica media of the aorta wall." [MP:0009862] subset: pheno_slim synonym: "adult aorta elastic connective tissue" EXACT [OBOL:automatic] synonym: "adult aorta elastic tissue" EXACT [OBOL:automatic] synonym: "adult aorta textus connectivus elasticus" EXACT [OBOL:automatic] synonym: "aorta elastic connective tissue" EXACT [OBOL:automatic] synonym: "aorta elastic lamina" EXACT [MP:0009862] synonym: "aorta elastic laminae" EXACT PLURAL [MP:0009862] synonym: "aorta textus connectivus elasticus" EXACT [OBOL:automatic] synonym: "dorsal aorta elastic connective tissue" EXACT [OBOL:automatic] synonym: "dorsal aorta elastic tissue" EXACT [OBOL:automatic] synonym: "dorsal aorta textus connectivus elasticus" EXACT [OBOL:automatic] synonym: "elastic connective tissue of adult aorta" EXACT [OBOL:automatic] synonym: "elastic connective tissue of aorta" EXACT [OBOL:automatic] synonym: "elastic connective tissue of dorsal aorta" EXACT [OBOL:automatic] synonym: "elastic connective tissue of trunk of aortic tree" EXACT [OBOL:automatic] synonym: "elastic tissue of adult aorta" EXACT [OBOL:automatic] synonym: "elastic tissue of aorta" EXACT [OBOL:automatic] synonym: "elastic tissue of dorsal aorta" EXACT [OBOL:automatic] synonym: "elastic tissue of trunk of aortic tree" EXACT [OBOL:automatic] synonym: "textus connectivus elasticus of adult aorta" EXACT [OBOL:automatic] synonym: "textus connectivus elasticus of aorta" EXACT [OBOL:automatic] synonym: "textus connectivus elasticus of dorsal aorta" EXACT [OBOL:automatic] synonym: "textus connectivus elasticus of trunk of aortic tree" EXACT [OBOL:automatic] synonym: "trunk of aortic tree elastic connective tissue" EXACT [OBOL:automatic] synonym: "trunk of aortic tree elastic tissue" EXACT [OBOL:automatic] synonym: "trunk of aortic tree textus connectivus elasticus" EXACT [OBOL:automatic] xref: MA:0002859 is_a: UBERON:0003614 ! blood vessel elastic tissue intersection_of: UBERON:0002521 ! elastic tissue intersection_of: part_of UBERON:0000947 ! aorta relationship: part_of UBERON:0000947 ! aorta [Term] id: UBERON:0003610 name: heart elastic tissue namespace: uberon def: "The type of heart connective tissue found in the endocardial layer that consists mainly of elastic fibers." [MP:0009863] subset: pheno_slim synonym: "cardiac elastic tissue" EXACT [MP:0009863] synonym: "elastic connective tissue of heart" EXACT [OBOL:automatic] synonym: "elastic tissue of heart" EXACT [OBOL:automatic] synonym: "heart elastic connective tissue" EXACT [OBOL:automatic] synonym: "heart textus connectivus elasticus" EXACT [OBOL:automatic] synonym: "textus connectivus elasticus of heart" EXACT [OBOL:automatic] xref: MA:0002858 is_a: UBERON:0003613 ! cardiovascular system elastic tissue is_a: UBERON:0003837 ! thoracic segment connective tissue is_a: UBERON:0004120 ! mesoderm-derived structure intersection_of: UBERON:0002521 ! elastic tissue intersection_of: part_of UBERON:0000948 ! heart relationship: part_of UBERON:0000948 ! heart [Term] id: UBERON:0003611 name: respiratory system elastic tissue namespace: uberon def: "An elastic tissue that is part of a respiratory system [Automatically generated definition]." [OBOL:automatic] synonym: "apparatus respiratorius elastic connective tissue" EXACT [OBOL:automatic] synonym: "apparatus respiratorius elastic tissue" EXACT [OBOL:automatic] synonym: "apparatus respiratorius textus connectivus elasticus" EXACT [OBOL:automatic] synonym: "elastic connective tissue of apparatus respiratorius" EXACT [OBOL:automatic] synonym: "elastic connective tissue of respiratory system" EXACT [OBOL:automatic] synonym: "elastic tissue of apparatus respiratorius" EXACT [OBOL:automatic] synonym: "elastic tissue of respiratory system" EXACT [OBOL:automatic] synonym: "respiratory system elastic connective tissue" EXACT [OBOL:automatic] synonym: "respiratory system textus connectivus elasticus" EXACT [OBOL:automatic] synonym: "textus connectivus elasticus of apparatus respiratorius" EXACT [OBOL:automatic] synonym: "textus connectivus elasticus of respiratory system" EXACT [OBOL:automatic] xref: EMAPA:37579 {source="MA:th"} xref: MA:0001820 is_a: UBERON:0002521 ! elastic tissue is_a: UBERON:0003570 ! respiratory system connective tissue intersection_of: UBERON:0002521 ! elastic tissue intersection_of: part_of UBERON:0001004 ! respiratory system relationship: part_of UBERON:0004777 ! respiratory system submucosa [Term] id: UBERON:0003613 name: cardiovascular system elastic tissue namespace: uberon def: "An elastic tissue that is part of a circulatory system [Automatically generated definition]." [OBOL:automatic] synonym: "cardiovascular system elastic connective tissue" EXACT [OBOL:automatic] synonym: "cardiovascular system textus connectivus elasticus" EXACT [OBOL:automatic] synonym: "circulatory system elastic connective tissue" EXACT [OBOL:automatic] synonym: "circulatory system elastic tissue" EXACT [OBOL:automatic] synonym: "circulatory system textus connectivus elasticus" EXACT [OBOL:automatic] synonym: "elastic connective tissue of cardiovascular system" EXACT [OBOL:automatic] synonym: "elastic connective tissue of circulatory system" EXACT [OBOL:automatic] synonym: "elastic tissue of cardiovascular system" EXACT [OBOL:automatic] synonym: "elastic tissue of circulatory system" EXACT [OBOL:automatic] synonym: "textus connectivus elasticus of cardiovascular system" EXACT [OBOL:automatic] synonym: "textus connectivus elasticus of circulatory system" EXACT [OBOL:automatic] xref: MA:0002857 is_a: UBERON:0002521 ! elastic tissue intersection_of: UBERON:0002521 ! elastic tissue intersection_of: part_of UBERON:0001009 ! circulatory system relationship: part_of UBERON:0004535 ! cardiovascular system [Term] id: UBERON:0003614 name: blood vessel elastic tissue namespace: uberon def: "Elastic tissue layer that lines a blood vessel layer." [http://orcid.org/0000-0002-6601-2165, https://sourceforge.net/p/obo/mammalian-phenotype-requests/2026/] subset: pheno_slim synonym: "blood vessel elastic connective tissue" EXACT [OBOL:automatic] synonym: "blood vessel textus connectivus elasticus" EXACT [OBOL:automatic] synonym: "elastic connective tissue of blood vessel" EXACT [OBOL:automatic] synonym: "elastic lamina" BROAD [MP:0006083] synonym: "elastic laminae" BROAD PLURAL [MP:0006083] synonym: "elastic tissue of blood vessel" EXACT [OBOL:automatic] synonym: "textus connectivus elasticus of blood vessel" EXACT [OBOL:automatic] synonym: "vascular elastic lamina" EXACT [http://orcid.org/0000-0002-6601-2165] synonym: "vascular elastic laminae" EXACT PLURAL [http://orcid.org/0000-0002-6601-2165] synonym: "vascular elastic tissue" EXACT [MP:0006083] xref: EMAPA:36300 xref: MA:0002856 is_a: UBERON:0003613 ! cardiovascular system elastic tissue is_a: UBERON:0004120 ! mesoderm-derived structure intersection_of: UBERON:0002521 ! elastic tissue intersection_of: part_of UBERON:0001981 ! blood vessel relationship: part_of UBERON:0001981 ! blood vessel [Term] id: UBERON:0003615 name: lung elastic tissue namespace: uberon def: "Elastic tissue that is part of a lung [Automatically generated definition]." [OBOL:automatic] synonym: "elastic connective tissue of lung" EXACT [OBOL:automatic] synonym: "elastic tissue of lung" EXACT [OBOL:automatic] synonym: "lung elastic connective tissue" EXACT [OBOL:automatic] synonym: "lung textus connectivus elasticus" EXACT [OBOL:automatic] synonym: "pulmonary elastic fiber" NARROW [http://orcid.org/0000-0002-6601-2165] synonym: "textus connectivus elasticus of lung" EXACT [OBOL:automatic] xref: MA:0002860 is_a: UBERON:0000114 ! lung connective tissue is_a: UBERON:0003611 ! respiratory system elastic tissue intersection_of: UBERON:0002521 ! elastic tissue intersection_of: part_of UBERON:0002048 ! lung [Term] id: UBERON:0003618 name: aorta tunica media namespace: uberon def: "The middle layer of the aorta wall, containing the smooth muscle layer and elastic fibers." [MP:0009873] subset: pheno_slim synonym: "adult aorta tunica media" EXACT [OBOL:automatic] synonym: "dorsal aorta tunica media" EXACT [OBOL:automatic] synonym: "trunk of aortic tree tunica media" EXACT [OBOL:automatic] synonym: "tunica media of adult aorta" EXACT [OBOL:automatic] synonym: "tunica media of aorta" EXACT [OBOL:automatic] synonym: "tunica media of dorsal aorta" EXACT [OBOL:automatic] synonym: "tunica media of trunk of aortic tree" EXACT [OBOL:automatic] xref: EMAPA:35138 xref: FMA:74433 xref: http://www.snomedbrowser.com/Codes/Details/48467007 xref: MA:0002903 xref: SCTID:48467007 is_a: UBERON:0002522 ! tunica media intersection_of: UBERON:0002522 ! tunica media intersection_of: part_of UBERON:0000947 ! aorta relationship: contributes_to_morphology_of UBERON:0004663 ! aorta wall relationship: part_of UBERON:0004663 ! aorta wall [Term] id: UBERON:0003619 name: aorta tunica intima namespace: uberon def: "The innermost layer of the aorta, containing the endothelium and an inner elastic membrane." [MP:0009872] subset: pheno_slim synonym: "adult aorta tunica intima" EXACT [OBOL:automatic] synonym: "dorsal aorta tunica intima" EXACT [OBOL:automatic] synonym: "trunk of aortic tree tunica intima" EXACT [OBOL:automatic] synonym: "tunica intima of adult aorta" EXACT [OBOL:automatic] synonym: "tunica intima of aorta" EXACT [OBOL:automatic] synonym: "tunica intima of dorsal aorta" EXACT [OBOL:automatic] synonym: "tunica intima of trunk of aortic tree" EXACT [OBOL:automatic] xref: BTO:0005553 xref: EMAPA:35137 xref: FMA:74419 xref: http://www.snomedbrowser.com/Codes/Details/362031007 xref: MA:0002904 xref: SCTID:362031007 is_a: UBERON:0002523 ! tunica intima is_a: UBERON:0004797 ! blood vessel layer intersection_of: UBERON:0002523 ! tunica intima intersection_of: part_of UBERON:0000947 ! aorta relationship: contributes_to_morphology_of UBERON:0004663 ! aorta wall relationship: part_of UBERON:0004663 ! aorta wall [Term] id: UBERON:0003643 name: respiratory system arterial blood vessel namespace: uberon def: "An arterial blood vessel that is part of a respiratory system [Automatically generated definition]." [OBOL:automatic] xref: EMAPA:37565 {source="MA:th"} xref: MA:0001800 is_a: UBERON:0003504 ! respiratory system blood vessel is_a: UBERON:0003509 ! arterial blood vessel intersection_of: UBERON:0003509 ! arterial blood vessel intersection_of: part_of UBERON:0001004 ! respiratory system [Term] id: UBERON:0003684 name: abdominal cavity namespace: uberon def: "The part of the ventral body cavity that is within the abdomen proper (excluding the pelvic cavity)." [UBERON:cjm] subset: efo_slim synonym: "cavitas abdominis" RELATED LATIN [http://en.wikipedia.org/wiki/Abdominal_cavity] synonym: "cavitas abdominis" RELATED [GAID:17] synonym: "cavitas abdominis" RELATED LATIN [Wikipedia:Abdominal_cavity] synonym: "cavity of abdominal compartment" EXACT [FMA:12266] synonym: "cavity of compartment of abdomen" EXACT [FMA:12266] synonym: "space of abdominal compartment" EXACT [FMA:12266] xref: Abdominal:cavity xref: EFO:0000213 xref: EMAPA:36505 xref: FMA:12266 xref: GAID:17 xref: galen:AbdominalCavity xref: http://linkedlifedata.com/resource/umls/id/C0230168 xref: http://www.snomedbrowser.com/Codes/Details/361294009 xref: MA:0003057 xref: MESH:A01.047.025 xref: NCIT:C12664 xref: OpenCyc:Mx4rvZR1TJwpEbGdrcN5Y29ycA xref: SCTID:361294009 xref: UMLS:C0230168 {source="ncithesaurus:Abdominal_Cavity"} xref: Wikipedia:Abdominal_cavity is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000464 ! anatomical space intersection_of: UBERON:0000464 ! anatomical space intersection_of: luminal_space_of UBERON:0000916 ! abdomen intersection_of: part_of UBERON:0002323 ! coelemic cavity lumen relationship: luminal_space_of UBERON:0000916 ! abdomen relationship: part_of UBERON:0000916 ! abdomen relationship: part_of UBERON:0035819 ! abdominopelvic cavity property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/e/ee/Scheme_body_cavities-en.svg xsd:anyURI property_value: UBPROP:0000012 "in FMA this contains the pelvic cavity, but this is inconsistent with the concept of abdominopelvic cavity" xsd:string {external_ontology="FMA"} [Term] id: UBERON:0003687 name: foramen magnum namespace: uberon def: "In anatomy, in the occipital bone, the foramen magnum is one of the several oval or circular apertures in the base of the skull, through which the medulla oblongata (an extension of the spinal cord) enters and exits the skull vault. Apart from the transmission of the medulla oblongata and its membranes, the foramen magnum transmits the Spinal Accessory nerve, vertebral arteries, the anterior and posterior spinal arteries, the membrana tectoria and alar ligaments. [WP,unvetted]." [Wikipedia:Foramen_magnum] def: "In anatomy, in the occipital bone, the foramen magnum is one of the several oval or circular apertures in the base of the skull, through which the medulla oblongata (an extension of the spinal cord) enters and exits the skull vault. Apart from the transmission of the medulla oblongata and its membranes, the foramen magnum transmits the Spinal Accessory nerve, vertebral arteries, the anterior and posterior spinal arteries, the membrana tectoria and alar ligaments. [WP,unvetted]." [http://en.wikipedia.org/wiki/Foramen_magnum] comment: Design pattern notes: check whether this fits the foramen design pattern subset: pheno_slim subset: vertebrate_core xref: AAO:0010826 xref: EMAPA:37868 {source="MA:th"} xref: FMA:75306 xref: Foramen:magnum xref: GAID:228 xref: http://linkedlifedata.com/resource/umls/id/C0016519 xref: http://www.snomedbrowser.com/Codes/Details/244679008 xref: MESH:D005539 xref: NCIT:C12495 xref: OpenCyc:Mx4rwOm-FpwpEbGdrcN5Y29ycA xref: SCTID:244679008 xref: TAO:0002045 xref: UMLS:C0016519 {source="ncithesaurus:Foramen_Magnum"} xref: Wikipedia:Foramen_magnum xref: ZFA:0005387 is_a: UBERON:0013685 ! foramen of skull intersection_of: UBERON:0013685 ! foramen of skull intersection_of: conduit_for UBERON:0001896 ! medulla oblongata relationship: conduit_for UBERON:0001896 ! medulla oblongata relationship: located_in UBERON:0001676 ! occipital bone property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/3/39/Gray130.png xsd:anyURI property_value: UBPROP:0000001 "Foramen in the occipital region of neurocranium to allow passage of spinal cord.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0002045", ontology="TAO", source="TAO:wd"} [Term] id: UBERON:0003697 name: abdominal wall namespace: uberon def: "The tissues that surround the organs that are present within the abdominal cavity. The abdominal wall tissue is composed of layers of fat, parietal peritoneum, fascia, and muscles." [ncithesaurus:Abdominal_Wall] subset: pheno_slim synonym: "abdominal wall proper" RELATED [FMA:10429] synonym: "layers of the abdominal wall" RELATED [http://en.wikipedia.org/wiki/Abdominal_wall] synonym: "layers of the abdominal wall" RELATED [Wikipedia:Abdominal_wall] synonym: "paries abdominalis" EXACT [Wikipedia:Abdominal_wall] synonym: "paries abdominalis" EXACT [http://en.wikipedia.org/wiki/Abdominal_wall] synonym: "paries abdominalis" RELATED LATIN [http://en.wikipedia.org/wiki/Abdominal_wall] synonym: "paries abdominalis" RELATED LATIN [Wikipedia:Abdominal_wall] synonym: "wall of abdomen" EXACT [FMA:259054] synonym: "wall of abdomen proper" EXACT [FMA:10429] xref: Abdominal:wall xref: EMAPA:37064 {source="MA:th"} xref: FMA:10429 xref: FMA:259054 xref: GAID:26 xref: http://linkedlifedata.com/resource/umls/id/C0836916 xref: http://www.snomedbrowser.com/Codes/Details/181613000 xref: MESH:A01.047.050 xref: NCIT:C77608 xref: SCTID:181613000 xref: UMLS:C0836916 {source="ncithesaurus:Abdominal_Wall"} xref: Wikipedia:Abdominal_wall is_a: UBERON:0000060 ! anatomical wall intersection_of: UBERON:0000060 ! anatomical wall intersection_of: part_of UBERON:0000916 ! abdomen relationship: part_of UBERON:0000916 ! abdomen property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/e/ee/Scheme_body_cavities-en.svg xsd:anyURI [Term] id: UBERON:0003711 name: brachiocephalic vein namespace: uberon def: "The left and right brachiocephalic veins in the upper chest are formed by the union of each corresponding internal jugular vein and subclavian vein. This is at the level of the sternoclavicular joint. These great vessels merge to form the superior vena cava. The brachiocephalic veins are the major veins returning blood to the superior vena cava." [http://en.wikipedia.org/wiki/Brachiocephalic_vein] synonym: "brachiocephalic venous tree" EXACT [FMA:4723] synonym: "innomiate vein" RELATED [http://en.wikipedia.org/wiki/Brachiocephalic_vein] synonym: "innominate trunk" RELATED [http://en.wikipedia.org/wiki/Brachiocephalic_vein] synonym: "innominate vein" EXACT [FMA:4723] synonym: "innominate vein" RELATED [GAID:529] synonym: "innominate vein" RELATED [http://en.wikipedia.org/wiki/Brachiocephalic_vein] synonym: "innominate veins" RELATED [http://en.wikipedia.org/wiki/Brachiocephalic_vein] synonym: "vena brachiocephalica" RELATED [http://en.wikipedia.org/wiki/Brachiocephalic_vein] synonym: "vena brachiocephalica" RELATED LATIN [http://en.wikipedia.org/wiki/Brachiocephalic_vein] synonym: "venae anonyma" RELATED LATIN [http://en.wikipedia.org/wiki/Brachiocephalic_vein] xref: Brachiocephalic:vein xref: EHDAA2:0000182 xref: EHDAA:9868 xref: FMA:4723 xref: GAID:529 xref: galen:BrachiocephalicVein xref: http://linkedlifedata.com/resource/umls/id/C0006095 xref: http://www.snomedbrowser.com/Codes/Details/181371003 xref: MESH:D016121 xref: NCIT:C32816 xref: OpenCyc:Mx4rvz3aUJwpEbGdrcN5Y29ycA xref: UMLS:C0006095 {source="ncithesaurus:Innominate_Vein"} is_a: UBERON:0001638 ! vein relationship: connected_to UBERON:0001585 {subset="human_reference_atlas"} ! anterior vena cava relationship: part_of RO:0002577 ! system relationship: part_of UBERON:0007204 ! brachiocephalic vasculature property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/9/9e/Gray1174.png xsd:anyURI [Term] id: UBERON:0003714 name: neural tissue namespace: uberon def: "Portion of tissue in the nervous system which consists of neurons and glial cells, and may also contain parts of the vasculature." [FMA:9642] synonym: "nerve tissue" EXACT [FMA:9642] synonym: "nervous tissue" EXACT [FMA:9642] synonym: "portion of neural tissue" EXACT [FMA:9642] xref: AAO:0000325 xref: AEO:0000123 xref: EHDAA2:0003123 xref: FMA:9642 xref: GAID:609 xref: http://linkedlifedata.com/resource/umls/id/C0027757 xref: http://www.snomedbrowser.com/Codes/Details/91728009 xref: MESH:D009417 xref: NCIT:C13052 xref: OpenCyc:Mx4rVmfYCsQ_QdeM_bFAeS8NRQ xref: SCTID:91728009 xref: UMLS:C0027757 {source="ncithesaurus:Nervous_Tissue"} is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000479 ! tissue intersection_of: UBERON:0000479 ! tissue intersection_of: has_part CL:0000125 ! glial cell intersection_of: has_part CL:0000540 ! neuron disjoint_from: UBERON:0004755 ! skeletal tissue relationship: has_part CL:0000125 ! glial cell relationship: has_part CL:0000540 ! neuron relationship: part_of UBERON:0001016 ! nervous system property_value: UBPROP:0000001 "One of the four types of tissue in traditional classifications. Cells forming the brain, spinal cord and peripheral nervous system.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0000325", ontology="AAO", source="AAO:LAP"} property_value: UBPROP:0000012 "FMA definition includes vasculature" xsd:string {external_ontology="FMA"} [Term] id: UBERON:0003715 name: splanchnic nerve namespace: uberon def: "The major nerves supplying sympathetic innervation to the abdomen, including the greater, lesser, and lowest (or smallest) splanchnic nerves that are formed by preganglionic fibers from the spinal cord which pass through the paravertebral ganglia and then to the celiac ganglia and plexuses and the lumbar splanchnic nerves carry fibers which pass through the lumbar paravertebral ganglia to the mesenteric and hypogastric ganglia." [MP:0008318] subset: pheno_slim synonym: "splanchnic nerves" RELATED [BAMS:spn] synonym: "visceral nerve" RELATED [Wikipedia:Splanchnic_nerves] xref: BAMS:spn xref: EMAPA:37959 {source="MA:th"} xref: FMA:5883 xref: GAID:800 xref: MESH:D013153 xref: SCTID:264198001 xref: Wikipedia:Splanchnic_nerves is_a: UBERON:0034729 ! sympathetic nerve intersection_of: UBERON:0001021 ! nerve intersection_of: innervates UBERON:0000916 ! abdomen relationship: contributes_to_morphology_of UBERON:0000013 ! sympathetic nervous system relationship: innervates UBERON:0000916 ! abdomen property_value: UBPROP:0000010 "All carry sympathetic fibers except for the pelvic splanchnic nerves, which carry parasympathetic fibers" xsd:string [Term] id: UBERON:0003726 name: thoracic nerve namespace: uberon def: "The twelve spinal nerves on each side of the thorax. They include eleven INTERCOSTAL NERVES and one subcostal nerve. Both sensory and motor, they supply the muscles and skin of the thoracic and abdominal walls." [MESH:A08.800.800.720.800] synonym: "nervi thoracici" RELATED LATIN [Wikipedia:Thoracic_nerves] synonym: "nervus thoracis" EXACT LATIN [FMA:5860, FMA:TA] synonym: "pectoral nerve" RELATED [GAID:857] synonym: "thoracic spinal nerve" EXACT [FMA:5860] xref: FMA:5860 xref: GAID:857 xref: http://braininfo.rprc.washington.edu/centraldirectory.aspx?ID=1725 xref: MESH:D013900 xref: OpenCyc:Mx4rwSJp_ZwpEbGdrcN5Y29ycA xref: SCTID:360498003 xref: Wikipedia:Thoracic_nerves is_a: UBERON:0001780 ! spinal nerve intersection_of: UBERON:0001780 ! spinal nerve intersection_of: extends_fibers_into UBERON:0003038 ! thoracic spinal cord relationship: extends_fibers_into UBERON:0003038 ! thoracic spinal cord [Term] id: UBERON:0003727 name: intercostal nerve namespace: uberon def: "The intercostal nerves are the anterior divisions (rami anteriores; ventral divisions) of the thoracic spinal nerves from T1 to T11. Each nerve is connected with the adjoining ganglion of the sympathetic trunk by a gray and a white ramus communicans. The intercostal nerves are distributed chiefly to the thoracic pleura and abdominal peritoneum and differ from the anterior divisions of the other spinal nerves in that each pursues an independent course without plexus formation. The first two nerves supply fibers to the upper limb in addition to their thoracic branches; the next four are limited in their distribution to the parietes of the thorax; the lower five supply the parietes of the thorax and abdomen. The 7th intercostal nerve terminates at the xyphoid process, at the lower end of the sternum. The 10th intercostal nerve terminates at the umbilicus. The twelfth thoracic is distributed to the abdominal wall and groin. [WP,unvetted]." [Wikipedia:Intercostal_nerves] synonym: "anterior ramus of thoracic nerve" EXACT [FMA:6028] synonym: "anterior ramus of thoracic spinal nerve" EXACT [FMA:6028] synonym: "nervi intercostales" RELATED LATIN [Wikipedia:Intercostal_nerves] synonym: "ramus anterior, nervus thoracicus" EXACT [FMA:6028] synonym: "thoracic anterior ramus" EXACT [FMA:6028] synonym: "ventral ramus of thoracic spinal nerve" EXACT [FMA:6028] xref: EMAPA:18227 xref: FMA:6028 xref: GAID:858 xref: MESH:D007367 xref: NCIT:C32825 xref: SCTID:279568001 xref: UMLS:C1285089 {source="ncithesaurus:Intercostal_Nerve"} xref: Wikipedia:Intercostal_nerves is_a: UBERON:0001780 ! spinal nerve property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/b/b1/Gray819.png xsd:anyURI [Term] id: UBERON:0003729 name: mouth mucosa namespace: uberon def: "A mucous membrane that lines the mouth." [http://orcid.org/0000-0002-6601-2165] subset: pheno_slim synonym: "buccal mucosa" RELATED [GAID:951] synonym: "mouth mucosa" EXACT [FMA:59660] synonym: "mouth mucous membrane" EXACT [OBOL:accepted] synonym: "mouth organ mucosa" EXACT [OBOL:accepted] synonym: "mucosa of mouth" EXACT [OBOL:accepted] synonym: "mucosal lining of mouth" RELATED [MA:0002794] synonym: "mucous membrane of mouth" EXACT [FMA:59660] synonym: "oral mucosa" RELATED [GAID:951] synonym: "oral mucous membrane" EXACT [] synonym: "oral part of viscerocranial mucosa" EXACT [FMA:59660] synonym: "tunica mucosa oris" EXACT LATIN [FMA:59660, FMA:TA] synonym: "tunica mucosa oris" RELATED LATIN [Wikipedia:Oral_mucosa] synonym: "tunica mucosa oris" RELATED LATIN [http://en.wikipedia.org/wiki/Oral_mucosa] xref: BTO:0002860 xref: CALOHA:TS-0716 xref: EMAPA:26937 xref: FMA:59660 xref: GAID:951 xref: http://linkedlifedata.com/resource/umls/id/C0026639 xref: MA:0002794 xref: MESH:D009061 xref: NCIT:C77637 xref: Oral:mucosa xref: UMLS:C0026639 {source="ncithesaurus:Oral_Mucosa"} xref: Wikipedia:Oral_mucosa is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000344 ! mucosa intersection_of: UBERON:0000344 ! mucosa intersection_of: part_of UBERON:0000165 ! mouth relationship: bounding_layer_of UBERON:0000165 ! mouth relationship: continuous_with UBERON:0000355 ! pharyngeal mucosa relationship: continuous_with UBERON:0001458 ! skin of lip relationship: contributes_to_morphology_of UBERON:0001007 ! digestive system relationship: part_of UBERON:0000165 ! mouth property_value: IAO:0000232 "this is defined as any mucous membrane of the mouth - including palate, lips, uvula, etc. ncit split mouth/oral mucosa into lip and buccal. In future we may split into masticatory/keratinized (gingiva + hard palate) vs lining/non-keratinized (lips, cheeks, floor of mouth, soft palate). FMA distinguishes between mucosa of mouth and region of mouth (the latter including the buccal mucosa)" xsd:string property_value: UBPROP:0000001 "the mucous membrane epithelium of the mouth. It can be divided into three categories: masticatory, lining, and specialized[Wikipedia:Oral_mucosa]." xsd:string {source="Wikipedia:Oral_mucosa"} property_value: UBPROP:0000001 "the mucous membrane epithelium of the mouth. It can be divided into three categories: masticatory, lining, and specialized[Wikipedia:Oral_mucosa]." xsd:string {source="Oral:mucosa"} [Term] id: UBERON:0003824 name: nerve of thoracic segment namespace: uberon def: "A nerve that is part of a thorax [Automatically generated definition]." [OBOL:automatic] synonym: "nerve of thorax" EXACT [OBOL:automatic] synonym: "thoracic segment nerve" EXACT [MA:0000562] synonym: "thorax nerve" EXACT [OBOL:automatic] synonym: "upper body nerve" RELATED [MA:0000562] xref: EMAPA:37265 {source="MA:th"} xref: http://www.snomedbrowser.com/Codes/Details/359876006 xref: MA:0000562 xref: MESH:D013900 xref: SCTID:359876006 is_a: UBERON:0003439 ! nerve of trunk region intersection_of: UBERON:0001021 ! nerve intersection_of: part_of UBERON:0000915 ! thoracic segment of trunk relationship: part_of UBERON:0000915 ! thoracic segment of trunk [Term] id: UBERON:0003825 name: nerve of abdominal segment namespace: uberon def: "A nerve that is part of an abdominal segment of trunk [Automatically generated definition]." [OBOL:automatic] synonym: "abdominal segment nerve" EXACT [MA:0000528] xref: EMAPA:37061 {source="MA:th"} xref: MA:0000528 is_a: UBERON:0003439 ! nerve of trunk region intersection_of: UBERON:0001021 ! nerve intersection_of: part_of UBERON:0002417 ! abdominal segment of trunk relationship: part_of UBERON:0002417 ! abdominal segment of trunk [Term] id: UBERON:0003827 name: thoracic segment bone namespace: uberon def: "A bone that is part of a thorax [Automatically generated definition]." [OBOL:automatic] synonym: "bone of thorax" EXACT [OBOL:automatic] synonym: "bone organ of thorax" EXACT [OBOL:automatic] synonym: "thorax bone" EXACT [OBOL:automatic] synonym: "thorax bone organ" EXACT [OBOL:automatic] synonym: "upper body bone" RELATED [MA:0000559] xref: EMAPA:37247 {source="MA:th"} xref: http://www.snomedbrowser.com/Codes/Details/426649006 xref: MA:0000559 xref: SCTID:426649006 is_a: UBERON:0003463 ! trunk bone is_a: UBERON:0005181 ! thoracic segment organ intersection_of: UBERON:0001474 ! bone element intersection_of: part_of UBERON:0000915 ! thoracic segment of trunk [Term] id: UBERON:0003828 name: abdominal segment bone namespace: uberon def: "A bone that is part of an abdominal segment of trunk [Automatically generated definition]." [OBOL:automatic] synonym: "abdominal segment of trunk bone" EXACT [OBOL:automatic] synonym: "abdominal segment of trunk bone organ" EXACT [OBOL:automatic] synonym: "bone of abdominal segment of trunk" EXACT [OBOL:automatic] synonym: "bone organ of abdominal segment of trunk" EXACT [OBOL:automatic] xref: EMAPA:37058 {source="MA:th"} xref: MA:0000525 is_a: UBERON:0003463 ! trunk bone is_a: UBERON:0005173 ! abdominal segment element intersection_of: UBERON:0001474 ! bone element intersection_of: part_of UBERON:0002417 ! abdominal segment of trunk [Term] id: UBERON:0003830 name: thoracic segment muscle namespace: uberon def: "Any muscle organ that is part of a thorax [Automatically generated definition]." [OBOL:automatic] synonym: "muscle organ of thorax" EXACT [OBOL:automatic] synonym: "thorax muscle organ" EXACT [OBOL:automatic] synonym: "upper body muscle" RELATED [MA:0000561] xref: MA:0000561 is_a: UBERON:0001774 ! skeletal muscle of trunk is_a: UBERON:0005181 ! thoracic segment organ intersection_of: UBERON:0014892 ! skeletal muscle organ intersection_of: part_of UBERON:0000915 ! thoracic segment of trunk relationship: part_of UBERON:0004464 {source="prolog"} ! musculature of thorax [Term] id: UBERON:0003831 name: respiratory system muscle namespace: uberon def: "Any muscle organ that is part of a respiratory system [Automatically generated definition]." [OBOL:automatic] synonym: "apparatus respiratorius muscle organ" EXACT [OBOL:automatic] synonym: "muscle organ of apparatus respiratorius" EXACT [OBOL:automatic] synonym: "muscle organ of respiratory system" EXACT [OBOL:automatic] synonym: "respiratory system muscle organ" EXACT [OBOL:automatic] xref: EMAPA:35733 xref: MA:0001828 is_a: UBERON:0001630 ! muscle organ intersection_of: UBERON:0001630 ! muscle organ intersection_of: part_of UBERON:0001004 ! respiratory system relationship: part_of UBERON:0001004 ! respiratory system [Term] id: UBERON:0003832 name: esophagus muscle namespace: uberon def: "Any muscle organ that is part of a esophagus [Automatically generated definition]." [OBOL:automatic] synonym: "esophageal muscle" EXACT [] synonym: "esophagus muscle organ" EXACT [OBOL:automatic] synonym: "gullet muscle organ" EXACT [OBOL:automatic] synonym: "muscle organ of esophagus" EXACT [OBOL:automatic] synonym: "muscle organ of gullet" EXACT [OBOL:automatic] synonym: "muscle organ of oesophagus" EXACT [OBOL:automatic] synonym: "oesophagus muscle organ" EXACT [OBOL:automatic] xref: EMAPA:26983 xref: http://www.snomedbrowser.com/Codes/Details/360961009 xref: MA:0002682 xref: SCTID:360961009 is_a: UBERON:0001630 ! muscle organ is_a: UBERON:0005181 ! thoracic segment organ is_a: UBERON:0013765 ! digestive system element intersection_of: UBERON:0001630 ! muscle organ intersection_of: part_of UBERON:0001043 ! esophagus relationship: part_of UBERON:0001096 {source="MA"} ! wall of esophagus property_value: editor_note "merge muscle and muscle layer?" xsd:string [Term] id: UBERON:0003833 name: abdominal segment muscle namespace: uberon def: "A muscle organ that is part of an abdominal segment of trunk [Automatically generated definition]." [OBOL:automatic] synonym: "abdominal segment of trunk muscle organ" EXACT [OBOL:automatic] synonym: "muscle organ of abdominal segment of trunk" EXACT [OBOL:automatic] xref: EMAPA:37060 {source="MA:th"} xref: MA:0000527 is_a: UBERON:0001774 ! skeletal muscle of trunk is_a: UBERON:0005173 ! abdominal segment element intersection_of: UBERON:0014892 ! skeletal muscle organ intersection_of: part_of UBERON:0002417 ! abdominal segment of trunk [Term] id: UBERON:0003834 name: thoracic segment blood vessel namespace: uberon def: "A blood vessel that is part of a thorax [Automatically generated definition]." [OBOL:automatic] synonym: "blood vessel of thorax" EXACT [OBOL:automatic] synonym: "thorax blood vessel" EXACT [OBOL:automatic] synonym: "upper body blood vessel" RELATED [MA:0000558] xref: EMAPA:37238 {source="MA:th"} xref: MA:0000558 is_a: UBERON:0003513 ! trunk blood vessel intersection_of: UBERON:0001981 ! blood vessel intersection_of: part_of UBERON:0000915 ! thoracic segment of trunk relationship: part_of UBERON:0000915 ! thoracic segment of trunk [Term] id: UBERON:0003835 name: abdominal segment blood vessel namespace: uberon def: "A blood vessel that is part of an abdominal segment of trunk [Automatically generated definition]." [OBOL:automatic] synonym: "abdominal segment of trunk blood vessel" EXACT [OBOL:automatic] synonym: "blood vessel of abdominal segment of trunk" EXACT [OBOL:automatic] xref: EMAPA:37057 {source="MA:th"} xref: MA:0000524 is_a: UBERON:0003513 ! trunk blood vessel intersection_of: UBERON:0001981 ! blood vessel intersection_of: part_of UBERON:0002417 ! abdominal segment of trunk relationship: part_of UBERON:0002417 ! abdominal segment of trunk [Term] id: UBERON:0003836 name: abdominal segment skin namespace: uberon def: "A skin of body that is part of an abdominal segment of trunk [Automatically generated definition]." [OBOL:automatic] synonym: "abdominal segment of trunk skin" EXACT [OBOL:automatic] synonym: "skin of abdominal segment of trunk" EXACT [OBOL:automatic] xref: EMAPA:37063 {source="MA:th"} xref: FMA:264898 xref: MA:0000530 is_a: UBERON:0001085 ! skin of trunk intersection_of: UBERON:0000014 ! zone of skin intersection_of: part_of UBERON:0002417 ! abdominal segment of trunk relationship: part_of UBERON:0002417 ! abdominal segment of trunk [Term] id: UBERON:0003837 name: thoracic segment connective tissue namespace: uberon def: "A portion of connective tissue that is part of a thorax [Automatically generated definition]." [OBOL:automatic] synonym: "connective tissue of thorax" EXACT [OBOL:automatic] synonym: "portion of connective tissue of thorax" EXACT [OBOL:automatic] synonym: "textus connectivus of thorax" EXACT [OBOL:automatic] synonym: "thorax connective tissue" EXACT [OBOL:automatic] synonym: "thorax portion of connective tissue" EXACT [OBOL:automatic] synonym: "thorax textus connectivus" EXACT [OBOL:automatic] synonym: "upper body connective tissue" RELATED [MA:0000560] xref: EMAPA:37253 {source="MA:th"} xref: MA:0000560 is_a: UBERON:0003586 ! trunk connective tissue intersection_of: UBERON:0002384 ! connective tissue intersection_of: part_of UBERON:0000915 ! thoracic segment of trunk relationship: part_of UBERON:0000915 ! thoracic segment of trunk [Term] id: UBERON:0003838 name: abdominal segment connective tissue namespace: uberon def: "A portion of connective tissue that is part of an abdominal segment of trunk [Automatically generated definition]." [OBOL:automatic] synonym: "abdominal segment of trunk connective tissue" EXACT [OBOL:automatic] synonym: "abdominal segment of trunk portion of connective tissue" EXACT [OBOL:automatic] synonym: "abdominal segment of trunk textus connectivus" EXACT [OBOL:automatic] synonym: "connective tissue of abdominal segment of trunk" EXACT [OBOL:automatic] synonym: "portion of connective tissue of abdominal segment of trunk" EXACT [OBOL:automatic] synonym: "textus connectivus of abdominal segment of trunk" EXACT [OBOL:automatic] xref: EMAPA:37059 {source="MA:th"} xref: MA:0000526 is_a: UBERON:0003586 ! trunk connective tissue intersection_of: UBERON:0002384 ! connective tissue intersection_of: part_of UBERON:0002417 ! abdominal segment of trunk relationship: part_of UBERON:0002417 ! abdominal segment of trunk [Term] id: UBERON:0003842 name: neural tube lumen namespace: uberon alt_id: UBERON:0005713 def: "An anatomical space that surrounded_by a neural tube." [OBOL:automatic] synonym: "cavity of neural tube" EXACT [https://orcid.org/0000-0002-6601-2165] synonym: "central lumen" RELATED [] synonym: "lumen of neural tube" EXACT [https://orcid.org/0000-0002-6601-2165] synonym: "neural lumen" RELATED [EHDAA:2889] synonym: "neural tube neural lumen" EXACT [EHDAA2:0001269] synonym: "neurocoel" RELATED [VHOG:0001119] synonym: "prosencoel" NARROW [] xref: AAO:0011073 xref: EHDAA2:0001269 xref: EHDAA:2889 xref: EHDAA:914 xref: EMAPA:16167 xref: VHOG:0001119 xref: XAO:0000252 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000464 ! anatomical space intersection_of: UBERON:0000464 ! anatomical space intersection_of: luminal_space_of UBERON:0001049 ! neural tube relationship: luminal_space_of UBERON:0001049 ! neural tube relationship: part_of UBERON:0001049 ! neural tube property_value: UBPROP:0000003 "(...) at some stage of its development, every chordate exhibits five uniquely derived characters or synapomorphies of the group: (...) (4) a single, tubular nerve cord that is located dorsal to the notochord (...).[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001119", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.28"} property_value: UBPROP:0000003 "(...) at some stage of its development, every chordate exhibits five uniquely derived characters or synapomorphies of the group: (...) (4) a single, tubular nerve cord that is located dorsal to the notochord (...).[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001119", ontology="VHOG", source="ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.28", source="http://bgee.unil.ch/"} [Term] id: UBERON:0003848 name: gonadal vein namespace: uberon def: "In medicine, gonadal vein refers to the blood vessel that carrying blood away from the gonad (testis, ovary) toward the heart. Females : ovarian vein Males : testicular vein [WP,unvetted]." [http://en.wikipedia.org/wiki/Gonadal_vein] def: "In medicine, gonadal vein refers to the blood vessel that carrying blood away from the gonad (testis, ovary) toward the heart. Females : ovarian vein Males : testicular vein [WP,unvetted]." [Wikipedia:Gonadal_vein] synonym: "gonad vein" EXACT [OBOL:automatic] synonym: "gonada vein" EXACT [OBOL:automatic] synonym: "vein of gonad" EXACT [OBOL:automatic] synonym: "vein of gonada" EXACT [OBOL:automatic] xref: EHDAA2:0000719 xref: EHDAA:8703 xref: Gonadal:vein xref: http://www.snomedbrowser.com/Codes/Details/278192008 xref: OpenCyc:Mx4rvlWYh5wpEbGdrcN5Y29ycA xref: SCTID:278192008 xref: VHOG:0001340 xref: Wikipedia:Gonadal_vein is_a: CARO:0000003 ! connected anatomical structure is_a: UBERON:0001638 ! vein intersection_of: UBERON:0001638 ! vein intersection_of: attaches_to UBERON:0000991 ! gonad relationship: attaches_to UBERON:0000991 ! gonad relationship: part_of RO:0002577 ! system property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/d/da/Gray1120.png xsd:anyURI [Term] id: UBERON:0003849 name: mesencephalic neural crest namespace: uberon def: "A neural crest that has_potential_to_developmentally_contribute_to a midbrain." [OBOL:automatic] subset: efo_slim subset: vertebrate_core synonym: "mesencephalic neural crest" EXACT [ZFA:0000935] synonym: "neural crest midbrain" EXACT [ZFA:0000935] xref: EFO:0003591 xref: EHDAA2:0001101 xref: EHDAA:360 xref: TAO:0000935 xref: VHOG:0000796 xref: ZFA:0000935 is_a: UBERON:0002342 ! neural crest is_a: UBERON:0003099 {source="ZFA"} ! cranial neural crest intersection_of: UBERON:0002342 ! neural crest intersection_of: has_potential_to_developmentally_contribute_to UBERON:0001891 ! midbrain relationship: has_potential_to_developmentally_contribute_to UBERON:0001891 ! midbrain property_value: UBPROP:0000003 "We conclude this section by listing some of the many synapomorphies of craniates, including (1) the neural crest (...).[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000796", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.43"} property_value: UBPROP:0000003 "We conclude this section by listing some of the many synapomorphies of craniates, including (1) the neural crest (...).[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000796", ontology="VHOG", source="ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.43", source="http://bgee.unil.ch/"} [Term] id: UBERON:0003852 name: rhombencephalon neural crest namespace: uberon def: "A neural crest that has_potential_to_developmentally_contribute_to a hindbrain." [OBOL:automatic] subset: vertebrate_core synonym: "neural crest hindbrain" EXACT [ZFA:0007063] synonym: "rhombencephalic neural crest" EXACT [ZFA:0007063] synonym: "rhombomere neural crest" RELATED [EMAPA:35747] xref: EHDAA2:0001628 xref: EHDAA:362 xref: EMAPA:35747 xref: TAO:0007063 xref: VHOG:0001210 xref: ZFA:0007063 is_a: UBERON:0002342 ! neural crest is_a: UBERON:0003099 {source="ZFA"} ! cranial neural crest intersection_of: UBERON:0002342 ! neural crest intersection_of: has_potential_to_developmentally_contribute_to UBERON:0002028 ! hindbrain relationship: has_potential_to_developmentally_contribute_to UBERON:0002028 ! hindbrain property_value: UBPROP:0000001 "Cranial neural crest that is part of the hindbrain.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0007063", ontology="TAO", source="ZFIN:curator"} property_value: UBPROP:0000003 "We conclude this section by listing some of the many synapomorphies of craniates, including (1) the neural crest (...).[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001210", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.43"} property_value: UBPROP:0000003 "We conclude this section by listing some of the many synapomorphies of craniates, including (1) the neural crest (...).[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001210", ontology="VHOG", source="ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.43", source="http://bgee.unil.ch/"} [Term] id: UBERON:0003853 name: spinal cord neural crest namespace: uberon def: "A neural crest that has_potential_to_developmentally_contribute_to a spinal cord." [OBOL:automatic] synonym: "neural crest spinal cord" EXACT [VHOG:0001006] synonym: "spinal neural crest" RELATED [VHOG:0001006] xref: EHDAA:696 xref: EMAPA:16163 xref: EMAPA:16881 xref: VHOG:0001006 is_a: UBERON:0002342 ! neural crest intersection_of: UBERON:0002342 ! neural crest intersection_of: has_potential_to_developmentally_contribute_to UBERON:0002240 ! spinal cord relationship: has_potential_to_developmentally_contribute_to UBERON:0002240 ! spinal cord property_value: UBPROP:0000003 "We conclude this section by listing some of the many synapomorphies of craniates, including (1) the neural crest (...)[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001006", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.43"} property_value: UBPROP:0000003 "We conclude this section by listing some of the many synapomorphies of craniates, including (1) the neural crest (...)[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001006", ontology="VHOG", source="ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.43", source="http://bgee.unil.ch/"} [Term] id: UBERON:0003854 name: spinal cord neural plate namespace: uberon def: "A neural plate that develops_from a future spinal cord." [OBOL:automatic] synonym: "neural plate of spinal cord" EXACT [OBOL:automatic] xref: FMA:312957 xref: TAO:0007021 xref: VHOG:0000439 xref: ZFA:0007021 is_a: UBERON:0003075 ! neural plate intersection_of: UBERON:0003075 ! neural plate intersection_of: develops_from UBERON:0006241 ! future spinal cord relationship: develops_from UBERON:0006241 {source="ZFA"} ! future spinal cord property_value: UBPROP:0000001 "Neural plate that is part of the spinal cord. [Bgee_curator][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000439", ontology="VHOG", source="http://bgee.unil.ch/"} property_value: UBPROP:0000001 "Neural plate that is part of the spinal cord. [Bgee_curator][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000439", ontology="VHOG", source="http://bgee.unil.ch/"} property_value: UBPROP:0000003 "(...) at some stage of its development, every chordate exhibits five uniquely derived characters or synapomorphies of the group: (...) (4) a single, tubular nerve cord that is located dorsal to the notochord (...)[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000439", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.28"} property_value: UBPROP:0000003 "(...) at some stage of its development, every chordate exhibits five uniquely derived characters or synapomorphies of the group: (...) (4) a single, tubular nerve cord that is located dorsal to the notochord (...)[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000439", ontology="VHOG", source="ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.28", source="http://bgee.unil.ch/"} [Term] id: UBERON:0003855 name: gonad mesenchyme namespace: uberon def: "Mesenchyme that is part of a developing gonad [Automatically generated definition]." [OBOL:automatic] subset: pheno_slim synonym: "gonada mesenchyme" EXACT [OBOL:automatic] synonym: "mesenchyme of gonad" EXACT [OBOL:automatic] synonym: "mesenchyme of gonada" EXACT [OBOL:automatic] xref: EHDAA:5012 xref: EMAPA:16858 xref: EMAPA:17385 xref: VHOG:0001090 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0003104 ! mesenchyme is_a: UBERON:0005156 ! reproductive structure intersection_of: UBERON:0003104 ! mesenchyme intersection_of: part_of UBERON:0000991 ! gonad relationship: part_of UBERON:0000991 ! gonad [Term] id: UBERON:0003869 name: presumptive ganglion namespace: uberon def: "A presumptive structure that has the potential to develop into a ganglion." [OBOL:automatic] is_a: UBERON:0006598 ! presumptive structure intersection_of: UBERON:0006598 ! presumptive structure intersection_of: has_potential_to_develop_into UBERON:0000045 ! ganglion relationship: has_potential_to_develop_into UBERON:0000045 ! ganglion [Term] id: UBERON:0003886 name: future coelemic cavity lumen namespace: uberon def: "An anatomical cavity that has the potential to develop into a coelemic cavity lumen." [OBOL:automatic] subset: grouping_class subset: non_informative synonym: "body cavity precursor" RELATED [] synonym: "future coelomic cavity lumen" EXACT [] is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000464 ! anatomical space intersection_of: UBERON:0000464 ! anatomical space intersection_of: has_potential_to_develop_into UBERON:0002323 ! coelemic cavity lumen relationship: existence_ends_during UBERON:0000111 ! organogenesis stage relationship: existence_starts_during UBERON:0000109 ! gastrula stage relationship: has_potential_to_develop_into UBERON:0002323 ! coelemic cavity lumen relationship: part_of UBERON:0000926 ! mesoderm [Term] id: UBERON:0003887 name: intraembryonic coelom namespace: uberon def: "The part of the coelom in the embryo between the somatopleuric and splanchnopleuric mesoderm; the principal body cavities of the trunk (thoracic, abdominal, and pelvic) arise from this embryonic part of the coelom" [MGI:anna, MP:0012187] def: "The part of the coelom in the embryo between the somatopleuric and splanchnopleuric mesoderm; the principal body cavities of the trunk (thoracic, abdominal, and pelvic) arise from this embryonic part of the coelom." [MGI:anna, MP:0012187] subset: pheno_slim synonym: "somatic coelom" EXACT [http://en.wikipedia.org/wiki/Intraembryonic_coelom] synonym: "somatic coelom" EXACT [Wikipedia:Intraembryonic_coelom] xref: EHDAA:251 xref: EMAPA:16088 xref: http://linkedlifedata.com/resource/umls/id/C1512940 xref: Intraembryonic:coelom xref: NCIT:C34195 xref: UMLS:C1512940 {source="ncithesaurus:Intraembryonic_Coelom"} xref: VHOG:0000316 xref: Wikipedia:Intraembryonic_coelom is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0002050 ! embryonic structure relationship: develops_from UBERON:0003081 {source="Wikipedia"} ! lateral plate mesoderm relationship: part_of UBERON:0011997 ! coelom property_value: editor_note "consider merging with coelom. TODO - add spatial relationships to halves of LPM. Note the OG places XAO and ZFA coelem terms here. editor note: TODO check ZFA, which appears to be a structure present in adults" xsd:string property_value: UBPROP:0000003 "(...) I regard it unlikely that coeloms of all bilaterian animals are comparable and evolved very early. Considering all these questions, few convincing characters concerning the evolution of body cavities remain to be named. (...) A segmental coelom appears to have evolved at least two times, in Annelida and in Myomerata (Acrania and Craniota).[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000316", ontology="VHOG", source="ISBN:978-0198566694 Schmidt-Rhaesa A, The evolution of organ systems (2007) p.166", source="http://bgee.unil.ch/"} property_value: UBPROP:0000003 "(...) I regard it unlikely that coeloms of all bilaterian animals are comparable and evolved very early. Considering all these questions, few convincing characters concerning the evolution of body cavities remain to be named. (...) A segmental coelom appears to have evolved at least two times, in Annelida and in Myomerata (Acrania and Craniota).[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000316", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0198566694 Schmidt-Rhaesa A, The evolution of organ systems (2007) p.166"} [Term] id: UBERON:0003891 name: stroma namespace: uberon def: "Connective, non-functional supportive framework of a biological cell, tissue, or organ. Contrast with parenchyma." [http://orcid.org/0000-0002-6601-2165] subset: grouping_class synonym: "stromal connective tissue" RELATED [] xref: FMA:81494 xref: http://linkedlifedata.com/resource/umls/id/C0927195 xref: NCIT:C67387 xref: UMLS:C0927195 {source="ncithesaurus:Stroma_Connective_Tissue"} is_a: UBERON:0000064 ! organ part relationship: composed_primarily_of UBERON:0002384 ! connective tissue relationship: only_in_taxon NCBITaxon:6072 ! Eumetazoa property_value: UBPROP:0000007 "stromal" xsd:string [Term] id: UBERON:0003897 name: axial muscle namespace: uberon def: "One of the skeletal muscles of the head and neck, spine, and ribs." [HP:0003327] subset: pheno_slim xref: EHDAA:5982 xref: EMAPA:18167 xref: MA:0003153 xref: RETIRED_EHDAA2:0000160 xref: TAO:0001954 is_a: CARO:0000003 ! connected anatomical structure is_a: UBERON:0014892 ! skeletal muscle organ intersection_of: UBERON:0014892 ! skeletal muscle organ intersection_of: attaches_to_part_of UBERON:0005944 ! axial skeleton plus cranial skeleton intersection_of: part_of UBERON:0013701 ! main body axis relationship: attaches_to_part_of UBERON:0005944 ! axial skeleton plus cranial skeleton relationship: part_of UBERON:0013700 ! axial musculature [Term] id: UBERON:0003898 name: skeletal muscle tissue of trunk namespace: uberon def: "A portion of skeletal muscle tissue in the trunk." [http://orcid.org/0000-0002-6601-2165] synonym: "skeletal muscle of torso" EXACT [OBOL:automatic] synonym: "skeletal muscle tissue of torso" EXACT [OBOL:automatic] synonym: "skeletal muscle tissue of trunk" EXACT [OBOL:automatic] synonym: "torso skeletal muscle" EXACT [OBOL:automatic] synonym: "torso skeletal muscle tissue" EXACT [OBOL:automatic] synonym: "trunk skeletal muscle" EXACT [OBOL:automatic] synonym: "trunk skeletal muscle tissue" EXACT [OBOL:automatic] xref: http://www.snomedbrowser.com/Codes/Details/244848007 xref: SCTID:244848007 is_a: UBERON:0001134 ! skeletal muscle tissue intersection_of: UBERON:0001134 ! skeletal muscle tissue intersection_of: part_of UBERON:0002100 ! trunk relationship: part_of UBERON:0004479 {source="https://github.com/obophenotype/uberon/wiki/Inferring-part-of-relationships"} ! musculature of trunk relationship: part_of UBERON:0004479 {source="https://github.com/obophenotype/uberon/wiki/Inferring-part-of-relationships"} ! musculature of trunk relationship: part_of UBERON:0013700 ! axial musculature [Term] id: UBERON:0003902 name: retinal neural layer namespace: uberon def: "The part of the retina that contains neurons and photoreceptor cells[GO]." [GO:0003407] subset: pheno_slim subset: vertebrate_core synonym: "neural layer of retina" EXACT [FMA:58628] synonym: "neural retina" EXACT [XAO:0003216, ZFA:0000046] synonym: "neural retinal epithelium" RELATED [MA:000027] synonym: "neuroretina" EXACT [ZFA:0000046] synonym: "stratum nervosum (retina)" EXACT [FMA:58628] synonym: "stratum nervosum retinae" EXACT LATIN [FMA:58628, FMA:TA] xref: AAO:0011095 xref: BTO:0000929 xref: CALOHA:TS-0685 xref: EHDAA2:0001253 xref: EHDAA:4763 xref: EMAPA:17171 xref: EMAPA:18590 xref: FMA:58628 xref: http://linkedlifedata.com/resource/umls/id/C1518263 xref: MA:0000277 xref: NCIT:C33166 xref: TAO:0000046 xref: UMLS:C1518263 {source="ncithesaurus:Neural_Retina"} xref: VHOG:0000535 xref: XAO:0003216 xref: ZFA:0000046 is_a: CARO:0000003 ! connected anatomical structure is_a: UBERON:0001781 ! layer of retina intersection_of: UBERON:0001781 ! layer of retina intersection_of: immediate_transformation_of UBERON:0005425 ! presumptive neural retina relationship: developmentally_induced_by UBERON:0005426 ! lens vesicle relationship: develops_from UBERON:0005425 ! presumptive neural retina relationship: has_part CL:0000210 ! photoreceptor cell relationship: immediate_transformation_of UBERON:0005425 {source="Bgee:AN"} ! presumptive neural retina property_value: UBPROP:0000003 "(...) an essentially similar sequence of events occurs during the embryonic development of the vertebrate eye. The eye initially develops as a single median evagination of the diencephalon that soon bifurcates to form the paired optic vesicles. As each optic vesicle grows towards the body surface, its proximal part narrows as the optic stalk, and its distal part invaginates to form a two-layered optic cup. (...) The outer layer of the optic cup becomes the pigment layer of the retina, whereas the inner layer differentiates into the photoreceptive cells and neuronal layers of the retina.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000535", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.429"} property_value: UBPROP:0000003 "(...) an essentially similar sequence of events occurs during the embryonic development of the vertebrate eye. The eye initially develops as a single median evagination of the diencephalon that soon bifurcates to form the paired optic vesicles. As each optic vesicle grows towards the body surface, its proximal part narrows as the optic stalk, and its distal part invaginates to form a two-layered optic cup. (...) The outer layer of the optic cup becomes the pigment layer of the retina, whereas the inner layer differentiates into the photoreceptive cells and neuronal layers of the retina.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000535", ontology="VHOG", source="ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.429", source="http://bgee.unil.ch/"} [Term] id: UBERON:0003909 name: sinusoid namespace: uberon def: "Small blood vessel similar to a capillary but with a fenestrated endothelium. Sinusoids are found in the liver, lymphoid tissue, endocrine organs, and hematopoietic organs such as the bone marrow and the spleen. Sinusoids found within terminal villi of the placenta are not comparable to these; they possess a continuous endothelium and complete basal lamina[WP]." [http://en.wikipedia.org/wiki/Sinusoid_(blood_vessel)] def: "Small blood vessel similar to a capillary but with a fenestrated endothelium. Sinusoids are found in the liver, lymphoid tissue, endocrine organs, and hematopoietic organs such as the bone marrow and the spleen. Sinusoids found within terminal villi of the placenta are not comparable to these; they possess a continuous endothelium and complete basal lamina[WP]." [Wikipedia:Sinusoid_(blood_vessel)] subset: vertebrate_core synonym: "endothelium of irregular blood filled space" RELATED [] synonym: "sinusoidal blood vessel" EXACT [] synonym: "sinusoidal blood vessel endothelium" EXACT [ZFA:0005261] synonym: "sinusoidal capillary" RELATED [http://www.medilexicon.com/medicaldictionary.php?t=13986] synonym: "sinusoidal endothelium" RELATED [] xref: FMA:63131 xref: http://en.wikipedia.org/wiki/Sinusoid_(blood_vessel) xref: http://www.snomedbrowser.com/Codes/Details/340163004 xref: SCTID:340163004 xref: TAO:0005261 xref: Wikipedia:Sinusoid_(blood_vessel) xref: ZFA:0005261 is_a: UBERON:2005260 {source="Wikipedia", source="ZFA"} ! fenestrated capillary property_value: UBPROP:0000001 "Fenestrated blood vessel endothelium with pores that are large enough for blood cells to pass. The basal lamina and gap junctions may be discontinuous.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0005261", ontology="TAO", source="ZFIN:curator"} property_value: UBPROP:0000007 "sinusoidal" xsd:string property_value: UBPROP:0000012 "some sources give discontinuous capillary as synonym but this may be a subtype - see FMA:63198 discontinuous sinusoid (undefined)." xsd:string {external_ontology="FMA"} [Term] id: UBERON:0003914 name: epithelial tube namespace: uberon def: "Epithelial tubes transport gases, liquids and cells from one site to another and form the basic structure of many organs and tissues, with tube shape and organization varying from the single-celled excretory organ in Caenorhabditis elegans to the branching trees of the mammalian kidney and insect tracheal system." [GO:0060562, PMID:12526790] def: "Epithelial tubes transport gases, liquids and cells from one site to another and form the basic structure of many organs and tissues, with tube shape and organization varying from the single-celled excretory organ in Caenorhabditis elegans to the branching trees of the mammalian kidney and insect tracheal system." [GO:0060562, http://www.ncbi.nlm.nih.gov/pubmed/12526790] synonym: "epithelial or endothelial tube" EXACT [] xref: AEO:0000114 xref: EHDAA2:0003114 xref: FBbt:00007474 is_a: UBERON:0000025 ! tube is_a: UBERON:0000483 ! epithelium intersection_of: UBERON:0000483 ! epithelium intersection_of: has_quality PATO:0002299 ! tubular property_value: IAO:0000232 "contrast with a multi-tissue tube, which has as parts both epithelium, connective tissue, possibly muscle layers" xsd:string [Term] id: UBERON:0003915 name: endothelial tube namespace: uberon def: "Any endothelium that has the quality of being cylindrical [Automatically generated definition]." [OBOL:automatic] is_a: UBERON:0001986 ! endothelium is_a: UBERON:0003914 ! epithelial tube intersection_of: UBERON:0001986 ! endothelium intersection_of: has_quality PATO:0002299 ! tubular [Term] id: UBERON:0003920 name: venous blood vessel namespace: uberon def: "A blood vessel that carries blood from the capillaries toward the heart" [http://www.thefreedictionary.com/venous+blood+vessel] def: "A blood vessel that carries blood from the capillaries toward the heart." [http://www.thefreedictionary.com/venous+blood+vessel] comment: Compare to: vein synonym: "segment of venous tree organ" EXACT [FMA:86188] synonym: "venous tree organ segment" EXACT [FMA:86188] xref: EMAPA:35932 xref: FMA:86188 xref: MA:0000066 is_a: UBERON:0001981 ! blood vessel intersection_of: UBERON:0001981 ! blood vessel intersection_of: part_of UBERON:0004582 ! venous system relationship: part_of UBERON:0004582 ! venous system [Term] id: UBERON:0003928 name: digestive system duct namespace: uberon def: "A duct that is part of a digestive system [Automatically generated definition]." [OBOL:automatic] synonym: "duct of digestive system" EXACT [OBOL:automatic] synonym: "duct of gastrointestinal system" EXACT [OBOL:automatic] synonym: "gastrointestinal system duct" EXACT [OBOL:automatic] xref: TAO:0005162 xref: ZFA:0005162 is_a: UBERON:0000058 ! duct intersection_of: UBERON:0000058 ! duct intersection_of: part_of UBERON:0001007 ! digestive system relationship: part_of UBERON:0001007 ! digestive system [Term] id: UBERON:0003929 name: digestive tract epithelium namespace: uberon def: "An epithelium that lines the lumen of the digestive tract." [http://orcid.org/0000-0002-6601-2165] synonym: "alimentary tract epithelium" RELATED [OBOL:automatic] synonym: "digestive tract epithelial tissue" EXACT [OBOL:automatic] synonym: "epithelial tissue of digestive tract" EXACT [OBOL:automatic] synonym: "epithelial tissue of gut" EXACT [OBOL:automatic] synonym: "epithelium of digestive tract" EXACT [OBOL:automatic] synonym: "epithelium of gut" EXACT [OBOL:automatic] synonym: "gastrodermis" EXACT SENSU [BGEE:ANN, NCBITaxon:6073] synonym: "gut epithelial tissue" EXACT [OBOL:automatic] synonym: "gut epithelium" EXACT [EHDAA2:0004567, MA:0003201, ZFA:0005123] xref: BTO:0000956 xref: EHDAA2:0004567 xref: EMAPA:32928 xref: http://linkedlifedata.com/resource/umls/id/C0836205 xref: MA:0003201 xref: NCIT:C12963 xref: TAO:0005123 xref: UMLS:C0836205 {source="ncithesaurus:Gut_Epithelium"} xref: XAO:0003200 xref: ZFA:0005123 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000483 ! epithelium intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0001555 ! digestive tract relationship: part_of UBERON:0001555 ! digestive tract property_value: UBPROP:0000001 "Epithelium lining the lumen of the gut.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0005123", ontology="TAO", source="ZFIN:curator"} property_value: UBPROP:0000008 "" xsd:string [Term] id: UBERON:0003932 name: cartilage element of chondrocranium namespace: uberon def: "A cartilage element of chondrocranium. Example: neurocranial trabecula." [https://orcid.org/0000-0002-6601-2165] subset: efo_slim synonym: "cartilage of chondrocranium" EXACT [OBOL:accepted] synonym: "cartilaginous element of chondrocranium" EXACT [OBOL:accepted] synonym: "chondrocranium cartilage" EXACT [ZFA:0001461] synonym: "neurocranium cartilage" EXACT [ZFA:0001461] xref: EFO:0003690 xref: TAO:0001461 xref: ZFA:0001461 is_a: UBERON:0003933 ! cranial cartilage intersection_of: UBERON:0007844 ! cartilage element intersection_of: part_of UBERON:0002241 ! chondrocranium relationship: part_of UBERON:0002241 ! chondrocranium [Term] id: UBERON:0003933 name: cranial cartilage namespace: uberon def: "A cartilage element that is part of the cranial skeleton." [https://orcid.org/0000-0002-6601-2165, ZFA:0001458] synonym: "cartilage of cranium" EXACT [OBOL:automatic] synonym: "cranial cartilages" RELATED PLURAL [ZFA:0001458] synonym: "cranium cartilage" EXACT [OBOL:automatic] xref: TAO:0001458 xref: ZFA:0001458 is_a: UBERON:0007844 ! cartilage element intersection_of: UBERON:0007844 ! cartilage element intersection_of: part_of UBERON:0010323 ! cranial skeletal system relationship: part_of UBERON:0010323 ! cranial skeletal system property_value: UBPROP:0000001 "Cartilage which is part of the cranium.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0001458", ontology="TAO", source="ZFIN:curator"} [Term] id: UBERON:0003937 name: reproductive gland namespace: uberon def: "Any of the organized aggregations of cells that function as secretory or excretory organs and are associated with reproduction." [MP:0000653] subset: organ_slim subset: pheno_slim synonym: "genitalia gland" EXACT [OBOL:automatic] synonym: "gland of genitalia" EXACT [MP:0000653] synonym: "gland of reproductive system" EXACT [OBOL:automatic] synonym: "reproductive gland" EXACT [MA:0001751] synonym: "reproductive system gland" EXACT [OBOL:automatic] synonym: "sex gland" EXACT [MP:0000653] xref: MA:0001751 is_a: UBERON:0002530 ! gland is_a: UBERON:0005156 ! reproductive structure intersection_of: UBERON:0002530 ! gland intersection_of: part_of UBERON:0000990 ! reproductive system [Term] id: UBERON:0003942 name: somatic sensory system namespace: uberon alt_id: UBERON:0014511 def: "The sensory system for the sense of touch and pain." [NLXANAT:090818] subset: pheno_slim synonym: "somatic sensory system" EXACT [] synonym: "somatosensory system" EXACT [NLXANAT:090818] synonym: "system for detection of somatic senses" EXACT [] xref: EMAPA:37954 {source="MA:th"} xref: http://braininfo.rprc.washington.edu/centraldirectory.aspx?ID=2887 xref: NLXANAT:090818 xref: Wikipedia:Somatosensory_system is_a: UBERON:0001032 ! sensory system intersection_of: UBERON:0001032 ! sensory system intersection_of: part_of UBERON:0000012 ! somatic nervous system relationship: contributes_to_morphology_of UBERON:0000012 ! somatic nervous system relationship: part_of UBERON:0000012 ! somatic nervous system property_value: UBPROP:0000001 "The neural tissue involved in the transmission of sensory signals" xsd:string {source="MP:0000959"} property_value: UBPROP:0000012 "MP defines this in a may more appropriate to somatosensory cortex" xsd:string {external_ontology="MP"} [Term] id: UBERON:0003952 name: anterior stroma of cornea namespace: uberon def: "The anterior segment of the lamellated connective tissue layer of the cornea." [MP:0003093] subset: pheno_slim synonym: "anterior stroma" BROAD [MP:0003093] synonym: "cornea anterior stroma" EXACT [MP:0003093] xref: EMAPA:37414 {source="MA:th"} is_a: UBERON:0003566 ! head connective tissue is_a: UBERON:0010313 ! neural crest-derived structure intersection_of: UBERON:0002384 ! connective tissue intersection_of: in_anterior_side_of UBERON:0001777 ! substantia propria of cornea disjoint_from: UBERON:0003953 {source="lexical"} ! posterior stroma of cornea relationship: contributes_to_morphology_of UBERON:0001777 ! substantia propria of cornea relationship: in_anterior_side_of UBERON:0001777 ! substantia propria of cornea relationship: part_of UBERON:0001777 ! substantia propria of cornea [Term] id: UBERON:0003953 name: posterior stroma of cornea namespace: uberon def: "The posterior segment of the lamellated connective tissue layer of the cornea." [MP:0003094] subset: pheno_slim synonym: "cornea posterior stroma" EXACT [MP:0003094] synonym: "posterior stroma" BROAD [MP:0003094] xref: EMAPA:37415 {source="MA:th"} is_a: UBERON:0003566 ! head connective tissue is_a: UBERON:0010313 ! neural crest-derived structure intersection_of: UBERON:0002384 ! connective tissue intersection_of: in_posterior_side_of UBERON:0001777 ! substantia propria of cornea relationship: contributes_to_morphology_of UBERON:0001777 ! substantia propria of cornea relationship: in_posterior_side_of UBERON:0001777 ! substantia propria of cornea relationship: part_of UBERON:0001777 ! substantia propria of cornea [Term] id: UBERON:0003967 name: cutaneous elastic tissue namespace: uberon def: "The slender connective tissue fiber in the extracellular matrix of skin tissue that is composed of microfibrils and amorphous elastin and is characterized by great elasticity" [MP:0008418] def: "The slender connective tissue fiber in the extracellular matrix of skin tissue that is composed of microfibrils and amorphous elastin and is characterized by great elasticity." [MP:0008418] subset: pheno_slim synonym: "cutaneous elastic fiber" NARROW [MP:0008418] synonym: "dermal elastic fiber" NARROW [MP:0008418] xref: EMAPA:37841 {source="MA:th"} is_a: UBERON:0002521 ! elastic tissue is_a: UBERON:0004121 ! ectoderm-derived structure intersection_of: UBERON:0002521 ! elastic tissue intersection_of: part_of UBERON:0000014 ! zone of skin relationship: contributes_to_morphology_of UBERON:0000014 ! zone of skin relationship: part_of UBERON:0000014 ! zone of skin [Term] id: UBERON:0003975 name: internal female genitalia namespace: uberon def: "The internal feminine genital organs, including the ovaries, uterine tubes, uterus, uterine cervix, and vagina." [MP:0009209] comment: TODO: Relabel. Make distinct organ class. See https://github.com/obophenotype/uberon/issues/547 subset: organ_slim subset: pheno_slim synonym: "female internal genitalia" EXACT [FMA:45654] synonym: "internal female genital organ" EXACT [BTO:0003099] synonym: "internal genitalia of female reproductive system" EXACT [OBOL:automatic] synonym: "organa genitalia feminina interna" RELATED [BTO:0003099] xref: BTO:0003099 xref: FMA:45654 xref: SCTID:303518005 is_a: UBERON:0003134 ! female reproductive organ is_a: UBERON:0004175 ! internal genitalia intersection_of: UBERON:0004175 ! internal genitalia intersection_of: part_of UBERON:0000474 ! female reproductive system [Term] id: UBERON:0004015 name: embryonic-extraembryonic boundary namespace: uberon def: "The connection between the embryo proper and extraembryonic tissues" [MP:0003890] def: "The connection between the embryo proper and extraembryonic tissues." [MP:0003890] subset: pheno_slim is_a: UBERON:0000015 ! non-material anatomical boundary intersection_of: UBERON:0000015 ! non-material anatomical boundary intersection_of: adjacent_to UBERON:0000478 ! extraembryonic structure intersection_of: adjacent_to UBERON:0002050 ! embryonic structure relationship: adjacent_to UBERON:0000478 ! extraembryonic structure relationship: adjacent_to UBERON:0002050 ! embryonic structure [Term] id: UBERON:0004016 name: dermatome namespace: uberon def: "A transitional population of migrating mesenchymal cells that derive from somites and that will become dermal cells." [AEO:0001017, AEO:JB] subset: pheno_slim synonym: "cutis plate" EXACT [http://en.wikipedia.org/wiki/Cutis_plate] synonym: "cutis plate" EXACT [Wikipedia:Cutis_plate] synonym: "dermatomal mesenchyme" EXACT [http://en.wikipedia.org/wiki/Cutis_plate] synonym: "dermatomal mesenchyme" EXACT [Wikipedia:Cutis_plate] synonym: "epimere mesoderm" RELATED [] synonym: "mesenchyma dermatomiale" RELATED LATIN [http://en.wikipedia.org/wiki/Dermatomal_mesenchyme] synonym: "mesenchyma dermatomiale" RELATED LATIN [Wikipedia:Dermatomal_mesenchyme] xref: AAO:0011028 xref: AEO:0001017 xref: Dermatome:(embryology) xref: EHDAA2_RETIRED:0003428 xref: EHDAA:1719 xref: EHDAA:1725 xref: EHDAA:1731 xref: EHDAA:1737 xref: EMAPA:32838 xref: FMA:295656 xref: http://linkedlifedata.com/resource/umls/id/C0180383 xref: NCIT:C61572 xref: UMLS:C0180383 {source="ncithesaurus:Dermatome"} xref: Wikipedia:Dermatome_(embryology) xref: XAO:0000220 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0017650 {source="AEO"} ! developing mesenchymal structure relationship: develops_from UBERON:0004290 {source="EHDAA2-abduced"} ! dermomyotome property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/f/f3/Gray64.png xsd:anyURI property_value: UBPROP:0000013 "Not to be confused with 'dermatome segment of skin'." xsd:string [Term] id: UBERON:0004022 name: germinal neuroepithelium namespace: uberon def: "The single layer of epithelial cells that lines the early neural tube and develops into the nervous system and into the neural crest cells" [http://www.ncbi.nlm.nih.gov/books/NBK10047, MP:0004261] def: "The single layer of epithelial cells that lines the early neural tube and develops into the nervous system and into the neural crest cells." [http://www.ncbi.nlm.nih.gov/books/NBK10047, MP:0004261] subset: pheno_slim synonym: "germinal neuroepithelial layer" EXACT [http://orcid.org/0000-0002-6601-2165] synonym: "germinal neuroepithelium" EXACT [NCBIBook:NBK10047] synonym: "original neural tube" EXACT [NCBIBook:NBK10047] is_a: UBERON:0005291 ! embryonic tissue is_a: UBERON:0010371 ! ecto-epithelium is_a: UBERON:0034706 {source="NCBIBook:NBK10047"} ! proliferating neuroepithelium disjoint_from: UBERON:0006934 ! sensory epithelium relationship: adjacent_to UBERON:0003842 ! neural tube lumen relationship: bounding_layer_of UBERON:0001049 ! neural tube relationship: part_of UBERON:0001049 ! neural tube property_value: UBPROP:0000011 "As the cells adjacent to the lumen continue to divide, the migrating cells form a second layer around the original neural tube. This layer becomes progressively thicker as more cells are added to it from the germinal neuroepithelium. This new layer is called the mantle (or intermediate) zone, and the germinal epithelium is now called the ventricular zone (and, later, the ependyma)[NCBIBook:NBK10047]" xsd:string [Term] id: UBERON:0004060 name: neural tube ventricular layer namespace: uberon def: "The layer of undifferentiated, proliferating cells that line the neural tube lumen that is the immediate transformation of the germinal neuroepithelium" [http://www.ncbi.nlm.nih.gov/books/NBK10047, MP:0009689] def: "The layer of undifferentiated, proliferating cells that line the neural tube lumen that is the immediate transformation of the germinal neuroepithelium." [http://www.ncbi.nlm.nih.gov/books/NBK10047, MP:0009689] subset: pheno_slim synonym: "ependymal layer" BROAD [NCBIBook:NBK10047] synonym: "neural tube ependymal layer" EXACT [NCBIBook:NBK10047] synonym: "neural tube ependymal zone" NARROW [MP:0009689] synonym: "neural tube ventricular germinal zone" EXACT [NCBIBook:NBK10047] synonym: "neural tube ventricular zone" EXACT [MP:0009689] xref: EMAPA:17152 xref: EMAPA:35362 xref: EMAPA_RETIRED:16783 xref: MA:0003193 is_a: UBERON:0005291 ! embryonic tissue is_a: UBERON:0010371 ! ecto-epithelium is_a: UBERON:0034706 {source="NCBIBook:NBK10047"} ! proliferating neuroepithelium relationship: adjacent_to UBERON:0003842 ! neural tube lumen relationship: develops_from UBERON:0004022 ! germinal neuroepithelium relationship: immediate_transformation_of UBERON:0004022 {source="NCBIBook:NBK10047"} ! germinal neuroepithelium relationship: part_of UBERON:0001049 ! neural tube property_value: editor_note "consider merging with 'ventricular zone'; note that the MA class probably does not belong here, as this is an embryonic structure" xsd:string property_value: UBPROP:0000001 "The layer of undifferentiated, proliferating cells that line the neural tube lumen" xsd:string {source="MP:0009689"} [Term] id: UBERON:0004061 name: neural tube mantle layer namespace: uberon def: "The layer of glia and differentiating neurons that forms as a second layer around the germinal neuroepithium; as this develops it comes to lie between the ventricular and marginal layers and includes the basal and alar plates. Develops into neurons and glia forming a gray matter layer." [http://www.ncbi.nlm.nih.gov/books/NBK10047, MP:0009690] subset: pheno_slim synonym: "future brain marginal layer" RELATED [EMAPA:35360] synonym: "neural tube intermediate zone" EXACT [http://www.ncbi.nlm.nih.gov/books/NBK10047, MP:0009690] xref: EMAPA:17148 xref: EMAPA:35360 xref: http://braininfo.rprc.washington.edu/centraldirectory.aspx?ID=1367 is_a: UBERON:0005291 ! embryonic tissue is_a: UBERON:0010371 ! ecto-epithelium is_a: UBERON:0034707 {source="NCBIBook:NBK10047"} ! differentiating neuroepithelium relationship: adjacent_to UBERON:0004060 ! neural tube ventricular layer relationship: adjacent_to UBERON:0004062 ! neural tube marginal layer relationship: develops_from UBERON:0004022 {notes="by division", source="NCBIBook:NBK10047"} ! germinal neuroepithelium relationship: part_of UBERON:0001049 ! neural tube [Term] id: UBERON:0004062 name: neural tube marginal layer namespace: uberon def: "The outermost layer of the neural tube that consists of axons from the developing mantle layer and will form the white matter" [http://www.ncbi.nlm.nih.gov/books/NBK10047, MP:0009691] def: "The outermost layer of the neural tube that consists of axons from the developing mantle layer and will form the white matter." [http://www.ncbi.nlm.nih.gov/books/NBK10047, MP:0009691] subset: pheno_slim synonym: "brain marginal zone" RELATED [] synonym: "neural tube marginal zone" EXACT [MP:0009691] xref: EMAPA:17151 xref: http://braininfo.rprc.washington.edu/centraldirectory.aspx?ID=1368 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0005162 ! multi cell part structure relationship: adjacent_to UBERON:0004061 ! neural tube mantle layer relationship: develops_from UBERON:0004061 {notes="forms from axons"} ! neural tube mantle layer relationship: part_of UBERON:0001049 ! neural tube [Term] id: UBERON:0004064 name: neural tube basal plate namespace: uberon def: "The region of the mantle layer of the neural tube that lies ventral to the sulcus limitans and contains primarily motor neurons and interneurons." [http://www.ncbi.nlm.nih.gov/books/NBK10047, MP:0009693, Wikipedia:Basal_plate_(neural_tube)] subset: efo_slim subset: pheno_slim synonym: "basal plate" EXACT [] synonym: "basal plate of neural tube" EXACT [Wikipedia:Basal_plate_(neural_tube)] synonym: "motor part of neural tube" RELATED [] synonym: "spinal cord basal plate" NARROW [MP:0009693] synonym: "ventral part of neural tube" RELATED [] xref: AAO:0010561 xref: EFO:0001904 xref: http://braininfo.rprc.washington.edu/centraldirectory.aspx?ID=1372 xref: NCIT:C34111 xref: UMLS:C1511061 {source="ncithesaurus:Basal_Plate"} xref: Wikipedia:Basal_plate_(neural_tube) is_a: CARO:0000003 ! connected anatomical structure is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0005291 ! embryonic tissue relationship: contributes_to_morphology_of UBERON:0004061 ! neural tube mantle layer relationship: developmentally_induced_by UBERON:0002328 {gene="Shh", source="Swenson"} ! notochord relationship: has_part CL:0000100 ! motor neuron relationship: part_of UBERON:0004061 ! neural tube mantle layer relationship: ventral_to UBERON:0005478 ! sulcus limitans of neural tube [Term] id: UBERON:0004087 name: vena cava namespace: uberon def: "Any of the veins that carries deoxygenated blood from a part of the body into the right atrium of the heart." [http://en.wikipedia.org/wiki/Venae_cavae, http://orcid.org/0000-0002-6601-2165] subset: pheno_slim synonym: "caval vein" RELATED [] synonym: "venae cavae" RELATED PLURAL [http://en.wikipedia.org/wiki/Venae_cavae] xref: AAO:0010215 xref: BTO:0001438 xref: EMAPA:18415 xref: FMA:321896 xref: GAID:547 xref: http://linkedlifedata.com/resource/umls/id/C0042460 xref: http://www.snomedbrowser.com/Codes/Details/244405007 xref: MA:0000068 xref: MESH:D014684 xref: NCIT:C12817 xref: OpenCyc:Mx4rkJQ4U6gEEdudWQACs5b6Bw xref: UMLS:C0042460 {source="ncithesaurus:Vena_Cava"} xref: Venae:cavae is_a: UBERON:0003479 ! thoracic cavity vein is_a: UBERON:0013768 ! great vessel of heart property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/3/35/Relations_of_the_aorta,_trachea,_esophagus_and_other_heart_structures.png xsd:anyURI property_value: depicted:by https://upload.wikimedia.org/wikipedia/commons/7/7c/Heart_numlabels.png xsd:anyURI [Term] id: UBERON:0004088 name: orbital region namespace: uberon def: "The subdivision of the face that includes the eye (eyeball plus adnexa such as eyelids) and the orbit of the skull and associated parts of the face such as the eyebrows, if present" [http://orcid.org/0000-0002-6601-2165] def: "The subdivision of the face that includes the eye (eyeball plus adnexa such as eyelids) and the orbit of the skull and associated parts of the face such as the eyebrows, if present." [http://orcid.org/0000-0002-6601-2165] subset: pheno_slim synonym: "content of orbital part of eye" EXACT [FMA:260119] synonym: "eye region" EXACT [http://orcid.org/0000-0002-6601-2165] synonym: "ocular and peri-ocular region" RELATED [] synonym: "ocular region" RELATED [] synonym: "orbital content" RELATED [FMA:260119] synonym: "orbital part of eye" RELATED [FMA:72951] synonym: "orbital part of face" EXACT [http://orcid.org/0000-0002-6601-2165] xref: FMA:260119 is_a: UBERON:0001444 ! subdivision of head relationship: part_of UBERON:0001456 ! face property_value: editor_note "note the FMA class is more narrow though, and is more like eye + muscles + vasculature. The FMA also has FMA:72951 orbital part of eye" xsd:string property_value: UBPROP:0000012 "in HP covers eyelid, eyebrow." xsd:string {external_ontology="HP:0000284"} [Term] id: UBERON:0004111 name: anatomical conduit namespace: uberon def: "Any tube, opening or passage that connects two distinct anatomical spaces." [http://orcid.org/0000-0002-6601-2165] synonym: "foramen" NARROW [EHDAA2:0003080] synonym: "foramina" NARROW PLURAL [https://orcid.org/0000-0002-6601-2165] synonym: "opening" RELATED [] synonym: "ostia" RELATED PLURAL [] synonym: "ostium" RELATED [] xref: AEO:0000080 xref: EHDAA2:0003080 xref: FMA:242873 xref: http://en.wikipedia.org/wiki/Foramen xref: http://www.snomedbrowser.com/Codes/Details/346902003 xref: SCTID:346902003 xref: Wikipedia:Foramen is_a: UBERON:0010000 ! multicellular anatomical structure intersection_of: UBERON:0010000 ! multicellular anatomical structure intersection_of: conduit_for UBERON:0000061 ! anatomical structure intersection_of: has_part UBERON:0013686 ! anatomical conduit space relationship: conduit_for UBERON:0000061 ! anatomical structure relationship: connects UBERON:0000464 {cardinality="2"} ! anatomical space relationship: connects UBERON:0000464 {minCardinality="2", maxCardinality="2"} ! anatomical space relationship: has_part UBERON:0013686 ! anatomical conduit space property_value: UBPROP:0000012 "FMA has both conduit and conduit space. In EHDAA2 this is a surface feature" xsd:string {external_ontology="FMA"} [Term] id: UBERON:0004118 name: vasculature of iris namespace: uberon def: "A vasculature that is part of a iris [Automatically generated definition]." [OBOL:automatic] subset: pheno_slim synonym: "iris blood vessels" EXACT [ZFA:0005568] synonym: "iris vascular network" EXACT [OBOL:automatic] synonym: "iris vasculature" EXACT [] synonym: "vascular network of iris" EXACT [OBOL:automatic] xref: ZFA:0005568 is_a: UBERON:0002203 ! vasculature of eye intersection_of: UBERON:0002049 ! vasculature intersection_of: part_of UBERON:0001769 ! iris relationship: part_of UBERON:0001769 ! iris [Term] id: UBERON:0004119 name: endoderm-derived structure namespace: uberon def: "An anatomical structure that develops (entirely or partially) from the endoderm." [https://orcid.org/0000-0002-6601-2165] subset: grouping_class is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000061 ! anatomical structure intersection_of: UBERON:0000061 ! anatomical structure intersection_of: develops_from UBERON:0000925 ! endoderm relationship: develops_from UBERON:0000925 ! endoderm property_value: IAO:0000232 "Grouping term for query purposes" xsd:string [Term] id: UBERON:0004120 name: mesoderm-derived structure namespace: uberon def: "An anatomical structure that develops (entirely or partially) from the mesoderm." [https://orcid.org/0000-0002-6601-2165] subset: grouping_class synonym: "mesodermal derivative" EXACT [FBbt:00025998] xref: FBbt:00025998 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000061 ! anatomical structure intersection_of: UBERON:0000061 ! anatomical structure intersection_of: develops_from UBERON:0000926 ! mesoderm relationship: develops_from UBERON:0000926 ! mesoderm property_value: IAO:0000232 "Grouping term for query purposes" xsd:string [Term] id: UBERON:0004121 name: ectoderm-derived structure namespace: uberon def: "An anatomical structure that develops (entirely or partially) from the ectoderm." [https://orcid.org/0000-0002-6601-2165] subset: grouping_class synonym: "ectodermal deriviative" EXACT [FBbt:00025990] xref: FBbt:00025990 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000061 ! anatomical structure intersection_of: UBERON:0000061 ! anatomical structure intersection_of: develops_from UBERON:0000924 ! ectoderm relationship: develops_from UBERON:0000924 ! ectoderm property_value: IAO:0000232 "Grouping term for query purposes" xsd:string [Term] id: UBERON:0004128 name: optic vesicle namespace: uberon def: "The optic vesicle is the evagination of neurectoderm that precedes formation of the optic cup[GO]. Portion of tissue that is comprised of neuroepitheium which has pinched off from the anterior neural keel and will form the optic cup[ZFA]." [GO:0003404, http://en.wikipedia.org/wiki/Optic_vesicles] def: "The optic vesicle is the evagination of neurectoderm that precedes formation of the optic cup[GO]. Portion of tissue that is comprised of neuroepitheium which has pinched off from the anterior neural keel and will form the optic cup[ZFA]." [GO:0003404, Wikipedia:Optic_vesicles] comment: Genes: Six3, Pax6, Rx1 are expressed together in the tip of the neural plate [ISBN:9780878932504 "Developmental Biology"]. Development notes: During subsequent develop- ment, the optic vesicle invaginates and becomes a two-layered structure with an inner neural retina and outer retinal pigment epithelium. As soon as the developing optic vesicle makes contact with the overlying ectoderm, it induces the ectoderm to thicken and form the lens placode [PMID:16496288] subset: pheno_slim subset: vertebrate_core synonym: "evagination" RELATED [] synonym: "eye vesicle" RELATED [XAO:0000228] synonym: "ocular vesicle" RELATED [VHOG:0000165] synonym: "optic vesicles" RELATED PLURAL [ZFA:0000050] xref: AAO:0011039 xref: EHDAA2:0001320 xref: EMAPA:16540 xref: FMA:293357 xref: http://linkedlifedata.com/resource/umls/id/C0231106 xref: http://www.snomedbrowser.com/Codes/Details/362864008 xref: NCIT:C34236 xref: Optic:vesicles xref: SCTID:362864008 xref: TAO:0000050 xref: UMLS:C0231106 {source="ncithesaurus:Optic_Vesicle"} xref: VHOG:0000165 xref: Wikipedia:Optic_vesicles xref: XAO:0000228 xref: ZFA:0000050 is_a: CARO:0000003 ! connected anatomical structure is_a: UBERON:0000479 ! tissue is_a: UBERON:0004121 ! ectoderm-derived structure relationship: developmentally_induced_by UBERON:0004880 ! chordamesoderm relationship: develops_from UBERON:0002346 {source="GO-def"} ! neurectoderm relationship: develops_from UBERON:0003071 {source="ZFA"} ! eye primordium relationship: part_of UBERON:0010312 {source="ZFA"} ! immature eye property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/e/e0/Gray863.png xsd:anyURI property_value: UBPROP:0000003 "(...) an essentially similar sequence of events occurs during the embryonic development of the vertebrate eye. The eye initially develops as a single median evagination of the diencephalon that soon bifurcates to form the paired optic vesicles.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000165", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.429"} property_value: UBPROP:0000003 "(...) an essentially similar sequence of events occurs during the embryonic development of the vertebrate eye. The eye initially develops as a single median evagination of the diencephalon that soon bifurcates to form the paired optic vesicles.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000165", ontology="VHOG", source="ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.429", source="http://bgee.unil.ch/"} [Term] id: UBERON:0004133 name: salivatory nucleus namespace: uberon def: "." [GO:0021751] synonym: "salivary nucleus" EXACT [GO:0021751] is_a: UBERON:0006331 ! brainstem nucleus is_a: UBERON:0009662 ! hindbrain nucleus relationship: part_of UBERON:0000988 ! pons [Term] id: UBERON:0004139 name: cardiogenic plate namespace: uberon def: "The first recognizable structure derived from the heart field" [GO:0003142] def: "The first recognizable structure derived from the heart field." [GO:0003142] subset: pheno_slim synonym: "cardiac crescent" RELATED [EMAPA:16106] synonym: "cardiogenic crescent" RELATED [GO:0003142] synonym: "heart rudiment" RELATED [] synonym: "myocardial plate" EXACT [EHDAA2:0000215] xref: EHDAA2:0000215 xref: EMAPA:16106 xref: VHOG:0000975 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0002050 ! embryonic structure relationship: develops_from UBERON:0003084 ! heart primordium property_value: editor_note "TODO - check plate vs rudiment vs primordium vs endocardial tube. See XAO" xsd:string property_value: UBPROP:0000003 "(In vertebrates) The embryonic mesoderm is the source of both the cardiogenic plate, giving rise to the future myocardium as well as the endocardium that will line the system on the inner side.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000975", ontology="VHOG", source="PMID:15611355 Gittenberger-de Groot AC, Bartelings MM, Deruiter MC, Poelmann RE, Basics of cardiac development for the understanding of congenital heart malformations. Pediatric Research (2005)", source="http://bgee.unil.ch/"} property_value: UBPROP:0000003 "(In vertebrates) The embryonic mesoderm is the source of both the cardiogenic plate, giving rise to the future myocardium as well as the endocardium that will line the system on the inner side.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000975", ontology="VHOG", source="http://bgee.unil.ch/", source="PMID:15611355 Gittenberger-de Groot AC, Bartelings MM, Deruiter MC, Poelmann RE, Basics of cardiac development for the understanding of congenital heart malformations. Pediatric Research (2005)"} [Term] id: UBERON:0004140 name: primary heart field namespace: uberon def: "A specific region of the lateral mesoderm that will form the primary beating heart tube. In mammals the primary heart field gives rise to the left ventricle." [GO:0003138, GOC:mtg_heart, GOC:rl] synonym: "FHF" RELATED ABBREVIATION [XAO:0004185] synonym: "first heart field" EXACT [XAO:0004185] synonym: "heart field" RELATED [XAO:0004185] synonym: "PHF" RELATED ABBREVIATION [XAO:0004185] synonym: "primary heart field" EXACT [PMID:17276708, XAO:0004185] synonym: "primary heart field" EXACT [http://www.ncbi.nlm.nih.gov/pubmed/17276708, XAO:0004185] xref: XAO:0004185 is_a: UBERON:0002050 ! embryonic structure is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0005291 ! embryonic tissue is_a: UBERON:0007688 ! anlage relationship: part_of UBERON:0003081 {source="GO:0003128"} ! lateral plate mesoderm relationship: part_of UBERON:0036146 {source="BGEE:ann"} ! cardiopharyngeal field property_value: UBPROP:0000012 "this term denotes the primary heart field; GO:0003128 denotes the superclass of primary and secondary: specific region of the lateral mesoderm into the area which will form the primary beating heart tube[GO:0003138]" xsd:string {external_ontology="GO"} [Term] id: UBERON:0004141 name: heart tube namespace: uberon def: "An epithelial tube that will give rise to the mature heart." [GO:0003143, GOC:mtg_heart] subset: efo_slim subset: pheno_slim subset: vertebrate_core synonym: "embryonic heart tube" EXACT [GO:0003143] synonym: "endocardial heart tube" EXACT [MP:0012700] synonym: "endocardial tube" EXACT [XAO:0000337] xref: AAO:0010411 xref: EFO:0003526 xref: EMAPA:32685 xref: NCIT:C34161 xref: TAO:0000360 xref: XAO:0000337 xref: ZFA:0000360 is_a: UBERON:0003914 ! epithelial tube is_a: UBERON:0005291 ! embryonic tissue is_a: UBERON:0012275 ! meso-epithelium relationship: develops_from UBERON:0005498 ! primitive heart tube relationship: immediate_transformation_of UBERON:0005498 {source="ZFA-modified"} ! primitive heart tube property_value: UBPROP:0000001 "the paired, longitudinal, endothelial-lined channels formed from the cardiogenic mesoderm in embryonic development; angiogenic cell clusters (aka angioblastic cords) located in a horse-shoe shape configuration in the cardiogenic plate coalesce to form the right and left endocardial heart tubes which then fuse in cephalo-caudal direction to form a single primitive heart tube." xsd:string {source="MP:0012700"} [Term] id: UBERON:0004142 name: outflow tract septum namespace: uberon def: "The outflow tract septum is a partition in the outflow tract." [GO:0003148] xref: XAO:0004141 is_a: UBERON:0002099 ! cardiac septum intersection_of: UBERON:0002099 ! cardiac septum intersection_of: part_of UBERON:0004145 ! outflow tract relationship: part_of UBERON:0004145 ! outflow tract [Term] id: UBERON:0004145 name: outflow tract namespace: uberon def: "The outflow tract is the portion of the heart through which blood flows into the arteries." [GO:0003151] subset: pheno_slim synonym: "arterial (outflow) pole" RELATED [http://www.ncbi.nlm.nih.gov/pubmed/20735616] synonym: "arterial (outflow) pole" RELATED [PMID:20735616] synonym: "cardiac outflow tract" EXACT [http://www.ncbi.nlm.nih.gov/pubmed/20735616] synonym: "cardiac outflow tract" EXACT [PMID:20735616] synonym: "heart outflow tract" EXACT [] xref: EHDAA2:0001351 xref: EHDAA:464 xref: EHDAA:798 xref: EMAPA:16346 xref: MA:0000100 xref: VHOG:0000670 xref: XAO:0004139 is_a: UBERON:0004111 ! anatomical conduit is_a: UBERON:0004120 ! mesoderm-derived structure relationship: channel_for UBERON:0000178 ! blood relationship: channels_from UBERON:0000948 ! heart relationship: channels_into UBERON:0001637 ! artery relationship: part_of UBERON:0000948 ! heart property_value: UBPROP:0000008 "Depending on the species, attached at the cardiac outflow are described the conus arteriosus, the truncus arteriosus and, or the bulbus arteriosus. At the distal limit of these outflow structures, but lying outside the pericardial cavity, is the ventral aorta[PMID:20735616]" xsd:string [Term] id: UBERON:0004146 name: His-Purkinje system namespace: uberon def: "The His-Purkinje system receives signals from the AV node and is composed of the fibers that regulate cardiac muscle contraction in the ventricles." [GO:0003164, https://github.com/geneontology/go-ontology/issues/12451] synonym: "His-Purkinji network" EXACT [] synonym: "HPS" EXACT ABBREVIATION [] synonym: "VCS" EXACT [] synonym: "ventricular conduction system" EXACT [] is_a: UBERON:0010131 {source="cjm"} ! conducting tissue of heart is_a: UBERON:0018649 ! cardiac muscle tissue of ventricle relationship: only_in_taxon NCBITaxon:32523 {source="PMID:12626327", source="PMID:21234997", source="github:michaelerice"} ! Tetrapoda relationship: part_of UBERON:0002350 {source="GO"} ! conducting system of heart property_value: UBPROP:0000001 "the intraventricular conduction system from the bundle of His to the distal Purkinje fibers, which carries the impulse to the ventricles." xsd:string {source="http://medical-dictionary.thefreedictionary.com/His-Purkinje+system"} [Term] id: UBERON:0004148 name: cardiac vein namespace: uberon def: "Vein of heart that drains the myocardium" [http://orcid.org/0000-0002-6601-2165] def: "Vein of heart that drains the myocardium." [http://orcid.org/0000-0002-6601-2165] subset: pheno_slim synonym: "cardiac vein" EXACT [FMA:12846] synonym: "coronary vein" EXACT [ZFA:0005814] synonym: "coronary vein" RELATED [Wikipedia:Coronary_circulation] synonym: "coronary vein" RELATED [http://en.wikipedia.org/wiki/Coronary_circulation] synonym: "heart vein" EXACT [OBOL:automatic] synonym: "vein of heart" EXACT [OBOL:automatic] xref: Coronary:circulation xref: EHDAA2:0004507 xref: EMAPA:37137 {source="MA:th"} xref: FMA:12846 xref: galen:CoronaryVein xref: http://linkedlifedata.com/resource/umls/id/C0226654 xref: http://linkedlifedata.com/resource/umls/id/C0226737 xref: http://www.snomedbrowser.com/Codes/Details/277726009 xref: NCIT:C12878 xref: NCIT:C12882 xref: SCTID:277726009 xref: UMLS:C0226654 {source="ncithesaurus:Cardiac_Vein"} xref: UMLS:C0226737 {source="ncithesaurus:Coronary_Vein"} xref: Wikipedia:Coronary_circulation xref: ZFA:0005814 is_a: UBERON:0003498 ! heart blood vessel is_a: UBERON:0005194 ! thoracic vein is_a: UBERON:0013140 {source="FMA"} ! systemic vein intersection_of: UBERON:0001638 ! vein intersection_of: drains UBERON:0002349 ! myocardium intersection_of: part_of UBERON:0000948 ! heart relationship: drains UBERON:0002349 ! myocardium relationship: part_of RO:0002577 ! system [Term] id: UBERON:0004151 name: cardiac chamber namespace: uberon def: "A cardiac chamber surrounds an enclosed cavity within the heart" [GO:0003205] def: "A cardiac chamber surrounds an enclosed cavity within the heart." [GO:0003205] comment: generic enough to cover FBbt:00003156 heart chamber but this is a cavity. GO defines it as the cavity. TODO - move subclasses. Note this also includes sinus venosus synonym: "chamber of heart" EXACT [] synonym: "heart chamber" EXACT [] xref: FMA:7095 xref: http://www.snomedbrowser.com/Codes/Details/276456008 xref: OpenCyc:Mx4rmexpjPdAEduAAAAOpmP6tw xref: SCTID:276456008 is_a: UBERON:0000064 ! organ part is_a: UBERON:0004120 ! mesoderm-derived structure relationship: part_of UBERON:0000948 ! heart [Term] id: UBERON:0004160 name: proepicardium namespace: uberon def: "An embryonic group of progenitor cells that forms from an outpouching of the septum transversum near the venous pole of the heart and gives rise to the epicardium" [GO:0003342, http://en.wiktionary.org/wiki/proepicardium] def: "An embryonic group of progenitor cells that forms from an outpouching of the septum transversum near the venous pole of the heart and gives rise to the epicardium." [GO:0003342, http://en.wiktionary.org/wiki/proepicardium] synonym: "proepicardial cluster" EXACT [ZFA:0005808] synonym: "proepicardial organ" EXACT [ZFIN:ZDB-PUB-080218-16] xref: EMAPA:36025 xref: ZFA:0005808 is_a: UBERON:0003104 ! mesenchyme relationship: part_of UBERON:0004161 {notes="todo check other taxa"} ! septum transversum relationship: part_of UBERON:0004535 {source="ZFA"} ! cardiovascular system property_value: UBPROP:0000007 "propepicardial" xsd:string property_value: UBPROP:0000008 "Proepicardial clusters in Zebrafish form on the pericardial wall, adjacent to the atrioventricular (AV) junction and near the venous pole[ZFA]" xsd:string [Term] id: UBERON:0004161 name: septum transversum namespace: uberon def: "A thick plate of mesodermal tissue that occupies the space between the thoracic cavity and yolk stalk in the early embryo, forming a transverse partition partially separating the coelomic cavity into thoracic and abdominal portions. It gives rise to the central tendon of the diaphragm[VHOG]." [http://en.wikipedia.org/wiki/Septum_transversum, VHOG:0000019] def: "A thick plate of mesodermal tissue that occupies the space between the thoracic cavity and yolk stalk in the early embryo, forming a transverse partition partially separating the coelomic cavity into thoracic and abdominal portions. It gives rise to the central tendon of the diaphragm[VHOG]." [VHOG:0000019, Wikipedia:Septum_transversum] subset: pheno_slim synonym: "transverse septum" EXACT [https://orcid.org/0000-0002-6601-2165] xref: EHDAA2:0001829 xref: EHDAA:736 xref: EMAPA:16318 xref: FMA:295593 xref: http://linkedlifedata.com/resource/umls/id/C0231004 xref: http://www.snomedbrowser.com/Codes/Details/308819008 xref: NCIT:C34296 xref: SCTID:308819008 xref: Septum:transversum xref: UMLS:C0231004 {source="ncithesaurus:Septum_Transversum"} xref: VHOG:0000019 xref: Wikipedia:Septum_transversum is_a: UBERON:0003104 ! mesenchyme relationship: located_in UBERON:0002323 ! coelemic cavity lumen relationship: part_of UBERON:0002100 ! trunk property_value: UBPROP:0000001 "A thick plate of mesodermal tissue that occupies the space between the thoracic cavity and yolk stalk in the early embryo, forming a transverse partition partially separating the coelomic cavity into thoracic and abdominal portions. It gives rise to the central tendon of the diaphragm. [TFD][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000019", ontology="VHOG", source="http://bgee.unil.ch/", source="http://medical-dictionary.thefreedictionary.com/transverse+septum"} property_value: UBPROP:0000001 "A thick plate of mesodermal tissue that occupies the space between the thoracic cavity and yolk stalk in the early embryo, forming a transverse partition partially separating the coelomic cavity into thoracic and abdominal portions. It gives rise to the central tendon of the diaphragm. [TFD][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000019", ontology="VHOG", source="http://bgee.unil.ch/", source="http://medical-dictionary.thefreedictionary.com/transverse+septum"} property_value: UBPROP:0000003 "In hagfishes a transverse septum extends upward from the ventral body wall posterior to the heart, partly separating an anterior pericardial cavity from a larger peritoneal cavity. (...) These basic relationships have not been modified by urodeles. The small pericardial cavity remains far forward where it is separated by a transverse septum from the principal coelom, which may now be called a pleuroperitoneal cavity because slender lungs are present. (...) The heart (of other tetrapods) is separated from the lungs (and liver if present) by more or less horizontal partitions that have their origin in the embryo as folds on the serous membrane of the right and left lateral body walls. These grow out to join in the midline of the body. They are called lateral mesocardia (birds) or pleuropericardial membranes. Posteriorly they join the transverse septum to form the adult pericardial membrane, or pericardium. (...) In their partitioning of their coelom, embryonic mammals resemble first early fishes (incomplete partition, posterior to heart, consisting of the transverse septum) and then reptiles (pericardium derived from transverse septum and pleuropericardial membranes) Mammals then separate paired pleural cavities from the peritoneal cavity by a diaphragm. The ventral portion of this organ comes from the transverse septum. The dorsal portion is derived from the dorsal mesentery and from still another pair of outgrowths from the lateral body wall, the pleuroperitoneal membranes.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000019", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0471090588 Hildebrand M, Analysis of vertebrate structure (1983) p.205-206"} property_value: UBPROP:0000003 "In hagfishes a transverse septum extends upward from the ventral body wall posterior to the heart, partly separating an anterior pericardial cavity from a larger peritoneal cavity. (...) These basic relationships have not been modified by urodeles. The small pericardial cavity remains far forward where it is separated by a transverse septum from the principal coelom, which may now be called a pleuroperitoneal cavity because slender lungs are present. (...) The heart (of other tetrapods) is separated from the lungs (and liver if present) by more or less horizontal partitions that have their origin in the embryo as folds on the serous membrane of the right and left lateral body walls. These grow out to join in the midline of the body. They are called lateral mesocardia (birds) or pleuropericardial membranes. Posteriorly they join the transverse septum to form the adult pericardial membrane, or pericardium. (...) In their partitioning of their coelom, embryonic mammals resemble first early fishes (incomplete partition, posterior to heart, consisting of the transverse septum) and then reptiles (pericardium derived from transverse septum and pleuropericardial membranes) Mammals then separate paired pleural cavities from the peritoneal cavity by a diaphragm. The ventral portion of this organ comes from the transverse septum. The dorsal portion is derived from the dorsal mesentery and from still another pair of outgrowths from the lateral body wall, the pleuroperitoneal membranes.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000019", ontology="VHOG", source="ISBN:978-0471090588 Hildebrand M, Analysis of vertebrate structure (1983) p.205-206", source="http://bgee.unil.ch/"} property_value: UBPROP:0000011 "The cranial part of the septum transversum gives rise to the central tendon of the diaphragm and is the origin of the myoblasts that invade the pleuroperitoneal folds resulting in the formation of the muscular diaphragm. The caudal part of the septum transversum is invaded by the hepatic diverticulum which divides within it to form the liver and thus gives rise to the ventral mesentery of the foregut." xsd:string property_value: UBPROP:0000012 "in EHDAA2 this is divided into mesenchymal portion and hepatic diverticulum" xsd:string {external_ontology="EHDAA2"} [Term] id: UBERON:0004175 name: internal genitalia namespace: uberon def: "The internal genitalia are the internal sex organs such as the uterine tube, the uterus and the vagina in female mammals, and the testis, seminal vesicle, ejaculatory duct and prostate in male mammals." [GO:0035260] comment: TODO: make a subdivision of reproductive system. Relabel. See https://github.com/obophenotype/uberon/issues/547 subset: organ_slim subset: pheno_slim synonym: "internal genitalia" EXACT [] synonym: "internal genitals" EXACT [] synonym: "internal reproductive organ" RELATED [] synonym: "internal sex organ" RELATED [] xref: FMA:45652 is_a: UBERON:0003133 ! reproductive organ [Term] id: UBERON:0004176 name: external genitalia namespace: uberon def: "The external genitalia are the outer sex organs, such as the penis or vulva in mammals." [GO:0035261] comment: TODO: make a subdivision of reproductive system. Relabel. See https://github.com/obophenotype/uberon/issues/547 subset: organ_slim subset: pheno_slim synonym: "external genitalia" EXACT [] synonym: "external reproductive organ" RELATED [] synonym: "external sex organ" RELATED [] xref: FMA:45643 xref: http://www.snomedbrowser.com/Codes/Details/362207005 xref: SCTID:362207005 is_a: UBERON:0003133 ! reproductive organ [Term] id: UBERON:0004177 name: hemopoietic organ namespace: uberon def: "Organ that is part of the hematopoietic system." [GOC:Obol] subset: organ_slim subset: pheno_slim synonym: "haematological system organ" EXACT [OBOL:automatic] synonym: "haemopoietic system organ" EXACT [OBOL:automatic] synonym: "hematopoeitic or lymphoid organ" NARROW [] synonym: "hematopoeitic organ" EXACT [] synonym: "hematopoietic system organ" EXACT [OBOL:automatic] synonym: "lymph organ" NARROW [MA:0000747] synonym: "lymphoid organ" NARROW [BTO:0004605, FMA:7143] synonym: "organ of haematological system" EXACT [OBOL:automatic] synonym: "organ of haemopoietic system" EXACT [OBOL:automatic] synonym: "organ of hematopoietic system" EXACT [OBOL:automatic] synonym: "organ of organa haemopoietica" EXACT [OBOL:automatic] synonym: "organa haemopoietica organ" EXACT [OBOL:automatic] xref: BTO:0004605 xref: EMAPA:37665 {source="MA:th"} xref: FMA:7143 xref: http://www.snomedbrowser.com/Codes/Details/361338006 xref: MA:0000747 xref: SCTID:361338006 is_a: UBERON:0000062 ! organ is_a: UBERON:0004120 ! mesoderm-derived structure intersection_of: UBERON:0000062 ! organ intersection_of: part_of UBERON:0002390 ! hematopoietic system relationship: part_of UBERON:0002390 ! hematopoietic system property_value: editor_note "consider splitting out lymph organ, compare with lymph node" xsd:string property_value: UBPROP:0000001 "the organs in which the formed elements of the blood and lymph are produced[http://encyclopedia2.thefreedictionary.com/Hematopoietic+Organs]." xsd:string {source="http://encyclopedia2.thefreedictionary.com/Hematopoietic+Organs"} property_value: UBPROP:0000001 "the organs in which the formed elements of the blood and lymph are produced[http://encyclopedia2.thefreedictionary.com/Hematopoietic+Organs]." xsd:string {source="http://encyclopedia2.thefreedictionary.com/Hematopoietic+Organs"} property_value: UBPROP:0000012 "the FMA class 'lymphoid organ' is a general anatomical term" xsd:string {external_ontology="FMA"} [Term] id: UBERON:0004178 name: aorta smooth muscle tissue namespace: uberon def: "The nonstriated, involuntary muscle tissue located in the wall of the aorta." [MGI:csmith, MP:0009865] subset: efo_slim subset: pheno_slim synonym: "aorta non-striated muscle" EXACT [OBOL:automatic] synonym: "aorta smooth muscle" EXACT [OBOL:automatic] synonym: "aortic smooth muscle" EXACT [BTO:0001685] xref: BTO:0001685 xref: CALOHA:TS-0048 xref: EFO:0002775 xref: EMAPA:35135 xref: http://linkedlifedata.com/resource/umls/id/C1706825 xref: MA:0000702 xref: NCIT:C49191 xref: UMLS:C1706825 {source="ncithesaurus:Aorta_Smooth_Muscle_Tissue"} is_a: UBERON:0004237 ! blood vessel smooth muscle is_a: UBERON:0004695 ! arterial system smooth muscle intersection_of: UBERON:0001135 ! smooth muscle tissue intersection_of: part_of UBERON:0000947 ! aorta relationship: part_of UBERON:0000947 ! aorta [Term] id: UBERON:0004185 name: endodermal part of digestive tract namespace: uberon def: "A portions of the gut that is derived from endoderm." [GO:0061031] synonym: "endodermal gut" EXACT [] synonym: "gut endoderm" EXACT [EMAPA:32930] xref: EMAPA:32930 is_a: UBERON:0004119 ! endoderm-derived structure is_a: UBERON:0004921 ! subdivision of digestive tract intersection_of: UBERON:0004921 ! subdivision of digestive tract intersection_of: develops_from UBERON:0000925 ! endoderm intersection_of: part_of UBERON:0001555 ! digestive tract [Term] id: UBERON:0004215 name: back nerve namespace: uberon def: "A nerve that is part of a back [Automatically generated definition]." [OBOL:automatic] synonym: "nerve of back" EXACT [OBOL:automatic] xref: EMAPA:37268 {source="MA:th"} xref: MA:0000497 is_a: UBERON:0001021 ! nerve intersection_of: UBERON:0001021 ! nerve intersection_of: part_of UBERON:0001137 ! dorsum relationship: part_of UBERON:0001137 ! dorsum [Term] id: UBERON:0004222 name: stomach smooth muscle namespace: uberon def: "A portion of smooth muscle tissue that is part of a stomach [Automatically generated definition]." [OBOL:automatic] synonym: "gastric muscle" RELATED [BTO:0001818] synonym: "gastric smooth muscle" RELATED [MA:0001627] synonym: "involuntary muscle of stomach" EXACT [OBOL:automatic] synonym: "involuntary muscle of ventriculus" EXACT [OBOL:automatic] synonym: "non-striated muscle of stomach" EXACT [OBOL:automatic] synonym: "non-striated muscle of ventriculus" EXACT [OBOL:automatic] synonym: "smooth muscle of stomach" EXACT [OBOL:automatic] synonym: "smooth muscle of ventriculus" EXACT [OBOL:automatic] synonym: "smooth muscle tissue of stomach" EXACT [OBOL:automatic] synonym: "smooth muscle tissue of ventriculus" EXACT [OBOL:automatic] synonym: "stomach involuntary muscle" EXACT [OBOL:automatic] synonym: "stomach muscle" RELATED [BTO:0001818] synonym: "stomach non-striated muscle" EXACT [OBOL:automatic] synonym: "stomach smooth muscle tissue" EXACT [OBOL:automatic] synonym: "ventriculus involuntary muscle" EXACT [OBOL:automatic] synonym: "ventriculus non-striated muscle" EXACT [OBOL:automatic] synonym: "ventriculus smooth muscle" EXACT [OBOL:automatic] synonym: "ventriculus smooth muscle tissue" EXACT [OBOL:automatic] xref: BTO:0001818 xref: EMAPA:35823 xref: MA:0001627 is_a: UBERON:0004226 ! gastrointestinal system smooth muscle intersection_of: UBERON:0001135 ! smooth muscle tissue intersection_of: part_of UBERON:0000945 ! stomach relationship: part_of UBERON:0001167 ! wall of stomach [Term] id: UBERON:0004225 name: respiratory system smooth muscle namespace: uberon def: "A portion of smooth muscle tissue that is part of a respiratory system [Automatically generated definition]." [OBOL:automatic] synonym: "airway smooth muscle" RELATED [BTO:0001660] synonym: "airway smooth muscle cell" RELATED [BTO:0001660] synonym: "respiratory smooth muscle" EXACT [BTO:0001660] synonym: "smooth muscle of respiratory system" EXACT [OBOL:automatic] xref: BTO:0001660 xref: EMAPA:35734 xref: MA:0001830 is_a: UBERON:0001135 ! smooth muscle tissue intersection_of: UBERON:0001135 ! smooth muscle tissue intersection_of: part_of UBERON:0001004 ! respiratory system relationship: part_of UBERON:0001004 ! respiratory system [Term] id: UBERON:0004226 name: gastrointestinal system smooth muscle namespace: uberon def: "A portion of smooth muscle tissue that is part of a digestive system [Automatically generated definition]." [OBOL:automatic] synonym: "smooth muscle tissue of gastrointestinal system" EXACT [OBOL:automatic] xref: EMAPA:35117 xref: MA:0001523 is_a: UBERON:0001135 ! smooth muscle tissue intersection_of: UBERON:0001135 ! smooth muscle tissue intersection_of: part_of UBERON:0005409 ! alimentary part of gastrointestinal system relationship: part_of UBERON:0005409 ! alimentary part of gastrointestinal system [Term] id: UBERON:0004233 name: lower respiratory tract smooth muscle namespace: uberon def: "A portion of smooth muscle tissue that is part of a lower respiratory tract [Automatically generated definition]." [OBOL:automatic] synonym: "involuntary muscle of lower respiratory tract" EXACT [OBOL:automatic] synonym: "lower respiratory tract involuntary muscle" EXACT [OBOL:automatic] synonym: "lower respiratory tract non-striated muscle" EXACT [OBOL:automatic] synonym: "lower respiratory tract smooth muscle tissue" EXACT [OBOL:automatic] synonym: "non-striated muscle of lower respiratory tract" EXACT [OBOL:automatic] synonym: "smooth muscle of lower respiratory tract" EXACT [OBOL:automatic] synonym: "smooth muscle tissue of lower respiratory tract" EXACT [OBOL:automatic] xref: EMAPA:35520 xref: MA:0002410 is_a: UBERON:0000077 ! mixed endoderm/mesoderm-derived structure is_a: UBERON:0004225 ! respiratory system smooth muscle intersection_of: UBERON:0001135 ! smooth muscle tissue intersection_of: part_of UBERON:0001558 ! lower respiratory tract relationship: part_of UBERON:0001558 ! lower respiratory tract [Term] id: UBERON:0004234 name: iris smooth muscle namespace: uberon def: "A portion of smooth muscle tissue that is part of a iris [Automatically generated definition]." [OBOL:automatic] synonym: "involuntary muscle of iris" EXACT [OBOL:automatic] synonym: "iridial smooth muscle" EXACT [http://orcid.org/0000-0002-6601-2165] synonym: "iris involuntary muscle" EXACT [OBOL:automatic] synonym: "iris non-striated muscle" EXACT [OBOL:automatic] synonym: "iris smooth muscle tissue" EXACT [OBOL:automatic] synonym: "non-striated muscle of iris" EXACT [OBOL:automatic] synonym: "smooth muscle of iris" EXACT [OBOL:automatic] synonym: "smooth muscle tissue of iris" EXACT [OBOL:automatic] xref: BTO:0000655 xref: EMAPA:35448 xref: FMA:312338 xref: MA:0001270 is_a: UBERON:0003386 {source="MA"} ! smooth muscle of eye intersection_of: UBERON:0001135 ! smooth muscle tissue intersection_of: part_of UBERON:0001769 ! iris relationship: part_of UBERON:0001606 ! muscle of iris property_value: editor_note "see notes for muscle of iris." xsd:string [Term] id: UBERON:0004236 name: arteriole smooth muscle namespace: uberon def: "A portion of smooth muscle tissue that is part of an arteriole [Automatically generated definition]." [OBOL:automatic] xref: EMAPA:36287 xref: FMA:312251 xref: MA:0000706 is_a: UBERON:0004237 ! blood vessel smooth muscle is_a: UBERON:0004695 ! arterial system smooth muscle intersection_of: UBERON:0001135 ! smooth muscle tissue intersection_of: part_of UBERON:0001980 ! arteriole relationship: part_of UBERON:0001980 ! arteriole [Term] id: UBERON:0004237 name: blood vessel smooth muscle namespace: uberon alt_id: UBERON:0010508 def: "Smooth muscle found within, and composing the majority of the wall of blood vessels." [http://en.wikipedia.org/wiki/Vascular_smooth_muscle] def: "Smooth muscle found within, and composing the majority of the wall of blood vessels." [Wikipedia:Vascular_smooth_muscle] def: "smooth muscle found within, and composing the majority of the wall of blood vessels." [http://en.wikipedia.org/wiki/Vascular_smooth_muscle] subset: pheno_slim synonym: "blood vessel involuntary muscle" EXACT [OBOL:automatic] synonym: "blood vessel non-striated muscle" EXACT [OBOL:automatic] synonym: "blood vessel smooth muscle tissue" EXACT [OBOL:automatic] synonym: "involuntary muscle of blood vessel" EXACT [OBOL:automatic] synonym: "non-striated muscle of blood vessel" EXACT [OBOL:automatic] synonym: "smooth muscle of blood vessel" EXACT [OBOL:automatic] synonym: "smooth muscle tissue of blood vessel" EXACT [OBOL:automatic] synonym: "vascular smooth muscle" EXACT [ZFA:0005321] synonym: "vascular smooth muscle tissue" EXACT [] xref: BTO:0001431 xref: CALOHA:TS-1107 xref: EMAPA:35177 xref: http://en.wikipedia.org/wiki/Vascular_smooth_muscle xref: http://linkedlifedata.com/resource/umls/id/C1519956 xref: MA:0000710 xref: MESH:D009131 xref: NCIT:C33853 xref: TAO:0005321 xref: UMLS:C1519956 {source="ncithesaurus:Vascular_Smooth_Muscle_Tissue"} xref: Wikipedia:Vascular_smooth_muscle xref: ZFA:0005321 is_a: UBERON:0001135 ! smooth muscle tissue intersection_of: UBERON:0001135 ! smooth muscle tissue intersection_of: part_of UBERON:0001981 ! blood vessel relationship: part_of UBERON:0001981 ! blood vessel property_value: UBPROP:0000009 "Vascular smooth muscle contracts or relaxes to both change the volume of blood vessels and the local blood pressure, a mechanism that is responsible for the redistribution of the blood within the body to areas where it is needed (i.e. areas with temporarily enhanced oxygen consumption). Thus the main function of vascular smooth muscle tonus is to regulate the caliber of the blood vessels in the body. Excessive vasoconstriction leads to hypertension, while excessive vasodilation as in shock leads to hypotension." xsd:string [Term] id: UBERON:0004246 name: outflow tract smooth muscle namespace: uberon def: "A portion of smooth muscle tissue that is part of a outflow tract [Automatically generated definition]." [OBOL:automatic] synonym: "involuntary muscle of outflow tract" EXACT [OBOL:automatic] synonym: "non-striated muscle of outflow tract" EXACT [OBOL:automatic] synonym: "outflow tract involuntary muscle" EXACT [OBOL:automatic] synonym: "outflow tract non-striated muscle" EXACT [OBOL:automatic] synonym: "outflow tract smooth muscle tissue" EXACT [OBOL:automatic] synonym: "smooth muscle of outflow tract" EXACT [OBOL:automatic] synonym: "smooth muscle tissue of outflow tract" EXACT [OBOL:automatic] xref: EMAPA:37708 {source="MA:th"} xref: MA:0000492 is_a: UBERON:0001135 ! smooth muscle tissue intersection_of: UBERON:0001135 ! smooth muscle tissue intersection_of: part_of UBERON:0004145 ! outflow tract relationship: part_of UBERON:0004145 ! outflow tract [Term] id: UBERON:0004247 name: bone of dorsum namespace: uberon def: "A bone that is part of the dorsal region of an animal." [http://orcid.org/0000-0002-6601-2165] subset: grouping_class synonym: "back bone" RELATED [MA:0000494] synonym: "bone of back" RELATED [OBOL:automatic] synonym: "dorsal region bone" RELATED [http://orcid.org/0000-0002-6601-2165] xref: EMAPA:37248 {source="MA:th"} xref: MA:0000494 is_a: UBERON:0001474 ! bone element is_a: UBERON:0005174 ! dorsal region element intersection_of: UBERON:0001474 ! bone element intersection_of: part_of UBERON:0001137 ! dorsum property_value: IAO:0000232 "this class may be obsoleted. See: https://github.com/obophenotype/mouse-anatomy-ontology/issues/93" xsd:string property_value: UBPROP:0000006 https://github.com/obophenotype/uberon/wiki/Skeleton-partonomy-Design-Pattern xsd:anyURI [Term] id: UBERON:0004253 name: skin muscle namespace: uberon alt_id: UBERON:0015797 def: "Any muscle organ that is part of a skin of body [Automatically generated definition]." [OBOL:automatic] synonym: "integumental system muscle" EXACT [MA:0003139] synonym: "muscle of integumental system" EXACT [EMAPA:18187] synonym: "muscle organ of skin" EXACT [OBOL:automatic] synonym: "skin muscle organ" EXACT [OBOL:automatic] xref: EMAPA:18187 xref: EMAPA:35776 xref: MA:0002710 xref: MA:0003139 is_a: UBERON:0001630 ! muscle organ intersection_of: UBERON:0001630 ! muscle organ intersection_of: part_of UBERON:0002416 ! integumental system relationship: located_in UBERON:0002097 ! skin of body relationship: part_of UBERON:0002416 ! integumental system property_value: editor_note "review as part of general integumentary system review - part of skin, or more generally, integumental system" xsd:string property_value: UBPROP:0000012 "in MA, the only skin muscle is arrector pili. The only integumental muscle is panniculus carnosus. In EMAPA, the arrector pili only" xsd:string {external_ontology="MA"} [Term] id: UBERON:0004258 name: back blood vessel namespace: uberon def: "A blood vessel that is part of a back [Automatically generated definition]." [OBOL:automatic] synonym: "blood vessel of back" EXACT [OBOL:automatic] xref: EMAPA:37243 {source="MA:th"} xref: MA:0000493 is_a: UBERON:0001981 ! blood vessel intersection_of: UBERON:0001981 ! blood vessel intersection_of: part_of UBERON:0001137 ! dorsum relationship: part_of UBERON:0001137 ! dorsum [Term] id: UBERON:0004265 name: outflow tract myocardium namespace: uberon def: "A myocardium that is part of a outflow tract [Automatically generated definition]." [OBOL:automatic] synonym: "cardiac muscle of outflow tract" EXACT [OBOL:automatic] synonym: "heart muscle of outflow tract" EXACT [OBOL:automatic] synonym: "heart myocardium of outflow tract" EXACT [OBOL:automatic] synonym: "muscle of heart of outflow tract" EXACT [OBOL:automatic] synonym: "myocardium of outflow tract" EXACT [OBOL:automatic] synonym: "outflow tract cardiac muscle" EXACT [OBOL:automatic] synonym: "outflow tract heart muscle" EXACT [OBOL:automatic] synonym: "outflow tract heart myocardium" EXACT [OBOL:automatic] synonym: "outflow tract muscle of heart" EXACT [OBOL:automatic] xref: EHDAA2:0001358 xref: EMAPA:35623 xref: MA:0000489 xref: VHOG:0000603 is_a: UBERON:0002349 ! myocardium intersection_of: UBERON:0002349 ! myocardium intersection_of: part_of UBERON:0004145 ! outflow tract relationship: part_of UBERON:0004145 ! outflow tract property_value: UBPROP:0000003 "(...) (theme) is how the vertebrate cardiovascular system differs from that of the presumptive evolutionary chordate ancestor. (...) At best we can tell there are two essential new ingredients: (1) vertebrates all have a continuous endothelial lining to the heart and vessels and (2) vertebrates have developed a second chamber in the heart, one designed for generating high systemic blood pressure.[uncertain][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000603", ontology="VHOG", source="PMID:9187138 Fishman MC, Chien KR, Fashioning the vertebrate heart: earliest embryonic decisions. Development (1997)", source="http://bgee.unil.ch/"} property_value: UBPROP:0000003 "(...) (theme) is how the vertebrate cardiovascular system differs from that of the presumptive evolutionary chordate ancestor. (...) At best we can tell there are two essential new ingredients: (1) vertebrates all have a continuous endothelial lining to the heart and vessels and (2) vertebrates have developed a second chamber in the heart, one designed for generating high systemic blood pressure.[uncertain][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000603", ontology="VHOG", source="http://bgee.unil.ch/", source="PMID:9187138 Fishman MC, Chien KR, Fashioning the vertebrate heart: earliest embryonic decisions. Development (1997)"} [Term] id: UBERON:0004267 name: back connective tissue namespace: uberon def: "A portion of connective tissue that is part of a back [Automatically generated definition]." [OBOL:automatic] synonym: "mesenchyne of back" RELATED [OBOL:automatic] xref: EMAPA:37256 {source="MA:th"} xref: MA:0000495 is_a: UBERON:0002384 ! connective tissue intersection_of: UBERON:0002384 ! connective tissue intersection_of: part_of UBERON:0001137 ! dorsum relationship: part_of UBERON:0001137 ! dorsum [Term] id: UBERON:0004271 name: outflow tract pericardium namespace: uberon def: "A pericardium that is part of a outflow tract [Automatically generated definition]." [OBOL:automatic] synonym: "pericardium of outflow tract" EXACT [OBOL:automatic] xref: EMAPA:37707 {source="MA:th"} xref: MA:0000491 is_a: UBERON:0002407 ! pericardium is_a: UBERON:0004120 ! mesoderm-derived structure intersection_of: UBERON:0002407 ! pericardium intersection_of: part_of UBERON:0004145 ! outflow tract relationship: part_of UBERON:0004145 ! outflow tract [Term] id: UBERON:0004277 name: eye muscle namespace: uberon def: "A muscle that is part of the eye region." [OBOL:automatic] subset: pheno_slim xref: AAO:0000156 xref: EMAPA:35335 xref: MA:0000271 xref: OpenCyc:Mx8Ngx4rwKSh9pwpEbGdrcN5Y29ycB4rvViTvpwpEbGdrcN5Y29ycB4rvYA8cJwpEbGdrcN5Y29ycA is_a: UBERON:0001630 ! muscle organ is_a: UBERON:0004121 ! ectoderm-derived structure intersection_of: UBERON:0001630 ! muscle organ intersection_of: part_of UBERON:0000019 ! camera-type eye relationship: contributes_to_morphology_of UBERON:0000019 ! camera-type eye relationship: part_of UBERON:0000019 {source="MA"} ! camera-type eye [Term] id: UBERON:0004288 name: skeleton namespace: uberon def: "Anatomical cluster that consists of all the skeletal elements (eg., bone, cartilage, and teeth) of the body." [VSAO:0000026] subset: efo_slim subset: pheno_slim subset: uberon_slim synonym: "set of all bones" EXACT [] synonym: "set of bones of body" EXACT [] xref: AEO:0000168 xref: EHDAA2:0001843 xref: EHDAA:5047 xref: EMAPA:17213 xref: FMA:23875 xref: GAID:177 xref: galen:Skeleton xref: http://en.wikipedia.org/wiki/Skeleton xref: http://www.snomedbrowser.com/Codes/Details/361378004 xref: MA:0003006 xref: MAT:0000032 xref: MESH:D012863 xref: MIAA:0000032 xref: OpenCyc:Mx4rvVi1rpwpEbGdrcN5Y29ycA xref: SCTID:361378004 xref: VSAO:0000026 xref: Wikipedia:Skeleton xref: XAO:0004053 is_a: UBERON:0034925 ! anatomical collection disjoint_from: UBERON:0004770 ! articular system relationship: has_member UBERON:0004765 ! skeletal element relationship: has_part UBERON:0004765 ! skeletal element relationship: part_of UBERON:0001434 ! skeletal system property_value: RO:0002171 UBERON:0000383 property_value: seeAlso https://github.com/obophenotype/uberon/wiki/The-skeletal-system xsd:anyURI property_value: UBPROP:0000001 "Anatomical cluster that consists of all the skeletal elements (eg., bone, cartilage, and teeth) of the body.[VSAO]" xsd:string {date_retrieved="2012-08-14", external_class="VSAO:0000026", ontology="VSAO", source="GO_REF:0000034, http://dx.plos.org/10.1371/journal.pone.0051070"} property_value: UBPROP:0000007 "skeletal" xsd:string [Term] id: UBERON:0004290 name: dermomyotome namespace: uberon def: "The bilaminar epithelium formed from the myotome and dermatome." [AEO:0000214] synonym: "dermamyotome" RELATED [VHOG:0000676] synonym: "dermomyotomes" RELATED PLURAL [VHOG:0000676] xref: AAO:0010572 xref: AEO:0000214 xref: EHDAA2:0003259 xref: EMAPA:31109 xref: FMA:295654 xref: http://linkedlifedata.com/resource/umls/id/C1511786 xref: NCIT:C34140 xref: TAO:0001513 xref: UMLS:C1511786 {source="ncithesaurus:Dermomyotome"} xref: VHOG:0000676 xref: ZFA:0001513 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000486 {source="AEO"} ! multilaminar epithelium is_a: UBERON:0016888 {source="AEO"} ! transitional anatomical structure relationship: develops_from UBERON:0002329 {source="EHDAA2", source="ZFA"} ! somite relationship: has_part CL:0000075 ! columnar/cuboidal epithelial cell property_value: UBPROP:0000001 "all but the sclerotome of a mesodermal somite; the primordium of skeletal muscle and, perhaps, of the dermis." xsd:string {source="http://medical-dictionary.thefreedictionary.com/dermomyotome"} property_value: UBPROP:0000001 "all but the sclerotome of a mesodermal somite; the primordium of skeletal muscle and, perhaps, of the dermis." xsd:string {source="http://medical-dictionary.thefreedictionary.com/dermomyotome"} property_value: UBPROP:0000001 "Epithelial sheet on the external surface of the somite that gives rise to trunk, muscle and dermis. Within the dermomyotome there is also a medio-lateral difference. The central region makes dermis, the mesenchymal connective tissue of the back skin. The medial region (closest to neural tube) makes epaxial muscle, and the lateral region (furthest from neural tube) makes hypaxial muscle[http://www.ncbi.nlm.nih.gov/bookshelf/br.fcgi?book=eurekah&part=A66768]." xsd:string {source="http://www.ncbi.nlm.nih.gov/bookshelf/br.fcgi?book=eurekah&part=A66768"} property_value: UBPROP:0000001 "Epithelial sheet on the external surface of the somite that gives rise to trunk, muscle and dermis. Within the dermomyotome there is also a medio-lateral difference. The central region makes dermis, the mesenchymal connective tissue of the back skin. The medial region (closest to neural tube) makes epaxial muscle, and the lateral region (furthest from neural tube) makes hypaxial muscle[http://www.ncbi.nlm.nih.gov/bookshelf/br.fcgi?book=eurekah&part=A66768]." xsd:string {source="http://www.ncbi.nlm.nih.gov/bookshelf/br.fcgi?book=eurekah&part=A66768"} property_value: UBPROP:0000001 "Epithelial sheet on the external surface of the somite that gives rise to trunk, muscle and dermis.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0001513", ontology="TAO", source="ZFIN:curator"} property_value: UBPROP:0000001 "Portion of somites that gives rise to dermis and muscles.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0010572", ontology="AAO", source="AAO:EJS"} property_value: UBPROP:0000003 "Thus, representatives of the agnathan vertebrates, chondrichthyans, and sarcopterygians all have a layer of undifferentiated cells external to the embryonic myotome. In the amniotes, this external cell layer is the dermomyotome. The simplest interpretation of the similar position, morphology, and lack of myosin labeling is that a dermomyotome epithelium is a shared, ancestral vertebrate characteristic.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000676", ontology="VHOG", source="DOI:10.1111/j.1525-142X.2006.05079.x Devoto SH, Stoiber W, Hammond CL, Steinbacher P, Haslett JR, Barresi MJF, Patterson SE, Adiarte EG and Hughes SM, Generality of vertebrate developmental patterns: evidence for a dermomyotome in fish. Evolution and Development (2006)", source="http://bgee.unil.ch/"} property_value: UBPROP:0000003 "Thus, representatives of the agnathan vertebrates, chondrichthyans, and sarcopterygians all have a layer of undifferentiated cells external to the embryonic myotome. In the amniotes, this external cell layer is the dermomyotome. The simplest interpretation of the similar position, morphology, and lack of myosin labeling is that a dermomyotome epithelium is a shared, ancestral vertebrate characteristic.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000676", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1111/j.1525-142X.2006.05079.x Devoto SH, Stoiber W, Hammond CL, Steinbacher P, Haslett JR, Barresi MJF, Patterson SE, Adiarte EG and Hughes SM, Generality of vertebrate developmental patterns: evidence for a dermomyotome in fish. Evolution and Development (2006)"} [Term] id: UBERON:0004291 name: heart rudiment namespace: uberon def: "A cone-like structure that is formed when myocardial progenitor cells of the heart field fuse at the midline. The heart rudiment is the first structure of the heart tube." [GO:0003313] synonym: "heart cone" EXACT [GO:0003313] synonym: "rudimentary heart" EXACT [ZFA:0000115] xref: TAO:0000115 xref: ZFA:0000115 is_a: UBERON:0012275 ! meso-epithelium relationship: develops_from UBERON:0004139 ! cardiogenic plate property_value: UBPROP:0000001 "The migrating myocardial precursors of the heart rudiment form a cone like structure between 19.5hpf and 22hpf, and eventually telescope out into the primitive heart tube at 24hpf. Stainier 2001.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0000115", ontology="TAO", source="ZFIN:curator"} [Term] id: UBERON:0004292 name: cardiac skeleton namespace: uberon def: "Dense connective tissue that separates the atria from the ventricles and provides physical support for the heart." [GO:0003204, Wikipedia:Cardiac_skeleton] def: "Dense connective tissue that separates the atria from the ventricles and provides physical support for the heart." [GO:0003204, http://en.wikipedia.org/wiki/Cardiac_skeleton] synonym: "anulus fibrosus dexter cordis" RELATED LATIN [http://en.wikipedia.org/wiki/Cardiac_skeleton] synonym: "anulus fibrosus dexter cordis" RELATED LATIN [Wikipedia:Cardiac_skeleton] synonym: "anulus fibrosus sinister cordis" RELATED LATIN [Wikipedia:Cardiac_skeleton] synonym: "anulus fibrosus sinister cordis" RELATED LATIN [http://en.wikipedia.org/wiki/Cardiac_skeleton] synonym: "cardiac fibrous skeleton" EXACT [EMAPA:36645] synonym: "fibrous skeleton of heart" EXACT [] synonym: "heart fibrous skeleton" EXACT [GO:0003204] synonym: "skeleton of heart" EXACT [FMA:9496] synonym: "trigona fibrosa" RELATED LATIN [http://en.wikipedia.org/wiki/Cardiac_skeleton] synonym: "trigona fibrosa" RELATED LATIN [Wikipedia:Cardiac_skeleton] synonym: "trigonum fibrosum dextrum cordis" RELATED LATIN [Wikipedia:Cardiac_skeleton] synonym: "trigonum fibrosum dextrum cordis" RELATED LATIN [http://en.wikipedia.org/wiki/Cardiac_skeleton] synonym: "trigonum fibrosum sinistrum cordis" RELATED LATIN [Wikipedia:Cardiac_skeleton] synonym: "trigonum fibrosum sinistrum cordis" RELATED LATIN [http://en.wikipedia.org/wiki/Cardiac_skeleton] xref: Cardiac:skeleton xref: EMAPA:36645 xref: FMA:9496 xref: Wikipedia:Cardiac_skeleton is_a: UBERON:0003837 ! thoracic segment connective tissue is_a: UBERON:0004120 ! mesoderm-derived structure relationship: adjacent_to UBERON:0002081 ! cardiac atrium relationship: adjacent_to UBERON:0002082 ! cardiac ventricle relationship: part_of UBERON:0000948 ! heart property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/5/50/Gray495.png xsd:anyURI property_value: UBPROP:0000009 "It is not a true skeleton, but it does provide structure and support for the heart, as well as isolating the atria from the ventricles. This allows the AV node and AV bundle to delay the wave of depolarisation such that the atria can contract and assist in ventricular filling before the ventricles themselves depolarise and contract (the AV bundle is the only part of the conduction system that passes from the atria to the ventricles in a normal heart). It also allows the valves (bicuspid, tricuspid, semilunar) to keep open by giving them structural support[WP]" xsd:string [Term] id: UBERON:0004297 name: respiratory system blood vessel smooth muscle namespace: uberon def: "A blood vessel smooth muscle that is part of a respiratory system [Automatically generated definition]." [OBOL:automatic] synonym: "smooth muscle tissue of blood vessel of respiratory system" EXACT [OBOL:automatic] xref: EMAPA:37573 {source="MA:th"} xref: MA:0001806 is_a: UBERON:0004225 ! respiratory system smooth muscle is_a: UBERON:0004237 ! blood vessel smooth muscle intersection_of: UBERON:0001135 ! smooth muscle tissue intersection_of: part_of UBERON:0003504 ! respiratory system blood vessel relationship: part_of UBERON:0003504 ! respiratory system blood vessel [Term] id: UBERON:0004348 name: optic eminence namespace: uberon def: "The embryonic structure that gives rise to the corneal ectoderm" [MP:0006305] def: "The embryonic structure that gives rise to the corneal ectoderm." [MP:0006305] subset: pheno_slim xref: EHDAA:938 xref: EMAPA:16322 xref: RETIRED_EHDAA2:0001308 xref: VHOG:0001296 is_a: UBERON:0006598 ! presumptive structure relationship: has_potential_to_develop_into UBERON:0000964 ! cornea [Term] id: UBERON:0004356 name: apical ectodermal ridge namespace: uberon def: "Multilayered ectodermal region at the distal tip of a limb or fin bud necessary for the proper development of the underlying mesenchyme[MP,modified]. Along with the zone of polarizing activity, it is a crucial organizing region during limb development[WP]." [http://en.wikipedia.org/wiki/Apical_ectodermal_ridge, MP:0001676] subset: pheno_slim synonym: "AER" RELATED [MP:0001676] synonym: "apical epidermal ridge" EXACT [XAO:0004121] synonym: "crista ectodermalis apicalis" RELATED LATIN [http://en.wikipedia.org/wiki/Apical_ectodermal_ridge] xref: AAO:0010760 xref: EMAPA:32744 xref: http://en.wikipedia.org/wiki/Apical_ectodermal_ridge xref: http://linkedlifedata.com/resource/umls/id/C1516037 xref: NCIT:C34109 xref: TAO:0002146 xref: UMLS:C1516037 {source="ncithesaurus:Apical_Ectodermal_Ridge"} xref: XAO:0004121 xref: ZFA:0001702 is_a: CARO:0000003 ! connected anatomical structure is_a: UBERON:0002050 ! embryonic structure relationship: capable_of GO:0010464 ! regulation of mesenchymal cell proliferation relationship: capable_of GO:0061037 ! negative regulation of cartilage development relationship: developmentally_induced_by UBERON:0003104 ! mesenchyme relationship: part_of UBERON:0000924 ! ectoderm relationship: part_of UBERON:0004357 ! paired limb/fin bud relationship: produces PR:000007499 ! fibroblast growth factor 8 property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/5/56/Limbbuddiagram.jpg xsd:anyURI property_value: IAO:0000232 "note that media, dorsal fins etc have AERs." xsd:string property_value: UBPROP:0000001 "Distal ectodermal thickening which forms along the anterior-posterior limb axis. Signaling from this region influences proximal-distal patterning of the limb. Structure is missing in some lineages (salamanders, Eleutherodactylus coqui) however morphologically their indistinct distal ectoderm may still be involved in signaling.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0010760", ontology="AAO", source="AAO:EJS"} property_value: UBPROP:0000001 "Proliferative region that is part of the developing fin fold or fin.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0002146", ontology="TAO", source="ZFIN:curator"} property_value: UBPROP:0000002 "relationship loss: subclass proliferative region (TAO:0000098)[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0002146", ontology="TAO"} property_value: UBPROP:0000008 "The AER of tetrapods regresses after specification of skeletal progenitors, the AER of teleosts form an elongating fin fold" xsd:string {source="http://www.ncbi.nlm.nih.gov/pubmed/20574421"} property_value: UBPROP:0000009 "maintaining mesenchyme in plastic proliferating state; maintaining expression of A-P axis genes; interacting with D-V proteins. Genes: AER induced by Fgf10 in mesenchyme. AER secretes Fgf8, which stimulates mitosis in the mesenchyme causing Fgf10 production - positive feedback loop" xsd:string [Term] id: UBERON:0004357 name: paired limb/fin bud namespace: uberon def: "An outgrowth on the lateral trunk of the embryo that develops into a limb or paired fin. The limb/fin bud is divided into ectoderm and mesenchyme[cjm, modified from MP]." [https://orcid.org/0000-0002-6601-2165, ISBN:9780878932504, MP:0005650] comment: Genes: In limb buds of chick and mouse, Shh expression is activated as soon as there is a morphological bud, whereas in S. canicula fin buds, consistent with reported data in other cartilaginous fishes, Shh is transcribed late in fin development[PMID:17187056] subset: homology_grouping synonym: "limb - fin bud" EXACT [VHOG:0001258] synonym: "paired appendage bud" EXACT [] synonym: "paired limb/fin bud" EXACT [VHOG:0001258] xref: VHOG:0001258 is_a: UBERON:0003102 ! surface structure is_a: UBERON:0006598 ! presumptive structure relationship: has_developmental_contribution_from UBERON:0005732 ! paired limb/fin field relationship: has_part UBERON:0004356 ! apical ectodermal ridge relationship: has_potential_to_develop_into UBERON:0004708 ! paired limb/fin property_value: UBPROP:0000003 "The tetrapod limb is derived from a posterior part of the fin endoskeleton of elasmobranchs and basal bony fish, the so-called metapterygium, a series of endoskeletal elements that is the first to form in the developing paired fins. (...) In addition, there is an independent endoskeletal element called the protopterygium that develops anterior to the metapterygium in many basal fishes (e.g., the bichir and sturgeon). Teleosts have lost the metapterygium whereas the sarcopterygians, on the other hand, have lost the protopterygium. Sarcopterygians thus develop all their endoskeletal structures from the metapterygium and consequently the tetrapod limb skeleton is derived from the metapterygium.[uncertain][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001258", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1002/jez.1100 Wagner GP, Chiu C, The tetrapod limb: A hypothesis on its origin. J Exp Zool (Mol Dev Evol) (2001)"} [Term] id: UBERON:0004362 name: pharyngeal arch 1 namespace: uberon def: "The first of the series of pharyngeal arches that develop into jaw bones or their homologs, and their associated nerves and arteries" [http://orcid.org/0000-0002-6601-2165] def: "The first of the series of pharyngeal arches that develop into jaw bones or their homologs, and their associated nerves and arteries." [http://orcid.org/0000-0002-6601-2165] subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "1st arch" RELATED [EHDAA2:0000006] synonym: "1st pharyngeal arch" EXACT [] synonym: "1st visceral arch" RELATED [VHOG:0000296] synonym: "arcus pharyngeus primus" RELATED LATIN [Wikipedia:First_pharyngeal_arch] synonym: "arcus pharyngeus primus" RELATED LATIN [http://en.wikipedia.org/wiki/First_pharyngeal_arch] synonym: "branchial arch 1" EXACT SENSU [] synonym: "first branchial arch" EXACT SENSU [] synonym: "first pharyngeal arch" EXACT [] synonym: "first visceral arch" EXACT SENSU [] synonym: "mandibular arch" EXACT [] synonym: "visceral arch 1" EXACT SENSU [] xref: AAO:0010364 xref: CALOHA:TS-2089 xref: EHDAA2:0000006 xref: EHDAA:573 xref: EMAPA:16118 xref: FMA:293019 xref: http://en.wikipedia.org/wiki/First_pharyngeal_arch xref: http://linkedlifedata.com/resource/umls/id/C1517197 xref: http://www.snomedbrowser.com/Codes/Details/308767008 xref: MFMO:0000095 xref: NCIT:C34175 xref: SCTID:308767008 xref: TAO:0001595 xref: UMLS:C1517197 {source="ncithesaurus:First_Pharyngeal_Arch"} xref: VHOG:0000296 xref: Wikipedia:First_pharyngeal_arch xref: XAO:0000097 xref: ZFA:0001612 is_a: UBERON:0002539 ! pharyngeal arch property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/2/2d/Gray48.png xsd:anyURI property_value: UBPROP:0000001 "the first arch which contributes to development of mastication muscles, maxilla, mandible, incus, malleus, Meckel's cartilage, trigeminal nerve, and maxillary artery" xsd:string {source="MP:0006337,MGI:smb"} property_value: UBPROP:0000001 "The first of the series of bony or cartilaginous arches that develop in the walls of the mouth cavity and pharynx of the embryo.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0010364", ontology="AAO", source="XAO:EJS"} property_value: UBPROP:0000003 "A conserved feature of all vertebrate embryos is the presence of a series of bulges on the lateral surface of the head, the pharyngeal arches; it is within these structures that the nerves, muscles and skeletal components of the pharyngeal apparatus are laid down. The pharyngeal arches are separated by endodermal outpocketings, the pharyngeal pouches.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000296", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1111/j.1469-7580.2005.00472.x Graham A, Okabe M and Quinlan R, The role of the endoderm in the development and evolution of the pharyngeal arches. J Anat (2005)"} property_value: UBPROP:0000003 "A conserved feature of all vertebrate embryos is the presence of a series of bulges on the lateral surface of the head, the pharyngeal arches; it is within these structures that the nerves, muscles and skeletal components of the pharyngeal apparatus are laid down. The pharyngeal arches are separated by endodermal outpocketings, the pharyngeal pouches.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000296", ontology="VHOG", source="DOI:10.1111/j.1469-7580.2005.00472.x Graham A, Okabe M and Quinlan R, The role of the endoderm in the development and evolution of the pharyngeal arches. J Anat (2005)", source="http://bgee.unil.ch/"} property_value: UBPROP:0000103 "1" xsd:nonNegativeInteger [Term] id: UBERON:0004363 name: pharyngeal arch artery namespace: uberon alt_id: UBERON:0004342 def: "One of a series of paired embryological vascular structures formed within a pharyngeal arch; in the adult, some of these vessels give rise to the great vessels[MP]." [MP:0002672] subset: efo_slim subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "a. arcuum pharyngeorum" RELATED LATIN [Wikipedia:Aortic_arches] synonym: "a. arcuum pharyngeorum" RELATED LATIN [http://en.wikipedia.org/wiki/Aortic_arches] synonym: "aortic arch" EXACT [ZFA:0005004] synonym: "aortic arch artery" RELATED [EMAPA:16684] synonym: "aortic arches" EXACT PLURAL [ZFA:0005004] synonym: "arteriae arcuum pharyngeorum" RELATED LATIN [http://en.wikipedia.org/wiki/Aortic_arches] synonym: "arteriae arcuum pharyngeorum" RELATED LATIN [Wikipedia:Aortic_arches] synonym: "branchial aortic arches" EXACT PLURAL [ZFIN:ZDB-PUB-080512-6] synonym: "branchial aortic arches" RELATED PLURAL [ZFA:0005004, ZFIN:ZDB-PUB-080512-6] synonym: "branchial arch artery" EXACT [EMAPA:16684] synonym: "embryonic aortic arch artery" EXACT [EMAPA:16684, MP:0002672] synonym: "PAA" EXACT ABBREVIATION [MP:0002672] synonym: "pharyngeal arch arteries" RELATED PLURAL [] synonym: "pharyngeal arch artery" EXACT [MP:0002672] synonym: "pharyngeal arch artery" RELATED [VHOG:0000122] xref: AAO:0010414 xref: Aortic:arches xref: EFO:0003695 xref: EHDAA2:0000186 xref: EHDAA:398 xref: EHDAA:7327 xref: EMAPA:16684 xref: http://linkedlifedata.com/resource/umls/id/C0003489 xref: NCIT:C32123 xref: TAO:0005004 xref: UMLS:C0003489 {source="ncithesaurus:Aortic_Arch"} xref: VHOG:0000122 xref: Wikipedia:Aortic_arches xref: XAO:0000341 xref: ZFA:0005004 is_a: UBERON:0003469 ! respiratory system artery is_a: UBERON:0003496 ! head blood vessel is_a: UBERON:0006598 ! presumptive structure is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: contributes_to_morphology_of UBERON:0002539 ! pharyngeal arch relationship: has_potential_to_develop_into UBERON:0001637 ! artery relationship: part_of UBERON:0002539 ! pharyngeal arch relationship: part_of UBERON:0007303 {source="ZFA"} ! pharyngeal vasculature property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/8/84/Gray473.png xsd:anyURI property_value: editor_note "add specific artery derivatives" xsd:string property_value: IAO:0000232 "Do not confuse with arch of aorta." xsd:string property_value: UBPROP:0000001 "Paired vessels arching from the ventral to the dorsal aorta through the pharyngeal arches. [TFD][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000122", ontology="VHOG", source="http://bgee.unil.ch/", source="http://medical-dictionary.thefreedictionary.com/aortic+arches"} property_value: UBPROP:0000001 "Paired vessels arching from the ventral to the dorsal aorta through the pharyngeal arches. [TFD][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000122", ontology="VHOG", source="http://bgee.unil.ch/", source="http://medical-dictionary.thefreedictionary.com/aortic+arches"} property_value: UBPROP:0000003 "When vertebrates first appeared, they must have possessed a ventral and dorsal aorta with aortic arches between them.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000122", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.620"} property_value: UBPROP:0000003 "When vertebrates first appeared, they must have possessed a ventral and dorsal aorta with aortic arches between them.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000122", ontology="VHOG", source="ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.620", source="http://bgee.unil.ch/"} property_value: UBPROP:0000008 "Number varies - Lampreys have 8, hagfishes 15; only up to 6 appear in embryonic development in most gnathostome fishes and all tetrapods" xsd:string property_value: UBPROP:0000011 "The third, fourth, and sixth arches, along with the seventh intersegmental arteries and the left dorsal aorta, are the primary contributors to the normal aortic arch and its major thoracic branches" xsd:string [Term] id: UBERON:0004367 name: Descemet's membrane namespace: uberon def: "A transparent homogeneous acellular layer found between the substantia propria and the endothelial layer of the cornea[MP]." [https://github.com/obophenotype/uberon/issues/15, MP:0004285] comment: The strong, resistant, thin, noncellular fourth layer of the cornea, located between the endothelium (from which it is secreted) and the stroma. (Cline et al., Dictionary of Visual Science, 4th ed) subset: pheno_slim subset: vertebrate_core synonym: "Descemet membrane" EXACT [] synonym: "Descemet's posterior elastic lamina" EXACT [FMA:58309] synonym: "lamina limitans posterior" EXACT [FMA:58309] synonym: "lamina limitans posterior corneae" EXACT LATIN [FMA:58309, FMA:TA] synonym: "posterior limiting lamina" EXACT [MA:0001246] synonym: "posterior limiting lamina of cornea" EXACT [FMA:58309] synonym: "posterior limiting membrane" EXACT [ZFA:0001686] xref: Descemet%27s:membrane xref: EMAPA:18804 xref: FMA:58309 xref: GAID:894 xref: http://linkedlifedata.com/resource/umls/id/C0011665 xref: http://www.snomedbrowser.com/Codes/Details/281076002 xref: MA:0001246 xref: MESH:D003886 xref: NCIT:C32454 xref: SCTID:281076002 xref: TAO:0002157 xref: UMLS:C0011665 {source="ncithesaurus:Descemet_s_Membrane"} xref: Wikipedia:Descemet%27s_membrane xref: ZFA:0001686 is_a: UBERON:0005769 ! basement membrane of epithelium is_a: UBERON:0010313 ! neural crest-derived structure intersection_of: UBERON:0005769 ! basement membrane of epithelium intersection_of: adjacent_to UBERON:0001777 ! substantia propria of cornea intersection_of: adjacent_to UBERON:0001985 ! corneal endothelium intersection_of: part_of UBERON:0000964 ! cornea disjoint_from: UBERON:0004370 {source="lexical"} ! anterior limiting lamina of cornea relationship: adjacent_to UBERON:0001777 ! substantia propria of cornea relationship: adjacent_to UBERON:0001985 ! corneal endothelium relationship: has_quality PATO:0000964 ! transparent relationship: part_of UBERON:0000964 ! cornea relationship: produced_by UBERON:0001985 {source="Cline et al"} ! corneal endothelium property_value: http://purl.org/dc/elements/1.1/contributor https://github.com/cmungall property_value: http://purl.org/dc/elements/1.1/contributor https://github.com/gkoutos property_value: seeAlso https://github.com/obophenotype/uberon/issues/15 xsd:anyURI property_value: UBPROP:0000001 "Acellular anatomical structure composed of collagen, Descemet's membrane is secreted as a basement membrane of the corneal endothelium. Located between the stroma and the corneal endothelium, it is approximately 0.15 micrometer thick at 6 months post-fertilization.[ZFIN]" xsd:string {date_retrieved="2016-05-01", external_class="TAO:0002157", ontology="ZFIN", source="https://orcid.org/0000-0001-9114-8737", source="ZFIN:ZDB-PUB-061010-3"} property_value: UBPROP:0000001 "Acellular anatomical structure composed of collagen, Descemet's membrane is secreted as a basement membrane of the corneal endothelium. Located between the stroma and the corneal endothelium, it is approximately 0.15 micrometer thick at 6 months post-fertilization.[ZFIN]" xsd:string {date_retrieved="2016-05-01", external_class="TAO:0002157", ontology="ZFIN", source="ZFIN:ZDB-PUB-061010-3", source="https://orcid.org/0000-0001-9114-8737"} [Term] id: UBERON:0004370 name: anterior limiting lamina of cornea namespace: uberon def: "A transparent homogeneous acellular layer, 6 to 9 um thick, lying between the basal lamina of the outer layer of stratified epithelium and the substantia propria of the cornea; it is considered to be a basement membrane." [ncithesaurus:Bowman_s_Membrane] subset: pheno_slim subset: vertebrate_core synonym: "anterior elastic lamina" EXACT [ZFA:0001684] synonym: "anterior limiting lamina" EXACT [MA:0001240] synonym: "anterior limiting lamina of cornea" EXACT [FMA:58273] synonym: "anterior limiting membrane" RELATED [ZFA:0001684] synonym: "Bowman's anterior elastic lamina" EXACT [FMA:58273] synonym: "Bowman's layer" EXACT [FMA:58273] synonym: "Bowman's membrane" EXACT [FMA:58273] synonym: "lamina limitans anterior (cornea)" EXACT [FMA:58273] synonym: "lamina limitans anterior corneae" EXACT LATIN [FMA:58273, FMA:TA] synonym: "Reichert's membrane" RELATED DUBIOUS [http://sourceforge.net/tracker/?func=detail&aid=2956371&group_id=76834&atid=974957] xref: Bowman%27s:membrane xref: FMA:58273 xref: http://linkedlifedata.com/resource/umls/id/C0229127 xref: http://www.snomedbrowser.com/Codes/Details/281075003 xref: MA:0001240 xref: NCIT:C32226 xref: SCTID:281075003 xref: TAO:0002155 xref: UMLS:C0229127 {source="ncithesaurus:Bowman_s_Membrane"} xref: Wikipedia:Bowman%27s_membrane xref: ZFA:0001684 is_a: CARO:0000003 ! connected anatomical structure is_a: UBERON:0005769 ! basement membrane of epithelium is_a: UBERON:0010313 ! neural crest-derived structure intersection_of: UBERON:0005769 ! basement membrane of epithelium intersection_of: attaches_to UBERON:0001772 ! corneal epithelium intersection_of: part_of UBERON:0000964 ! cornea relationship: attaches_to UBERON:0001772 ! corneal epithelium relationship: part_of RO:0002577 ! system relationship: part_of UBERON:0000964 ! cornea property_value: UBPROP:0000001 "Acellular anatomical structure that is the zone of collagen fibers adjacent the basement membrane of the corneal epithelium.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0002155", ontology="TAO", source="ZFIN:ZDB-PUB-061010-3"} property_value: UBPROP:0000008 "Compared to terrestial animals, the cornea of zebrafish is relatively flat. It consists of nonpigmented, stratified squamous nonkeratinizing epithelial cells, attached to a thick basement membrane that is considered to be analogous to the Bowman's membrane in mammals" xsd:string [Term] id: UBERON:0004375 name: bone of free limb or fin namespace: uberon def: "A bone that is part of an appendage [Automatically generated definition]." [OBOL:automatic] subset: homology_grouping synonym: "appendage bone" EXACT [] synonym: "bone of appendage" EXACT [] synonym: "bone of free segment of appendicular skeleton" EXACT [] is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0010740 ! bone of appendage girdle complex intersection_of: UBERON:0001474 ! bone element intersection_of: part_of UBERON:0004708 ! paired limb/fin relationship: part_of UBERON:0011582 ! paired limb/fin skeleton [Term] id: UBERON:0004455 name: neurula embryo namespace: uberon alt_id: UBERON:0007013 def: "An embryo at the neurula stage." [http://orcid.org/0000-0002-6601-2165] synonym: "neurula" EXACT [BTO:0001766] xref: BILA:0000061 xref: BTO:0001766 xref: http://linkedlifedata.com/resource/umls/id/C1518306 xref: NCIT:C34229 xref: UMLS:C1518306 {source="ncithesaurus:Neurula"} is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000922 ! embryo intersection_of: UBERON:0000468 ! multicellular organism intersection_of: existence_starts_and_ends_during UBERON:0000110 ! neurula stage relationship: develops_from UBERON:0004734 ! gastrula relationship: existence_starts_and_ends_during UBERON:0000110 ! neurula stage [Term] id: UBERON:0004456 name: entire sense organ system namespace: uberon def: "Sum of all sensory systems in an organism." [http://orcid.org/0000-0002-6601-2165] subset: uberon_slim synonym: "sense organ system" EXACT [FMA:78499] xref: FMA:78499 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000467 ! anatomical system relationship: existence_ends_during UBERON:0000066 ! fully formed stage relationship: overlaps UBERON:0001016 ! nervous system property_value: UBPROP:0000012 "note the distinct between entire sensory system and individual system. this reconciles is_a and part_of distinctions between ssAOs" xsd:string [Term] id: UBERON:0004461 name: skeletal musculature of head namespace: uberon def: "Any collection of skeletal muscles that is part of a head [Automatically generated definition]." [OBOL:automatic] comment: This class is restricted to skeletal muscles that attach to the cranial skeleton. This seems to be consistent with FMA and EMAPA usage. Note that by definition this excludes invertebrate head musculature. It corresponds to the individual muscle organ term UBERON:0002376 subset: non_informative synonym: "head musculature" EXACT [FMA:71287] synonym: "muscle group of head" EXACT [FMA:71287] synonym: "muscles of head" EXACT [FMA:71287] synonym: "musculi capitis" EXACT LATIN [FMA:71287, FMA:TA] synonym: "set of muscles of head" EXACT [FMA:71287] xref: EMAPA:18171 xref: FMA:71287 is_a: CARO:0000003 ! connected anatomical structure is_a: UBERON:0008229 ! craniocervical region musculature intersection_of: UBERON:0001015 ! musculature intersection_of: attaches_to UBERON:0003129 ! skull intersection_of: part_of UBERON:0000033 ! head relationship: attaches_to UBERON:0003129 ! skull relationship: develops_from UBERON:0005253 ! head mesenchyme relationship: part_of UBERON:0000033 ! head relationship: part_of UBERON:0013700 ! axial musculature property_value: seeAlso https://github.com/obophenotype/mouse-anatomy-ontology/issues/4 xsd:anyURI property_value: seeAlso https://github.com/obophenotype/uberon/issues/1405 xsd:anyURI [Term] id: UBERON:0004464 name: musculature of thorax namespace: uberon def: "Any collection of muscles that is part of a thorax [Automatically generated definition]." [OBOL:automatic] subset: pheno_slim synonym: "muscle group of thorax" EXACT [FMA:71293] synonym: "muscles of thorax" EXACT [FMA:71293] synonym: "musculi thoracis" EXACT LATIN [FMA:71293, FMA:TA] synonym: "set of muscles of thorax" EXACT [FMA:71293] synonym: "thoracic musculature" EXACT [FMA:71293] xref: BTO:0000508 xref: EMAPA:37260 {source="MA:th"} xref: FMA:71293 is_a: UBERON:0004479 ! musculature of trunk intersection_of: UBERON:0001015 ! musculature intersection_of: part_of UBERON:0000915 ! thoracic segment of trunk relationship: part_of UBERON:0000915 ! thoracic segment of trunk property_value: UBPROP:0000012 "BTO and FMA do not mean precisely the same thing here. BTO thorax muscle is a pectoral muscle or diaphragm" xsd:string {external_ontology="BTO"} [Term] id: UBERON:0004465 name: musculature of neck namespace: uberon def: "Any collection of muscles that is part of a neck [Automatically generated definition]." [OBOL:automatic] subset: pheno_slim synonym: "cervical muscles" EXACT [AAO:0000091] synonym: "muscle group of neck" EXACT [FMA:71290] synonym: "muscles of neck" EXACT [FMA:71290] synonym: "musculi cervicis" EXACT LATIN [FMA:71290, FMA:TA] synonym: "musculi colli" EXACT LATIN [FMA:71290, FMA:TA] synonym: "neck musculature" EXACT [FMA:71290] synonym: "set of muscles of neck" EXACT [FMA:71290] xref: AAO:0000091 xref: EMAPA:36050 xref: FMA:71290 xref: MESH:D009334 is_a: UBERON:0008229 ! craniocervical region musculature intersection_of: UBERON:0001015 ! musculature intersection_of: part_of UBERON:0000974 ! neck relationship: part_of UBERON:0000974 ! neck [Term] id: UBERON:0004469 name: musculature of back namespace: uberon def: "Any collection of muscles that is part of a back [Automatically generated definition]." [OBOL:automatic] synonym: "muscle group of back" EXACT [FMA:71291] synonym: "muscles of back" EXACT [FMA:71291] synonym: "musculi dorsi" EXACT LATIN [FMA:71291, FMA:TA] synonym: "set of muscles of back" EXACT [FMA:71291] xref: FMA:71291 is_a: UBERON:0001015 ! musculature intersection_of: UBERON:0001015 ! musculature intersection_of: part_of UBERON:0001137 ! dorsum relationship: part_of UBERON:0001137 ! dorsum [Term] id: UBERON:0004470 name: musculature of pelvic girdle namespace: uberon alt_id: UBERON:0004485 alt_id: UBERON:0005633 def: "Any collection of muscles that is part of a pelvic girdle [Automatically generated definition]." [OBOL:automatic] subset: pheno_slim synonym: "muscle group of pelvic girdle" EXACT [FMA:50205] synonym: "muscle group of pelvis" EXACT [FMA:50248] synonym: "muscular system of pelvis" RELATED [FMA:50248] synonym: "pelvic girdle muscle system" EXACT [EHDAA2:0001429] synonym: "pelvic girdle muscles" EXACT [AAO:0000427] synonym: "pelvic girdle musculature" EXACT [FMA:50205] synonym: "set of muscles of pelvic girdle" EXACT [FMA:50205] synonym: "set of muscles of pelvis" RELATED [FMA:50248] xref: AAO:0000427 xref: EHDAA2:0001429 xref: EMAPA:18184 xref: FMA:50205 xref: FMA:50248 is_a: UBERON:0004479 ! musculature of trunk is_a: UBERON:0014792 ! musculature of pelvic complex intersection_of: UBERON:0001015 ! musculature intersection_of: part_of UBERON:0001271 ! pelvic girdle region relationship: part_of UBERON:0001271 ! pelvic girdle region property_value: UBPROP:0000012 "we merge two FMA classes here" xsd:string {external_ontology="FMA"} [Term] id: UBERON:0004471 name: musculature of pectoral girdle namespace: uberon def: "A subdivision of the musculature of the body in the pectoral girdle region. Includes pectoral and shoulder muscles." [https://orcid.org/0000-0002-6601-2165] subset: pheno_slim synonym: "muscle group of pectoral girdle" EXACT [FMA:33519] synonym: "pectoral girdle muscles" EXACT [AAO:0000423] synonym: "pectoral girdle musculature" EXACT [FMA:33519] synonym: "set of muscles of pectoral girdle" EXACT [FMA:33519] xref: AAO:0000423 xref: EMAPA:37857 {source="MA:th"} xref: FMA:33519 is_a: UBERON:0014793 ! musculature of pectoral complex intersection_of: UBERON:0001015 ! musculature intersection_of: part_of UBERON:0001421 ! pectoral girdle region relationship: part_of UBERON:0001421 ! pectoral girdle region [Term] id: UBERON:0004473 name: musculature of face namespace: uberon def: "Any collection of muscles that is part of a face." [OBOL:automatic] subset: pheno_slim synonym: "entire facial musculature" EXACT [https://orcid.org/0000-0002-6601-2165] synonym: "facial muscles" EXACT [FMA:71288] synonym: "muscle group of face" EXACT [FMA:71288] synonym: "musculi faciei" EXACT LATIN [FMA:71288, FMA:TA] synonym: "set of facial muscles" RELATED [FMA:71288] synonym: "set of muscles of face" RELATED [FMA:71288] xref: FMA:71288 is_a: UBERON:0008229 ! craniocervical region musculature intersection_of: UBERON:0001015 ! musculature intersection_of: part_of UBERON:0001456 ! face relationship: part_of UBERON:0001456 ! face property_value: editor_note "originally created to reflect the distinction drawn in FMA between a facial muscle and the entire musculature of the face. However, naming both does not serve any particular purpose" xsd:string [Term] id: UBERON:0004479 name: musculature of trunk namespace: uberon def: "Any collection of muscles that is part of a trunk [Automatically generated definition]." [OBOL:automatic] subset: efo_slim subset: pheno_slim synonym: "muscle group of trunk" EXACT [FMA:50187] synonym: "muscular system of trunk" RELATED [FMA:50187] synonym: "set of muscles of trunk" EXACT [FMA:50187] xref: AAO:0011572 xref: EFO:0003531 xref: FMA:50187 is_a: UBERON:0001015 ! musculature intersection_of: UBERON:0001015 ! musculature intersection_of: part_of UBERON:0002100 ! trunk relationship: part_of UBERON:0002100 ! trunk property_value: editor_note "currently defined by location rather than attachment" xsd:string [Term] id: UBERON:0004490 name: cardiac muscle tissue of atrium namespace: uberon def: "A portion of cardiac muscle tissue that is part of an atrium [Automatically generated definition]." [OBOL:automatic] synonym: "atrial cardiac muscle tissue" EXACT [GO:0055009] synonym: "atrial heart muscle" EXACT [GO:0055009] synonym: "atrial myocardium" RELATED [GO:0055009, GOC:mtg_heart] synonym: "cardiac atrium muscle" EXACT [GO:0055009] xref: FMA:7283 is_a: UBERON:0004493 ! cardiac muscle tissue of myocardium intersection_of: UBERON:0001133 ! cardiac muscle tissue intersection_of: part_of UBERON:0002081 ! cardiac atrium relationship: part_of UBERON:0002302 ! myocardium of atrium property_value: UBPROP:0000012 "in GO, this is equivalent to the atrial myocardium, but FMA distinguishes these two. Consider merging." xsd:string {external_ontology="GO"} [Term] id: UBERON:0004491 name: cardiac muscle tissue of interatrial septum namespace: uberon def: "A portion of cardiac muscle tissue that is part of a interatrial septum [Automatically generated definition]." [OBOL:automatic] synonym: "interatrial septum cardiac muscle tissue" EXACT [http://orcid.org/0000-0002-6601-2165] synonym: "interatrial septum heart muscle" EXACT [http://orcid.org/0000-0002-6601-2165] synonym: "interatrial septum muscle" EXACT [http://orcid.org/0000-0002-6601-2165] synonym: "interatrial septum myocardium" EXACT [http://orcid.org/0000-0002-6601-2165] xref: FMA:84083 is_a: UBERON:0004492 ! cardiac muscle tissue of cardiac septum intersection_of: UBERON:0001133 ! cardiac muscle tissue intersection_of: part_of UBERON:0002085 ! interatrial septum relationship: part_of UBERON:0002085 ! interatrial septum [Term] id: UBERON:0004492 name: cardiac muscle tissue of cardiac septum namespace: uberon def: "A portion of cardiac muscle tissue that is part of a cardiac septum [Automatically generated definition]." [OBOL:automatic] synonym: "cardiac septum cardiac muscle tissue" EXACT [http://orcid.org/0000-0002-6601-2165] synonym: "cardiac septum heart muscle" EXACT [http://orcid.org/0000-0002-6601-2165] synonym: "cardiac septum muscle" EXACT [http://orcid.org/0000-0002-6601-2165] synonym: "cardiac septum myocardium" EXACT [http://orcid.org/0000-0002-6601-2165] xref: FMA:226279 is_a: UBERON:0001133 ! cardiac muscle tissue intersection_of: UBERON:0001133 ! cardiac muscle tissue intersection_of: part_of UBERON:0002099 ! cardiac septum relationship: part_of UBERON:0002099 ! cardiac septum [Term] id: UBERON:0004493 name: cardiac muscle tissue of myocardium namespace: uberon def: "A portion of cardiac muscle tissue that is part of a myocardium [Automatically generated definition]." [OBOL:automatic] subset: pheno_slim xref: EMAPA:32688 xref: FMA:261726 xref: MA:0002441 is_a: UBERON:0001133 ! cardiac muscle tissue intersection_of: UBERON:0001133 ! cardiac muscle tissue intersection_of: part_of UBERON:0002349 ! myocardium relationship: part_of UBERON:0002349 {source="MA"} ! myocardium property_value: editor_note "Note placement of MA class based on parthood relationship" xsd:string [Term] id: UBERON:0004495 name: skeletal muscle tissue of diaphragm namespace: uberon def: "A portion of skeletal muscle tissue that is part of a diaphragm [Automatically generated definition]." [OBOL:automatic] xref: FMA:261898 is_a: UBERON:0003898 ! skeletal muscle tissue of trunk is_a: UBERON:0004830 ! respiratory system skeletal muscle intersection_of: UBERON:0001134 ! skeletal muscle tissue intersection_of: part_of UBERON:0001103 ! diaphragm relationship: part_of UBERON:0001103 ! diaphragm [Term] id: UBERON:0004521 name: vasculature of muscle organ namespace: uberon def: "A vasculature that is part of a muscle organ [Automatically generated definition]." [OBOL:automatic] synonym: "muscular organ vasculature" EXACT [FMA:87123] xref: FMA:87123 is_a: UBERON:0004522 ! vasculature of musculoskeletal system is_a: UBERON:0006876 ! vasculature of organ intersection_of: UBERON:0002049 ! vasculature intersection_of: part_of UBERON:0001630 ! muscle organ relationship: part_of UBERON:0001630 ! muscle organ [Term] id: UBERON:0004522 name: vasculature of musculoskeletal system namespace: uberon def: "A vasculature that is part of a musculoskeletal system [Automatically generated definition]." [OBOL:automatic] xref: FMA:239607 is_a: UBERON:0002049 ! vasculature intersection_of: UBERON:0002049 ! vasculature intersection_of: part_of UBERON:0002204 ! musculoskeletal system relationship: part_of UBERON:0002204 ! musculoskeletal system [Term] id: UBERON:0004535 name: cardiovascular system namespace: uberon def: "Anatomical system that has as its parts the heart and blood vessels." [BTO:0000088] subset: efo_slim subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "CV system" RELATED [BTO:0000088] synonym: "Herz und Gefaesssystem" RELATED [BTO:0000088] xref: AAO:0011001 xref: BILA:0000016 xref: BTO:0000088 xref: CALOHA:TS-1297 xref: EFO:0000791 xref: EHDAA2:0000216 xref: EHDAA:394 xref: EMAPA:16104 xref: EMAPA:16370 xref: EV:0100017 xref: FMA:7161 xref: GAID:467 xref: http://linkedlifedata.com/resource/umls/id/C0007226 xref: http://www.snomedbrowser.com/Codes/Details/278198007 xref: MA:0000010 xref: MAT:0000016 xref: MESH:D002319 xref: MIAA:0000016 xref: NCIT:C12686 xref: OpenCyc:Mx4rvVjzG5wpEbGdrcN5Y29ycA xref: SCTID:278198007 xref: TAO:0000010 xref: UMLS:C0007226 {source="ncithesaurus:Cardiovascular_System"} xref: VHOG:0000302 xref: WikipediaCategory:Cardiovascular_system xref: XAO:0000100 xref: XAO:0001010 xref: ZFA:0000010 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000467 ! anatomical system intersection_of: UBERON:0000467 ! anatomical system intersection_of: has_part UBERON:0000948 ! heart intersection_of: has_part UBERON:0001981 ! blood vessel intersection_of: part_of UBERON:0001009 ! circulatory system relationship: has_part UBERON:0000948 ! heart relationship: has_part UBERON:0001981 ! blood vessel relationship: part_of UBERON:0001009 ! circulatory system property_value: IAO:0000232 "we treat cardiovascular as part of circulatory system, with the latter including other kinds of circulation, including lymph." xsd:string property_value: UBPROP:0000003 "The vessels of the cardiovascular system are as varied as the diverse organs they supply. However, these variations are based on modifications of a fundamental plan of organization common to vertebrates.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000302", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.451"} property_value: UBPROP:0000003 "The vessels of the cardiovascular system are as varied as the diverse organs they supply. However, these variations are based on modifications of a fundamental plan of organization common to vertebrates.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000302", ontology="VHOG", source="ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.451", source="http://bgee.unil.ch/"} [Term] id: UBERON:0004537 name: blood vasculature namespace: uberon def: "A vascular network consisting of blood vessels." [https://orcid.org/0000-0002-6601-2165] synonym: "blood system" RELATED [] synonym: "blood vascular network" EXACT [] synonym: "blood vessel system" RELATED [] synonym: "blood vessels" RELATED [TAO:0001079] synonym: "set of blood vessels" EXACT [] xref: TAO:0001079 xref: ZFA:0001079 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0002049 ! vasculature intersection_of: UBERON:0002049 ! vasculature intersection_of: composed_primarily_of UBERON:0001981 ! blood vessel relationship: composed_primarily_of UBERON:0001981 ! blood vessel relationship: has_part UBERON:0001981 ! blood vessel [Term] id: UBERON:0004548 name: left eye namespace: uberon def: "An eye that is part of a left side of organism [Automatically generated definition]." [OBOL:automatic] subset: pheno_slim synonym: "left eyeball" EXACT [FMA:12515] synonym: "left orbital part of face" NARROW [FMA:54450] synonym: "left orbital region" NARROW [FMA:54450] xref: EMAPA:37362 {source="MA:th"} xref: FMA:12515 xref: http://www.snomedbrowser.com/Codes/Details/362503005 xref: MA:0002949 xref: NCIT:C119334 xref: SCTID:362503005 is_a: UBERON:0000970 ! eye is_a: UBERON:0015212 ! lateral structure intersection_of: UBERON:0000970 ! eye intersection_of: in_left_side_of UBERON:0000468 ! multicellular organism relationship: in_left_side_of UBERON:0000468 ! multicellular organism property_value: UBPROP:0000006 https://github.com/obophenotype/uberon/wiki/Modeling-paired-structures-Design-Pattern xsd:anyURI [Term] id: UBERON:0004549 name: right eye namespace: uberon def: "An eye that is part of a right side of organism [Automatically generated definition]." [OBOL:automatic] subset: pheno_slim synonym: "right eyeball" EXACT [FMA:12514] synonym: "right orbital part of face" NARROW [FMA:54449] synonym: "right orbital region" NARROW [FMA:54449] xref: EMAPA:37363 {source="MA:th"} xref: FMA:12514 xref: http://www.snomedbrowser.com/Codes/Details/362502000 xref: MA:0002950 xref: NCIT:C119333 xref: SCTID:362502000 is_a: UBERON:0000970 ! eye is_a: UBERON:0015212 ! lateral structure intersection_of: UBERON:0000970 ! eye intersection_of: in_right_side_of UBERON:0000468 ! multicellular organism relationship: in_right_side_of UBERON:0000468 ! multicellular organism property_value: UBPROP:0000006 https://github.com/obophenotype/uberon/wiki/Modeling-paired-structures-Design-Pattern xsd:anyURI [Term] id: UBERON:0004571 name: systemic arterial system namespace: uberon def: "The part of the arterial system which carries oxygenated blood away from the heart to the body, and returns deoxygenated blood back to the heart." [http://orcid.org/0000-0002-6601-2165, Wikipedia:Systemic_circulation#Arteries] def: "The part of the arterial system which carries oxygenated blood away from the heart to the body, and returns deoxygenated blood back to the heart." [http://en.wikipedia.org/wiki/Systemic_circulation#Arteries, http://orcid.org/0000-0002-6601-2165] subset: pheno_slim synonym: "systemic arterial circulatory system" EXACT [FMA:45623] xref: Arteries xref: FMA:45623 xref: Wikipedia:Systemic_circulation#Arteries is_a: UBERON:0007798 {source="MA-inferred"} ! vascular system relationship: part_of UBERON:0004572 ! arterial system [Term] id: UBERON:0004572 name: arterial system namespace: uberon def: "The part of the cardiovascular system consisting of all arteries." [https://orcid.org/0000-0002-6601-2165] subset: pheno_slim xref: BTO:0004690 xref: EHDAA2:0000143 xref: EHDAA:396 xref: EMAPA:16201 xref: EMAPA:16371 xref: http://www.snomedbrowser.com/Codes/Details/362030008 xref: MA:0002719 xref: SCTID:362030008 xref: VHOG:0000273 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0007798 {source="MA"} ! vascular system relationship: has_member UBERON:0001637 ! artery property_value: UBPROP:0000003 "The appearance of Chordata and subsequently the vertebrates is accompanied by a rapid structural diversification of this primitive linear heart: looping, unidirectional circulation, an enclosed vasculature, and the conduction system.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000273", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1196/annals.1341.002 Bishopric NH, Evolution of the heart from bacteria to man. Annals of the New York Academy of Sciences (2005)"} property_value: UBPROP:0000003 "The appearance of Chordata and subsequently the vertebrates is accompanied by a rapid structural diversification of this primitive linear heart: looping, unidirectional circulation, an enclosed vasculature, and the conduction system.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000273", ontology="VHOG", source="DOI:10.1196/annals.1341.002 Bishopric NH, Evolution of the heart from bacteria to man. Annals of the New York Academy of Sciences (2005)", source="http://bgee.unil.ch/"} [Term] id: UBERON:0004573 name: systemic artery namespace: uberon def: "An artery of the systemic circulation, which is the part of the cardiovascular system which carries oxygenated blood away from the heart, to the body, and returns deoxygenated blood back to the heart." [http://en.wikipedia.org/wiki/Artery#Systemic_arteries, http://orcid.org/0000-0002-6601-2165] def: "An artery of the systemic circulation, which is the part of the cardiovascular system which carries oxygenated blood away from the heart, to the body, and returns deoxygenated blood back to the heart." [http://orcid.org/0000-0002-6601-2165, Wikipedia:Artery#Systemic_arteries] subset: pheno_slim synonym: "systemic arterial subtree" EXACT [FMA:66464] xref: EMAPA:37126 {source="MA:th"} xref: FMA:66464 xref: Systemic_arteries xref: Wikipedia:Artery#Systemic_arteries is_a: UBERON:0001637 ! artery intersection_of: UBERON:0001637 ! artery intersection_of: part_of UBERON:0004571 ! systemic arterial system relationship: part_of UBERON:0004571 ! systemic arterial system [Term] id: UBERON:0004581 name: systemic venous system namespace: uberon def: "The part of the venous system that drains the general body tissues[Kardong]" [http://en.wikipedia.org/wiki/Systemic_venous_system, ISBN:0073040584] def: "The part of the venous system that drains the general body tissues[Kardong]." [ISBN:0073040584, Wikipedia:Systemic_venous_system] def: "The part of the venous system that drains the general body tissues[Kardong]." [http://en.wikipedia.org/wiki/Systemic_venous_system, ISBN:0073040584] synonym: "systemic venous circulatory system" EXACT [FMA:45626] xref: FMA:45626 xref: http://en.wikipedia.org/wiki/Systemic_venous_system xref: Wikipedia:Systemic_venous_system is_a: UBERON:0002049 ! vasculature relationship: part_of UBERON:0004582 ! venous system property_value: UBPROP:0000001 "In human anatomy, the systemic venous system refers to veins that drain into the right atrium without passing through two vascular beds (i.e. they originate from a set of capillaries and do not pass through a second set of capillaries before reaching the right side of the heart). The term systemic venous system is often used to differentiate veins from veins that drain the pulmonary system (the pulmonary venous system) and veins that drain the digestive tract (the portal venous system). Large veins that are considered part of the systemic venous system are the: Superior vena cava; Inferior vena cava[WP]" xsd:string {source="Wikipedia:Systemic_venous_system"} property_value: UBPROP:0000001 "In human anatomy, the systemic venous system refers to veins that drain into the right atrium without passing through two vascular beds (i.e. they originate from a set of capillaries and do not pass through a second set of capillaries before reaching the right side of the heart). The term systemic venous system is often used to differentiate veins from veins that drain the pulmonary system (the pulmonary venous system) and veins that drain the digestive tract (the portal venous system). Large veins that are considered part of the systemic venous system are the: Superior vena cava; Inferior vena cava[WP]" xsd:string {source="http://en.wikipedia.org/wiki/Systemic_venous_system"} property_value: UBPROP:0000001 "Subdivision of cardiovascular system which has as its parts the right side of heart, the superior vena cava and the inferior vena cava[FMA]" xsd:string {ontology="FMA", source="FMA:45626"} property_value: UBPROP:0000003 "The appearance of Chordata and subsequently the vertebrates is accompanied by a rapid structural diversification of this primitive linear heart: looping, unidirectional circulation, an enclosed vasculature, and the conduction system.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000277", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1196/annals.1341.002 Bishopric NH, Evolution of the heart from bacteria to man. Annals of the New York Academy of Sciences (2005)"} property_value: UBPROP:0000003 "The appearance of Chordata and subsequently the vertebrates is accompanied by a rapid structural diversification of this primitive linear heart: looping, unidirectional circulation, an enclosed vasculature, and the conduction system.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000277", ontology="VHOG", source="DOI:10.1196/annals.1341.002 Bishopric NH, Evolution of the heart from bacteria to man. Annals of the New York Academy of Sciences (2005)", source="http://bgee.unil.ch/"} [Term] id: UBERON:0004582 name: venous system namespace: uberon def: "The part of the cardiovascular system consisting of all venous vessels. In vertebrates with a double circulation, this can be divided into systemic and pulmonary portions." [https://orcid.org/0000-0002-6601-2165] synonym: "vein system" EXACT [] xref: BTO:0004692 xref: EHDAA2:0002171 xref: EHDAA:486 xref: EMAPA:16240 xref: http://linkedlifedata.com/resource/umls/id/C1267406 xref: http://www.snomedbrowser.com/Codes/Details/362060003 xref: MA:0002720 xref: NCIT:C33858 xref: SCTID:362060003 xref: UMLS:C1267406 {source="ncithesaurus:Venous_System"} xref: VHOG:0000277 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0007798 {source="MA"} ! vascular system relationship: composed_primarily_of UBERON:0001638 ! vein property_value: UBPROP:0000003 "The appearance of Chordata and subsequently the vertebrates is accompanied by a rapid structural diversification of this primitive linear heart: looping, unidirectional circulation, an enclosed vasculature, and the conduction system.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000277", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1196/annals.1341.002 Bishopric NH, Evolution of the heart from bacteria to man. Annals of the New York Academy of Sciences (2005)"} property_value: UBPROP:0000003 "The appearance of Chordata and subsequently the vertebrates is accompanied by a rapid structural diversification of this primitive linear heart: looping, unidirectional circulation, an enclosed vasculature, and the conduction system.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000277", ontology="VHOG", source="DOI:10.1196/annals.1341.002 Bishopric NH, Evolution of the heart from bacteria to man. Annals of the New York Academy of Sciences (2005)", source="http://bgee.unil.ch/"} [Term] id: UBERON:0004638 name: blood vessel endothelium namespace: uberon def: "An endothelium that lines the blood vasculature. Other endothelia may line lymph vessels, the heart" [https://orcid.org/0000-0002-6601-2165] def: "An endothelium that lines the blood vasculature. Other endothelia may line lymph vessels, the heart." [https://orcid.org/0000-0002-6601-2165] subset: pheno_slim subset: vertebrate_core xref: BTO:0000766 xref: CALOHA:TS-2155 xref: EMAPA:35176 xref: http://linkedlifedata.com/resource/umls/id/C1706972 xref: MA:0000709 xref: NCIT:C53395 xref: TAO:0005257 xref: UMLS:C1706972 {source="ncithesaurus:Blood_Vessel_Endothelium"} xref: ZFA:0005257 is_a: UBERON:0004852 ! cardiovascular system endothelium intersection_of: UBERON:0001986 ! endothelium intersection_of: part_of UBERON:0001981 ! blood vessel relationship: part_of UBERON:0001981 ! blood vessel [Term] id: UBERON:0004663 name: aorta wall namespace: uberon def: "An anatomical wall that is part of an aorta, enclosing the luminal space." [http://orcid.org/0000-0002-6601-2165] subset: pheno_slim synonym: "aortic wall" EXACT [FMA:14156] synonym: "wall of aorta" EXACT [FMA:14156] xref: EMAPA:35139 xref: FMA:14156 xref: MA:0002901 is_a: UBERON:0035965 ! wall of blood vessel intersection_of: UBERON:0000060 ! anatomical wall intersection_of: part_of UBERON:0000947 ! aorta relationship: contributes_to_morphology_of UBERON:0000947 ! aorta relationship: part_of UBERON:0000947 ! aorta [Term] id: UBERON:0004664 name: aorta tunica adventitia namespace: uberon def: "The outermost layer of the aorta wall, containing connective tissue and collagen and elastic fibers." [ISBN:0-683-40008-8, MP:0009871] subset: pheno_slim synonym: "tunica adventitia of aorta" EXACT [FMA:14283] xref: EMAPA:35136 xref: FMA:14283 xref: http://www.snomedbrowser.com/Codes/Details/24996002 xref: MA:0002902 xref: SCTID:24996002 is_a: UBERON:0005734 ! tunica adventitia of blood vessel intersection_of: UBERON:0005734 ! tunica adventitia of blood vessel intersection_of: part_of UBERON:0000947 ! aorta relationship: contributes_to_morphology_of UBERON:0004663 ! aorta wall relationship: part_of UBERON:0004663 ! aorta wall [Term] id: UBERON:0004667 name: interventricular septum muscular part namespace: uberon alt_id: UBERON:0004144 def: "The muscular portion of the wall between the two lower chambers of the heart." [http://en.wikipedia.org/wiki/Interventricular_septum#Portions, http://orcid.org/0000-0002-6601-2165] def: "The muscular portion of the wall between the two lower chambers of the heart." [http://orcid.org/0000-0002-6601-2165, Wikipedia:Interventricular_septum#Portions] subset: pheno_slim synonym: "cardiac ventricular muscular septum" EXACT [http://orcid.org/0000-0002-6601-2165] synonym: "muscular interventricular septum" EXACT [FMA:7134] synonym: "muscular interventricular septum" RELATED [MA:0002940] synonym: "muscular part interventricular septum" EXACT [] synonym: "muscular part of interventricular septum" EXACT [FMA:7134] synonym: "muscular septum" BROAD [GO:0003150] synonym: "pars muscularis (septi interventricularis)" EXACT [FMA:7134] synonym: "pars muscularis septi interventricularis" EXACT LATIN [FMA:7134, FMA:TA] synonym: "septum membranaceum" EXACT LATIN [] synonym: "ventricular muscular septum" EXACT [] xref: EHDAA2:0000885 xref: EHDAA:2607 xref: EMAPA:18247 xref: FMA:7134 xref: MA:0002940 xref: RETIRED_EHDAA2:0000888 is_a: UBERON:0002385 ! muscle tissue intersection_of: UBERON:0002385 ! muscle tissue intersection_of: part_of UBERON:0002094 ! interventricular septum relationship: contributes_to_morphology_of UBERON:0002094 ! interventricular septum relationship: part_of UBERON:0002094 ! interventricular septum property_value: UBPROP:0000001 "The muscular septum is the lower part of the ventricular septum[GO]" xsd:string {source="GO:0003150"} [Term] id: UBERON:0004684 name: raphe nuclei namespace: uberon def: "The raphe nuclei are thin plates of cells in and immediately adjacent to the sagittal plane." [https://sourceforge.net/tracker/?func=detail&aid=3248146&group_id=36855&atid=440764, NLXANAT:20090205] comment: we treat NR obscurus, NR magnus etc as parts of the raphe nuclei. This is consistent with treatment in FMA, where the class is 'set of raphe nuclei' subset: vertebrate_core synonym: "nuclei raphes" EXACT LATIN [FMA:84017, FMA:TA] synonym: "nuclei raphes" RELATED LATIN [Wikipedia:Raphe_nuclei] synonym: "raphe cluster" RELATED [Wikipedia:Raphe_nuclei] synonym: "raphe nuclei" EXACT [FMA:84017] synonym: "raphe nuclei" EXACT [NLXANAT:20090205] synonym: "raphe nuclei set" EXACT [FMA:84017] synonym: "raphe nucleus" RELATED [ZFA:0001429] synonym: "raphe of mesenchephalon" RELATED [BAMS:RA] synonym: "set of raphe nuclei" RELATED [FMA:84017] xref: BAMS:RA xref: EMAPA:35721 xref: FMA:84017 xref: http://braininfo.rprc.washington.edu/centraldirectory.aspx?ID=2495 xref: MA:0003147 xref: MESH:A08.186.211.132.659.632 xref: NCIT:C97335 xref: NLXANAT:20090205 xref: TAO:0001429 xref: UMLS:C0034671 {source="ncithesaurus:Raphe_Nuclei"} xref: Wikipedia:Raphe_nuclei xref: ZFA:0001429 is_a: UBERON:0002616 ! regional part of brain relationship: capable_of GO:0001820 {source="Wikipedia"} ! serotonin secretion relationship: part_of UBERON:0002275 {source="GO", source="Wikipedia"} ! reticular formation property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/9/94/Gray694.png xsd:anyURI [Term] id: UBERON:0004688 name: costo-cervical trunk namespace: uberon def: "The costocervical trunk arises from the upper and back part of the subclavian artery, behind the scalenus anterior on the right side, and medial to that muscle on the left side. Passing backward, it splits into the deep cervical artery and the supreme intercostal artery (or the Highest intercostal artery), which descends behind the pleura in front of the necks of the first and second ribs, and anastomoses with the first aortic intercostal (3rd posterior intercostal artery). As it crosses the neck of the first rib it lies medial to the anterior division of the first thoracic nerve, and lateral to the first thoracic ganglion of the sympathetic trunk. In the first intercostal space, it gives off a branch which is distributed in a manner similar to the distribution of the aortic intercostals. The branch for the second intercostal space usually joins with one from the highest aortic intercostal artery. This branch is not constant, but is more commonly found on the right side; when absent, its place is supplied by an intercostal branch from the aorta. Each intercostal gives off a posterior branch which goes to the posterior vertebral muscles, and sends a small spinal branch through the corresponding intervertebral foramen to the medulla spinalis and its membranes. [WP,unvetted]." [http://en.wikipedia.org/wiki/Costocervical_trunk] def: "The costocervical trunk arises from the upper and back part of the subclavian artery, behind the scalenus anterior on the right side, and medial to that muscle on the left side. Passing backward, it splits into the deep cervical artery and the supreme intercostal artery (or the Highest intercostal artery), which descends behind the pleura in front of the necks of the first and second ribs, and anastomoses with the first aortic intercostal (3rd posterior intercostal artery). As it crosses the neck of the first rib it lies medial to the anterior division of the first thoracic nerve, and lateral to the first thoracic ganglion of the sympathetic trunk. In the first intercostal space, it gives off a branch which is distributed in a manner similar to the distribution of the aortic intercostals. The branch for the second intercostal space usually joins with one from the highest aortic intercostal artery. This branch is not constant, but is more commonly found on the right side; when absent, its place is supplied by an intercostal branch from the aorta. Each intercostal gives off a posterior branch which goes to the posterior vertebral muscles, and sends a small spinal branch through the corresponding intervertebral foramen to the medulla spinalis and its membranes. [WP,unvetted]." [Wikipedia:Costocervical_trunk] synonym: "costocervical trunk" EXACT [FMA:10636] synonym: "truncus costocervicalis" RELATED LATIN [Wikipedia:Costocervical_trunk] synonym: "truncus costocervicalis" RELATED LATIN [http://en.wikipedia.org/wiki/Costocervical_trunk] synonym: "trunk of costocervical artery" EXACT [FMA:10636] xref: Costocervical:trunk xref: EMAPA:37496 {source="MA:th"} xref: FMA:10636 xref: http://www.snomedbrowser.com/Codes/Details/244225009 xref: MA:0001939 xref: SCTID:244225009 xref: Wikipedia:Costocervical_trunk is_a: UBERON:0001637 ! artery relationship: connected_to UBERON:0001533 {subset="human_reference_atlas"} ! subclavian artery relationship: part_of RO:0002577 ! system property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/b/b3/Costocervical_trunk_with_branches.png xsd:anyURI [Term] id: UBERON:0004695 name: arterial system smooth muscle namespace: uberon def: "A portion of smooth muscle tissue that is part of an arterial system [Automatically generated definition]." [OBOL:automatic] xref: EMAPA:36503 xref: MA:0000704 is_a: UBERON:0001135 ! smooth muscle tissue intersection_of: UBERON:0001135 ! smooth muscle tissue intersection_of: part_of UBERON:0004572 ! arterial system relationship: part_of UBERON:0004572 ! arterial system [Term] id: UBERON:0004696 name: venous system smooth muscle namespace: uberon def: "A portion of smooth muscle tissue that is part of a venous system [Automatically generated definition]." [OBOL:automatic] xref: EMAPA:36613 xref: MA:0000715 is_a: UBERON:0004237 ! blood vessel smooth muscle intersection_of: UBERON:0001135 ! smooth muscle tissue intersection_of: part_of UBERON:0004582 ! venous system relationship: part_of UBERON:0004237 ! blood vessel smooth muscle relationship: part_of UBERON:0004582 ! venous system [Term] id: UBERON:0004698 name: vena cava endothelium namespace: uberon def: "An endothelium that is part of a vena cava [Automatically generated definition]." [OBOL:automatic] xref: EMAPA:37800 {source="MA:th"} xref: http://linkedlifedata.com/resource/umls/id/C1710623 xref: MA:0000713 xref: NCIT:C49318 xref: UMLS:C1710623 {source="ncithesaurus:Vena_Cava_Endothelium"} is_a: UBERON:0001919 ! endothelium of vein intersection_of: UBERON:0001986 ! endothelium intersection_of: part_of UBERON:0004087 ! vena cava relationship: part_of UBERON:0004087 ! vena cava [Term] id: UBERON:0004699 name: outflow tract endothelium namespace: uberon def: "An endothelium that is part of a outflow tract [Automatically generated definition]." [OBOL:automatic] xref: MA:0000490 xref: VHOG:0001524 is_a: UBERON:0008307 ! heart endothelium intersection_of: UBERON:0001986 ! endothelium intersection_of: part_of UBERON:0004145 ! outflow tract relationship: part_of UBERON:0004145 ! outflow tract property_value: UBPROP:0000003 "It is assumed that during evolution, a circulatory system composed of the heart and endothelial tubular system first formed in vertebrates, medial smooth muscle then appeared for regulation of the system, and innervation of the muscle tissue took place. This sequence of development assumed for phylogenesis is actually realized in the ontogenetic processes.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001524", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1254/jjp.87.253 Shigei T, Tsuru H, Ishikawa N, Yoshioka K, Absence of endothelium in invertebrate blood vessels: significance of endothelium and sympathetic nerve/medial smooth muscle in the vertebrate vascular system. Japanese Journal of Pharmacology (2001)"} property_value: UBPROP:0000003 "It is assumed that during evolution, a circulatory system composed of the heart and endothelial tubular system first formed in vertebrates, medial smooth muscle then appeared for regulation of the system, and innervation of the muscle tissue took place. This sequence of development assumed for phylogenesis is actually realized in the ontogenetic processes.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001524", ontology="VHOG", source="DOI:10.1254/jjp.87.253 Shigei T, Tsuru H, Ishikawa N, Yoshioka K, Absence of endothelium in invertebrate blood vessels: significance of endothelium and sympathetic nerve/medial smooth muscle in the vertebrate vascular system. Japanese Journal of Pharmacology (2001)", source="http://bgee.unil.ch/"} [Term] id: UBERON:0004700 name: arterial system endothelium namespace: uberon def: "An endothelium that is part of an arterial system [Automatically generated definition]." [OBOL:automatic] xref: EMAPA:35145 xref: http://linkedlifedata.com/resource/umls/id/C1706849 xref: MA:0000703 xref: NCIT:C49329 xref: UMLS:C1706849 {source="ncithesaurus:Arterial_System_Endothelium"} is_a: UBERON:0004852 ! cardiovascular system endothelium intersection_of: UBERON:0001986 ! endothelium intersection_of: part_of UBERON:0004572 ! arterial system relationship: part_of UBERON:0004572 ! arterial system [Term] id: UBERON:0004701 name: venous system endothelium namespace: uberon def: "An endothelium that is part of a venous system [Automatically generated definition]." [OBOL:automatic] xref: EMAPA:35907 xref: http://linkedlifedata.com/resource/umls/id/C1710626 xref: MA:0000714 xref: NCIT:C49320 xref: UMLS:C1710626 {source="ncithesaurus:Venous_System_Endothelium"} is_a: UBERON:0004852 ! cardiovascular system endothelium intersection_of: UBERON:0001986 ! endothelium intersection_of: part_of UBERON:0004582 ! venous system relationship: part_of UBERON:0004582 ! venous system [Term] id: UBERON:0004702 name: respiratory system blood vessel endothelium namespace: uberon def: "A blood vessel endothelium that is part of a respiratory system [Automatically generated definition]." [OBOL:automatic] xref: EMAPA:35732 xref: MA:0001805 is_a: UBERON:0004638 ! blood vessel endothelium is_a: UBERON:0004807 ! respiratory system epithelium intersection_of: UBERON:0004638 ! blood vessel endothelium intersection_of: part_of UBERON:0001004 ! respiratory system relationship: part_of UBERON:0003504 ! respiratory system blood vessel [Term] id: UBERON:0004706 name: bulbus cordis namespace: uberon def: "A transient fetal dilation of the distal (or cranial) heart tube located where the arterial trunk joins the ventral roots of the aortic arches." [ISBN:0-683-40008-8, MP:0010568] subset: pheno_slim subset: vertebrate_core synonym: "primitive right ventricle endocardium" EXACT [EHDAA2:0000197, JB:def] xref: Bulbus:cordis xref: EHDAA2:0000197 xref: EHDAA:438 xref: EHDAA:768 xref: EMAPA:16333 xref: FMA:70300 xref: http://linkedlifedata.com/resource/umls/id/C1284055 xref: http://www.snomedbrowser.com/Codes/Details/361525002 xref: NCIT:C34114 xref: SCTID:361525002 xref: UMLS:C1284055 {source="ncithesaurus:Bulbus_Cordis"} xref: Wikipedia:Bulbus_cordis is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0002050 ! embryonic structure relationship: part_of UBERON:0000948 ! heart property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/c/c9/Gray466.png xsd:anyURI property_value: editor_note "TODO - check relationship to bulbus arteriosus" xsd:string property_value: UBPROP:0000001 "A pear shaped chamber that functions as a capacitor, maintaining continuous blood flow into the gill arches. The bulbus arteriosus has three distinct layers. Hu et al. 2000.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0000173", ontology="TAO", source="ZFIN:curator"} [Term] id: UBERON:0004708 name: paired limb/fin namespace: uberon alt_id: UBERON:0009872 def: "An appendage that is part of an appendage girdle complex." [https://github.com/geneontology/go-ontology/issues/9029, UBERON:cjm] subset: homology_grouping synonym: "girdle-associated appendage" EXACT [https://orcid.org/0000-0002-6601-2165] synonym: "jointed paired lateral appendage" NARROW [https://orcid.org/0000-0002-6601-2165] synonym: "limb or fin" EXACT [https://orcid.org/0000-0002-6601-2165] synonym: "limb/fin" EXACT [https://orcid.org/0000-0002-6601-2165] synonym: "paired appendage" NARROW [VSAO:0000067] synonym: "pectoral or pelvic appendage" EXACT [https://orcid.org/0000-0002-6601-2165] synonym: "pelvic/pectoral appendage" EXACT [https://orcid.org/0000-0002-6601-2165] xref: VSAO:0000067 is_a: CARO:0000003 ! connected anatomical structure is_a: UBERON:0000026 {source="VSAO"} ! appendage intersection_of: UBERON:0000026 ! appendage intersection_of: part_of UBERON:0010707 ! appendage girdle complex relationship: connected_to UBERON:0007823 ! appendage girdle region relationship: develops_from UBERON:0004357 {evidence="definitional"} ! paired limb/fin bud relationship: has_part UBERON:0000014 ! zone of skin relationship: has_part UBERON:0001015 ! musculature relationship: has_part UBERON:0002049 ! vasculature relationship: has_skeleton UBERON:0011582 ! paired limb/fin skeleton relationship: only_in_taxon NCBITaxon:7742 ! Vertebrata relationship: part_of RO:0002577 ! system relationship: part_of UBERON:0010707 {source="VSAO"} ! appendage girdle complex property_value: IAO:0000232 "this class is the union of the classes limb, pectoral fin and pelvic fin." xsd:string [Term] id: UBERON:0004709 name: pelvic appendage namespace: uberon alt_id: UBERON:0009876 def: "Paired appendage that consists of the posterior appendicular skeleton and associated soft and hard tissues, but excludes the pelvic girdle and its associated soft and hard tissues." [VSAO:0000150] subset: homology_grouping synonym: "hindlimb/pelvic fin" EXACT [https://orcid.org/0000-0002-6601-2165] synonym: "pelvic appendage" EXACT [VSAO:0000126] synonym: "pelvic limb/fin" EXACT [https://orcid.org/0000-0002-6601-2165] synonym: "posterior appendage" BROAD [] synonym: "posterior limb/fin" EXACT [] synonym: "posterior paired appendage" EXACT [VSAO:0000126] xref: VSAO:0000126 is_a: UBERON:0004708 ! paired limb/fin intersection_of: UBERON:0004708 ! paired limb/fin intersection_of: part_of UBERON:0010709 ! pelvic complex disjoint_from: UBERON:0004710 {source="lexical"} ! pectoral appendage relationship: connected_to UBERON:0001271 ! pelvic girdle region relationship: develops_from UBERON:0005420 {evidence="definitional"} ! pelvic appendage bud relationship: has_skeleton UBERON:0007273 ! pelvic appendage skeleton relationship: part_of UBERON:0010709 ! pelvic complex [Term] id: UBERON:0004710 name: pectoral appendage namespace: uberon alt_id: UBERON:0009875 def: "Paired appendage that consists of the anterior appendicular skeleton and associated soft and hard tissues, but excludes the pectoral girdle and its associated soft and hard tissues." [VSAO:0000150-modified] subset: homology_grouping synonym: "anterior appendage" BROAD [] synonym: "anterior limb/fin" EXACT [https://orcid.org/0000-0002-6601-2165] synonym: "anterior paired appendage" EXACT [VSAO:0000148] synonym: "forelimb - pectoral fin" EXACT [VHOG:0001753] synonym: "forelimb or pectoral fin" EXACT [https://orcid.org/0000-0002-6601-2165] synonym: "forelimb/pectoral fin" EXACT [https://orcid.org/0000-0002-6601-2165] synonym: "pectoral limb/fin" EXACT [https://orcid.org/0000-0002-6601-2165] xref: VHOG:0001753 xref: VSAO:0000125 is_a: UBERON:0004708 ! paired limb/fin intersection_of: UBERON:0004708 ! paired limb/fin intersection_of: part_of UBERON:0010708 ! pectoral complex relationship: connected_to UBERON:0001421 ! pectoral girdle region relationship: develops_from UBERON:0005419 {evidence="definitional"} ! pectoral appendage bud relationship: has_skeleton UBERON:0007272 ! pectoral appendage skeleton relationship: part_of UBERON:0010708 ! pectoral complex property_value: UBPROP:0000003 "While the skeletons of teleost pectoral fins and tetrapod forelimbs are homologous at the level of endoskeletal radials, teleosts and tetrapods do not share homologous skeletal elements at the level of 'individuated' pro-, meso-, and metapterygia. Among osteichthyans, only basal actinopterygians retain the full complement of elements present in non-osteichthyan gnathostomes.[uncertain][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001753", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1002/jmor.10264 Davis MC, Shubin NH, Force A, Pectoral fin and girdle development in the basal actinopterygians Polyodon spathula and Acipenser transmontanus. Journal of Morphology (2004)"} [Term] id: UBERON:0004711 name: jugular vein namespace: uberon def: "The jugular veins are veins that bring deoxygenated blood from the head back to the heart via the superior vena cava." [http://en.wikipedia.org/wiki/Jugular_vein] def: "The jugular veins are veins that bring deoxygenated blood from the head back to the heart via the superior vena cava." [Wikipedia:Jugular_vein] synonym: "jugular" RELATED [] synonym: "vena jugularis" RELATED [BTO:0001744] xref: BTO:0001744 xref: CALOHA:TS-0497 xref: EMAPA:18638 xref: GAID:536 xref: http://linkedlifedata.com/resource/umls/id/C0022427 xref: http://www.snomedbrowser.com/Codes/Details/244403000 xref: Jugular:vein xref: MA:0002154 xref: MESH:D007601 xref: NCIT:C12738 xref: SCTID:244403000 xref: UMLS:C0022427 {source="ncithesaurus:Jugular_Vein"} xref: Wikipedia:Jugular_vein is_a: UBERON:0003502 ! neck blood vessel is_a: UBERON:0009141 ! craniocervical region vein relationship: drains UBERON:0000033 ! head property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/f/f8/Gray558.png xsd:anyURI [Term] id: UBERON:0004716 name: conceptus namespace: uberon def: "The embryo and its adnexa (appendages or adjunct parts) or associated membranes (i.e. the products of conception) The conceptus includes all structures that develop from the zygote, both embryonic and extraembryonic. It includes the embryo as well as the embryonic part of the placenta and its associated membranes - amnion, chorion (gestational sac), and yolk sac[WP]." [BTO:0003834, Wikipedia:Conceptus] def: "The embryo and its adnexa (appendages or adjunct parts) or associated membranes (i.e. the products of conception) The conceptus includes all structures that develop from the zygote, both embryonic and extraembryonic. It includes the embryo as well as the embryonic part of the placenta and its associated membranes - amnion, chorion (gestational sac), and yolk sac[WP]." [BTO:0003834, http://en.wikipedia.org/wiki/Conceptus] synonym: "embryo plus adnexa" EXACT [] xref: AEO:0000194 xref: BTO:0003834 xref: EHDAA2:0000001 xref: EHDAA2:0003235 xref: EMAPA:36040 xref: http://en.wikipedia.org/wiki/Conceptus xref: http://linkedlifedata.com/resource/umls/id/C1516779 xref: NCIT:C34131 xref: UMLS:C1516779 {source="ncithesaurus:Conceptus"} xref: Wikipedia:Conceptus is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000061 ! anatomical structure relationship: develops_from CL:0000365 ! animal zygote relationship: existence_ends_with UBERON:0000068 ! embryo stage relationship: existence_starts_with UBERON:0000068 ! embryo stage relationship: has_part UBERON:0002050 ! embryonic structure relationship: has_part UBERON:0016887 ! entire extraembryonic component property_value: editor_note "EHDAA2 places this as a subtype of organism. This leads to the inference that a conceptus is an embryo (if an embryo is defined as an organism at embryo stage), which eliminates the embryonic + extra-embryonic = conceptus" xsd:string [Term] id: UBERON:0004731 name: neuromere namespace: uberon def: "A transverse unitary subdivision of the neural tube that shares a common dorsoventral structure (floor, basal, alar, and roof plates), but each having differential molecular identities and fates; they comprise the secondary prosencephalon, diencephalon (prosomeres), the midbrain (mesomeres), and the hindbrain (rhombomeres)." [DOI:10.1016/j.tins.2013.06.004, https://github.com/obophenotype/uberon/issues/318] def: "A transverse unitary subdivision of the neural tube that shares a common dorsoventral structure (floor, basal, alar, and roof plates), but each having differential molecular identities and fates; they comprise the secondary prosencephalon, diencephalon (prosomeres), the midbrain (mesomeres), and the hindbrain (rhombomeres)." [https://doi.org/10.1016/j.tins.2013.06.004, https://github.com/obophenotype/uberon/issues/318] subset: pheno_slim synonym: "neural metamere" RELATED [] synonym: "neural segment" RELATED [] synonym: "neural tube metameric segment" EXACT [http://orcid.org/0000-0002-6601-2165] synonym: "neural tube segment" EXACT [] synonym: "neuromere" EXACT [] synonym: "neuromeres" EXACT PLURAL [TAO:0001328] xref: http://en.wikipedia.org/wiki/Neuromere xref: NLX:147842 xref: TAO:0001328 xref: Wikipedia:Neuromere xref: ZFA:0001328 is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0004732 ! segmental subdivision of nervous system intersection_of: UBERON:0004732 ! segmental subdivision of nervous system intersection_of: part_of UBERON:0001049 ! neural tube relationship: part_of UBERON:0001049 ! neural tube property_value: editor_note "We take the definition of neuromere from Puelles et al, although the existence of mesomeres and prosomeres may not be widely accepted" xsd:string property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0001-9114-8737 property_value: UBPROP:0000001 "A metameric segment of the central nervous system.[ZFA]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0001328", ontology="TAO", source="ZFIN:curator"} created_by: Melissa Haendel creation_date: 2009-06-18T09:00:04Z [Term] id: UBERON:0004732 name: segmental subdivision of nervous system namespace: uberon def: "Any segmental subdivision of a nervous system. Includes metameric developmental segments, such as vertebrates neuromeres." [FBbt:00005140, http://orcid.org/0000-0002-6601-2165] subset: non_informative synonym: "neuromere" RELATED [FBbt:00005140] xref: FBbt:00005140 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000063 ! organ subunit intersection_of: UBERON:0000063 ! organ subunit intersection_of: part_of UBERON:0001016 ! nervous system relationship: part_of UBERON:0001016 ! nervous system property_value: editor_note "revisit this after CARO is revised and/or we have defined metameric segment; note that with the additional of an A/P axis constraint this corresponds to what Richter at al call a neuromere (PMID:21062451)" xsd:string [Term] id: UBERON:0004733 name: segmental subdivision of hindbrain namespace: uberon def: "An organ subunit that is part of a hindbrain [Automatically generated definition]." [OBOL:automatic] subset: non_informative synonym: "hindbrain segment" EXACT [FMA:61998] synonym: "segment of hindbrain" EXACT [FMA:61998] xref: FMA:61998 is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0004732 ! segmental subdivision of nervous system is_a: UBERON:0010314 ! structure with developmental contribution from neural crest intersection_of: UBERON:0000063 ! organ subunit intersection_of: part_of UBERON:0002028 ! hindbrain relationship: part_of UBERON:0002028 ! hindbrain [Term] id: UBERON:0004734 name: gastrula namespace: uberon alt_id: UBERON:0007012 def: "Organism at the gastrula stage." [http://en.wikipedia.org/wiki/Gastrula, http://en.wikipedia.org/wiki/Trilaminar_blastocyst] def: "Organism at the gastrula stage." [Wikipedia:Gastrula, Wikipedia:Trilaminar_blastocyst] subset: pheno_slim synonym: "blastocystis trilaminaris" RELATED [https://orcid.org/0000-0002-6601-2165] synonym: "gastrula embryo" EXACT [BILA:0000060] synonym: "tri-laminar disc" RELATED [https://orcid.org/0000-0002-6601-2165] synonym: "tri-laminar disk" RELATED [https://orcid.org/0000-0002-6601-2165] synonym: "trilaminar blastocyst" RELATED [https://orcid.org/0000-0002-6601-2165] synonym: "trilaminar blastoderm" RELATED [https://orcid.org/0000-0002-6601-2165] synonym: "trilaminar disc" RELATED [https://orcid.org/0000-0002-6601-2165] synonym: "trilaminar disk" RELATED [https://orcid.org/0000-0002-6601-2165] synonym: "trilaminar germ" RELATED [https://orcid.org/0000-0002-6601-2165] xref: BILA:0000060 xref: BTO:0001403 xref: FBbt:00005317 xref: FMA:293108 xref: GAID:1302 xref: http://en.wikipedia.org/wiki/Gastrula xref: http://linkedlifedata.com/resource/umls/id/C0017199 xref: http://linkedlifedata.com/resource/umls/id/C1284022 xref: MESH:A16.254.412 xref: MIAA:0000179 xref: NCIT:C34057 xref: NCIT:C34058 xref: Trilaminar:blastocyst xref: UMLS:C0017199 {source="ncithesaurus:Gastrula"} xref: UMLS:C1284022 {source="ncithesaurus:Trilaminar_Embryonic_Disc"} xref: Wikipedia:Gastrula xref: Wikipedia:Trilaminar_blastocyst is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000922 ! embryo intersection_of: UBERON:0000468 ! multicellular organism intersection_of: existence_starts_and_ends_during UBERON:0000109 ! gastrula stage relationship: develops_from UBERON:0000307 ! blastula relationship: existence_starts_and_ends_during UBERON:0000109 ! gastrula stage property_value: UBPROP:0000012 "We explicitly merge the NCITA terms here" xsd:string {external_ontology="NCIT"} [Term] id: UBERON:0004755 name: skeletal tissue namespace: uberon def: "A specialized form of connective tissue in which the extracellular matrix is firm, providing the tissue with resilience, and/or mineralized and that functions in mechanical and structural support.[VSAO]." [GO_REF:0000034, http://dx.plos.org/10.1371/journal.pone.0051070, https://github.com/obophenotype/uberon/issues/134, PSPUB:0000170, VSAO:0000015] comment: Four classes of mineralized tissues are found in vertebrates: bone, cartilage, dentine, and enamel. We think of cartilage and bone as skeletal tissues and of enamel and dentine as dental tissues, but enamel and dentine arose evolutionarily together with bone as skeletal tissues in the dermal skeleton (exoskeleton) of early vertebrates. Scales and teeth of sharks are examples of dermal skeletal elements that are still composed of the three ancient components-enamel, dentine, and bone. Cartilage, on the other hand, provided the basis for the second vertebrate skeletal system, the endoskeleton (Smith and Hall, 1990; Hall, 1998a,b). some invertebrate skeletal tissues have surprisingly bone-like features. Examples include chondrocytes interconnected by cell processes in cephalopod cartilages (Cole and Hall, 2004a,b), and the calcium phosphate layer in the shells of brachiopods (Rodland et al., 2003). However, neither bone nor mineralized cartilage have been found in invertebrates. Editors notes: TODO - develops_from xref: EMAPA:37744 {source="MA:th"} xref: http://www.snomedbrowser.com/Codes/Details/309311006 xref: MA:0003047 xref: SCTID:309311006 xref: VSAO:0000015 xref: XAO:0004038 xref: ZFA:0005619 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0002384 {source="VSAO"} ! connective tissue relationship: develops_from CL:0007001 {date_retrieved="2012-08-14", external_class="VSAO:0000015", source="VSAO"} ! skeletogenic cell relationship: part_of UBERON:0004765 ! skeletal element property_value: UBPROP:0000001 "A specialized form of connective tissue in which the extracellular matrix is firm, providing the tissue with resilience, and/or mineralized and that functions in mechanical and structural support.[VSAO]" xsd:string {date_retrieved="2012-08-14", external_class="VSAO:0000015", notes="taken from version of VSAO used in TAO and used directly in Uberon", ontology="VSAO", source="GO_REF:0000034, http://dx.plos.org/10.1371/journal.pone.0051070", source="PSPUB:0000170"} [Term] id: UBERON:0004756 name: dermal skeletal element namespace: uberon def: "Dermis-derived entity that is made of skeletal tissue." [http://orcid.org/0000-0002-6601-2165, https://github.com/obophenotype/uberon/issues/206] synonym: "dermal element" EXACT [VSAO:curator] is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0004765 ! skeletal element is_a: UBERON:0010314 ! structure with developmental contribution from neural crest intersection_of: UBERON:0004765 ! skeletal element intersection_of: develops_from UBERON:0002067 ! dermis intersection_of: has_part UBERON:0004755 ! skeletal tissue relationship: develops_from UBERON:0002067 ! dermis relationship: has_part UBERON:0004755 ! skeletal tissue [Term] id: UBERON:0004761 name: cartilaginous neurocranium namespace: uberon def: "The primitive cartilagionous skeletal structure of the fetal skull that grows to envelop the rapidly growing embyonic brain. In humans, the chondrocranium begins forming at 28 days from mesenchymal condensations and is fully formed between week 7 and 9 of fetal development. While the majority of the chondrocranium is succeeded by the bony skull in most higher vertebrates, some components do persist into adulthood.[1] In Cartilagious fishes and Agnathans, the chondrocranium persist throughout life.[2] Embryologically, the chondrocranium represent the basal cranial structure, and lay the base for the formation of the endocranium in higher vertebrates[WP]." [http://en.wikipedia.org/wiki/Chondrocranium] def: "The primitive cartilagionous skeletal structure of the fetal skull that grows to envelop the rapidly growing embyonic brain. In humans, the chondrocranium begins forming at 28 days from mesenchymal condensations and is fully formed between week 7 and 9 of fetal development. While the majority of the chondrocranium is succeeded by the bony skull in most higher vertebrates, some components do persist into adulthood.[1] In Cartilagious fishes and Agnathans, the chondrocranium persist throughout life.[2] Embryologically, the chondrocranium represent the basal cranial structure, and lay the base for the formation of the endocranium in higher vertebrates[WP]." [Wikipedia:Chondrocranium] synonym: "cartilaginous chondocranium" EXACT [] synonym: "cartilaginous skull" RELATED [] synonym: "cartiligionous skeletal structure of skull" EXACT [] synonym: "chondocranium" RELATED [http://en.wikipedia.org/wiki/Chondrocranium] synonym: "chondocranium" RELATED [Wikipedia:Chondrocranium] synonym: "embryonic chondocranium" RELATED [] synonym: "neurocranium" RELATED SENSU [] xref: AAO:0000094 xref: AAO:0010153 xref: EHDAA:6031 xref: FMA:76621 xref: http://en.wikipedia.org/wiki/Chondrocranium xref: http://linkedlifedata.com/resource/umls/id/C1516496 xref: http://www.snomedbrowser.com/Codes/Details/155540009 xref: NCIT:C34121 xref: SCTID:155540009 xref: UMLS:C1516496 {source="ncithesaurus:Chondrocranium"} xref: Wikipedia:Chondrocranium xref: XAO:0003059 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000075 {source="FMA"} ! subdivision of skeletal system relationship: develops_from UBERON:0009617 {source="PMC1571569"} ! head paraxial mesoderm relationship: has_part UBERON:0002418 ! cartilage tissue relationship: only_in_taxon NCBITaxon:7742 ! Vertebrata property_value: UBPROP:0000012 "in contrast to chondrocranium, this structure is entirely cartiliginous. In Chondricthyes this is the same as the neurocranium. FMA:76621 is an undefined fetal structure, so we assume the correct placement is here. Note that this is distinct from MA:0000317 which is the uberon:neurocranium (the part of the cranium that encloses the brain)" xsd:string {external_ontology="FMA"} [Term] id: UBERON:0004764 name: intramembranous bone tissue namespace: uberon def: "Bone tissue that forms directly within mesenchyme, and does not replace other tissues[TAO]. Intramembranous ossification is the formation of bone in which osteoblasts secrete a collagen-proteoglycan matrix that binds calcium salts and becomes calcified[GO]. Intramembranous ossification is the way flat bones and the shell of a turtle are formed[GO]. Unlike endochondral ossification, cartilage is not present during intramembranous ossification[WP]." [GO:0001957, Wikipedia:Intramembranous_ossification] def: "Bone tissue that forms directly within mesenchyme, and does not replace other tissues[TAO]. Intramembranous ossification is the formation of bone in which osteoblasts secrete a collagen-proteoglycan matrix that binds calcium salts and becomes calcified[GO]. Intramembranous ossification is the way flat bones and the shell of a turtle are formed[GO]. Unlike endochondral ossification, cartilage is not present during intramembranous ossification[WP]." [GO:0001957, http://en.wikipedia.org/wiki/Intramembranous_ossification] xref: Intramembranous:ossification xref: MA:0002837 xref: Wikipedia:Intramembranous_ossification is_a: UBERON:0002481 ! bone tissue intersection_of: UBERON:0002481 ! bone tissue intersection_of: output_of GO:0001957 ! intramembranous ossification relationship: develops_from UBERON:0003104 ! mesenchyme relationship: output_of GO:0001957 ! intramembranous ossification relationship: part_of UBERON:0002514 ! intramembranous bone property_value: UBPROP:0000012 "note the distinction between intramembranous bone and intramembranous bone tissue. Some bones may be a mixture of both tissue types. The MA class most likely refers to a tissue type (it is under bone tissue and connective tissue; there are no child classes)" xsd:string {external_ontology="MA"} [Term] id: UBERON:0004765 name: skeletal element namespace: uberon def: "Organ consisting of skeletal tissue. Encompasses whole bones, fused bones, cartilaginious elements, teeth, dermal denticles." [https://orcid.org/0000-0002-6601-2165] subset: organ_slim subset: uberon_slim xref: AAO:0011129 xref: galen:SkeletalStructure xref: TAO:0001890 xref: VSAO:0000128 xref: XAO:0004012 xref: ZFA:0005494 is_a: UBERON:0000062 ! organ relationship: part_of UBERON:0001434 {source="VSAO"} ! skeletal system property_value: UBPROP:0000001 "Organ entity that is typically involved in mechanical support and may have different skeletal tissue compositions at different stages.[VSAO]" xsd:string {date_retrieved="2012-08-14", external_class="VSAO:0000128", ontology="VSAO", source="PSPUB:0000170"} property_value: UBPROP:0000001 "Organ entity that may have different tissue compositions at different stages and is typically involved in mechanical support.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0001890", ontology="TAO", source="TAO:VSAO_workshop"} [Term] id: UBERON:0004766 name: cranial bone namespace: uberon def: "A bone that is part of a cranium." [UBERON:automatic] synonym: "cranium bone" EXACT [UBERON:automatic] xref: http://www.snomedbrowser.com/Codes/Details/181792001 xref: SCTID:181792001 is_a: UBERON:0003457 ! head bone intersection_of: UBERON:0001474 ! bone element intersection_of: part_of UBERON:0003128 ! cranium relationship: part_of UBERON:0003128 ! cranium property_value: IAO:0000232 "here cranium = skull - mandible" xsd:string [Term] id: UBERON:0004768 name: bone of lower jaw namespace: uberon def: "Any bone that is part of the lower jaw skeleton. This includes (when present): the dentary/mandible, the articular, the splenial, the suprangular." [https://orcid.org/0000-0002-6601-2165] subset: grouping_class synonym: "lower jaw bone" EXACT [] is_a: UBERON:0012360 ! bone of jaw intersection_of: UBERON:0001474 ! bone element intersection_of: part_of UBERON:0001710 ! lower jaw region relationship: part_of UBERON:0003278 ! skeleton of lower jaw property_value: editor_note "Do not manually classify under here - bones are automatically classified" xsd:string [Term] id: UBERON:0004770 name: articular system namespace: uberon def: "Anatomical system that consists of all the joints of the body." [VSAO:0000181] synonym: "joint system" EXACT [FMA:23878] synonym: "set of all joints" RELATED [] synonym: "set of all joints of body" EXACT [FMA:23878] synonym: "set of joints of body" RELATED [FMA:23878] xref: EMAPA:35150 xref: FMA:23878 xref: http://www.snomedbrowser.com/Codes/Details/361827000 xref: MA:0003007 xref: SCTID:361827000 xref: VSAO:0000181 is_a: UBERON:0034925 ! anatomical collection intersection_of: UBERON:0034925 ! anatomical collection intersection_of: has_member UBERON:0000982 ! skeletal joint relationship: existence_ends_during UBERON:0000066 ! fully formed stage relationship: functionally_related_to GO:0040011 ! locomotion relationship: has_member UBERON:0000982 ! skeletal joint relationship: has_part UBERON:0000982 ! skeletal joint relationship: only_in_taxon NCBITaxon:33213 ! Bilateria relationship: part_of UBERON:0001434 {source="FMA"} ! skeletal system [Term] id: UBERON:0004777 name: respiratory system submucosa namespace: uberon def: "A submucosa that is part of a respiratory system [Automatically generated definition]." [OBOL:automatic] synonym: "apparatus respiratorius submucosa" EXACT [OBOL:automatic] synonym: "submucosa of apparatus respiratorius" EXACT [OBOL:automatic] synonym: "submucosa of respiratory system" EXACT [OBOL:automatic] xref: EMAPA:37578 {source="MA:th"} xref: MA:0001822 is_a: UBERON:0000009 ! submucosa intersection_of: UBERON:0000009 ! submucosa intersection_of: part_of UBERON:0001004 ! respiratory system relationship: part_of UBERON:0003570 ! respiratory system connective tissue [Term] id: UBERON:0004779 name: respiratory system lamina propria namespace: uberon def: "A lamina propria that is part of a respiratory system [Automatically generated definition]." [OBOL:automatic] synonym: "apparatus respiratorius lamina propria" EXACT [OBOL:automatic] synonym: "apparatus respiratorius lamina propria mucosa" EXACT [OBOL:automatic] synonym: "lamina propria mucosa of apparatus respiratorius" EXACT [OBOL:automatic] synonym: "lamina propria mucosa of respiratory system" EXACT [OBOL:automatic] synonym: "lamina propria of apparatus respiratorius" EXACT [OBOL:automatic] synonym: "lamina propria of respiratory system" EXACT [OBOL:automatic] synonym: "respiratory system lamina propria mucosa" EXACT [OBOL:automatic] xref: EMAPA:37576 {source="MA:th"} xref: MA:0001821 is_a: UBERON:0000030 ! lamina propria intersection_of: UBERON:0000030 ! lamina propria intersection_of: part_of UBERON:0001004 ! respiratory system relationship: part_of UBERON:0003570 ! respiratory system connective tissue relationship: part_of UBERON:0004785 {is_inferred="true", source="https://github.com/obophenotype/uberon/wiki/Inferring-part-of-relationships"} ! respiratory system mucosa relationship: part_of UBERON:0004785 {is_inferred="true", source="https://github.com/obophenotype/uberon/wiki/Inferring-part-of-relationships"} ! respiratory system mucosa [Term] id: UBERON:0004780 name: gastrointestinal system lamina propria namespace: uberon def: "A lamina propria that is part of a gastrointestinal system." [OBOL:automatic] xref: MA:0001899 xref: NCIT:C49299 xref: UMLS:C1708197 {source="ncithesaurus:Gastrointestinal_Tract_Lamina_Propria"} is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000030 ! lamina propria intersection_of: UBERON:0000030 ! lamina propria intersection_of: part_of UBERON:0005409 ! alimentary part of gastrointestinal system relationship: part_of UBERON:0004786 {is_inferred="true", source="https://github.com/obophenotype/uberon/wiki/Inferring-part-of-relationships"} ! gastrointestinal system mucosa [Term] id: UBERON:0004782 name: gastrointestinal system serosa namespace: uberon def: "A serous membrane that is part of a digestive system [Automatically generated definition]." [OBOL:automatic] synonym: "digestive system serosa" EXACT [OBOL:automatic] synonym: "digestive system serous membrane" EXACT [OBOL:automatic] synonym: "gastrointestinal system serous membrane" EXACT [OBOL:automatic] synonym: "serosa of digestive system" EXACT [OBOL:automatic] synonym: "serosa of gastrointestinal system" EXACT [OBOL:automatic] synonym: "serous membrane of digestive system" EXACT [OBOL:automatic] synonym: "serous membrane of gastrointestinal system" EXACT [OBOL:automatic] xref: EMAPA:37592 {source="MA:th"} xref: MA:0001522 is_a: UBERON:0000042 ! serous membrane intersection_of: UBERON:0000042 ! serous membrane intersection_of: part_of UBERON:0005409 ! alimentary part of gastrointestinal system relationship: part_of UBERON:0005409 ! alimentary part of gastrointestinal system [Term] id: UBERON:0004784 name: heart ventricle wall namespace: uberon def: "An anatomical wall that is part of a cardiac ventricle [Automatically generated definition]." [OBOL:automatic] subset: pheno_slim synonym: "anatomical wall of cardiac ventricle" EXACT [OBOL:automatic] synonym: "anatomical wall of heart ventricle" EXACT [OBOL:automatic] synonym: "anatomical wall of lower chamber of heart" EXACT [OBOL:automatic] synonym: "anatomical wall of ventricle of heart" EXACT [OBOL:automatic] synonym: "cardiac ventricle anatomical wall" EXACT [OBOL:automatic] synonym: "cardiac ventricle wall" EXACT [OBOL:automatic] synonym: "heart ventricle anatomical wall" EXACT [OBOL:automatic] synonym: "lower chamber of heart anatomical wall" EXACT [OBOL:automatic] synonym: "lower chamber of heart wall" EXACT [OBOL:automatic] synonym: "ventricle of heart anatomical wall" EXACT [OBOL:automatic] synonym: "ventricle of heart wall" EXACT [OBOL:automatic] synonym: "ventricular wall" EXACT [FMA:13884] synonym: "wall of cardiac ventricle" EXACT [OBOL:automatic] synonym: "wall of heart ventricle" EXACT [OBOL:automatic] synonym: "wall of lower chamber of heart" EXACT [OBOL:automatic] synonym: "wall of ventricle" RELATED [MA:0002791] synonym: "wall of ventricle of heart" EXACT [OBOL:automatic] xref: FMA:13884 xref: MA:0002791 xref: NCIT:C119295 is_a: UBERON:0037144 ! wall of heart intersection_of: UBERON:0000060 ! anatomical wall intersection_of: part_of UBERON:0002082 ! cardiac ventricle relationship: part_of UBERON:0002082 ! cardiac ventricle [Term] id: UBERON:0004785 name: respiratory system mucosa namespace: uberon def: "the mucous membrane lining the respiratory tract" [MESH:A04.760, MGI:cwg, MP:0002277] def: "The mucous membrane lining the respiratory tract." [MESH:A04.760, MGI:cwg, MP:0002277] subset: pheno_slim synonym: "apparatus respiratorius mucosa" EXACT [OBOL:automatic] synonym: "apparatus respiratorius mucosa of organ" EXACT [OBOL:automatic] synonym: "apparatus respiratorius mucous membrane" EXACT [OBOL:automatic] synonym: "laryngeal mucous membrane" RELATED [EMAPA:18334] synonym: "mucosa of apparatus respiratorius" EXACT [OBOL:automatic] synonym: "mucosa of organ of apparatus respiratorius" EXACT [OBOL:automatic] synonym: "mucosa of organ of respiratory system" EXACT [OBOL:automatic] synonym: "mucosa of respiratory system" EXACT [OBOL:automatic] synonym: "mucous membrane of apparatus respiratorius" EXACT [OBOL:automatic] synonym: "mucous membrane of respiratory system" EXACT [OBOL:automatic] synonym: "respiratory mucosa" RELATED [BTO:0000973] synonym: "respiratory system mucosa of organ" EXACT [OBOL:automatic] synonym: "respiratory system mucous membrane" EXACT [OBOL:automatic] synonym: "respiratory tract mucosa" RELATED [] xref: BTO:0000973 xref: EMAPA:18334 xref: EMAPA:37577 {source="MA:th"} xref: FMA:302092 xref: GAID:304 xref: MA:0001827 xref: MESH:D020545 is_a: UBERON:0000344 ! mucosa intersection_of: UBERON:0000344 ! mucosa intersection_of: part_of UBERON:0001004 ! respiratory system relationship: part_of UBERON:0001004 ! respiratory system property_value: editor_note "TODO - split respiratory tract mucosa from respiratory system mucosa" xsd:string [Term] id: UBERON:0004786 name: gastrointestinal system mucosa namespace: uberon def: "A mucosa that is part of a gastrointestinal system." [OBOL:automatic] comment: The gut mucosa of amphioxus has insulin-secreting cells. http://www.ncbi.nlm.nih.gov/pubmed/16417468 synonym: "digestive tract mucosa" EXACT [https://orcid.org/0000-0002-6601-2165] synonym: "gut mucosa" EXACT [BTO:0000546] synonym: "gut mucuous membrane" EXACT [https://orcid.org/0000-0002-6601-2165] synonym: "mucosa of gut" EXACT [https://orcid.org/0000-0002-6601-2165] xref: BTO:0000546 xref: BTO:0005568 xref: EMAPA:36591 xref: MA:0001521 xref: SCTID:410433007 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000344 ! mucosa intersection_of: UBERON:0000344 ! mucosa intersection_of: part_of UBERON:0005409 ! alimentary part of gastrointestinal system relationship: adjacent_to UBERON:0006909 {source="BTO-modified"} ! lumen of digestive tract relationship: has_part CL:0000172 {source="PMID:16417468"} ! somatostatin secreting cell relationship: has_part CL:0000696 {source="PMID:16417468"} ! PP cell relationship: has_part CL:0002067 {source="PMID:16417468"} ! type A enteroendocrine cell relationship: part_of UBERON:0001555 ! digestive tract relationship: part_of UBERON:0005409 ! alimentary part of gastrointestinal system [Term] id: UBERON:0004794 name: esophagus secretion namespace: uberon def: "A secretion that is part of a esophagus [Automatically generated definition]." [OBOL:automatic] synonym: "esophageal secretion" EXACT [FMA:79662] synonym: "gullet secretion" EXACT [OBOL:automatic] synonym: "oesophagus secretion" EXACT [OBOL:automatic] synonym: "secretion of esophagus" EXACT [OBOL:automatic] synonym: "secretion of gullet" EXACT [OBOL:automatic] synonym: "secretion of oesophagus" EXACT [OBOL:automatic] xref: FMA:79662 xref: http://linkedlifedata.com/resource/umls/id/C0227179 xref: MA:0002514 xref: NCIT:C52555 xref: UMLS:C0227179 {source="ncithesaurus:Esophagus_Secretion"} is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000456 ! secretion of exocrine gland intersection_of: UBERON:0000456 ! secretion of exocrine gland intersection_of: part_of UBERON:0001043 ! esophagus relationship: part_of UBERON:0001043 ! esophagus [Term] id: UBERON:0004797 name: blood vessel layer namespace: uberon def: "Any of the tissue layers that comprise a blood vessel. Examples: tunica media, tunica adventitia." [http://orcid.org/0000-0002-6601-2165] xref: EMAPA:36296 xref: MA:0002854 is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0004923 ! organ component layer intersection_of: UBERON:0004923 ! organ component layer intersection_of: part_of UBERON:0001981 ! blood vessel relationship: part_of UBERON:0035965 ! wall of blood vessel property_value: depicted:by Blood:vessels.svg xsd:anyURI property_value: depicted:by https://upload.wikimedia.org/wikipedia/commons/6/61/Blood_vessels.svg xsd:anyURI [Term] id: UBERON:0004802 name: respiratory tract epithelium namespace: uberon def: "The pseudostratified ciliated epithelium that lines much of the conducting portion of the airway, including part of the nasal cavity and larynx, the trachea, and bronchi." [ISBN:0-683-40008-8, MGI:anna, MP:0010942] subset: pheno_slim synonym: "airway epithelium" RELATED [BTO:0000419] synonym: "epithelial tissue of respiratory tract" EXACT [OBOL:automatic] synonym: "epithelium of respiratory tract" EXACT [OBOL:automatic] synonym: "respiratory epithelium" RELATED [BTO:0000419] synonym: "respiratory tract epithelial tissue" EXACT [OBOL:automatic] xref: BTO:0000419 xref: CALOHA:TS-0023 xref: EMAPA:32827 xref: http://www.snomedbrowser.com/Codes/Details/321764001 xref: MA:0001480 xref: SCTID:321764001 xref: VHOG:0000981 is_a: UBERON:0004807 ! respiratory system epithelium is_a: UBERON:0005911 ! endo-epithelium is_a: UBERON:0010499 ! pseudostratified ciliated columnar epithelium intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0000065 ! respiratory tract relationship: contributes_to_morphology_of UBERON:0001004 ! respiratory system relationship: part_of UBERON:0000072 ! proximo-distal subdivision of respiratory tract [Term] id: UBERON:0004807 name: respiratory system epithelium namespace: uberon def: "An epithelium that is part of a respiratory system [Automatically generated definition]." [OBOL:automatic] subset: pheno_slim synonym: "apparatus respiratorius epithelial tissue" EXACT [OBOL:automatic] synonym: "apparatus respiratorius epithelium" EXACT [OBOL:automatic] synonym: "epithelial tissue of apparatus respiratorius" EXACT [OBOL:automatic] synonym: "epithelial tissue of respiratory system" EXACT [OBOL:automatic] synonym: "epithelium of apparatus respiratorius" EXACT [OBOL:automatic] synonym: "epithelium of respiratory system" EXACT [OBOL:automatic] synonym: "respiratory system epithelial tissue" EXACT [OBOL:automatic] xref: CALOHA:TS-0023 xref: EMAPA:32826 xref: MA:0001823 xref: VHOG:0000981 is_a: UBERON:0000483 ! epithelium intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0001004 ! respiratory system relationship: part_of UBERON:0001004 ! respiratory system [Term] id: UBERON:0004808 name: gastrointestinal system epithelium namespace: uberon def: "An epithelium that is part of a digestive system [Automatically generated definition]." [OBOL:automatic] synonym: "digestive system epithelial tissue" EXACT [OBOL:automatic] synonym: "digestive system epithelium" EXACT [OBOL:automatic] synonym: "epithelial tissue of digestive system" EXACT [OBOL:automatic] synonym: "epithelial tissue of gastrointestinal system" EXACT [OBOL:automatic] synonym: "epithelium of digestive system" EXACT [OBOL:automatic] synonym: "epithelium of gastrointestinal system" EXACT [OBOL:automatic] synonym: "gastrointestinal system epithelial tissue" EXACT [OBOL:automatic] xref: EMAPA:32683 xref: MA:0001520 is_a: UBERON:0000483 ! epithelium intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0005409 ! alimentary part of gastrointestinal system relationship: part_of UBERON:0005409 ! alimentary part of gastrointestinal system [Term] id: UBERON:0004815 name: lower respiratory tract epithelium namespace: uberon def: "An epithelium that is part of a lower respiratory tract [Automatically generated definition]." [OBOL:automatic] synonym: "epithelial tissue of lower respiratory tract" EXACT [OBOL:automatic] synonym: "epithelium of lower respiratory tract" EXACT [OBOL:automatic] synonym: "lower respiratory tract epithelial tissue" EXACT [OBOL:automatic] xref: EMAPA:37549 {source="MA:th"} xref: MA:0001481 is_a: UBERON:0004802 ! respiratory tract epithelium intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0001558 ! lower respiratory tract relationship: part_of UBERON:0001558 ! lower respiratory tract [Term] id: UBERON:0004830 name: respiratory system skeletal muscle namespace: uberon def: "A portion of skeletal muscle tissue that is part of a respiratory system [Automatically generated definition]." [OBOL:automatic] synonym: "respiratory system skeletal muscle tissue" EXACT [OBOL:automatic] synonym: "skeletal muscle of apparatus respiratorius" EXACT [OBOL:automatic] synonym: "skeletal muscle of respiratory system" EXACT [OBOL:automatic] synonym: "skeletal muscle tissue of apparatus respiratorius" EXACT [OBOL:automatic] synonym: "skeletal muscle tissue of respiratory system" EXACT [OBOL:automatic] xref: EMAPA:37583 {source="MA:th"} xref: MA:0001829 is_a: UBERON:0001134 ! skeletal muscle tissue intersection_of: UBERON:0001134 ! skeletal muscle tissue intersection_of: part_of UBERON:0001004 ! respiratory system relationship: part_of UBERON:0001004 ! respiratory system [Term] id: UBERON:0004831 name: esophagus skeletal muscle namespace: uberon def: "A portion of skeletal muscle tissue that is part of a esophagus [Automatically generated definition]." [OBOL:automatic] comment: Most muscle tissue lining the digestive tract is smooth, but part of the externa of the esophagus is skeletal synonym: "esophagus skeletal muscle tissue" EXACT [OBOL:automatic] synonym: "skeletal muscle of esophagus" EXACT [OBOL:automatic] xref: EMAPA:36523 xref: MA:0001572 is_a: UBERON:0003898 ! skeletal muscle tissue of trunk intersection_of: UBERON:0001134 ! skeletal muscle tissue intersection_of: part_of UBERON:0001043 ! esophagus relationship: part_of UBERON:0003832 ! esophagus muscle [Term] id: UBERON:0004833 name: lip skeletal muscle namespace: uberon def: "A portion of skeletal muscle tissue that is part of a lip [Automatically generated definition]." [OBOL:automatic] synonym: "lip skeletal muscle tissue" EXACT [OBOL:automatic] synonym: "skeletal muscle of lip" EXACT [OBOL:automatic] synonym: "skeletal muscle tissue of lip" EXACT [OBOL:automatic] xref: EMAPA:37642 {source="MA:th"} xref: MA:0001578 is_a: UBERON:0001134 ! skeletal muscle tissue intersection_of: UBERON:0001134 ! skeletal muscle tissue intersection_of: part_of UBERON:0001833 ! lip relationship: part_of UBERON:0001833 ! lip property_value: editor_note "this class is derived from MA. Consider re-modeling this as being a muscle that acts on the lips. See: Wikipedia:Lip#Muscles_acting_on_the_lips" xsd:string [Term] id: UBERON:0004848 name: respiratory system arterial endothelium namespace: uberon def: "An endothelium of artery that is part of a respiratory system [Automatically generated definition]." [OBOL:automatic] synonym: "apparatus respiratorius arterial endothelium" EXACT [OBOL:automatic] synonym: "apparatus respiratorius artery endothelium" EXACT [OBOL:automatic] synonym: "apparatus respiratorius endothelium of artery" EXACT [OBOL:automatic] synonym: "arterial endothelium of apparatus respiratorius" EXACT [OBOL:automatic] synonym: "arterial endothelium of respiratory system" EXACT [OBOL:automatic] synonym: "artery endothelium of apparatus respiratorius" EXACT [OBOL:automatic] synonym: "artery endothelium of respiratory system" EXACT [OBOL:automatic] synonym: "endothelium of artery of apparatus respiratorius" EXACT [OBOL:automatic] synonym: "endothelium of artery of respiratory system" EXACT [OBOL:automatic] synonym: "respiratory system artery endothelium" EXACT [OBOL:automatic] synonym: "respiratory system endothelium of artery" EXACT [OBOL:automatic] xref: EMAPA:37566 {source="MA:th"} xref: MA:0001801 is_a: UBERON:0001917 ! endothelium of artery is_a: UBERON:0004702 ! respiratory system blood vessel endothelium intersection_of: UBERON:0001917 ! endothelium of artery intersection_of: part_of UBERON:0001004 ! respiratory system relationship: part_of UBERON:0003469 {is_inferred="true", source="https://github.com/obophenotype/uberon/wiki/Inferring-part-of-relationships"} ! respiratory system artery relationship: part_of UBERON:0003469 {is_inferred="true", source="https://github.com/obophenotype/uberon/wiki/Inferring-part-of-relationships"} ! respiratory system artery [Term] id: UBERON:0004849 name: respiratory system venous endothelium namespace: uberon def: "An endothelium of vein that is part of a respiratory system [Automatically generated definition]." [OBOL:automatic] synonym: "apparatus respiratorius endothelium of vein" EXACT [OBOL:automatic] synonym: "apparatus respiratorius vein endothelium" EXACT [OBOL:automatic] synonym: "apparatus respiratorius venous endothelium" EXACT [OBOL:automatic] synonym: "endothelium of vein of apparatus respiratorius" EXACT [OBOL:automatic] synonym: "endothelium of vein of respiratory system" EXACT [OBOL:automatic] synonym: "respiratory system endothelium of vein" EXACT [OBOL:automatic] synonym: "respiratory system vein endothelium" EXACT [OBOL:automatic] synonym: "vein endothelium of apparatus respiratorius" EXACT [OBOL:automatic] synonym: "vein endothelium of respiratory system" EXACT [OBOL:automatic] synonym: "venous endothelium of apparatus respiratorius" EXACT [OBOL:automatic] synonym: "venous endothelium of respiratory system" EXACT [OBOL:automatic] xref: EMAPA:37585 {source="MA:th"} xref: MA:0001811 is_a: UBERON:0001919 ! endothelium of vein is_a: UBERON:0004702 ! respiratory system blood vessel endothelium intersection_of: UBERON:0001919 ! endothelium of vein intersection_of: part_of UBERON:0001004 ! respiratory system relationship: part_of UBERON:0003476 ! respiratory system venous blood vessel [Term] id: UBERON:0004851 name: aorta endothelium namespace: uberon def: "The thin layer of flat cells that line the aorta and form a barrier between circulating blood in the lumen and the rest of the vessel wall." [MGI:csmith, MP:0009864] subset: efo_slim subset: pheno_slim synonym: "adult aorta endothelium" EXACT [OBOL:automatic] synonym: "aortic endothelium" RELATED [BTO:0000394] synonym: "endothelium of adult aorta" EXACT [OBOL:automatic] synonym: "endothelium of aorta" EXACT [OBOL:automatic] synonym: "endothelium of trunk of aortic tree" EXACT [OBOL:automatic] synonym: "endothelium of trunk of systemic arterial tree" EXACT [OBOL:automatic] synonym: "trunk of aortic tree endothelium" EXACT [OBOL:automatic] synonym: "trunk of systemic arterial tree endothelium" EXACT [OBOL:automatic] xref: BTO:0000394 xref: CALOHA:TS-0047 xref: EFO:0002597 xref: EMAPA:35134 xref: http://linkedlifedata.com/resource/umls/id/C1706824 xref: MA:0000701 xref: NCIT:C49190 xref: UMLS:C1706824 {source="ncithesaurus:Aorta_Endothelium"} is_a: UBERON:0004638 ! blood vessel endothelium is_a: UBERON:0004700 ! arterial system endothelium intersection_of: UBERON:0001986 ! endothelium intersection_of: part_of UBERON:0000947 ! aorta relationship: part_of UBERON:0000947 ! aorta [Term] id: UBERON:0004852 name: cardiovascular system endothelium namespace: uberon def: "An endothelium that is part of the cardiovascular system." [https://orcid.org/0000-0002-6601-2165] subset: vertebrate_core synonym: "endothelia" RELATED PLURAL [ZFA:0001639] synonym: "vascular endothelia" RELATED PLURAL [XAO:0000356] xref: BTO:0001853 xref: EMAPA:35201 xref: GAID:519 xref: http://linkedlifedata.com/resource/umls/id/C0014261 xref: MA:0000717 xref: MESH:D004730 xref: NCIT:C13053 xref: TAO:0002171 xref: UMLS:C0014261 {source="ncithesaurus:Vascular_Endothelium"} xref: VHOG:0001217 xref: XAO:0000356 xref: ZFA:0001639 is_a: UBERON:0001986 ! endothelium intersection_of: UBERON:0001986 ! endothelium intersection_of: part_of UBERON:0004535 ! cardiovascular system relationship: part_of UBERON:0004535 ! cardiovascular system property_value: editor_note "consider merging with 'endothelium'" xsd:string property_value: UBPROP:0000003 "Vertebrates and a very few invertebrates such as squids have evolved a secondary epithelium, the endothelium, that lines their blood vessels.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001217", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0030259821 Ruppert EE, Fox RS, Barnes RD, Invertebrate zoology: a functional evolutionary approach (2003) p.207"} property_value: UBPROP:0000003 "Vertebrates and a very few invertebrates such as squids have evolved a secondary epithelium, the endothelium, that lines their blood vessels.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001217", ontology="VHOG", source="ISBN:978-0030259821 Ruppert EE, Fox RS, Barnes RD, Invertebrate zoology: a functional evolutionary approach (2003) p.207", source="http://bgee.unil.ch/"} [Term] id: UBERON:0004857 name: skeletal muscle connective tissue namespace: uberon def: "A connective tissue that surrounds a skeletal muscle tissue." [OBOL:automatic] synonym: "connective tissue of skeletal muscle" EXACT [OBOL:automatic] synonym: "connective tissue of skeletal muscle tissue" EXACT [OBOL:automatic] synonym: "portion of connective tissue of skeletal muscle" EXACT [OBOL:automatic] synonym: "portion of connective tissue of skeletal muscle tissue" EXACT [OBOL:automatic] synonym: "skeletal muscle interstitial tissue" RELATED [MA:0002868] synonym: "skeletal muscle interstitum" RELATED [MA:0002868] synonym: "skeletal muscle portion of connective tissue" EXACT [OBOL:automatic] synonym: "skeletal muscle textus connectivus" EXACT [OBOL:automatic] synonym: "skeletal muscle tissue connective tissue" EXACT [OBOL:automatic] synonym: "skeletal muscle tissue portion of connective tissue" EXACT [OBOL:automatic] synonym: "skeletal muscle tissue textus connectivus" EXACT [OBOL:automatic] synonym: "textus connectivus of skeletal muscle" EXACT [OBOL:automatic] synonym: "textus connectivus of skeletal muscle tissue" EXACT [OBOL:automatic] xref: EMAPA:37743 {source="MA:th"} xref: MA:0002868 is_a: UBERON:0002384 ! connective tissue intersection_of: UBERON:0002384 ! connective tissue intersection_of: surrounds UBERON:0001134 ! skeletal muscle tissue relationship: surrounds UBERON:0001134 ! skeletal muscle tissue [Term] id: UBERON:0004859 name: eye gland namespace: uberon def: "A gland that is part of a eye. The eye is a compound unit which depending on the species may consist of an eyeballs plus associated ducts and integumentary structures. Eye glands therefore include the various types of lacrimal gland, the various types of apocrine and sebaceous glands associated with the eyelid." [http://orcid.org/0000-0002-6601-2165] comment: Examples: harderian gland, accessory lacrimal gland, gland of Moll, gland of Zeis, nictitating membrane glands subset: organ_slim synonym: "eye-associated gland" EXACT [http://orcid.org/0000-0002-6601-2165] synonym: "gland of eye" EXACT [OBOL:automatic] xref: EMAPA:35334 xref: MA:0000267 is_a: UBERON:0002530 ! gland intersection_of: UBERON:0002530 ! gland intersection_of: part_of UBERON:0000970 ! eye relationship: part_of UBERON:0000970 ! eye [Term] id: UBERON:0004864 name: vasculature of retina namespace: uberon def: "A vasculature that is part of a retina [Automatically generated definition]." [OBOL:automatic] subset: pheno_slim synonym: "retina vasculature" EXACT [GO:0061298] synonym: "retina vasculature of camera-type eye" EXACT [GO:0061298] synonym: "retinal blood vessels" EXACT [FMA:76552] synonym: "retinal blood vessels set" EXACT [FMA:76552] synonym: "retinal vasculature" EXACT [OBOL:automatic] synonym: "set of blood vessels of retina" EXACT [OBOL:automatic] synonym: "set of retinal blood vessels" EXACT [FMA:76552] synonym: "vasa sanguinea retinae" EXACT LATIN [FMA:76552, FMA:TA] xref: FMA:76552 xref: MESH:D012171 xref: XAO:0004153 is_a: UBERON:0002203 ! vasculature of eye is_a: UBERON:0036302 ! vasculature of central nervous system plus retina intersection_of: UBERON:0002049 ! vasculature intersection_of: part_of UBERON:0000966 ! retina relationship: part_of UBERON:0000966 ! retina property_value: RO:0002161 NCBITaxon:8782 {source="PMID:21622558", source="PMID:2772405", submitter="michaelerice"} property_value: RO:0002161 NCBITaxon:8782 {source="http://www.ncbi.nlm.nih.gov/pubmed/21622558", source="http://www.ncbi.nlm.nih.gov/pubmed/2772405", submitter="michaelerice"} [Term] id: UBERON:0004872 name: splanchnic layer of lateral plate mesoderm namespace: uberon def: "Layer of lateral plate mesoderm that forms the circulatory system and future gut wall - overlies endoderm[WP]." [http://en.wikipedia.org/wiki/Lateral_plate_mesoderm#Division_into_layers] def: "Layer of lateral plate mesoderm that forms the circulatory system and future gut wall - overlies endoderm[WP]." [Wikipedia:Lateral_plate_mesoderm#Division_into_layers] subset: pheno_slim synonym: "inner layer of lateral plate mesoderm" EXACT [] synonym: "splanchnic mesoderm" RELATED [ISBN:9780878932504] synonym: "visceral mesoderm" BROAD [BILA:0000044, http://www.drugs.com/dict/visceral-mesoderm.html, http://www.stedmans.com/] xref: AAO:0011102 xref: BILA:0000044 xref: Division_into_layers xref: FMA:295568 xref: Wikipedia:Lateral_plate_mesoderm#Division_into_layers xref: XAO:0000276 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0002050 ! embryonic structure relationship: part_of UBERON:0003081 ! lateral plate mesoderm property_value: UBPROP:0000012 "We group the BILA class here. Considering adding more general class for metazoa grouping cardiogenic successors" xsd:string {external_ontology="BILA"} [Term] id: UBERON:0004873 name: splanchnopleure namespace: uberon def: "A structure created during embryogenesis when the lateral mesoderm splits into two layers - the inner (or splanchnic) layer adheres to the endoderm, and with it forms the splanchnopleure[WP]." [Wikipedia:Splanchnopleure] def: "A structure created during embryogenesis when the lateral mesoderm splits into two layers - the inner (or splanchnic) layer adheres to the endoderm, and with it forms the splanchnopleure[WP]." [http://en.wikipedia.org/wiki/Splanchnopleure] synonym: "ventral splanchnic mesoderm" RELATED [Wikipedia:Intraembryonic_coelom] synonym: "ventral splanchnic mesoderm" RELATED [http://en.wikipedia.org/wiki/Intraembryonic_coelom] xref: EHDAA2:0001903 xref: EHDAA:383 xref: EMAPA:16181 xref: FMA:295564 xref: http://en.wikipedia.org/wiki/Splanchnopleure xref: http://linkedlifedata.com/resource/umls/id/C1519472 xref: NCIT:C34303 xref: UMLS:C1519472 {source="ncithesaurus:Splanchnopleure"} xref: VHOG:0000558 xref: Wikipedia:Splanchnopleure is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0002050 ! embryonic structure relationship: overlaps UBERON:0000925 ! endoderm relationship: part_of UBERON:0003081 {source="EHDAA2"} ! lateral plate mesoderm property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/2/28/Gray16.png xsd:anyURI property_value: editor_note "TODO - check relationship to LPM" xsd:string [Term] id: UBERON:0004874 name: somatopleure namespace: uberon def: "A structure created during embryogenesis when the lateral mesoderm splits into two layers - the outer (or somatic) layer becomes applied to the inner surface of the ectoderm, and with it forms the somatopleure.[WP]." [http://en.wikipedia.org/wiki/Somatopleure] xref: EHDAA2:0001847 xref: EHDAA:381 xref: EMAPA:16180 xref: FMA:295566 xref: http://en.wikipedia.org/wiki/Somatopleure xref: http://linkedlifedata.com/resource/umls/id/C1519423 xref: NCIT:C34301 xref: UMLS:C1519423 {source="ncithesaurus:Somatopleure"} xref: VHOG:0000557 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0002050 ! embryonic structure relationship: part_of UBERON:0003081 {source="EHDAA2"} ! lateral plate mesoderm property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/2/28/Gray16.png xsd:anyURI property_value: UBPROP:0000011 "Gives rise to the paired appendages in jawed vertebrates. a persistent somatopleure through the redistribution and expansion of the lateral plate mesoderm is a synapomorphy for gnathostomes and a critical step in generating a novel developmental module with dramatic evolutionary potentia (Tulenko et al. 2012) http://burkelab.research.wesleyan.edu/current-projects/lamprey/" xsd:string property_value: UBPROP:0000012 "sources differ as to whether this is part-of or develops-from the LPM" xsd:string [Term] id: UBERON:0004880 name: chordamesoderm namespace: uberon def: "The central region of trunk mesoderm. This tissue forms the notochord" [https://orcid.org/0000-0002-6601-2165] def: "The central region of trunk mesoderm. This tissue forms the notochord." [https://orcid.org/0000-0002-6601-2165] subset: efo_slim subset: pheno_slim synonym: "axial chorda mesoderm" EXACT [ZFA:0000091] synonym: "chorda mesoderm" EXACT [] synonym: "dorsal mesoderm" EXACT [https://github.com/obophenotype/uberon/wiki/The-neural-crest] synonym: "presumptive notochord" EXACT [ZFA:0000091] xref: AAO:0000478 xref: EFO:0003426 xref: TAO:0000091 xref: ZFA:0000091 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0002050 ! embryonic structure relationship: only_in_taxon NCBITaxon:7711 ! Chordata relationship: part_of UBERON:0003068 ! axial mesoderm property_value: UBPROP:0000001 "Notochord rudiment[ZFIN:ZDB-PUB-961014-576]." xsd:string {source="ZFIN:ZDB-PUB-961014-576"} property_value: UBPROP:0000012 "WP treats this as synonym of axial mesoderm. Induces neural tube. Gilbert: contains an anterior head process and the notochord." xsd:string [Term] id: UBERON:0004883 name: lung mesenchyme namespace: uberon def: "The mass of tissue made up of mesenchymal cells in the lung." [GO:0060484] subset: pheno_slim synonym: "lung-associated mesenchyme" EXACT [GO:0060484] synonym: "mesenchyme of lung" EXACT [OBOL:automatic] synonym: "pulmonary mesenchyme" EXACT [GO:0060484] xref: EMAPA:32866 is_a: UBERON:0000077 ! mixed endoderm/mesoderm-derived structure is_a: UBERON:0003104 ! mesenchyme intersection_of: UBERON:0003104 ! mesenchyme intersection_of: part_of UBERON:0002048 ! lung relationship: develops_from UBERON:0003081 ! lateral plate mesoderm relationship: part_of UBERON:0002048 ! lung [Term] id: UBERON:0004904 name: neuron projection bundle connecting eye with brain namespace: uberon def: "A neuron projection bundle that connects the retina or its analog in the eye with the brain. This includes the vertebrate optic nerve (not truly a nerve) as well as analogous structures such as the Bolwig nerve in Drosophila." [http://orcid.org/0000-0002-6601-2165] comment: for the vertebrate-specific structure, see UBERON:0000941 (cranial nerve II) subset: grouping_class subset: pheno_slim synonym: "optic nerve" BROAD [BTO:0000966] synonym: "optic nerve (generic)" EXACT [] xref: BTO:0000966 xref: EV:0100351 xref: FBbt:00001956 xref: TADS:0000232 is_a: UBERON:0000122 ! neuron projection bundle intersection_of: UBERON:0000122 ! neuron projection bundle intersection_of: extends_fibers_into UBERON:0000955 ! brain intersection_of: extends_fibers_into UBERON:0005388 ! photoreceptor array relationship: extends_fibers_into UBERON:0000955 ! brain relationship: extends_fibers_into UBERON:0005388 ! photoreceptor array relationship: part_of UBERON:0002104 ! visual system [Term] id: UBERON:0004905 name: articulation namespace: uberon def: "Anatomical cluster that connects two or more adjacent skeletal elements or hardened body parts." [http://orcid.org/0000-0002-6601-2165] subset: grouping_class synonym: "joint" NARROW [] xref: FBbt:00005811 is_a: UBERON:0034921 ! multi organ part structure relationship: part_of UBERON:0004770 ! articular system [Term] id: UBERON:0004906 name: ectodermal part of digestive tract namespace: uberon def: "A portion of the gut that is derived from ectoderm." [GO:0007439] synonym: "ectodermal gut" EXACT [] synonym: "gut ectoderm" EXACT [EMAPA:32930] is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0004921 ! subdivision of digestive tract intersection_of: UBERON:0004921 ! subdivision of digestive tract intersection_of: develops_from UBERON:0000924 ! ectoderm intersection_of: part_of UBERON:0001555 ! digestive tract [Term] id: UBERON:0004908 name: upper digestive tract namespace: uberon def: "The region of the digestive tract extending from the mouth cavity through pharynx esophagus stomach and duodenum." [Wikipedia:Alimentary_canal#Upper_gastrointestinal_tract] def: "The region of the digestive tract extending from the mouth cavity through pharynx esophagus stomach and duodenum." [http://en.wikipedia.org/wiki/Alimentary_canal#Upper_gastrointestinal_tract] subset: uberon_slim synonym: "upper gastrointestinal tract" EXACT [] synonym: "upper GI tract" EXACT [] xref: FMA:49177 xref: galen:UpperGastrointestinalTract xref: http://linkedlifedata.com/resource/umls/id/C0226874 xref: http://www.snomedbrowser.com/Codes/Details/181244000 xref: NCIT:C33837 xref: SCTID:181244000 xref: UMLS:C0226874 {source="ncithesaurus:Upper_Gastrointestinal_Tract"} xref: Upper_gastrointestinal_tract xref: Wikipedia:Alimentary_canal#Upper_gastrointestinal_tract is_a: UBERON:0004921 ! subdivision of digestive tract relationship: develops_from UBERON:0001041 ! foregut property_value: UBPROP:0000012 "WP: small intestine, large intestine, anus. Anal canal not part of LGIT according to FMA, but anus is considered part of LGIT according to WP. Duodenum overlaps both U/L. In Galen, entire GI tract excludes esophagus" xsd:string {external_ontology="FMA"} [Term] id: UBERON:0004909 name: epithelium of gonad namespace: uberon def: "An epithelium surrounding a gonad." [OBOL:automatic] synonym: "gonad epithelium" EXACT [OBOL:automatic] synonym: "gonadal epithelium" EXACT [OBOL:automatic] synonym: "gonadal sheath" RELATED [FBbt:00004859] xref: EHDAA:4032 xref: EHDAA:5931 xref: FBbt:00004859 xref: http://linkedlifedata.com/resource/umls/id/C1517534 xref: NCIT:C32676 xref: UMLS:C1517534 {source="ncithesaurus:Germinal_Epithelium"} is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000483 ! epithelium is_a: UBERON:0005156 ! reproductive structure intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0000991 ! gonad relationship: part_of UBERON:0000991 ! gonad property_value: editor_note "after reasoning this should subsume the more specific germinal epithelium classes. We include the fly structure here although it is not clear if the sheath is an epithelium or a multi-tissue structure that includes epithelium as parts" xsd:string [Term] id: UBERON:0004911 name: epithelium of female gonad namespace: uberon def: "An epithelium surrounding an ovary." [OBOL:automatic] synonym: "ovarian epithelium" EXACT [OBOL:automatic] synonym: "ovarian sheath" NARROW SENSU [FBbt:00004896] synonym: "ovary epithelium" EXACT [OBOL:automatic] xref: BTO:0003661 xref: FBbt:00004896 is_a: UBERON:0004909 ! epithelium of gonad intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0000992 ! ovary relationship: part_of UBERON:0000992 ! ovary property_value: editor_note "after reasoning this should subsume the more specific germinal epithelium classes. We include the fly structure here although it is not clear if the sheath is an epithelium or a multi-tissue structure that includes epithelium as parts" xsd:string [Term] id: UBERON:0004921 name: subdivision of digestive tract namespace: uberon def: "A proximal-distal subdivision of the digestive tract." [http://orcid.org/0000-0002-6601-2165] subset: non_informative synonym: "alimentary system subdivision" RELATED [FMA:71131] synonym: "intestinal tract" RELATED [] synonym: "segment of intestinal tract" RELATED [] synonym: "subdivision of alimentary system" RELATED [FMA:71131] xref: FBbt:00100315 xref: FMA:71131 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0013522 ! subdivision of tube intersection_of: UBERON:0013522 ! subdivision of tube intersection_of: subdivision_of UBERON:0001555 ! digestive tract relationship: part_of UBERON:0001555 ! digestive tract relationship: subdivision_of UBERON:0001555 ! digestive tract property_value: IAO:0000232 "intended to denote both embryonic and adult structures. Note the FMA grouping here is not quite correct." xsd:string [Term] id: UBERON:0004923 name: organ component layer namespace: uberon def: "A part of a wall of an organ that forms a layer." [http://orcid.org/0000-0002-6601-2165] subset: upper_level xref: FMA:82485 is_a: UBERON:0000064 ! organ part relationship: only_in_taxon NCBITaxon:6072 ! Eumetazoa relationship: part_of UBERON:0000060 ! anatomical wall [Term] id: UBERON:0004924 name: submucosa of pharynx namespace: uberon def: "The tissue underlying the tunica mucosa of the pharynx." [BTO:0002113] synonym: "pharyngeal submucosa" EXACT [FMA:75144] synonym: "pharyngobasilar fascia" RELATED [] synonym: "pharynx submucosa" EXACT [OBOL:automatic] synonym: "submucous coat of pharynx" RELATED [BTO:0002113] synonym: "submucous layer of pharynx" RELATED [BTO:0002113] synonym: "tela submucosa pharyngea" EXACT LATIN [FMA:75144, FMA:TA] synonym: "tela submucosa pharyngis" EXACT LATIN [BTO:0002113] xref: BTO:0002113 xref: FMA:75144 xref: http://www.snomedbrowser.com/Codes/Details/19594009 xref: SCTID:19594009 is_a: UBERON:0004777 ! respiratory system submucosa is_a: UBERON:0018257 ! submucosa of digestive tract intersection_of: UBERON:0000009 ! submucosa intersection_of: part_of UBERON:0001042 ! chordate pharynx relationship: part_of UBERON:0001042 ! chordate pharynx [Term] id: UBERON:0005032 name: mucosa of lower lip namespace: uberon def: "A mucosa that is part of a lower lip [Automatically generated definition]." [OBOL:automatic] synonym: "lower labial mucosa" EXACT [UBERON:cjm] synonym: "lower lip mucosa" EXACT [OBOL:automatic] synonym: "lower lip mucosa of organ" EXACT [OBOL:automatic] synonym: "lower lip mucous membrane" EXACT [OBOL:automatic] synonym: "lower lip organ mucosa" EXACT [OBOL:automatic] synonym: "mucosa of organ of lower lip" EXACT [OBOL:automatic] synonym: "mucous membrane of lower lip" EXACT [OBOL:automatic] synonym: "organ mucosa of lower lip" EXACT [OBOL:automatic] xref: FMA:59833 xref: http://linkedlifedata.com/resource/umls/id/C0226939 xref: http://www.snomedbrowser.com/Codes/Details/362089001 xref: NCIT:C12225 xref: SCTID:362089001 xref: UMLS:C0226939 {source="ncithesaurus:Mucosa_of_the_Lower_Lip"} is_a: UBERON:0010314 ! structure with developmental contribution from neural crest is_a: UBERON:0036294 ! mucosa of lip intersection_of: UBERON:0000344 ! mucosa intersection_of: part_of UBERON:0001835 ! lower lip relationship: part_of UBERON:0001835 ! lower lip [Term] id: UBERON:0005056 name: external female genitalia namespace: uberon def: "An external genitalia that is part of a female reproductive system [Automatically generated definition]." [OBOL:automatic] comment: TODO: Relabel. Make distinct organ class. See https://github.com/obophenotype/uberon/issues/547 subset: organ_slim subset: pheno_slim synonym: "external female genital organ" EXACT [BTO:0003100] synonym: "external genitalia of female reproductive system" EXACT [OBOL:automatic] synonym: "female external genitalia" EXACT [FMA:45649] synonym: "organa genitalia feminina externa" RELATED [BTO:0003100] xref: BTO:0003100 xref: EMAPA:30984 xref: FMA:45649 xref: galen:FemaleExternalGenitalia xref: http://www.snomedbrowser.com/Codes/Details/362234008 xref: SCTID:362234008 is_a: UBERON:0003134 ! female reproductive organ is_a: UBERON:0004176 ! external genitalia intersection_of: UBERON:0004176 ! external genitalia intersection_of: part_of UBERON:0000474 ! female reproductive system disjoint_from: UBERON:0009196 ! indifferent external genitalia property_value: UBPROP:0000008 "in eutherians, this is known as the vulva in and composed of the mons pubis, the labia majora and minora, the clitoris, the vestibule of the vagina and its glands, and the opening of the urethra and of the vagina [MP:0003126]" xsd:string [Term] id: UBERON:0005057 name: immune organ namespace: uberon def: "An organ that is part of a immune system [Automatically generated definition]." [OBOL:automatic] subset: organ_slim subset: pheno_slim synonym: "immune system organ" EXACT [] is_a: UBERON:0000062 ! organ intersection_of: UBERON:0000062 ! organ intersection_of: part_of UBERON:0002405 ! immune system relationship: part_of UBERON:0002405 ! immune system [Term] id: UBERON:0005058 name: hemolymphoid system gland namespace: uberon def: "A gland that is part of a hemolymphoid system [Automatically generated definition]." [OBOL:automatic] subset: organ_slim synonym: "haemolymphoid system gland" RELATED [EMAPA:18766] synonym: "hemopoietic or lymphoid gland" EXACT [http://orcid.org/0000-0002-6601-2165] synonym: "hemopoietic or lymphoid organ" BROAD [GO:0048534] xref: EMAPA:18766 xref: MA:0002962 is_a: UBERON:0002530 ! gland intersection_of: UBERON:0002530 ! gland intersection_of: part_of UBERON:0002193 ! hemolymphoid system relationship: part_of UBERON:0002193 ! hemolymphoid system [Term] id: UBERON:0005061 name: neural groove namespace: uberon def: "The median dorsal longitudinal groove formed in the embryo by the neural plate after the appearance of the neural folds." [GO:0001842, http://en.wikipedia.org/wiki/Neural_groove, http://orcid.org/0000-0002-6601-2165] def: "The median dorsal longitudinal groove formed in the embryo by the neural plate after the appearance of the neural folds." [GO:0001842, http://orcid.org/0000-0002-6601-2165, Wikipedia:Neural_groove] xref: AAO:0011071 xref: EMAPA:35594 xref: FMA:295624 xref: http://braininfo.rprc.washington.edu/centraldirectory.aspx?ID=1363 xref: http://linkedlifedata.com/resource/umls/id/C0814992 xref: http://www.snomedbrowser.com/Codes/Details/361463007 xref: NCIT:C34224 xref: Neural:groove xref: SCTID:361463007 xref: UMLS:C0814992 {source="ncithesaurus:Neural_Groove"} xref: Wikipedia:Neural_groove xref: XAO:0000248 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0002050 ! embryonic structure relationship: part_of UBERON:0003075 ! neural plate property_value: UBPROP:0000001 "The neural groove is a shallow median groove between the neural folds of an embryo. The neural folds are two longitudinal ridges that are caused by a folding up of the ectoderm in front of the primitive streak of the developing embryo. The groove gradually deepens as the neural folds become elevated, and ultimately the folds meet and coalesce in the middle line and convert the groove into a closed tube, the neural tube or canal, the ectodermal wall of which forms the rudiment of the nervous system. After the coalescence of the neural folds over the anterior end of the primitive streak, the blastopore no longer opens on the surface but into the closed canal of the neural tube, and thus a transitory communication, the neurenteric canal, is established between the neural tube and the primitive digestive tube. The coalescence of the neural folds occurs first in the region of the hind-brain, and from there extends forward and backward; toward the end of the third week the front opening (anterior neuropore) of the tube finally closes at the anterior end of the future brain, and forms a recess which is in contact, for a time, with the overlying ectoderm; the hinder part of the neural groove presents for a time a rhomboidal shape, and to this expanded portion the term sinus rhomboidalis has been applied. Before the neural groove is closed a ridge of ectodermal cells appears along the prominent margin of each neural fold; this is termed the neural crest or ganglion ridge, and from it the spinal and cranial nerve ganglia and the ganglia of the sympathetic nervous system are developed. By the upward growth of the mesoderm the neural tube is ultimately separated from the overlying ectoderm. The cephalic end of the neural groove exhibits several dilatations, which, when the tube is closed, assume the form of three vesicles; these constitute the three primary cerebral vesicles, and correspond respectively to the future fore-brain (prosencephalon), mid-brain (mesencephalon), and hind-brain (rhombencephalon). The walls of the vesicles are developed into the nervous tissue and neuroglia of the brain, and their cavities are modified to form its ventricles. The remainder of the tube forms the medulla spinalis or spinal cord; from its ectodermal wall the nervous and neuroglial elements of the medulla spinalis are developed while the cavity persists as the central canal[Wikipedia:Neural_groove]." xsd:string {source="Wikipedia:Neural_groove"} property_value: UBPROP:0000001 "The neural groove is a shallow median groove between the neural folds of an embryo. The neural folds are two longitudinal ridges that are caused by a folding up of the ectoderm in front of the primitive streak of the developing embryo. The groove gradually deepens as the neural folds become elevated, and ultimately the folds meet and coalesce in the middle line and convert the groove into a closed tube, the neural tube or canal, the ectodermal wall of which forms the rudiment of the nervous system. After the coalescence of the neural folds over the anterior end of the primitive streak, the blastopore no longer opens on the surface but into the closed canal of the neural tube, and thus a transitory communication, the neurenteric canal, is established between the neural tube and the primitive digestive tube. The coalescence of the neural folds occurs first in the region of the hind-brain, and from there extends forward and backward; toward the end of the third week the front opening (anterior neuropore) of the tube finally closes at the anterior end of the future brain, and forms a recess which is in contact, for a time, with the overlying ectoderm; the hinder part of the neural groove presents for a time a rhomboidal shape, and to this expanded portion the term sinus rhomboidalis has been applied. Before the neural groove is closed a ridge of ectodermal cells appears along the prominent margin of each neural fold; this is termed the neural crest or ganglion ridge, and from it the spinal and cranial nerve ganglia and the ganglia of the sympathetic nervous system are developed. By the upward growth of the mesoderm the neural tube is ultimately separated from the overlying ectoderm. The cephalic end of the neural groove exhibits several dilatations, which, when the tube is closed, assume the form of three vesicles; these constitute the three primary cerebral vesicles, and correspond respectively to the future fore-brain (prosencephalon), mid-brain (mesencephalon), and hind-brain (rhombencephalon). The walls of the vesicles are developed into the nervous tissue and neuroglia of the brain, and their cavities are modified to form its ventricles. The remainder of the tube forms the medulla spinalis or spinal cord; from its ectodermal wall the nervous and neuroglial elements of the medulla spinalis are developed while the cavity persists as the central canal[Wikipedia:Neural_groove]." xsd:string {source="Neural:groove"} [Term] id: UBERON:0005062 name: neural fold namespace: uberon def: "One of the two elevated edges of the neural groove[GO,MP]." [GO:0001842, MP:0011256, Wikipedia:Neural_fold] def: "One of the two elevated edges of the neural groove[GO,MP]." [GO:0001842, http://en.wikipedia.org/wiki/Neural_fold, MP:0011256] subset: pheno_slim synonym: "medullary fold" EXACT [MP:0011256] xref: EHDAA2:0001249 xref: FMA:295618 xref: http://braininfo.rprc.washington.edu/centraldirectory.aspx?ID=1364 xref: http://linkedlifedata.com/resource/umls/id/C0814993 xref: http://www.snomedbrowser.com/Codes/Details/361461009 xref: NCIT:C34223 xref: Neural:fold xref: SCTID:361461009 xref: UMLS:C0814993 {source="ncithesaurus:Neural_Fold"} xref: Wikipedia:Neural_fold xref: XAO:0004087 is_a: UBERON:0002050 ! embryonic structure is_a: UBERON:0005157 ! epithelial fold is_a: UBERON:0005291 ! embryonic tissue is_a: UBERON:0010371 ! ecto-epithelium is_a: UBERON:0015212 ! lateral structure relationship: in_lateral_side_of UBERON:0005061 ! neural groove relationship: part_of UBERON:0005061 ! neural groove property_value: UBPROP:0000001 "In front of the primitive streak two longitudinal ridges, caused by a folding up of the ectoderm, make their appearance, one on either side of the middle line. These are named the neural folds; they commence some little distance behind the anterior end of the embryonic disk, where they are continuous with each other, and from there gradually extend backward, one on either side of the anterior end of the primitive streak. Also, after differentiation it turns into the neural tubes[Wikipedia:Neural_fold]." xsd:string {source="Wikipedia:Neural_fold"} property_value: UBPROP:0000001 "In front of the primitive streak two longitudinal ridges, caused by a folding up of the ectoderm, make their appearance, one on either side of the middle line. These are named the neural folds; they commence some little distance behind the anterior end of the embryonic disk, where they are continuous with each other, and from there gradually extend backward, one on either side of the anterior end of the primitive streak. Also, after differentiation it turns into the neural tubes[Wikipedia:Neural_fold]." xsd:string {source="Neural:fold"} [Term] id: UBERON:0005068 name: neural rod namespace: uberon def: "A solid rod of neurectoderm derived from the neural keel. The neural rod is roughly circular in cross section. Neural rod formation occurs during primary neurulation in teleosts[GO]. An intermediate stage in the development of the central nervous system present during the segmentation period; the neural rod is roughly cylindrical in shape, forms from the neural keel, and is not yet hollowed out into the neural tube[ZFIN]." [GO:0014024, ZFA:0000133] subset: efo_slim synonym: "neural tube rod" RELATED [GO:0014027] xref: EFO:0003498 xref: TAO:0000133 xref: ZFA:0000133 is_a: UBERON:0016879 ! future central nervous system relationship: develops_from UBERON:0007135 ! neural keel property_value: UBPROP:0000001 "An intermediate stage in the development of the central nervous system present during the segmentation period; the neural rod is roughly cylindrical in shape, forms from the neural keel, and is not yet hollowed out into the neural tube. Kimmel et al, 1995.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0000133", ontology="TAO", source="ZFIN:curator"} [Term] id: UBERON:0005076 name: hindbrain-spinal cord boundary namespace: uberon def: "An anatomical boundary that adjacent_to a hindbrain and adjacent_to a spinal cord." [OBOL:automatic] synonym: "hindbrain-spinal cord boundary region" EXACT [] is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0007651 ! anatomical junction intersection_of: UBERON:0007651 ! anatomical junction intersection_of: adjacent_to UBERON:0002028 ! hindbrain intersection_of: adjacent_to UBERON:0002240 ! spinal cord relationship: adjacent_to UBERON:0002028 ! hindbrain relationship: adjacent_to UBERON:0002240 ! spinal cord relationship: part_of UBERON:0001017 ! central nervous system [Term] id: UBERON:0005082 name: tube lumen namespace: uberon def: "A hole in a tube[GO]." [GO:0060609] xref: AEO:0000078 xref: EHDAA2:0004618 xref: RETIRED_EHDAA2:0003078 is_a: UBERON:0000464 ! anatomical space intersection_of: UBERON:0000464 ! anatomical space intersection_of: surrounded_by UBERON:0000025 ! tube relationship: surrounded_by UBERON:0000025 ! tube [Term] id: UBERON:0005085 name: ectodermal placode namespace: uberon def: "An ectodermal placode is a thickening of the ectoderm that is the primordium of many structures derived from the ectoderm[GO]" [GO:0060788] def: "An ectodermal placode is a thickening of the ectoderm that is the primordium of many structures derived from the ectoderm[GO]." [GO:0060788] synonym: "epithelial placode" RELATED [AEO:0000112] xref: AEO:0000218 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0001048 ! primordium is_a: UBERON:0002050 ! embryonic structure relationship: part_of UBERON:0000924 ! ectoderm property_value: editor_note "consder adding placodal ectoderm as a distinct class? Also place placodal ectoderm as develops_from ectoderm; need to check taxon-appropriateness" xsd:string property_value: UBPROP:0000008 "With the exception of the adenohypophysis, homologues of the nonneurogenic placodes (e.g. placodes giving rise to the teeth, hair follicles and lens), appear to be lacking in invertebrate chordates." xsd:string property_value: UBPROP:0000012 "in GO, covers optic, otic, olfactory, mammary, hair, tooth, sebaceous - and also insect structures" xsd:string {external_ontology="GO", source="https://github.com/geneontology/go-ontology/issues/12223#issuecomment-215692347"} property_value: UBPROP:0000012 "in GO, covers optic, otic, olfactory, mammary, hair, tooth, sebaceous - and also insect structures" xsd:string {external_ontology="GO", source="issuecomment-215692347"} [Term] id: UBERON:0005090 name: muscle structure namespace: uberon def: "Muscle structures are contractile cells, tissues or organs that are found in multicellular organisms[GO]." [GO:0061061] synonym: "muscle" RELATED [] synonym: "muscle element" RELATED [] synonym: "musculus" EXACT [FMA:30316] xref: EMAPA:32715 xref: FBbt:00005073 xref: FMA:30316 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000061 ! anatomical structure relationship: has_part CL:0000187 ! muscle cell relationship: only_in_taxon NCBITaxon:6072 ! Eumetazoa property_value: IAO:0000232 "in some organisms such as drosophila, muscles can be single cells. This class groups together all discrete muscle elements, from multicellular muscle organs in vertebrates, to individual single-cell muscles in drisophila" xsd:string [Term] id: UBERON:0005092 name: right horn of sinus venosus namespace: uberon synonym: "sinus venosus right horn" EXACT [VHOG:0000489] xref: EHDAA2:0001841 xref: EHDAA:484 xref: EMAPA:16239 xref: FMA:70318 xref: VHOG:0000489 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0002050 {source="FMA"} ! embryonic structure relationship: in_right_side_of UBERON:0002063 ! sinus venosus relationship: part_of UBERON:0002063 ! sinus venosus property_value: UBPROP:0000003 "Three major adaptations, or 'novel cardiac components', that were not present in the ancestor chordate heart tube can be distinguished in the lower vertebrate heart: the atrium, ventricle, and possibly the muscular sinus venosus.[uncertain][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000489", ontology="VHOG", source="DOI:10.1152/physrev.00006.2003 Moorman AFM, Christoffels VM, Cardiac Chamber Formation: Development, Genes, and Evolution. Physiological Reviews (2003", source="http://bgee.unil.ch/"} property_value: UBPROP:0000003 "Three major adaptations, or 'novel cardiac components', that were not present in the ancestor chordate heart tube can be distinguished in the lower vertebrate heart: the atrium, ventricle, and possibly the muscular sinus venosus.[uncertain][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000489", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1152/physrev.00006.2003 Moorman AFM, Christoffels VM, Cardiac Chamber Formation: Development, Genes, and Evolution. Physiological Reviews (2003"} [Term] id: UBERON:0005153 name: epithelial bud namespace: uberon def: "A bud is a protrusion that forms from an epithelial sheet by localized folding." [GO:0060572] xref: BTO:0001639 is_a: UBERON:0005157 ! epithelial fold [Term] id: UBERON:0005156 name: reproductive structure namespace: uberon def: "Any anatomical structure that is part of the reproductive system." [http://orcid.org/0000-0002-6601-2165] subset: grouping_class synonym: "reproductive system element" EXACT [] synonym: "reproductive system structure" EXACT [] is_a: UBERON:0010000 ! multicellular anatomical structure intersection_of: UBERON:0010000 ! multicellular anatomical structure intersection_of: part_of UBERON:0000990 ! reproductive system relationship: part_of UBERON:0000990 ! reproductive system [Term] id: UBERON:0005157 name: epithelial fold namespace: uberon def: "An epithelial sheet bent on a linear axis." [GO:0060571] is_a: UBERON:0000483 ! epithelium [Term] id: UBERON:0005158 name: parenchyma of central nervous system namespace: uberon def: "The functional tissue of the central nervous system consisting of neurons and glial cells." [CL:tm, https://github.com/obophenotype/uberon/issues/8] synonym: "central nervous system parenchyma" EXACT [OBOL:automatic] synonym: "CNS parenchyma" EXACT [OBOL:automatic] synonym: "parenchyma of central nervous system" EXACT [] synonym: "parenchyma of CNS" EXACT [OBOL:automatic] is_a: UBERON:0000353 ! parenchyma is_a: UBERON:0004121 ! ectoderm-derived structure intersection_of: UBERON:0000353 ! parenchyma intersection_of: part_of UBERON:0001017 ! central nervous system relationship: part_of UBERON:0001017 ! central nervous system [Term] id: UBERON:0005162 name: multi cell part structure namespace: uberon def: "A structure consisting of multiple cell components but which is not itself a cell and does not have (complete) cells as a part." [CARO:0001000] subset: upper_level synonym: "cell part cluster" RELATED [FMA:83115] synonym: "multi-cell-component structure" EXACT [CARO:0001000] synonym: "multi-cell-part structure" EXACT [CARO:0001000] xref: AAO:0011000 xref: CARO:0001000 xref: FBbt:00007060 xref: FMA:83115 is_a: BFO:0000040 ! material entity is_a: UBERON:0000477 {source="FMA"} ! anatomical cluster relationship: composed_primarily_of GO:0005575 ! cellular_component property_value: UBPROP:0000012 "we go with the FMA classification rather than the CARO one. FMA def: 'Anatomical cluster which has as direct parts cell parts from two or more cells.'" xsd:string {external_ontology="CARO", external_ontology="FMA"} [Term] id: UBERON:0005172 name: abdomen element namespace: uberon def: "An organ or element that is in the abdomen. Examples: spleen, intestine, kidney, abdominal mammary gland." [http://orcid.org/0000-0002-6601-2165] subset: non_informative synonym: "abdomen organ" EXACT [MA:0000522] xref: http://www.snomedbrowser.com/Codes/Details/272631008 xref: MA:0000522 xref: SCTID:272631008 is_a: UBERON:0005173 ! abdominal segment element intersection_of: UBERON:0000062 ! organ intersection_of: part_of UBERON:0000916 ! abdomen relationship: part_of UBERON:0000916 ! abdomen [Term] id: UBERON:0005173 name: abdominal segment element namespace: uberon def: "An organ or element that is part of the adbominal segment of the organism. This region can be further subdivided into the abdominal cavity and the pelvic region." [http://orcid.org/0000-0002-6601-2165] subset: non_informative synonym: "abdominal segment organ" EXACT [MA:0000529] xref: EMAPA:37062 {source="MA:th"} xref: MA:0000529 is_a: UBERON:0005177 ! trunk region element intersection_of: UBERON:0000062 ! organ intersection_of: part_of UBERON:0002417 ! abdominal segment of trunk relationship: part_of UBERON:0002417 ! abdominal segment of trunk [Term] id: UBERON:0005174 name: dorsal region element namespace: uberon def: "An organ or element that part of the dorsum of the organism. Examples: spinal cord, vertebrae, muscles of back." [http://orcid.org/0000-0002-6601-2165] subset: non_informative synonym: "back organ" EXACT [MA:0001901] synonym: "dorsal region organ" EXACT [] xref: EMAPA:37274 {source="MA:th"} xref: MA:0001901 is_a: UBERON:0000062 ! organ intersection_of: UBERON:0000062 ! organ intersection_of: part_of UBERON:0001137 ! dorsum relationship: part_of UBERON:0001137 ! dorsum [Term] id: UBERON:0005177 name: trunk region element namespace: uberon def: "An organ or element that part of the trunk region. The trunk region can be further subdividied into thoracic (including chest and thoracic cavity) and abdominal (including abdomen and pelbis) regions." [http://orcid.org/0000-0002-6601-2165] subset: non_informative subset: organ_slim synonym: "trunk organ" EXACT [MA:0000516] xref: EMAPA:37270 {source="MA:th"} xref: MA:0000516 is_a: UBERON:0000062 ! organ intersection_of: UBERON:0000062 ! organ intersection_of: part_of UBERON:0002100 ! trunk relationship: part_of UBERON:0002100 ! trunk [Term] id: UBERON:0005178 name: thoracic cavity element namespace: uberon def: "An organ or element that is in the thoracic cavity. Examples: lung, heart, longus colli." [http://orcid.org/0000-0002-6601-2165] subset: non_informative subset: pheno_slim synonym: "thoracic cavity organ" EXACT [MA:0000557] xref: EMAPA:37273 {source="MA:th"} xref: MA:0000557 is_a: UBERON:0002075 ! viscus is_a: UBERON:0005181 ! thoracic segment organ intersection_of: UBERON:0000062 ! organ intersection_of: located_in UBERON:0002224 ! thoracic cavity relationship: located_in UBERON:0002224 ! thoracic cavity [Term] id: UBERON:0005179 name: pelvic region element namespace: uberon def: "An organ or element that is part of the pelvic region. Examples: reproductive organs (in some organisms), urinary bladder, bones of the pelvis." [http://orcid.org/0000-0002-6601-2165] subset: non_informative subset: organ_slim subset: pheno_slim synonym: "pelvic element" EXACT [] synonym: "pelvis organ" EXACT [MA:0000543] synonym: "pelvis region organ" EXACT [] xref: EMAPA:37275 {source="MA:th"} xref: MA:0000543 is_a: UBERON:0005173 ! abdominal segment element intersection_of: UBERON:0000062 ! organ intersection_of: part_of UBERON:0002355 ! pelvic region of trunk relationship: part_of UBERON:0002355 ! pelvic region of trunk [Term] id: UBERON:0005181 name: thoracic segment organ namespace: uberon def: "An organ that part of the thoracic segment region. This region can be further subdividied chest and thoracic cavity regions." [http://orcid.org/0000-0002-6601-2165] subset: non_informative synonym: "upper body organ" RELATED [MA:0000563] xref: EMAPA:37271 {source="MA:th"} xref: MA:0000563 is_a: UBERON:0005177 ! trunk region element intersection_of: UBERON:0000062 ! organ intersection_of: part_of UBERON:0000915 ! thoracic segment of trunk relationship: part_of UBERON:0000915 ! thoracic segment of trunk [Term] id: UBERON:0005194 name: thoracic vein namespace: uberon def: "A vein that is part of a thorax [Automatically generated definition]." [OBOL:automatic] xref: EMAPA:37197 {source="MA:th"} xref: http://linkedlifedata.com/resource/umls/id/C0226629 xref: http://www.snomedbrowser.com/Codes/Details/281472008 xref: MA:0002235 xref: NCIT:C53142 xref: SCTID:281472008 xref: UMLS:C0226629 {source="ncithesaurus:Thoracic_Vein"} is_a: UBERON:0001638 ! vein is_a: UBERON:0003834 ! thoracic segment blood vessel intersection_of: UBERON:0001638 ! vein intersection_of: part_of UBERON:0000915 ! thoracic segment of trunk [Term] id: UBERON:0005216 name: optic eminence surface ectoderm namespace: uberon def: "An external ectoderm that is part of a optic eminence [Automatically generated definition]." [OBOL:automatic] xref: EMAPA:16539 xref: RETIRED_EHDAA2:0001311 xref: VHOG:0000520 is_a: UBERON:0000076 ! external ectoderm intersection_of: UBERON:0000076 ! external ectoderm intersection_of: part_of UBERON:0004348 ! optic eminence relationship: part_of UBERON:0005234 {is_inferred="true", source="https://github.com/obophenotype/uberon/wiki/Inferring-part-of-relationships"} ! optic eminence ectoderm relationship: part_of UBERON:0005234 {is_inferred="true", source="https://github.com/obophenotype/uberon/wiki/Inferring-part-of-relationships"} ! optic eminence ectoderm [Term] id: UBERON:0005234 name: optic eminence ectoderm namespace: uberon def: "An ectoderm that is part of a optic eminence [Automatically generated definition]." [OBOL:automatic] xref: EHDAA:940 xref: EMAPA:16539 xref: RETIRED_EHDAA2:0001309 xref: VHOG:0001105 is_a: UBERON:0000924 ! ectoderm intersection_of: UBERON:0000924 ! ectoderm intersection_of: part_of UBERON:0004348 ! optic eminence relationship: part_of UBERON:0004348 ! optic eminence [Term] id: UBERON:0005239 name: basal plate metencephalon namespace: uberon synonym: "metencephalon basal plate" EXACT [EHDAA2:0001154] xref: EHDAA2:0001154 xref: EMAPA:17078 xref: VHOG:0000320 is_a: UBERON:0004064 ! neural tube basal plate property_value: UBPROP:0000001 "The ventral half of the developing neural tube that is the metencephalon. [Chordate_evolution_and_the_origin_of_craniates:_An_old_brain_in_a_new_head._AnaT_Rec_(New_Anat)_(2000)_261(3):_111-125, See_Butler_AB][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000320", ontology="VHOG", source="http://bgee.unil.ch/"} [Term] id: UBERON:0005243 name: interventricular septum endocardium namespace: uberon def: "An endocardium that is part of a interventricular septum [Automatically generated definition]." [OBOL:automatic] synonym: "endocardium of interventricular septum" EXACT [FMA:83584] synonym: "interventricular septum endocardial tissue" RELATED [VHOG:0000615] xref: EHDAA2:0000886 xref: EHDAA2:0000887 xref: FMA:83584 xref: VHOG:0000615 is_a: UBERON:0002165 ! endocardium intersection_of: UBERON:0002165 ! endocardium intersection_of: part_of UBERON:0002094 ! interventricular septum relationship: part_of UBERON:0002094 ! interventricular septum property_value: editor_note "TODO - split?" xsd:string [Term] id: UBERON:0005248 name: bulbus cordis myocardium namespace: uberon def: "A myocardium that is part of a bulbus cordis [Automatically generated definition]." [OBOL:automatic] synonym: "bulbus cordis cardiac muscle" RELATED [VHOG:0000609] xref: EMAPA:36488 xref: VHOG:0000609 is_a: UBERON:0002349 ! myocardium intersection_of: UBERON:0002349 ! myocardium intersection_of: part_of UBERON:0004706 ! bulbus cordis relationship: part_of UBERON:0004706 ! bulbus cordis [Term] id: UBERON:0005250 name: stomatodeum gland namespace: uberon def: "A gland that is part of a stomodeum." [OBOL:automatic] subset: organ_slim synonym: "stomatodaeum gland" EXACT [VHOG:0000658] xref: VHOG:0000658 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0002530 ! gland intersection_of: UBERON:0002530 ! gland intersection_of: part_of UBERON:0000930 ! stomodeum relationship: part_of UBERON:0000930 ! stomodeum property_value: editor_note "check this" xsd:string [Term] id: UBERON:0005253 name: head mesenchyme namespace: uberon def: "Portion of primordial embryonic connective tissue of the developing head, consisting of mesenchymal cells supported in interlaminar jelly, that derive mostly from the mesoderm and contribute to head connective tissue, bone and musculature in conjunction with cranial neural crest cells." [ISBN:0683400088, MP:0011260] subset: efo_slim subset: pheno_slim subset: vertebrate_core synonym: "cephalic mesenchyme" EXACT [MP:0011260] synonym: "cranial mesenchyme" RELATED [MGI:anna] synonym: "desmocranium" RELATED PENDING_REVIEW [FMA:76622] xref: EFO:0003492 xref: EHDAA2:0000732 xref: EHDAA:179 xref: EMAPA:16098 xref: EMAPA_RETIRED:16269 xref: FMA:76622 xref: TAO:0000113 xref: VHOG:0000332 xref: ZFA:0000113 is_a: UBERON:0003104 ! mesenchyme is_a: UBERON:0005291 ! embryonic tissue intersection_of: UBERON:0003104 ! mesenchyme intersection_of: part_of UBERON:0000033 ! head relationship: part_of UBERON:0000033 ! head relationship: part_of UBERON:0009142 {source="EHDAA2"} ! entire embryonic mesenchyme property_value: UBPROP:0000001 "Mesoderm that will give rise, along with cranial neural crest cells, to connective tissue, bone and musculature in the head. (Source: BioGlossary, www.Biology-Text.com)[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0000113", ontology="TAO", source="ZFIN:curator"} [Term] id: UBERON:0005256 name: trunk mesenchyme namespace: uberon def: "Mesenchyme that is part of a developing trunk." [OBOL:automatic] subset: efo_slim subset: vertebrate_core synonym: "trunk and cervical mesenchyme" RELATED [EHDAA2:0002092] xref: EFO:0003485 xref: EHDAA2:0002092 xref: EHDAA:377 xref: EMAPA:16177 xref: TAO:0000081 xref: VHOG:0000281 xref: ZFA:0000081 is_a: UBERON:0003104 ! mesenchyme is_a: UBERON:0005291 ! embryonic tissue intersection_of: UBERON:0003104 ! mesenchyme intersection_of: part_of UBERON:0000922 ! embryo intersection_of: part_of UBERON:0002100 ! trunk relationship: part_of UBERON:0002100 ! trunk relationship: part_of UBERON:0009142 {source="EHDAA2"} ! entire embryonic mesenchyme [Term] id: UBERON:0005290 name: myelencephalon namespace: uberon def: "The posterior part of the developing vertebrate hindbrain or the corresponding part of the adult brain composed of the medulla oblongata and a portion of the fourth ventricle; as well as the glossopharyngeal nerve (CN IX), vagus nerve (CN X), accessory nerve (CN XI), hypoglossal nerve (CN XII), and a portion of the vestibulocochlear nerve (CN VIII).[BTO,WP]." [BTO:0000758, http://en.wikipedia.org/wiki/Myelencephalon] def: "The posterior part of the developing vertebrate hindbrain or the corresponding part of the adult brain composed of the medulla oblongata and a portion of the fourth ventricle; as well as the glossopharyngeal nerve (CN IX), vagus nerve (CN X), accessory nerve (CN XI), hypoglossal nerve (CN XII), and a portion of the vestibulocochlear nerve (CN VIII).[BTO,WP]." [BTO:0000758, Wikipedia:Myelencephalon] subset: uberon_slim synonym: "myelencephalon (medulla oblongata)" RELATED [DHBA:10662] xref: BTO:0000758 xref: CALOHA:TS-0607 xref: CALOHA:TS-2365 xref: DHBA:10662 xref: EHDAA2:0001207 xref: EHDAA:5526 xref: EMAPA:17082 xref: HBA:9512 xref: http://en.wikipedia.org/wiki/Myelencephalon xref: MA:0000205 xref: VHOG:0000456 xref: Wikipedia:Myelencephalon is_a: UBERON:0004733 ! segmental subdivision of hindbrain relationship: develops_from UBERON:0010096 ! future myelencephalon relationship: immediate_transformation_of UBERON:0010096 {evidence="definitional"} ! future myelencephalon property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/5/54/EmbryonicBrain.svg xsd:anyURI property_value: RO:0002174 NCBITaxon:7955 property_value: UBPROP:0000001 "The posterior of the two brain vesicles formed by specialization of the rhombencephalon in the developing embryo, it comprises the medulla oblongata. [TFD][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000456", ontology="VHOG", source="http://bgee.unil.ch/", source="http://medical-dictionary.thefreedictionary.com/myelencephalon"} property_value: UBPROP:0000001 "The posterior of the two brain vesicles formed by specialization of the rhombencephalon in the developing embryo, it comprises the medulla oblongata. [TFD][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000456", ontology="VHOG", source="http://bgee.unil.ch/", source="http://medical-dictionary.thefreedictionary.com/myelencephalon"} property_value: UBPROP:0000003 "The early development of most vertebrate brains is similar (...). The zebrafish neural tube follows the same basic differentiation pattern as the mammalian neural tube (reference 1); The brain develops from three embryonic enlargements of the neural tube, which later differentiate into five regions. A forebrain differentiates into telencephalon and diencephalon. The midbrain, or mesencephalon, remains undivided. The hindbrain divides into the metencephalon and myelencephalon. Cavities within the brain enlarge to form a series of interconnected ventricles (reference 2).[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000456", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0878932504 Gilbert SF, Developmental Biology (2006) p.381-382, ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.500"} property_value: UBPROP:0000003 "The early development of most vertebrate brains is similar (...). The zebrafish neural tube follows the same basic differentiation pattern as the mammalian neural tube (reference 1); The brain develops from three embryonic enlargements of the neural tube, which later differentiate into five regions. A forebrain differentiates into telencephalon and diencephalon. The midbrain, or mesencephalon, remains undivided. The hindbrain divides into the metencephalon and myelencephalon. Cavities within the brain enlarge to form a series of interconnected ventricles (reference 2).[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000456", ontology="VHOG", source="ISBN:978-0878932504 Gilbert SF, Developmental Biology (2006) p.381-382, ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.500", source="http://bgee.unil.ch/"} property_value: UBPROP:0000013 "the terms metencephalon and myelencephalon are only meaningful in mammals and birds - Neuroanatomy of the Zebrafish Brain. Note that its not clear if this refers to the developing medulla oblongata - MA (adult) has two distinct classes" xsd:string [Term] id: UBERON:0005291 name: embryonic tissue namespace: uberon def: "A portion of tissue that is part of an embryo." [OBOL:automatic] subset: pheno_slim subset: upper_level synonym: "developing tissue" RELATED [] synonym: "portion of embryonic tissue" EXACT [OBOL:automatic] xref: CALOHA:TS-2100 is_a: UBERON:0000479 ! tissue intersection_of: UBERON:0000479 ! tissue intersection_of: part_of UBERON:0000922 ! embryo relationship: part_of UBERON:0002050 ! embryonic structure [Term] id: UBERON:0005292 name: extraembryonic tissue namespace: uberon def: "Portion of tissue that is contiguous with the embryo and is comprised of portions of tissue or cells that will not contribute to the embryo." [https://orcid.org/0000-0002-6601-2165] subset: efo_slim synonym: "extra-embryonic tissue" EXACT [] xref: BTO:0003360 xref: CALOHA:TS-2119 xref: EFO:0001406 xref: MAT:0000061 xref: MIAA:0000061 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000479 ! tissue intersection_of: UBERON:0000479 ! tissue intersection_of: part_of UBERON:0016887 ! entire extraembryonic component relationship: part_of UBERON:0016887 ! entire extraembryonic component [Term] id: UBERON:0005316 name: endocardial endothelium namespace: uberon def: "The endothelial lining of the endocardium." [UBERON:cjm] synonym: "endocardium endothelium" EXACT [FMA:83596] synonym: "endothelium of endocardium" EXACT [FMA:83596] xref: FMA:83596 is_a: UBERON:0008307 ! heart endothelium intersection_of: UBERON:0001986 ! endothelium intersection_of: part_of UBERON:0002165 ! endocardium relationship: part_of UBERON:0002165 ! endocardium [Term] id: UBERON:0005317 name: pulmonary artery endothelium namespace: uberon def: "An pulmonary artery endothelium is an epithelium that lines the pulmonary artery[GO]." [GO:0061155] synonym: "pulmonary artery endothelial tube" EXACT [GO:0061155] xref: BTO:0000137 is_a: UBERON:0001917 ! endothelium of artery is_a: UBERON:0010314 ! structure with developmental contribution from neural crest intersection_of: UBERON:0001986 ! endothelium intersection_of: part_of UBERON:0002012 ! pulmonary artery relationship: part_of UBERON:0002012 ! pulmonary artery [Term] id: UBERON:0005334 name: oral lamina propria namespace: uberon def: "A lamina propria that is part of a mucosa of oral region." [OBOL:automatic] synonym: "lamina propria of oral mucosa" EXACT [] xref: EMAPA:26947 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000030 ! lamina propria intersection_of: UBERON:0000030 ! lamina propria intersection_of: part_of UBERON:0003343 ! mucosa of oral region relationship: part_of UBERON:0003343 ! mucosa of oral region [Term] id: UBERON:0005337 name: outflow tract of ventricle namespace: uberon def: "A ventricular outflow tract is a portion of either the left ventricle or right ventricle of the heart through which blood passes in order to enter the great arteries. The right ventricular outflow tract (RVOT) is an infundibular extension of the ventricular cavity which connects to the pulmonary artery. The left ventricular outflow tract (LVOT), which connects to the aorta, is nearly indistinguishable from the rest of the ventricle[WP]." [http://en.wikipedia.org/wiki/Ventricular_outflow_tract] def: "A ventricular outflow tract is a portion of either the left ventricle or right ventricle of the heart through which blood passes in order to enter the great arteries. The right ventricular outflow tract (RVOT) is an infundibular extension of the ventricular cavity which connects to the pulmonary artery. The left ventricular outflow tract (LVOT), which connects to the aorta, is nearly indistinguishable from the rest of the ventricle[WP]." [Wikipedia:Ventricular_outflow_tract] synonym: "heart ventricle outflow tract" EXACT [MP:0010224] synonym: "outflow part of ventricle" EXACT [] synonym: "ventricular outflow tract" EXACT [Wikipedia:Ventricular_outflow_tract] synonym: "ventricular outflow tract" EXACT [http://en.wikipedia.org/wiki/Ventricular_outflow_tract] xref: FMA:13225 xref: http://en.wikipedia.org/wiki/Ventricular_outflow_tract xref: Wikipedia:Ventricular_outflow_tract xref: XAO:0004140 is_a: UBERON:0004145 ! outflow tract intersection_of: UBERON:0004145 ! outflow tract intersection_of: part_of UBERON:0002082 ! cardiac ventricle relationship: part_of UBERON:0002082 ! cardiac ventricle [Term] id: UBERON:0005338 name: outflow tract aortic component namespace: uberon def: "An outflow tract that is part of a aorta." [OBOL:automatic] xref: EHDAA2:0001353 xref: EMAPA:17329 xref: MA:0000101 xref: VHOG:0001394 is_a: UBERON:0004145 ! outflow tract intersection_of: UBERON:0004145 ! outflow tract intersection_of: part_of UBERON:0000947 ! aorta relationship: part_of UBERON:0000947 ! aorta property_value: editor_note "merge with LVOT?" xsd:string [Term] id: UBERON:0005339 name: outflow tract pulmonary component namespace: uberon xref: EHDAA2:0001359 xref: EHDAA:4401 xref: EMAPA:17330 xref: MA:0000102 xref: VHOG:0001395 is_a: UBERON:0004145 ! outflow tract property_value: editor_note "merge with RVOT?" xsd:string [Term] id: UBERON:0005388 name: photoreceptor array namespace: uberon def: "An array of photoreceptors and any supporting cells found in an eye." [https://orcid.org/0000-0002-6601-2165] synonym: "light-sensitive tissue" EXACT [] xref: FBbt:00004200 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0004923 ! organ component layer intersection_of: UBERON:0004923 ! organ component layer intersection_of: composed_primarily_of CL:0000210 ! photoreceptor cell intersection_of: part_of UBERON:0000970 ! eye relationship: composed_primarily_of CL:0000210 ! photoreceptor cell relationship: part_of UBERON:0000970 ! eye relationship: part_of UBERON:0001016 ! nervous system [Term] id: UBERON:0005389 name: transparent eye structure namespace: uberon def: "A transparent structure that is part of a visual sense organ, the function of which is to direct or focus light onto a photoreceptor array." [http://orcid.org/0000-0002-6601-2165] subset: grouping_class synonym: "lens" NARROW [] is_a: UBERON:0000061 ! anatomical structure relationship: has_quality PATO:0000964 ! transparent relationship: part_of UBERON:0000970 ! eye property_value: UBPROP:0000009 "directing or focusing light onto light receptors" xsd:string [Term] id: UBERON:0005396 name: carotid artery segment namespace: uberon def: "One of: the common carotid artery, or its branches, the external and internal carotid arteries." [https://sourceforge.net/tracker/?func=detail&aid=3486870&group_id=76834&atid=994764, Wikipedia:Carotid_artery] def: "One of: the common carotid artery, or its branches, the external and internal carotid arteries." [http://en.wikipedia.org/wiki/Carotid_artery, https://sourceforge.net/tracker/?func=detail&aid=3486870&group_id=76834&atid=994764] subset: efo_slim subset: grouping_class subset: pheno_slim subset: vertebrate_core synonym: "carotid" EXACT [AAO:0010217] synonym: "carotid artery" EXACT [MA:0001925] synonym: "common carotid arterial subdivision" RELATED [FMA:70504] synonym: "subdivision of common carotid artery" EXACT [FMA:70504] xref: AAO:0010217 xref: BTO:0000168 xref: CALOHA:TS-0116 xref: Carotid:artery xref: EFO:0000818 xref: EHDAA:6385 xref: EMAPA:18609 xref: EV:0100379 xref: FMA:70504 xref: GAID:478 xref: galen:CarotidArtery xref: http://linkedlifedata.com/resource/umls/id/C0007272 xref: http://www.snomedbrowser.com/Codes/Details/362040006 xref: http://www.snomedbrowser.com/Codes/Details/69105007 xref: MA:0001925 xref: MAT:0000501 xref: MESH:D002339 xref: NCIT:C12687 xref: OpenCyc:Mx4rvg7rcJwpEbGdrcN5Y29ycA xref: SCTID:362040006 xref: SCTID:69105007 xref: TAO:0000097 xref: UMLS:C0007272 {source="ncithesaurus:Carotid_Artery"} xref: VHOG:0000266 xref: Wikipedia:Carotid_artery xref: ZFA:0000097 is_a: UBERON:0004573 {source="FMA"} ! systemic artery property_value: editor_note "This is a generic grouping class that is the superclass of the trunks/branches of the common carotid artery. Note that AOs vary widely in how they divide up and generalize arteries" xsd:string property_value: UBPROP:0000001 "Artery originating at the junction of the first two aortic arches and supplying the anterior brain. Kimmel et al, 1995.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0000097", ontology="TAO", source="ZFIN:curator"} [Term] id: UBERON:0005398 name: female reproductive gland namespace: uberon def: "A sex gland that is part of a female reproductive system." [OBOL:automatic] subset: organ_slim subset: pheno_slim xref: BTO:0000254 xref: MA:0000383 is_a: UBERON:0003937 ! reproductive gland intersection_of: UBERON:0003937 ! reproductive gland intersection_of: part_of UBERON:0000474 ! female reproductive system relationship: part_of UBERON:0003134 ! female reproductive organ [Term] id: UBERON:0005409 name: alimentary part of gastrointestinal system namespace: uberon def: "The part of the digestive system that excludes the hepatobiliary system." [http://orcid.org/0000-0002-6601-2165] subset: pheno_slim synonym: "alimentary system" RELATED [MA:0000323] synonym: "alimentary tract" RELATED [MA:0000323] synonym: "gastro-intestinal system" RELATED [FMA:71132] synonym: "gastroenterological system" RELATED [UBERON:cjm] synonym: "gastrointestinal (GI) tract" RELATED [GAID:294] synonym: "gastrointestinal system" RELATED [FMA:71132] synonym: "gastrointestinal tract" RELATED INCONSISTENT [FMA:71132] synonym: "GI tract" RELATED [GAID:294] xref: BTO:0000058 xref: CALOHA:TS-0407 xref: EHDAA2:0000110 xref: EHDAA:514 xref: EMAPA:16246 xref: EV:0100056 xref: FMA:71132 xref: GAID:294 xref: galen:GastrointestinalTract xref: MA:0000323 xref: MESH:A03.492 xref: NCIT:C12378 xref: SCTID:373871007 xref: UMLS:C0012240 {source="ncithesaurus:Gastrointestinal_System"} xref: VHOG:0000412 is_a: UBERON:0000467 ! anatomical system relationship: existence_ends_during UBERON:0000066 ! fully formed stage relationship: part_of UBERON:0001007 ! digestive system property_value: editor_note "the decision to split digestive and gastrointestinal in this way may be revisited. As it currently stands, this class more closely aligns what MA calls the alimentary system" xsd:string property_value: UBPROP:0000001 "The system that includes the esophagus, stomach, small and large intestine, anus, liver, biliary tract, and pancreas[ncithesaurus:Gastrointestinal_System]." xsd:string {source="ncithesaurus:Gastrointestinal_System"} property_value: UBPROP:0000003 "All metazoans (with degenerate exceptions) have some sort of digestive cavity with a means of entrance to and exit from it.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000412", ontology="VHOG", source="ISBN:978-0721676685 Sherwood Romer A and Parsons T, Vertebrate body (1977) p.3", source="http://bgee.unil.ch/"} property_value: UBPROP:0000012 "that many anatomy ontologies consider this synonymous with digestive system. here we follow MA in dividing digestive system into gastrointestinal and hepatobiliary. hepatobiliary includes the liver and biliary tract. species-specific AO classes are categorized according to whether liver is included. For example, XAO includes liver as part of XAO:0000125 alimentary system, so we assume this class is the more generic class. We have one entity that is part of both gastrointestinal and hepatobiliary systems: hepatopancreatic ampulla." xsd:string {external_ontology="MA"} [Term] id: UBERON:0005419 name: pectoral appendage bud namespace: uberon def: "A limb bud that develops into a forelimb or pectoral fin." [OBOL:automatic] comment: at this time we have no need to name a more specific 'pectoral fin bud' class, but we may in future subset: efo_slim synonym: "forelimb - pectoral fin bud" EXACT [VHOG:0001754] synonym: "pectoral fin bud" RELATED [TAO:0000141] synonym: "pectoral fin buds" RELATED PLURAL [TAO:0000141] xref: EFO:0003430 xref: TAO:0000141 xref: VHOG:0001754 xref: VHOG_RETIRED:0001259 xref: ZFA:0000141 is_a: UBERON:0004357 ! paired limb/fin bud intersection_of: UBERON:0004357 ! paired limb/fin bud intersection_of: has_potential_to_develop_into UBERON:0004710 ! pectoral appendage relationship: has_developmental_contribution_from UBERON:0005729 ! pectoral appendage field relationship: has_potential_to_develop_into UBERON:0004710 ! pectoral appendage relationship: part_of UBERON:0000153 ! anterior region of body property_value: UBPROP:0000001 "Fin bud that develops into the pectoral fin.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0000141", ontology="TAO", source="ZFIN:curator"} property_value: UBPROP:0000003 "While the skeletons of teleost pectoral fins and tetrapod forelimbs are homologous at the level of endoskeletal radials, teleosts and tetrapods do not share homologous skeletal elements at the level of 'individuated' pro-, meso-, and metapterygia. Among osteichthyans, only basal actinopterygians retain the full complement of elements present in non-osteichthyan gnathostomes.[uncertain][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001754", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1002/jmor.10264 Davis MC, Shubin NH, Force A, Pectoral fin and girdle development in the basal actinopterygians Polyodon spathula and Acipenser transmontanus. Journal of Morphology (2004)"} [Term] id: UBERON:0005420 name: pelvic appendage bud namespace: uberon def: "A limb bud that develops into a hindlimb or pelvic fin." [OBOL:automatic] comment: at this time we have no need to name a more specific 'pelvic fin bud' class, but we may in future subset: efo_slim synonym: "hindlimb/pelvic fin bud" EXACT [VHOG:0001260] synonym: "pelvic fin bud" RELATED [TAO:0001384] synonym: "pelvic fin buds" RELATED PLURAL [ZFA:0001384] xref: EFO:0003469 xref: TAO:0001384 xref: VHOG:0001260 xref: ZFA:0001384 is_a: UBERON:0004357 ! paired limb/fin bud intersection_of: UBERON:0004357 ! paired limb/fin bud intersection_of: has_potential_to_develop_into UBERON:0004709 ! pelvic appendage intersection_of: part_of UBERON:0000154 ! posterior region of body relationship: has_developmental_contribution_from UBERON:0005730 ! pelvic appendage field relationship: has_potential_to_develop_into UBERON:0004709 ! pelvic appendage relationship: part_of UBERON:0000154 ! posterior region of body property_value: RO:0002161 NCBITaxon:31033 {source="http://www.ncbi.nlm.nih.gov/pubmed/15893975"} property_value: UBPROP:0000001 "Fin bud that develops into the pelvic fin.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0001384", ontology="TAO", source="ZFIN:curator"} property_value: UBPROP:0000003 "Most anatomists now agree that the three proximal bones of the tetrapod limbs are homologous to the two or three proximal elements of the paired fin skeleton of other sarcopterygians, that is the humerus-femur, radius-tibia, and ulna-fibula.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001260", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0198540472 Janvier P, Early vertebrates (1996) p.268"} [Term] id: UBERON:0005421 name: pectoral appendage apical ectodermal ridge namespace: uberon def: "An apical ectodermal ridge that is part of a pectoral appendage bud." [OBOL:automatic] subset: efo_slim subset: vertebrate_core synonym: "AER forelimb" NARROW [VHOG:0001064] synonym: "aer pectoral fin" RELATED [TAO:0000085] synonym: "apical ectodermal ridge forelimb" NARROW [VHOG:0001064] synonym: "apical ectodermal ridge pectoral fin" RELATED [TAO:0000085] synonym: "apical ectodermal ridge pectoral fin bud" NARROW [ZFA:0000085] synonym: "apical fold pectoral fin" RELATED [TAO:0000085] synonym: "upper limb bud apical ectodermal ridge" NARROW [EHDAA2:0000138] synonym: "wing AER" NARROW SENSU [Giesha:syn] synonym: "wing apical ectodermal ridge" NARROW SENSU [] xref: EFO:0003487 xref: EHDAA2:0000138 xref: EMAPA:16778 xref: TAO:0000085 xref: TAO:0000736 xref: VHOG:0001064 xref: ZFA:0000085 is_a: UBERON:0004356 ! apical ectodermal ridge intersection_of: UBERON:0004356 ! apical ectodermal ridge intersection_of: part_of UBERON:0005419 ! pectoral appendage bud relationship: develops_from UBERON:0003372 {source="EHDAA2"} ! pectoral appendage bud ectoderm relationship: part_of UBERON:0005419 ! pectoral appendage bud property_value: UBPROP:0000001 "An ectodermal thickening at the end of the forelimb bud in the developing embryo. [TFD][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001064", ontology="VHOG", source="http://bgee.unil.ch/", source="http://medical-dictionary.thefreedictionary.com/apical+ectodermal+ridge"} property_value: UBPROP:0000001 "Apical ectodermal ridge that is part of the pectoral fin bud.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0000085", ontology="TAO", source="ZFIN:curator"} property_value: UBPROP:0000003 "Pectoral and pelvic fins are homologous to the tetrapod fore and hindlimb, respectively. (...) The zebrafish AER [apical ectodermal ridge] is an apical ectodermal thickening at the distal tip of the fin bud and consists of wedge-shaped cells of the basal stratum. The AER is observed only transiently, and from 36 hpf onwards the cells of this region form the apical fold (AF), which consists of a dorsal and a ventral layer of cylindrically-shaped ectodermal cells extending from the anterior to the posterior fin margin. Despite the change in shape, the AF still carries out the same functions as the AER. Indeed, although the AER receives its name from its characteristic shape, being composed of a pseudostratified ectoderm in the chicken and a polystratified ectoderm in the mouse, this independence of AER morphology from its function is also observed in tetrapods. The AF also expresses similar molecular markers to the tetrapod AER, suggesting that it fulfills similar functions in the fin as the AER does in tetrapod limbs.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001064", ontology="VHOG", source="http://bgee.unil.ch/", source="https://doi.org/10.1111/j.1440-169X.2007.00942.x"} [Term] id: UBERON:0005422 name: pelvic appendage apical ectodermal ridge namespace: uberon def: "An apical ectodermal ridge that is part of a pelvic appendage bud." [OBOL:automatic] subset: efo_slim subset: vertebrate_core synonym: "AER hindlimb" RELATED [VHOG:0001066] synonym: "apical ectodermal ridge hind limb" NARROW [VHOG:0001066] synonym: "apical ectodermal ridge hindlimb" NARROW [VHOG:0001066] synonym: "apical ectodermal ridge pelvic fin bud" RELATED [TAO:0001385] synonym: "leg AER" RELATED [] synonym: "lower lmb bud apical ectodermal ridge" NARROW [EHDAA2:0003194] xref: EFO:0003681 xref: EHDAA2:0003194 xref: EMAPA:16892 xref: TAO:0001385 xref: VHOG:0001066 xref: ZFA:0001385 is_a: UBERON:0004356 ! apical ectodermal ridge intersection_of: UBERON:0004356 ! apical ectodermal ridge intersection_of: part_of UBERON:0005420 ! pelvic appendage bud relationship: develops_from UBERON:0003371 {source="EHDAA2"} ! pelvic appendage bud ectoderm relationship: part_of UBERON:0005420 ! pelvic appendage bud property_value: UBPROP:0000001 "An ectodermal thickening at the end of the hindlimb bud in the developing embryo. [TFD][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001066", ontology="VHOG", source="http://bgee.unil.ch/", source="http://medical-dictionary.thefreedictionary.com/apical+ectodermal+ridge"} property_value: UBPROP:0000001 "Apical ectodermal ridge that is part of the pelvic fin bud.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0001385", ontology="TAO", source="ZIFIN:curator"} property_value: UBPROP:0000003 "Pectoral and pelvic fins are homologous to the tetrapod fore and hindlimb, respectively. (...) The zebrafish AER [apical ectodermal ridge] is an apical ectodermal thickening at the distal tip of the fin bud and consists of wedge-shaped cells of the basal stratum. The AER is observed only transiently, and from 36 hpf onwards the cells of this region form the apical fold (AF), which consists of a dorsal and a ventral layer of cylindrically-shaped ectodermal cells extending from the anterior to the posterior fin margin. Despite the change in shape, the AF still carries out the same functions as the AER. Indeed, although the AER receives its name from its characteristic shape, being composed of a pseudostratified ectoderm in the chicken and a polystratified ectoderm in the mouse, this independence of AER morphology from its function is also observed in tetrapods. The AF also expresses similar molecular markers to the tetrapod AER, suggesting that it fulfills similar functions in the fin as the AER does in tetrapod limbs.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001066", ontology="VHOG", source="http://bgee.unil.ch/", source="https://doi.org/10.1111/j.1440-169X.2007.00942.x"} [Term] id: UBERON:0005423 name: developing anatomical structure namespace: uberon synonym: "developing structure" RELATED [] synonym: "developmental structure" RELATED [] synonym: "developmental tissue" RELATED [MIAA:0000019] xref: AEO:0000125 xref: CALOHA:TS-2122 xref: EHDAA2:0003125 xref: FBbt:00007006 xref: FMA:292313 xref: MIAA:0000019 is_a: UBERON:0000465 ! material anatomical entity relationship: capable_of GO:0032502 ! developmental process [Term] id: UBERON:0005425 name: presumptive neural retina namespace: uberon def: "Portion of tissue that is the inner layer of the optic cup and will become the neural retina." [ZFIN:curator] subset: vertebrate_core synonym: "future neural epithelium" RELATED [EMAPA:16675] synonym: "future neural layer" RELATED [EMAPA:16675] synonym: "future neural retina" EXACT [] synonym: "future NR" RELATED [] synonym: "future retinal neural layer" EXACT [] synonym: "inner layer optic cup" EXACT [ZFA:0001071] synonym: "optic cup inner layer" EXACT [EHDAA2:0001304] synonym: "presumptive retina" RELATED [TAO:0001071] synonym: "presumptive retinas" EXACT PLURAL [ZFA:0001071] xref: EHDAA2:0001304 xref: EMAPA:16675 xref: TAO:0001071 xref: VHOG:0000490 xref: ZFA:0001071 is_a: UBERON:0006598 ! presumptive structure is_a: UBERON:0010312 ! immature eye intersection_of: UBERON:0006598 ! presumptive structure intersection_of: has_potential_to_develop_into UBERON:0003902 ! retinal neural layer relationship: has_potential_to_develop_into UBERON:0003902 ! retinal neural layer relationship: part_of UBERON:0003072 ! optic cup property_value: UBPROP:0000003 "(...) an essentially similar sequence of events occurs during the embryonic development of the vertebrate eye. The eye initially develops as a single median evagination of the diencephalon that soon bifurcates to form the paired optic vesicles. As each optic vesicle grows towards the body surface, its proximal part narrows as the optic stalk, and its distal part invaginates to form a two-layered optic cup. (...) The outer layer of the optic cup becomes the pigment layer of the retina, whereas the inner layer differentiates into the photoreceptive cells and neuronal layers of the retina.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000490", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.429"} property_value: UBPROP:0000003 "(...) an essentially similar sequence of events occurs during the embryonic development of the vertebrate eye. The eye initially develops as a single median evagination of the diencephalon that soon bifurcates to form the paired optic vesicles. As each optic vesicle grows towards the body surface, its proximal part narrows as the optic stalk, and its distal part invaginates to form a two-layered optic cup. (...) The outer layer of the optic cup becomes the pigment layer of the retina, whereas the inner layer differentiates into the photoreceptive cells and neuronal layers of the retina.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000490", ontology="VHOG", source="ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.429", source="http://bgee.unil.ch/"} [Term] id: UBERON:0005426 name: lens vesicle namespace: uberon def: "Portion of tissue that gives rise to the lens." [https://sourceforge.net/tracker/?func=detail&atid=994726&aid=3514998&group_id=76834, ZFIN:curator] subset: pheno_slim subset: vertebrate_core synonym: "hollow lens vesicle" NARROW SENSU [] synonym: "immature lens" RELATED [ZFA:0001679] synonym: "lens mass" RELATED [ZFA:0001679, ZFIN:ZDB-PUB-091023-49] synonym: "presumptive lens" RELATED [ZFA:0001679] synonym: "solid lens vesicle" NARROW SENSU [ZFA:0001679] xref: EHDAA2:0000983 xref: EHDAA:4737 xref: EMAPA:17163 xref: http://www.snomedbrowser.com/Codes/Details/361510002 xref: SCTID:361510002 xref: TAO:0002205 xref: VHOG:0001163 xref: ZFA:0001679 is_a: UBERON:0000479 ! tissue is_a: UBERON:0004121 ! ectoderm-derived structure relationship: develops_from UBERON:0003073 ! lens placode relationship: has_quality PATO:0001736 {gci_relation="part_of", gci_filler="NCBITaxon:32443", notes="teleosts"} ! solid configuration relationship: has_quality PATO:0002078 {gci_relation="part_of", gci_filler="NCBITaxon:40674", notes="Mammals"} ! hollow property_value: UBPROP:0000001 "A vesicle formed from the lens pit of the embryo, developing into the crystalline lens. [TFD][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001163", ontology="VHOG", source="http://bgee.unil.ch/", source="http://medical-dictionary.thefreedictionary.com/lens+vesicle"} property_value: UBPROP:0000001 "A vesicle formed from the lens pit of the embryo, developing into the crystalline lens. [TFD][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001163", ontology="VHOG", source="http://bgee.unil.ch/", source="http://medical-dictionary.thefreedictionary.com/lens+vesicle"} property_value: UBPROP:0000003 "(...) an essentially similar sequence of events occurs during the embryonic development of the vertebrate eye. The eye initially develops as a single median evagination of the diencephalon that soon bifurcates to form the paired optic vesicles. As each optic vesicle grows towards the body surface, its proximal part narrows as the optic stalk, and its distal part invaginates to form a two-layered optic cup. (...) The optic cup induces the overlying surface ectoderm first to thicken as a lens placode and then to invaginate and form a lens vesicle that differentiates into the lens.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001163", ontology="VHOG", source="ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.429", source="http://bgee.unil.ch/"} property_value: UBPROP:0000003 "(...) an essentially similar sequence of events occurs during the embryonic development of the vertebrate eye. The eye initially develops as a single median evagination of the diencephalon that soon bifurcates to form the paired optic vesicles. As each optic vesicle grows towards the body surface, its proximal part narrows as the optic stalk, and its distal part invaginates to form a two-layered optic cup. (...) The optic cup induces the overlying surface ectoderm first to thicken as a lens placode and then to invaginate and form a lens vesicle that differentiates into the lens.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001163", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.429"} property_value: UBPROP:0000011 "the lens of zebrafish (and other teleosts) forms from delamination of cells from the lens placode; thus, there is no formation of a hollow lens vesicle, in contrast to the situation in mammals and birds (Glass and Dahm, 2004) [PMID:16496288] The lens of the zebrafish forms by delamination of lens placodal cells and not through invagination. This results in a solid spherical mass as opposed to a hollow lens vesicle. Detachment of the solid lens vesicle of zebrafish at 24b26 hpf is accomplished in part by apoptosis, similar to mammals" xsd:string {source="ZFA"} [Term] id: UBERON:0005427 name: corneal primordium namespace: uberon def: "Portion of tissue that is part of the eye and gives rise to the mature, fully layered cornea." [ZFIN:ZDB-PUB-061010-3] xref: TAO:0002188 xref: ZFA:0001688 is_a: UBERON:0000479 {source="ZFA"} ! tissue is_a: UBERON:0001048 {source="Obol"} ! primordium is_a: UBERON:0010312 ! immature eye is_a: UBERON:0010313 ! neural crest-derived structure relationship: part_of UBERON:0000019 {source="ZFA"} ! camera-type eye [Term] id: UBERON:0005428 name: vagal neural crest namespace: uberon def: "Vagal neural crest is adjacent to the first seven somites gives rise to both ganglionic and ectomesenchymal derivatives[ZFA]." [ZFIN:curator] subset: vertebrate_core synonym: "enteric neural crest" RELATED [] synonym: "post-otic neural crest" RELATED [ZFA:0000818] synonym: "VNC" EXACT ABBREVIATION [XAO:0004191] xref: EHDAA2:0002156 xref: EHDAA:669 xref: TAO:0000818 xref: VHOG:0001208 xref: XAO:0004191 xref: ZFA:0000818 is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0005291 ! embryonic tissue relationship: part_of UBERON:0002342 ! neural crest property_value: UBPROP:0000001 "Vagal neural crest is adjacent to the first seven somites gives rise to both ganglionic and ectomesenchymal derivatives.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0000818", ontology="TAO", source="ZFIN:curator"} property_value: UBPROP:0000003 "We conclude this section by listing some of the many synapomorphies of craniates, including (1) the neural crest (...).[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001208", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.43"} property_value: UBPROP:0000003 "We conclude this section by listing some of the many synapomorphies of craniates, including (1) the neural crest (...).[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001208", ontology="VHOG", source="ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.43", source="http://bgee.unil.ch/"} property_value: UBPROP:0000008 "In chicken fate mapping studies it was found to originate from neural crest residing between Somite 1-7 (S1-7); In mouse it is considered to be derived from rhombencephalic (post otic) neural crest cells and trunk neural crest cells (anterior to S5)" xsd:string {source="filemaps.com"} [Term] id: UBERON:0005432 name: aortic sac namespace: uberon def: "The dilated structure that is lined by endothelial cells and located at the arterial pole of the heart just above (distal to) the truncus arteriosus in mammalian embryos; it is the primordial vascular channel from which the aortic arches (and eventually the dorsal aortae) arise; the aortic sac is homologous to the ventral aorta of gill-bearing vertebrates." [MP:0012510] subset: pheno_slim synonym: "saccus aorticus" EXACT LATIN [] xref: EHDAA2:0004145 xref: EHDAA:9826 xref: EMAPA:36461 xref: FMA:71008 xref: http://www.snomedbrowser.com/Codes/Details/361527005 xref: RETIRED_EHDAA2:0000133 xref: SCTID:361527005 is_a: UBERON:0001637 {source="EHDAA2"} ! artery is_a: UBERON:0002050 ! embryonic structure is_a: UBERON:0003498 ! heart blood vessel is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: develops_from UBERON:0004363 {source="EHDAA2"} ! pharyngeal arch artery relationship: part_of UBERON:0004145 ! outflow tract property_value: UBPROP:0000001 "the merged ventral aortae of the embryo which supplies blood to the aortic arches[TMD][http://medical-dictionary.thefreedictionary.com/aortic+sac]." xsd:string {source="http://medical-dictionary.thefreedictionary.com/aortic+sac"} property_value: UBPROP:0000001 "the merged ventral aortae of the embryo which supplies blood to the aortic arches[TMD][http://medical-dictionary.thefreedictionary.com/aortic+sac]." xsd:string {source="http://medical-dictionary.thefreedictionary.com/aortic+sac"} [Term] id: UBERON:0005434 name: cervical region namespace: uberon synonym: "cervical region" EXACT [FMA:24219] synonym: "neck subdivision" EXACT [FMA:24219] synonym: "region of neck" EXACT [FMA:24219] synonym: "subdivision of neck" EXACT [FMA:24219] xref: FMA:24219 xref: SCTID:123958008 is_a: UBERON:0011676 ! subdivision of organism along main body axis relationship: only_in_taxon NCBITaxon:8287 ! Sarcopterygii relationship: part_of UBERON:0000974 ! neck [Term] id: UBERON:0005478 name: sulcus limitans of neural tube namespace: uberon def: "A longitudinal groove in the neural tube wall that divides the neural tube into dorsal (alar) and ventral (basal) halves (dorsal receives input from sensory neurons, ventral effects motor functions); stretches from the mesencephalon caudad[TMD]." [http://medical-dictionary.thefreedictionary.com/Sulcus+limitans, http://www.ncbi.nlm.nih.gov/books/NBK10047] synonym: "neural tube lateral wall sulcus limitans" EXACT [EHDAA2:0001265] synonym: "sulcus limitans" BROAD [] xref: BAMS:slim xref: BAMS:slm xref: http://braininfo.rprc.washington.edu/centraldirectory.aspx?ID=629 is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0006846 ! surface groove relationship: part_of UBERON:0005496 {source="EHDAA2"} ! neural tube lateral wall [Term] id: UBERON:0005496 name: neural tube lateral wall namespace: uberon def: "Portion of tissue on the side of the lumen of the neural tube." [ZFA:0001435] subset: vertebrate_core synonym: "lateral wall neural tube" EXACT [ZFA:0001435] xref: EHDAA2:0001257 xref: EHDAA:2873 xref: EHDAA:912 xref: EMAPA:16166 xref: TAO:0001435 xref: VHOG:0000513 xref: ZFA:0001435 is_a: UBERON:0004121 ! ectoderm-derived structure relationship: part_of UBERON:0001049 ! neural tube [Term] id: UBERON:0005497 name: non-neural ectoderm namespace: uberon comment: Gene notes: One of the first genes to be expressed in nonneural ectoderm in amphioxus is BMP2/4 (Panopoulou et al. 1998). BMP2/4 homologues appear to have a very ancient role in distinguishing neural from nonneural ectoderm; in Drosophila as well as in amphioxus and vertebrates, BMP2/4 homologues are expressed in nonneural ectoderm and function in distinguishing neural from nonneural ectoderm (Francois & Bier, 1995 ; Sasai et al. 1995 ; Wilson & Hemmati-Brivanlou, 1995; Panopoulou et al. 1998). A change in level of BMP2/4 from very high in nonneural ectoderm to low in neural ectoderm appears to be a key factor in development of neural crest (Baker & Bronner-Fraser,1997a,1997b;Erickson&Reedy,1998;Marchantet al.1998 ;Selleck et al. 1998). subset: efo_slim subset: vertebrate_core synonym: "epidermal ectoderm" NARROW [https://github.com/obophenotype/uberon/wiki/The-neural-crest] synonym: "epithelial ectoderm" NARROW [https://github.com/obophenotype/uberon/wiki/The-neural-crest] synonym: "non neural ectoderm" EXACT [ZFA:0001178] synonym: "surface ectoderm" RELATED [https://github.com/obophenotype/uberon/wiki/The-neural-crest] synonym: "ventral ectoderm" RELATED [ZFA:0001178] xref: EFO:0003643 xref: EHDAA:257 xref: EMAPA:16074 xref: RETIRED_EHDAA2:0001273 xref: TAO:0001178 xref: VHOG:0001372 xref: XAO:0004091 xref: ZFA:0001178 is_a: UBERON:0000479 {source="ZFA"} ! tissue is_a: UBERON:0004121 ! ectoderm-derived structure property_value: editor_note "todo - epidermis? todo - track down EHDAA2 class in new release" xsd:string property_value: RO:0002171 UBERON:0002346 property_value: UBPROP:0000003 "In the early gastrula of vertebrates, factors from the organizer (e.g. noggin, chordin, and follistatin in Xenopus) antagonize the epidermalizing factor bone morphogenetic protein 4 (BMP4), thus dividing the epiblast into neuroectoderm. In Drosophila, decapentaplegic, the homologue of BMP4, interacts similarly with the protein short gastrulation, the homologue of chordin. Thus, a comparable molecular mechanism for distinguishing non-neural ectoderm from neural ectoderm was probably present in the common ancestor of all bilaterally symmetrical animals.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001372", ontology="VHOG", source="DOI:10.1016/S0959-4388(99)00003-3 Holland LZ and Holland ND, Chordate origins of the vertebrate central nervous system. Current Opinion in Neurobiology (1999)", source="http://bgee.unil.ch/"} property_value: UBPROP:0000011 "After gastrulation, neural crest cells are specified at the border of the neural plate and the non-neural ectoderm." xsd:string [Term] id: UBERON:0005498 name: primitive heart tube namespace: uberon def: "Multi-tissue structure that arises from the heart rudiment and will become the heart tube." [ZFA:0000149] subset: vertebrate_core synonym: "early primitive heart tube" NARROW [EMAPA:16208] synonym: "primitive heart tube" EXACT [EMAPA:16215] xref: EHDAA2:0001512 xref: EHDAA:424 xref: EHDAA:436 xref: EMAPA:16215 xref: FMA:321916 xref: http://en.wikipedia.org/wiki/Primitive_heart_tube xref: http://www.snomedbrowser.com/Codes/Details/361522004 xref: SCTID:361522004 xref: TAO:0000149 xref: Wikipedia:Primitive_heart_tube xref: ZFA:0000149 is_a: UBERON:0000481 ! multi-tissue structure is_a: UBERON:0004120 ! mesoderm-derived structure relationship: develops_from UBERON:0004291 {source="ZFA"} ! heart rudiment relationship: part_of UBERON:0000922 ! embryo [Term] id: UBERON:0005501 name: rhombomere lateral wall namespace: uberon def: "A neural tube lateral wall that is part of a rhombomere." [OBOL:automatic] synonym: "future hindbrain lateral wall" RELATED [EMAPA:35364] xref: EMAPA:32819 xref: EMAPA:35364 is_a: UBERON:0005496 ! neural tube lateral wall intersection_of: UBERON:0005496 ! neural tube lateral wall intersection_of: part_of UBERON:0001892 ! rhombomere relationship: part_of UBERON:0001892 ! rhombomere [Term] id: UBERON:0005563 name: trigeminal neural crest namespace: uberon def: "Cranial neural crest which gives rise to the trigeminal ganglion." [ZFA:0000080] subset: efo_slim subset: vertebrate_core xref: EFO:0003484 xref: EHDAA2:0002083 xref: EHDAA:667 xref: EMAPA:16170 xref: TAO:0000080 xref: VHOG:0000269 xref: ZFA:0000080 is_a: UBERON:0003099 {source="ZFA"} ! cranial neural crest is_a: UBERON:0007213 ! mesenchyme derived from head neural crest is_a: UBERON:0007530 {source="EHDAA2"} ! migrating mesenchyme population relationship: part_of UBERON:0007213 {source="EHDAA2"} ! mesenchyme derived from head neural crest property_value: editor_note "todo - compare ZFA and EHDAA2 representation" xsd:string property_value: UBPROP:0000003 "We conclude this section by listing some of the many synapomorphies of craniates, including (1) the neural crest (...).[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000269", ontology="VHOG", source="ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.43", source="http://bgee.unil.ch/"} [Term] id: UBERON:0005564 name: gonad primordium namespace: uberon def: "Portion of tissue that gives rise to the immature gonad." [ZFA:0001262] subset: efo_slim subset: grouping_class subset: vertebrate_core synonym: "future gonad" EXACT [http://orcid.org/0000-0002-6601-2165] synonym: "gonadal primordium" EXACT [ZFA:0001262] synonym: "immature gonad" RELATED [http://orcid.org/0000-0002-6601-2165] synonym: "primitive gonad" EXACT [http://orcid.org/0000-0002-6601-2165] synonym: "undifferentiated gonad" EXACT [ZFA:0001262] xref: EFO:0003651 xref: EHDAA:5927 xref: EMAPA:17204 xref: RETIRED_EHDAA2:0002148 xref: TAO:0001262 xref: WBbt:0008366 xref: ZFA:0001262 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0001048 {source="Obol"} ! primordium relationship: has_potential_to_develop_into UBERON:0000991 ! gonad relationship: located_in UBERON:0002323 {gci_relation="part_of", gci_filler="NCBITaxon:33511", notes="conservatively place at deuterostome, excluding acoelomates"} ! coelemic cavity lumen relationship: part_of UBERON:0000990 {source="ZFA"} ! reproductive system property_value: UBPROP:0000001 "Immature reproductive tissue that has not undergone final maturation into either testis or ovary.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0001262", ontology="TAO", source="ZFIN:curator"} property_value: UBPROP:0000008 "this is a very broad grouping class" xsd:string [Term] id: UBERON:0005594 name: head somite namespace: uberon def: "Somite located in the head region, caudal to the otic vesicle." [http://www.ncbi.nlm.nih.gov/pubmed/11830559] def: "Somite located in the head region, caudal to the otic vesicle." [PMID:11830559] synonym: "cranial somite" RELATED [XAO:0000313] synonym: "occipital somite" EXACT [http://www.ncbi.nlm.nih.gov/pubmed/11830559, XAO:0000313] synonym: "occipital somite" EXACT [PMID:11830559, XAO:0000313] xref: EHDAA2:0003437 xref: EMAPA:16172 xref: XAO:0000313 is_a: UBERON:0002050 ! embryonic structure is_a: UBERON:0002329 ! somite is_a: UBERON:0005291 ! embryonic tissue intersection_of: UBERON:0002329 ! somite intersection_of: develops_from UBERON:0009617 ! head paraxial mesoderm relationship: develops_from UBERON:0009617 {source="EHDAA2"} ! head paraxial mesoderm relationship: part_of UBERON:0009617 {source="EHDAA2"} ! head paraxial mesoderm property_value: UBPROP:0000008 "in humans this includes somites 1-4" xsd:string property_value: UBPROP:0000011 "They provide the epaxial and hypaxial muscles of the neck, the pharyngeal and laryngeal muscles that develop in the caudal branchial arches and the musculature of the tongue. Despite their localisation in the head, myogenic precursors from occipital somites essentially follow the trunk programmes (E. H. Walters and S. D., unpublished). during evolution, have been secondarily incorporated into the head (Gans and Northcutt, 1983)" xsd:string {source="http://www.ncbi.nlm.nih.gov/pubmed/11830559"} property_value: UBPROP:0000011 "They provide the epaxial and hypaxial muscles of the neck, the pharyngeal and laryngeal muscles that develop in the caudal branchial arches and the musculature of the tongue. Despite their localisation in the head, myogenic precursors from occipital somites essentially follow the trunk programmes (E. H. Walters and S. D., unpublished). during evolution, have been secondarily incorporated into the head (Gans and Northcutt, 1983)" xsd:string {source="PMID:11830559"} property_value: UBPROP:0000012 "EHDAA2 has both 'head somite' and 'head somite group', with part_of and develops_from for latter" xsd:string {external_ontology="EHDAA2"} [Term] id: UBERON:0005597 name: lung primordium namespace: uberon def: "A pair of lateral diverticula just over the liver rudiment representing the primordia of the lungs, formed by the floor of the foregut just anterior to the liver diverticulum." [XAO:0001002] subset: efo_slim synonym: "lateral diverticula" RELATED [XAO:0001002] synonym: "lung diverticulum" RELATED [AAO:3010717] synonym: "lung endoderm" RELATED [EFO:0002578] xref: AAO:0011059 xref: EFO:0002578 xref: EMAPA:36007 xref: XAO:0001002 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0001048 {source="XAO"} ! primordium relationship: develops_from UBERON:0001041 {source="XAO"} ! foregut relationship: has_potential_to_develop_into UBERON:0000170 ! pair of lungs relationship: part_of UBERON:0008947 ! respiratory primordium [Term] id: UBERON:0005598 name: trunk somite namespace: uberon def: "A somite that is part of a trunk." [OBOL:automatic] xref: AAO:0010385 xref: EHDAA2:0003438 xref: EMAPA:16184 xref: XAO:0000314 is_a: UBERON:0002329 ! somite intersection_of: UBERON:0002329 ! somite intersection_of: part_of UBERON:0002100 ! trunk relationship: part_of UBERON:0002100 ! trunk [Term] id: UBERON:0005613 name: left dorsal aorta namespace: uberon xref: EHDAA2:0000936 xref: EHDAA:404 xref: EMAPA:16205 xref: http://www.snomedbrowser.com/Codes/Details/361403005 xref: MA:0000478 xref: SCTID:361403005 xref: VHOG:0000484 is_a: UBERON:0000947 ! aorta is_a: UBERON:0003513 ! trunk blood vessel relationship: part_of UBERON:0005805 ! dorsal aorta property_value: UBPROP:0000003 "A study of embryos shows that in all vertebrates six arterial arches link the ventral aorta with a pair of lateral dorsal aortae on each side of the body. The latter unite posteriorly to form a single median dorsal aorta wich takes blood to the body.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000484", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0174480198 Roberts MBV, Biology: a functional approach (1986) p.572"} property_value: UBPROP:0000003 "A study of embryos shows that in all vertebrates six arterial arches link the ventral aorta with a pair of lateral dorsal aortae on each side of the body. The latter unite posteriorly to form a single median dorsal aorta wich takes blood to the body.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000484", ontology="VHOG", source="ISBN:978-0174480198 Roberts MBV, Biology: a functional approach (1986) p.572", source="http://bgee.unil.ch/"} property_value: UBPROP:0000008 "Contributes to the arch of aorta in humans" xsd:string {source="http://emedicine.medscape.com/article/899609-overview"} property_value: UBPROP:0000008 "Contributes to the arch of aorta in humans" xsd:string {source="http://emedicine.medscape.com/article/899609-overview"} [Term] id: UBERON:0005614 name: lens anterior epithelium namespace: uberon def: "A layer of cuboidal epithelial cells bounded anteriorly by the capsule of the lens and posteriorly by the lens cortex." [http://orcid.org/0000-0002-6601-2165] synonym: "anterior epithelium of lens vesicle" RELATED [EMAPA:17304] synonym: "anterior surface of lens" RELATED [FMA:58889] synonym: "lens epithelium" BROAD [] synonym: "lens subcapsular epithelium" EXACT [http://www.lab.anhb.uwa.edu.au/mb140/corepages/eye/eye.htm] synonym: "subcapsular lens epithelium" EXACT [FMA:70612] xref: EHDAA2:0000984 xref: EHDAA:9059 xref: EMAPA:17304 xref: EMAPA:17839 xref: FMA:70612 xref: http://linkedlifedata.com/resource/umls/id/C1182652 xref: http://www.snomedbrowser.com/Codes/Details/362521008 xref: MA:0001302 xref: NCIT:C33641 xref: RETIRED_EHDAA2:0000976 xref: SCTID:362521008 xref: UMLS:C1182652 {source="ncithesaurus:Subcapsular_Epithelium_of_the_Lens"} xref: VHOG:0001425 is_a: UBERON:0001803 ! epithelium of lens intersection_of: UBERON:0000483 ! epithelium intersection_of: adjacent_to UBERON:0001804 ! capsule of lens intersection_of: part_of UBERON:0000965 ! lens of camera-type eye relationship: adjacent_to UBERON:0000389 ! lens cortex relationship: adjacent_to UBERON:0001804 ! capsule of lens property_value: UBPROP:0000010 "Cells of the subcapsular epithelium (or anterior lens cells) are mitotically active. In adult individuals they only cover the anterior 'hemisphere' of the lens. As they divide, cells gradually move towards the equator of the lens where they tranform into lens fibres. The apical part of the gradually elongating cell extends between the subcapsular epithelium and adjacent lens fibres towards the anterior pole of the lens. The basal part extends towards the posterior pole. The nucleus remains close to the equatorial plane of the lens - http://www.lab.anhb.uwa.edu.au/mb140/corepages/eye/eye.htm" xsd:string [Term] id: UBERON:0005622 name: right dorsal aorta namespace: uberon xref: EHDAA2:0001720 xref: EHDAA:406 xref: EMAPA:16206 xref: http://www.snomedbrowser.com/Codes/Details/361404004 xref: MA:0000479 xref: SCTID:361404004 xref: VHOG:0000485 is_a: UBERON:0000947 ! aorta is_a: UBERON:0003513 ! trunk blood vessel relationship: part_of UBERON:0005805 ! dorsal aorta property_value: UBPROP:0000003 "A study of embryos shows that in all vertebrates six arterial arches link the ventral aorta with a pair of lateral dorsal aortae on each side of the body. The latter unite posteriorly to form a single median dorsal aorta wich takes blood to the body.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000485", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0174480198 Roberts MBV, Biology: a functional approach (1986) p.572"} property_value: UBPROP:0000003 "A study of embryos shows that in all vertebrates six arterial arches link the ventral aorta with a pair of lateral dorsal aortae on each side of the body. The latter unite posteriorly to form a single median dorsal aorta wich takes blood to the body.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000485", ontology="VHOG", source="ISBN:978-0174480198 Roberts MBV, Biology: a functional approach (1986) p.572", source="http://bgee.unil.ch/"} property_value: UBPROP:0000008 "Normally regresses in humans" xsd:string {source="http://emedicine.medscape.com/article/899609-overview"} property_value: UBPROP:0000008 "Normally regresses in humans" xsd:string {source="http://emedicine.medscape.com/article/899609-overview"} [Term] id: UBERON:0005638 name: anterior chamber epithelium namespace: uberon def: "An epithelium that is part of a anterior chamber of eyeball." [OBOL:automatic] xref: EHDAA2:0000130 is_a: UBERON:0015808 ! eye epithelium intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0001766 ! anterior chamber of eyeball relationship: part_of UBERON:0001766 ! anterior chamber of eyeball [Term] id: UBERON:0005656 name: lens vesicle epithelium namespace: uberon def: "An epithelium that is part of a lens vesicle." [OBOL:automatic] xref: EHDAA2:0000987 xref: EMAPA:17165 xref: VHOG:0000532 is_a: UBERON:0010371 ! ecto-epithelium intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0005426 ! lens vesicle relationship: part_of UBERON:0005426 ! lens vesicle [Term] id: UBERON:0005662 name: 4th arch ectoderm namespace: uberon def: "An ectoderm that is part of a pharyngeal arch 4." [OBOL:automatic] synonym: "4th pharyngeal arch ectoderm" EXACT [VHOG:0001095] xref: EHDAA2:0004032 xref: EMAPA:16762 xref: EMAPA:16764 xref: EMAPA:16768 xref: RETIRED_EHDAA2:0000094 xref: VHOG:0001095 is_a: UBERON:0000924 ! ectoderm intersection_of: UBERON:0000924 ! ectoderm intersection_of: part_of UBERON:0003115 ! pharyngeal arch 4 relationship: part_of UBERON:0003115 ! pharyngeal arch 4 property_value: UBPROP:0000003 "In all vertebrates, the pharyngeal apparatus develops from a series of bulges found on the lateral surface of the head, the pharyngeal arches, which consist of a number of different embryonic cell types. Each arch has an external covering of ectoderm and inner covering of endoderm, and between these a mesenchymal filling of neural crest with a central core of mesoderm.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001095", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1046/j.1469-7580.2001.19910133.x Graham A. The development and evolution of the pharyngeal arches. J Anat (2001)"} [Term] id: UBERON:0005666 name: 4th arch endoderm namespace: uberon def: "An endoderm that is part of a pharyngeal arch 4." [OBOL:automatic] synonym: "4th pharyngeal arch endoderm" EXACT [VHOG:0001092] xref: EHDAA2:0004033 xref: EMAPA:16765 xref: EMAPA:16767 xref: EMAPA:16769 xref: RETIRED_EHDAA2:0000095 xref: VHOG:0001092 is_a: UBERON:0000925 ! endoderm intersection_of: UBERON:0000925 ! endoderm intersection_of: part_of UBERON:0003115 ! pharyngeal arch 4 relationship: part_of UBERON:0003115 ! pharyngeal arch 4 property_value: UBPROP:0000003 "In all vertebrates, the pharyngeal apparatus develops from a series of bulges found on the lateral surface of the head, the pharyngeal arches, which consist of a number of different embryonic cell types. Each arch has an external covering of ectoderm and inner covering of endoderm, and between these a mesenchymal filling of neural crest with a central core of mesoderm.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001092", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1046/j.1469-7580.2001.19910133.x Graham A. The development and evolution of the pharyngeal arches. J Anat (2001)"} [Term] id: UBERON:0005669 name: peritoneal cavity mesothelium namespace: uberon def: "A mesothelium that is part of a peritoneal cavity." [OBOL:automatic] synonym: "mesothelium of peritoneal component" EXACT [EMAPA:16139] synonym: "mesothelium of peritoneum" EXACT [FMA:18147] synonym: "peritoneal mesothelium" EXACT [EMAPA:16139] synonym: "peritoneal mesothelium" EXACT [BTO:0003156] synonym: "peritoneum" BROAD INCONSISTENT [EMAPA:16139] synonym: "peritoneum mesothelium" EXACT [FMA:18147] xref: BTO:0003156 xref: EHDAA2:0001447 xref: EMAPA:16139 xref: FMA:18147 xref: SCTID:34073007 is_a: UBERON:0001136 ! mesothelium intersection_of: UBERON:0001136 ! mesothelium intersection_of: located_in UBERON:0001179 ! peritoneal cavity relationship: located_in UBERON:0001179 ! peritoneal cavity property_value: UBPROP:0000012 "we believe that this corresponds to EMAPA:16139 based on synonyms and parenthood" xsd:string {external_ontology="EMAPA"} [Term] id: UBERON:0005672 name: right lung endothelium namespace: uberon def: "An endothelium that is part of a right lung." [OBOL:automatic] xref: EHDAA2:0001755 is_a: UBERON:0000077 ! mixed endoderm/mesoderm-derived structure is_a: UBERON:0001986 ! endothelium is_a: UBERON:0003364 ! epithelium of right lung intersection_of: UBERON:0001986 ! endothelium intersection_of: part_of UBERON:0002167 ! right lung [Term] id: UBERON:0005673 name: left lung endothelium namespace: uberon def: "An endothelium that is part of a left lung." [OBOL:automatic] xref: EHDAA2:0000961 is_a: UBERON:0000077 ! mixed endoderm/mesoderm-derived structure is_a: UBERON:0001986 ! endothelium is_a: UBERON:0003365 ! epithelium of left lung intersection_of: UBERON:0001986 ! endothelium intersection_of: part_of UBERON:0002168 ! left lung [Term] id: UBERON:0005688 name: lens vesicle cavity namespace: uberon def: "An anatomical cavity that is part of a lens vesicle." [OBOL:automatic] synonym: "cavity of lens" BROAD [] synonym: "cavity of lens vesicle" EXACT [EMAPA:17164] synonym: "lens cavity" BROAD [EHDAA2:0000986] xref: EHDAA2:0000986 xref: EMAPA:17164 xref: VHOG:0000531 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000464 ! anatomical space intersection_of: UBERON:0000464 ! anatomical space intersection_of: luminal_space_of UBERON:0005426 ! lens vesicle relationship: luminal_space_of UBERON:0005426 ! lens vesicle relationship: part_of UBERON:0005426 ! lens vesicle property_value: UBPROP:0000003 "(...) an essentially similar sequence of events occurs during the embryonic development of the vertebrate eye. The eye initially develops as a single median evagination of the diencephalon that soon bifurcates to form the paired optic vesicles. As each optic vesicle grows towards the body surface, its proximal part narrows as the optic stalk, and its distal part invaginates to form a two-layered optic cup. (...) The optic cup induces the overlying surface ectoderm first to thicken as a lens placode and then to invaginate and form a lens vesicle that differentiates into the lens.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000531", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.429"} property_value: UBPROP:0000003 "(...) an essentially similar sequence of events occurs during the embryonic development of the vertebrate eye. The eye initially develops as a single median evagination of the diencephalon that soon bifurcates to form the paired optic vesicles. As each optic vesicle grows towards the body surface, its proximal part narrows as the optic stalk, and its distal part invaginates to form a two-layered optic cup. (...) The optic cup induces the overlying surface ectoderm first to thicken as a lens placode and then to invaginate and form a lens vesicle that differentiates into the lens.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000531", ontology="VHOG", source="ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.429", source="http://bgee.unil.ch/"} [Term] id: UBERON:0005691 name: 4th arch mesenchyme namespace: uberon def: "Mesenchyme that is part of a pharyngeal arch 4." [OBOL:automatic] synonym: "4th branchial arch mesenchyme" RELATED [] synonym: "4th pharyngeal arch mesenchyme" EXACT [VHOG:0001052] synonym: "pharyngeal arch 4 mesenchyme" RELATED [] xref: EHDAA2:0000096 xref: EHDAA:1677 xref: EMAPA:16770 xref: FMA:295702 xref: VHOG:0001052 is_a: UBERON:0009494 ! pharyngeal arch mesenchymal region intersection_of: UBERON:0003104 ! mesenchyme intersection_of: part_of UBERON:0003115 ! pharyngeal arch 4 relationship: part_of UBERON:0003115 ! pharyngeal arch 4 property_value: UBPROP:0000003 "In all vertebrates, the pharyngeal apparatus develops from a series of bulges found on the lateral surface of the head, the pharyngeal arches, which consist of a number of different embryonic cell types. Each arch has an external covering of ectoderm and inner covering of endoderm, and between these a mesenchymal filling of neural crest with a central core of mesoderm.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001052", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1046/j.1469-7580.2001.19910133.x Graham A. The development and evolution of the pharyngeal arches. J Anat (2001)"} [Term] id: UBERON:0005702 name: optic eminence mesenchyme namespace: uberon def: "Mesenchyme that is part of a optic eminence." [OBOL:automatic] xref: EHDAA:942 xref: EMAPA:16324 xref: RETIRED_EHDAA2:0001310 xref: VHOG:0001073 is_a: UBERON:0003104 ! mesenchyme is_a: UBERON:0005291 ! embryonic tissue intersection_of: UBERON:0003104 ! mesenchyme intersection_of: part_of UBERON:0004348 ! optic eminence relationship: part_of UBERON:0004348 ! optic eminence [Term] id: UBERON:0005720 name: hindbrain venous system namespace: uberon def: "A venous system that is part of a hindbrain." [OBOL:automatic] synonym: "rhombencephalon venous system" RELATED [VHOG:0001322] xref: EHDAA2:0000776 xref: EMAPA:18632 xref: VHOG:0001322 is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0004582 ! venous system is_a: UBERON:0010314 ! structure with developmental contribution from neural crest intersection_of: UBERON:0004582 ! venous system intersection_of: part_of UBERON:0002028 ! hindbrain relationship: part_of UBERON:0002028 ! hindbrain [Term] id: UBERON:0005729 name: pectoral appendage field namespace: uberon def: "A limb/fin field that has the potential to develop into a pectoral appendage bud mesenchyme." [OBOL:automatic] synonym: "pectoral appendage field of lateral plate mesoderm" EXACT [] synonym: "pectoral fin field" NARROW SENSU [ZFA:0001453] xref: TAO:0001453 xref: ZFA:0001453 is_a: UBERON:0005732 ! paired limb/fin field is_a: UBERON:0006598 ! presumptive structure intersection_of: UBERON:0005732 ! paired limb/fin field intersection_of: has_potential_to_develop_into UBERON:0003413 ! pectoral appendage bud mesenchyme relationship: has_potential_to_develop_into UBERON:0003413 ! pectoral appendage bud mesenchyme property_value: UBPROP:0000001 "Embryonic region that develops into the pectoral fin bud.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0001453", ontology="TAO", source="ZFIN:curator"} [Term] id: UBERON:0005730 name: pelvic appendage field namespace: uberon def: "A limb/fin field that has the potential to develop into a pelvic appendage bud mesenchyme." [OBOL:automatic] synonym: "pelvic appendage field of lateral plate mesoderm" EXACT [] synonym: "pelvic fin field" NARROW SENSU [ZFA:0001454] xref: TAO:0001454 xref: ZFA:0001454 is_a: UBERON:0005732 ! paired limb/fin field is_a: UBERON:0006598 ! presumptive structure intersection_of: UBERON:0005732 ! paired limb/fin field intersection_of: has_potential_to_develop_into UBERON:0003412 ! pelvic appendage bud mesenchyme relationship: has_potential_to_develop_into UBERON:0003412 ! pelvic appendage bud mesenchyme property_value: UBPROP:0000001 "Embryonic region that develops into the pelvic fin bud.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0001454", ontology="TAO", source="ZFIN:curator"} [Term] id: UBERON:0005732 name: paired limb/fin field namespace: uberon def: "A ring of cells capable of forming a limb or paired fin[Gilbert,modified]." [ISBN:9780878932504] subset: homology_grouping synonym: "limb/fin field of lateral plate mesoderm" EXACT [] synonym: "paired limb/fin field" EXACT [] is_a: UBERON:0002050 ! embryonic structure is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0005291 ! embryonic tissue is_a: UBERON:0007688 ! anlage intersection_of: UBERON:0007688 ! anlage intersection_of: has_potential_to_developmentally_contribute_to UBERON:0004357 ! paired limb/fin bud relationship: has_potential_to_developmentally_contribute_to UBERON:0004357 ! paired limb/fin bud relationship: part_of UBERON:0003081 {source="ISBN:9780878932504", source="ZFA-inferred"} ! lateral plate mesoderm property_value: editor_note "we represent the field as being a part of the LPM (consistent with ZFA, Gilbert). As a consequence, the relationship between limb bud (with is ectoderm+mesenchyme) stands in a weaker has_developmental_contribution_from relation to the field - TODO implement this." xsd:string [Term] id: UBERON:0005734 name: tunica adventitia of blood vessel namespace: uberon def: "The outermost layer of a blood vessel, composed mainly of fibrous tissue." [ISBN:0073040584, Wikipedia:Tunica_externa_(vessels)] def: "The outermost layer of a blood vessel, composed mainly of fibrous tissue." [http://en.wikipedia.org/wiki/Tunica_externa_(vessels), ISBN:0073040584] synonym: "adventitia externa" EXACT [http://en.wikipedia.org/wiki/Tunica_externa_(vessels)] synonym: "adventitia externa" EXACT [Wikipedia:Tunica_externa_(vessels)] synonym: "external coat" RELATED [Wikipedia:Tunica_externa_(vessels)] synonym: "external coat" RELATED [http://en.wikipedia.org/wiki/Tunica_externa_(vessels)] synonym: "tunica adventitia" EXACT [http://en.wikipedia.org/wiki/Tunica_externa_(vessels)] synonym: "tunica adventitia" EXACT [Wikipedia:Tunica_externa_(vessels)] synonym: "tunica adventitia of vessel" EXACT [http://en.wikipedia.org/wiki/Tunica_externa_(vessels)] synonym: "tunica adventitia of vessel" EXACT [Wikipedia:Tunica_externa_(vessels)] synonym: "tunica adventitia vasorum" RELATED LATIN [Wikipedia:Tunica_externa_(vessels)] synonym: "tunica adventitia vasorum" RELATED LATIN [http://en.wikipedia.org/wiki/Tunica_externa_(vessels)] synonym: "tunica externa vasorum" RELATED LATIN [http://en.wikipedia.org/wiki/Tunica_externa_(vessels)] synonym: "tunica externa vasorum" RELATED LATIN [Wikipedia:Tunica_externa_(vessels)] xref: BTO:0002010 xref: EMAPA:36299 xref: http://en.wikipedia.org/wiki/Tunica_externa_(vessels) xref: http://linkedlifedata.com/resource/umls/id/C0225342 xref: http://www.snomedbrowser.com/Codes/Details/61066005 xref: NCIT:C33818 xref: SCTID:61066005 xref: UMLS:C0225342 {source="ncithesaurus:Tunica_Adventitia"} xref: Wikipedia:Tunica_externa_(vessels) is_a: UBERON:0004797 {source="cjm"} ! blood vessel layer is_a: UBERON:0005742 ! adventitia relationship: composed_primarily_of UBERON:0011824 ! fibrous connective tissue relationship: has_quality PATO:0002462 ! collagenous property_value: depicted:by https://upload.wikimedia.org/wikipedia/commons/3/32/Illu_artery.jpg xsd:anyURI property_value: depicted:by Illu:artery.jpg xsd:anyURI property_value: editor_note "TODO - note terminological problems. WP says tunica external layer of blood vessel. FMA says tunica externa = adventitia, and is FMA adventitia covers other kinds of vessels. Here we opt for a lengthier name that attempts to disambiguate. There is no precise FMA equivalent, as FMA has tunica externa of arteries, veins, genital ducts etc as siblings" xsd:string property_value: UBPROP:0000001 "The outermost layer of a blood vessel, surrounding the tunica media. It is mainly composed of collagen. The collagen serves to anchor the blood vessel to nearby organs, giving it stability[Wikipedia:Tunica_externa_(vessels)]." xsd:string {source="http://en.wikipedia.org/wiki/Tunica_externa_(vessels)"} property_value: UBPROP:0000001 "The outermost layer of a blood vessel, surrounding the tunica media. It is mainly composed of collagen. The collagen serves to anchor the blood vessel to nearby organs, giving it stability[Wikipedia:Tunica_externa_(vessels)]." xsd:string {source="Wikipedia:Tunica_externa_(vessels)"} [Term] id: UBERON:0005740 name: tunica intima of artery namespace: uberon def: "A tunica intima that is part of a artery." [OBOL:automatic] synonym: "arterial intima" EXACT [EV:0100028] synonym: "tunica interna (intima)(arteriae)" EXACT [FMA:14272] xref: EMAPA:36293 xref: EV:0100028 xref: FMA:14272 xref: galen:IntimaOfArtery xref: http://www.snomedbrowser.com/Codes/Details/40022005 xref: SCTID:40022005 is_a: UBERON:0002523 ! tunica intima is_a: UBERON:0004797 ! blood vessel layer intersection_of: UBERON:0002523 ! tunica intima intersection_of: part_of UBERON:0001637 ! artery relationship: part_of UBERON:0000415 ! artery wall [Term] id: UBERON:0005742 name: adventitia namespace: uberon def: "An outermost connective tissue covering of an organ, vessel, or other structure[WP]." [Wikipedia:Adventitia] def: "An outermost connective tissue covering of an organ, vessel, or other structure[WP]." [http://en.wikipedia.org/wiki/Adventitia] subset: grouping_class synonym: "tunica advetitia" NARROW [http://en.wikipedia.org/wiki/Adventitia] synonym: "tunica advetitia" NARROW [Wikipedia:Adventitia] synonym: "tunica externa" NARROW [FMA:45635] xref: BTO:0002010 xref: FMA:45635 xref: http://en.wikipedia.org/wiki/Adventitia xref: http://www.snomedbrowser.com/Codes/Details/30180000 xref: SCTID:30180000 xref: Wikipedia:Adventitia is_a: UBERON:0004923 ! organ component layer relationship: composed_primarily_of UBERON:0002384 ! connective tissue property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/e/e8/Illu_esophageal_layers.jpg xsd:anyURI [Term] id: UBERON:0005744 name: bone foramen namespace: uberon def: "Anatomical space that is an opening in a bone, usually for passage of blood vessels or nerves." [TAO:curator] subset: vertebrate_core synonym: "foramen" BROAD [ZFA:0005386] xref: AAO:0010438 xref: TAO:0001736 xref: VHOG:0001760 xref: ZFA:0005386 is_a: UBERON:0004111 ! anatomical conduit intersection_of: UBERON:0004111 ! anatomical conduit intersection_of: part_of UBERON:0001474 ! bone element relationship: part_of UBERON:0001474 ! bone element property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/8/81/Gray193.png xsd:anyURI property_value: UBPROP:0000012 "in FMA and ZFA this is a conduit space, not a conduit. Note there may be some additional disambiguation required: foramen is used loosely in the sense of any opening (e.g. foramen primum). FMA appears to use cranial conduit (undefined) in the sense of any foramen of the skull (includes mental foramen, which is not in the cranium proper)." xsd:string {external_ontology="FMA"} [Term] id: UBERON:0005764 name: acellular membrane namespace: uberon def: "A acellular anatomical structure that is the bounding layer of a anatomical structure." [OBOL:automatic] def: "An acellular anatomical structure that is the bounding layer of a anatomical structure." [OBOL:automatic] xref: FMA:63871 is_a: UBERON:0000476 ! acellular anatomical structure intersection_of: UBERON:0000476 ! acellular anatomical structure intersection_of: bounding_layer_of UBERON:0000061 ! anatomical structure relationship: bounding_layer_of UBERON:0000061 ! anatomical structure relationship: part_of UBERON:0000061 ! anatomical structure [Term] id: UBERON:0005769 name: basement membrane of epithelium namespace: uberon def: "An acellular membrane that is part of the epithelium, lies adjacent to the epithelial cells, and is the fusion of the the basal lamina and the reticular lamina." [http://orcid.org/0000-0002-6601-2165, Wikipedia:Basement_membrane] def: "An acellular membrane that is part of the epithelium, lies adjacent to the epithelial cells, and is the fusion of the the basal lamina and the reticular lamina." [http://en.wikipedia.org/wiki/Basement_membrane, http://orcid.org/0000-0002-6601-2165] synonym: "basement membrane" RELATED [FMA:63872] synonym: "basement membrane of connective tissue" EXACT [FMA:63872] synonym: "membrana basalis" EXACT LATIN [Wikipedia:Basement_membrane] synonym: "membrana basalis" EXACT LATIN [http://en.wikipedia.org/wiki/Basement_membrane] xref: AAO:0010596 xref: Basement:membrane xref: FMA:63872 xref: GAID:915 xref: http://linkedlifedata.com/resource/umls/id/C0004799 xref: http://www.snomedbrowser.com/Codes/Details/68989006 xref: NCIT:C13191 xref: SCTID:68989006 xref: UMLS:C0004799 {source="ncithesaurus:Basement_Membrane"} xref: Wikipedia:Basement_membrane is_a: UBERON:0005764 {source="FMA"} ! acellular membrane relationship: adjacent_to CL:0000066 ! epithelial cell relationship: composed_primarily_of GO:0005604 ! basement membrane relationship: has_part GO:0005587 ! collagen type IV trimer relationship: only_in_taxon NCBITaxon:33208 ! Metazoa relationship: part_of UBERON:0000483 ! epithelium property_value: IAO:0000232 "this class represents a continuous sheet of basement membrane which can underlie multiple epithelial cells over large regions. In contrast, the GO class 'basal membrane' represents a portion of substance on the scale of a single cell." xsd:string property_value: RO:0002175 NCBITaxon:80999 {source="http://palaeos.com/metazoa/porifera/homoscleromorpha.html"} property_value: RO:0002175 NCBITaxon:80999 {source="http://palaeos.com/metazoa/porifera/homoscleromorpha.html"} [Term] id: UBERON:0005800 name: section of aorta namespace: uberon def: "Any portion of the aorta including the ascending and descending aorta, and aortic arch or a portion of the aortic orifice of the left ventricle." [ncithesaurus:Aortic_Segment] synonym: "aortic section" EXACT [] synonym: "aortic segment" RELATED [FMA:13087] synonym: "portion of aorta" RELATED [] synonym: "segment of aorta" RELATED [FMA:13087] xref: FMA:13087 xref: http://linkedlifedata.com/resource/umls/id/C0506947 xref: http://www.snomedbrowser.com/Codes/Details/119203005 xref: NCIT:C34027 xref: SCTID:119203005 xref: UMLS:C0506947 {source="ncithesaurus:Aortic_Segment"} is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0013522 ! subdivision of tube relationship: part_of UBERON:0000947 ! aorta [Term] id: UBERON:0005805 name: dorsal aorta namespace: uberon def: "The dorsal aorta is a blood vessel in a single-pass circulatory system that carries oxygenated blood from the gills to the rest of the body. In a single-pass circulatory system blood passes once through the heart to supply the body once." [GO:0035907, https://sourceforge.net/p/geneontology/ontology-requests/8525/] subset: vertebrate_core synonym: "aorta dorsalis" EXACT LATIN [XAO:0000051] synonym: "aortae dorsales" RELATED LATIN [Wikipedia:Dorsal_aorta] synonym: "aortae dorsales" RELATED LATIN [http://en.wikipedia.org/wiki/Dorsal_aorta] synonym: "DA" EXACT [ZFA:0000014] synonym: "dorsal aorta root" RELATED [VHOG:0000264] synonym: "dorsal aortae" RELATED PLURAL [Wikipedia:Dorsal_aorta] synonym: "dorsal aortae" RELATED PLURAL [http://en.wikipedia.org/wiki/Dorsal_aorta] synonym: "dorsal aortic root" RELATED [VHOG:0000264] synonym: "dorsal aortæ" RELATED PLURAL [http://en.wikipedia.org/wiki/Dorsal_aorta] synonym: "dorsal aortæ" RELATED PLURAL [Wikipedia:Dorsal_aorta] xref: AAO:0011029 xref: BTO:0004673 xref: Dorsal:aorta xref: EHDAA:402 xref: EMAPA:18606 xref: http://www.snomedbrowser.com/Codes/Details/338637006 xref: SCTID:338637006 xref: TAO:0000014 xref: VHOG:0000264 xref: Wikipedia:Dorsal_aorta xref: XAO:0000051 xref: ZFA:0000014 is_a: UBERON:0000947 ! aorta is_a: UBERON:0003513 ! trunk blood vessel relationship: develops_from UBERON:0001917 ! endothelium of artery relationship: develops_from UBERON:0003064 ! intermediate mesoderm relationship: part_of UBERON:0002201 ! vasculature of trunk property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/f/fb/Gray459.png xsd:anyURI property_value: UBPROP:0000001 "Each primitive aorta receives anteriorly a vein 'the vitelline vein' from the yolk-sac, and is prolonged backward on the lateral aspect of the notochord under the name of the dorsal aorta. The dorsal aortae give branches to the yolk-sac, and are continued backward through the body-stalk as the umbilical arteries to the villi of the chorion. The two dorsal aortae combine to become the descending aorta in later development[WP]." xsd:string {source="Wikipedia:Dorsal_aorta"} property_value: UBPROP:0000001 "Each primitive aorta receives anteriorly a vein 'the vitelline vein' from the yolk-sac, and is prolonged backward on the lateral aspect of the notochord under the name of the dorsal aorta. The dorsal aortae give branches to the yolk-sac, and are continued backward through the body-stalk as the umbilical arteries to the villi of the chorion. The two dorsal aortae combine to become the descending aorta in later development[WP]." xsd:string {source="Dorsal:aorta"} property_value: UBPROP:0000001 "Principal unpaired, median artery of the trunk, leading from the paired roots (radices) of the dorsal aorta to the caudal artery. Kimmel et al, 1995.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0000014", ontology="TAO", source="ZFIN:curator"} property_value: UBPROP:0000001 "The artery in vertebrate embryos that transports blood from the aortic arches to the trunk and limbs. In adult fish it is a major artery that carries oxygenated blood from the efferent branchial arteries to branches that supply the body organ. In adult tetrapods it arises from the systemic arch" xsd:string {source="BTO:0004673"} property_value: UBPROP:0000002 "relationship loss: part_of axial vasculature (TAO:0001073)[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0000014", ontology="TAO"} property_value: UBPROP:0000003 "When vertebrates first appeared, they must have possessed a ventral and dorsal aorta with aortic arches between them.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000264", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.620"} property_value: UBPROP:0000003 "When vertebrates first appeared, they must have possessed a ventral and dorsal aorta with aortic arches between them.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000264", ontology="VHOG", source="ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.620", source="http://bgee.unil.ch/"} [Term] id: UBERON:0005844 name: spinal cord segment namespace: uberon synonym: "axial part of spinal cord" EXACT [BIRNLEX:2665] synonym: "axial regional part of spinal cord" EXACT [BIRNLEX:2665] synonym: "segment of spinal cord" EXACT [FMA:62420] synonym: "spinal neuromeres" RELATED PLURAL [TAO:0001332] xref: BIRNLEX:2665 xref: FMA:62420 xref: MA:0003080 xref: SCTID:278748001 is_a: UBERON:0001948 ! regional part of spinal cord property_value: editor_note "This is currently used loosely to refer to cervical, lumbar, etc as well as the metamerically repeated segments, which may correspond more closely with the ZFA neuromere term" xsd:string [Term] id: UBERON:0005856 name: developing mesenchymal condensation namespace: uberon def: "A delimited region of dense mesenchyme within looser mesenchyme." [AEO:0000148] synonym: "mesenchyme condensation" EXACT [EMAPA:25351] xref: AEO:0000148 xref: EHDAA2_RETIRED:0003148 xref: EHDAA:8979 is_a: UBERON:0007524 {source="AEO"} ! dense mesenchyme tissue is_a: UBERON:0011585 {source="cjm"} ! cell condensation relationship: composed_primarily_of CL:0000335 {source="AEO-modified-relation"} ! mesenchyme condensation cell [Term] id: UBERON:0005863 name: cartilaginous condensation namespace: uberon def: "Cell condensation that is an aggregation of mesenchymal cells that are committed to differentiate into chondroblasts and chondrocytes." [GO:curator] synonym: "cartilage condensation" EXACT [EMAPA:25353] synonym: "cartilagenous condensation" EXACT [EHDAA2:0003147] synonym: "chondrogenic condensation" EXACT [VSAO:0000092] xref: AEO:0000147 xref: EHDAA2_RETIRED:0003147 xref: EMAPA:32731 xref: VSAO:0000092 xref: XAO:0004022 is_a: UBERON:0005856 {source="AEO"} ! developing mesenchymal condensation relationship: develops_from UBERON:0005866 ! pre-cartilage condensation relationship: part_of UBERON:0004288 {source="AEO"} ! skeleton property_value: UBPROP:0000012 "isa cell condensation in VSAO; has_part chondroblast in AEO" xsd:string {external_ontology="VSAO"} [Term] id: UBERON:0005865 name: pre-muscle condensation namespace: uberon alt_id: UBERON:0008714 synonym: "pre muscle mass" EXACT [] synonym: "premuscle mass" EXACT [] xref: AEO:0000149 xref: EHDAA2_RETIRED:0003149 is_a: UBERON:0005856 ! developing mesenchymal condensation intersection_of: UBERON:0005856 ! developing mesenchymal condensation intersection_of: composed_primarily_of CL:0000680 ! muscle precursor cell relationship: composed_primarily_of CL:0000680 ! muscle precursor cell relationship: has_part CL:0000680 {source="AEO"} ! muscle precursor cell relationship: has_potential_to_develop_into UBERON:0005090 ! muscle structure [Term] id: UBERON:0005866 name: pre-cartilage condensation namespace: uberon def: "A delimited region of dense mesenchyme within looser mesenchyme whose cells are committed to become chondroblasts." [AEO:0000150, AEO:JB] synonym: "pre-chondrogenic condensation" EXACT [] synonym: "precartilage condensation" EXACT [] synonym: "precartilagenous condensation" EXACT [] synonym: "prechondrogenic condensation" EXACT [] xref: AEO:0000150 xref: EHDAA2:0003150 xref: EMAPA:32736 is_a: UBERON:0005291 ! embryonic tissue is_a: UBERON:0005856 {source="AEO"} ! developing mesenchymal condensation relationship: has_potential_to_develop_into UBERON:0007844 ! cartilage element relationship: part_of UBERON:0004288 {source="AEO"} ! skeleton property_value: UBPROP:0000001 "A closely packed aggregation of mesenchymal cells just prior to their differentiation into embryonic cartilage." xsd:string {source="http://dictionary.reference.com/browse/precartilage"} property_value: UBPROP:0000001 "A closely packed aggregation of mesenchymal cells just prior to their differentiation into embryonic cartilage." xsd:string {source="http://dictionary.reference.com/browse/precartilage"} [Term] id: UBERON:0005867 name: mandibular prominence namespace: uberon def: "the paired ventral prominences formed by bifurcation of the first pharyngeal arches in the embryo; the two prominences unite ventrally and fuse to form the mandible and lower lip" [ISBN:0-683-40008-8, MP:0010939] def: "The paired ventral prominences formed by bifurcation of the first pharyngeal arches in the embryo; the two prominences unite ventrally and fuse to form the mandible and lower lip." [ISBN:0-683-40008-8, MP:0010939] subset: pheno_slim synonym: "mandibular process" RELATED [http://en.wikipedia.org/wiki/Mandibular_prominence] synonym: "mandibular process" RELATED [Wikipedia:Mandibular_prominence] synonym: "mandibular swelling" RELATED [https://orcid.org/0000-0002-6601-2165] synonym: "prominentia mandibularis" RELATED LATIN [http://en.wikipedia.org/wiki/Mandibular_prominence] synonym: "prominentia mandibularis" RELATED LATIN [Wikipedia:Mandibular_prominence] xref: EHDAA2:0001061 xref: EHDAA:5871 xref: EMAPA:17355 xref: FMA:293051 xref: http://linkedlifedata.com/resource/umls/id/C1512982 xref: Mandibular:prominence xref: NCIT:C34204 xref: UMLS:C1512982 {source="ncithesaurus:Mandibular_Prominence"} xref: Wikipedia:Mandibular_prominence is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0012314 ! embryonic facial prominence relationship: develops_from UBERON:0007237 ! 1st arch mandibular component relationship: part_of UBERON:0000166 ! oral opening property_value: editor_note "check develops_from" xsd:string [Term] id: UBERON:0005902 name: occipital region namespace: uberon def: "Anatomical cluster that is located in the posterior region of the cranium and forms the margin of the foramen magnum and occipital condyles." [TAO:0001414, UBERONREF:0000007] synonym: "back of head" RELATED [FMA:49187] synonym: "basicranial region" EXACT [ZFA:0001414] synonym: "occipital part of head" EXACT [FMA:49187] synonym: "occipital region of head" EXACT [FMA:49187] xref: AAO:0010199 xref: BTO:0004675 xref: FMA:49187 xref: http://braininfo.rprc.washington.edu/centraldirectory.aspx?ID=2431 xref: http://www.snomedbrowser.com/Codes/Details/362618001 xref: SCTID:362618001 xref: TAO:0001414 xref: XAO:0003173 xref: ZFA:0001414 is_a: UBERON:0034921 ! multi organ part structure relationship: part_of UBERON:0003128 ! cranium property_value: editor_note "TODO - check" xsd:string property_value: UBPROP:0000001 "An anatomical cluster that is located in the posterior region of the neurocranium and forms the margin of the foramen margin and occipital condyles.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0010199", ontology="AAO", source="AAO:EJS"} property_value: UBPROP:0000001 "Anatomical cluster that is located in the posterior region of the cranium and forms the margin of the foramen magnum and occiptal condyle.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0001414", ontology="TAO", source="TAO:MAH"} [Term] id: UBERON:0005906 name: serous sac namespace: uberon def: "Organ with organ cavity, which has as parts a serous membrane and a serous cavity . Examples: pleural sac, pericardial sac, tendon sheath, bursa.[FMA]" [FMA:9689, https://github.com/obophenotype/uberon/issues/86] def: "Organ with organ cavity, which has as parts a serous membrane and a serous cavity . Examples: pleural sac, pericardial sac, tendon sheath, bursa.[FMA]." [FMA:9689, https://github.com/obophenotype/uberon/issues/86] comment: See notes for serous membrane xref: EMAPA:16060 xref: FMA:9689 xref: http://www.snomedbrowser.com/Codes/Details/362890006 xref: MA:0000005 xref: SCTID:362890006 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000062 ! organ relationship: has_part UBERON:0000042 ! serous membrane relationship: has_part UBERON:0002553 ! anatomical cavity property_value: http://purl.org/dc/elements/1.1/contributor https://github.com/cmungall [Term] id: UBERON:0005911 name: endo-epithelium namespace: uberon def: "Epithelium that derives from the endoderm. Examples: urothelium, transitional epithelium of ureter, epithelium of prostatic gland.[FMA]" [FMA:69065] def: "Epithelium that derives from the endoderm. Examples: urothelium, transitional epithelium of ureter, epithelium of prostatic gland.[FMA]." [FMA:69065] synonym: "endoderm-derived epithelium" EXACT [] synonym: "endoepithelium" EXACT [] xref: FMA:69065 is_a: UBERON:0000483 ! epithelium is_a: UBERON:0004119 ! endoderm-derived structure intersection_of: UBERON:0000483 ! epithelium intersection_of: develops_from UBERON:0000925 ! endoderm [Term] id: UBERON:0005913 name: zone of bone organ namespace: uberon synonym: "bone organ zone" EXACT [FMA:10483] xref: FMA:10483 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0034944 {source="FMA"} ! zone of organ relationship: composed_primarily_of UBERON:0002481 ! bone tissue relationship: part_of UBERON:0001474 ! bone element [Term] id: UBERON:0005944 name: axial skeleton plus cranial skeleton namespace: uberon def: "Subdivision of skeleton which consists of cranial skeleton, set of all vertebrae, set of all ribs and sternum[FMA, modified]." [FMA:71221, http://en.wikipedia.org/wiki/Axial_skeleton, https://github.com/obophenotype/uberon/issues/44, https://github.com/obophenotype/uberon/wiki/The-axial-skeleton, VSAO:0000056] def: "Subdivision of skeleton which consists of cranial skeleton, set of all vertebrae, set of all ribs and sternum[FMA, modified]." [FMA:71221, https://github.com/obophenotype/uberon/issues/44, https://github.com/obophenotype/uberon/wiki/The-axial-skeleton, VSAO:0000056, Wikipedia:Axial_skeleton] subset: pheno_slim subset: uberon_slim synonym: "skeleton axiale" RELATED LATIN [http://en.wikipedia.org/wiki/Axial_skeleton] synonym: "skeleton axiale" RELATED LATIN [Wikipedia:Axial_skeleton] xref: AAO:0000963 xref: Axial:skeleton xref: EMAPA:17214 xref: EMAPA:18043 xref: http://linkedlifedata.com/resource/umls/id/C0222645 xref: http://www.snomedbrowser.com/Codes/Details/361725000 xref: MA:0000308 xref: NCIT:C32172 xref: SCTID:361725000 xref: UMLS:C0222645 {source="ncithesaurus:Axial_Skeleton"} xref: VSAO:0000056 xref: Wikipedia:Axial_skeleton xref: XAO:0004011 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0010912 ! subdivision of skeleton relationship: connected_to UBERON:0002091 {gci_relation="part_of", gci_filler="NCBITaxon:7776"} ! appendicular skeleton relationship: contributes_to_morphology_of UBERON:0001434 ! skeletal system relationship: develops_from UBERON:0003089 ! sclerotome relationship: part_of UBERON:0011137 ! axial skeletal system property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/8/8b/Axial_skeleton_diagram.svg xsd:anyURI property_value: http://purl.org/dc/elements/1.1/contributor https://github.com/cmungall property_value: seeAlso http://purl.obolibrary.org/obo/uberon/docs/The-axial-skeleton xsd:anyURI property_value: UBPROP:0000001 "Skeletal subdivision of the central body axis including the cranium, vertebrae, notochord, ribs, and sternum.[VSAO]" xsd:string {date_retrieved="2012-08-14", external_class="VSAO:0000056", ontology="VSAO", source="PSPUB:0000170"} [Term] id: UBERON:0005946 name: outflow tract of atrium namespace: uberon def: "An outflow tract that is part of a cardiac atrium." [OBOL:automatic] synonym: "outflow part of atrium" EXACT [FMA:14141] xref: FMA:14141 is_a: UBERON:0004145 ! outflow tract intersection_of: UBERON:0004145 ! outflow tract intersection_of: part_of UBERON:0002081 ! cardiac atrium relationship: continuous_with UBERON:0002082 ! cardiac ventricle relationship: part_of UBERON:0002081 ! cardiac atrium [Term] id: UBERON:0005953 name: outflow part of right ventricle namespace: uberon def: "Anteriosuperior, smooth-walled portion of the cavity of the right ventricle, beginning at the supraventricular crest and terminating in the pulmonary trunk." [MP:0010428] synonym: "arterial cone" RELATED [MP:0010428] synonym: "conus arteriosus" RELATED [MP:0010428] synonym: "conus arteriosus (infundibulum)" EXACT [FMA:7216] synonym: "infundibulum" BROAD [http://en.wikipedia.org/wiki/Conus_arteriosus] synonym: "infundibulum" BROAD [Wikipedia:Conus_arteriosus] synonym: "infundibulum of right ventricle" EXACT [MP:0010428] synonym: "infundibulum of right ventricle" EXACT [FMA:7216] synonym: "outflow tract of right ventricle" EXACT [FMA:7216] synonym: "pulmonary cone" RELATED [MP:0010428] synonym: "pulmonary conus" EXACT [FMA:7216] synonym: "pulmonary conus" RELATED [MP:0010428] synonym: "right ventricle pulmonary outflow tract" EXACT [MP:0010428] synonym: "right ventricular outflow tract" EXACT [MP:0010428] synonym: "RVOT" EXACT ABBREVIATION [MP:0010428] xref: EMAPA:37926 {source="MA:th"} xref: FMA:7216 xref: http://linkedlifedata.com/resource/umls/id/C1881209 xref: http://www.snomedbrowser.com/Codes/Details/244379003 xref: NCIT:C61368 xref: SCTID:244379003 xref: UMLS:C1881209 {source="ncithesaurus:Infundibulum"} is_a: UBERON:0005337 ! outflow tract of ventricle intersection_of: UBERON:0005337 ! outflow tract of ventricle intersection_of: part_of UBERON:0002080 ! heart right ventricle relationship: continuous_with UBERON:0002333 ! pulmonary trunk relationship: develops_from UBERON:0009889 {source="http://www.ncbi.nlm.nih.gov/pubmed/17276708"} ! secondary heart field relationship: develops_from UBERON:0009889 {source="PMID:17276708"} ! secondary heart field relationship: part_of UBERON:0002080 ! heart right ventricle [Term] id: UBERON:0005956 name: outflow part of left ventricle namespace: uberon def: "Anterosuperior fibrous portion of the left ventricle that connects to the ascending aorta." [MP:0010429] subset: pheno_slim synonym: "aortic vestibule" EXACT [MP:0010429] synonym: "aortic vestibule" EXACT [FMA:9473] synonym: "heart left ventricle outflow tract" EXACT [MP:0010429] synonym: "left ventricular outflow" EXACT [FMA:9473] synonym: "left ventricular outflow tract" EXACT [HP:0011103] synonym: "LVOT" EXACT ABBREVIATION [MP:0010429] synonym: "outflow tract of left ventricle" EXACT [FMA:9473] synonym: "Sibson vestibule" EXACT [MP:0010429] synonym: "vestibulum aortae" EXACT LATIN [FMA:9473, FMA:TA] xref: Aortic:vestibule xref: EMAPA:37925 {source="MA:th"} xref: FMA:9473 xref: http://www.snomedbrowser.com/Codes/Details/264070001 xref: SCTID:264070001 xref: Wikipedia:Aortic_vestibule is_a: UBERON:0005337 ! outflow tract of ventricle intersection_of: UBERON:0005337 ! outflow tract of ventricle intersection_of: part_of UBERON:0002084 ! heart left ventricle relationship: part_of UBERON:0002084 ! heart left ventricle [Term] id: UBERON:0005965 name: outflow part of right atrium namespace: uberon def: "Outflow part of atrium which consists of wall and cavity of the outflow part of right atrium and the tricuspid valve.[FMA]." [FMA:9550, FMA:FMA] synonym: "main part of right atrium" EXACT [FMA:9550] synonym: "outflow tract of right atrium" EXACT [FMA:9550] xref: FMA:9550 is_a: UBERON:0005946 ! outflow tract of atrium intersection_of: UBERON:0005946 ! outflow tract of atrium intersection_of: part_of UBERON:0002078 ! right cardiac atrium relationship: part_of UBERON:0002078 ! right cardiac atrium [Term] id: UBERON:0005966 name: outflow part of left atrium namespace: uberon def: "An outflow tract of atrium that is part of a left atrium." [OBOL:automatic] synonym: "main part of left atrium" EXACT [FMA:9551] synonym: "outflow tract of left atrium" EXACT [FMA:9551] xref: FMA:9551 is_a: UBERON:0005946 ! outflow tract of atrium intersection_of: UBERON:0005946 ! outflow tract of atrium intersection_of: part_of UBERON:0002079 ! left cardiac atrium relationship: part_of UBERON:0002079 ! left cardiac atrium [Term] id: UBERON:0005979 name: crista terminalis namespace: uberon def: "The vertical crest of the interior wall of the right atrium that lies to the right of the sinus of the vena cava and separates this from the remainder of the right atrium." [MP:0010495] subset: pheno_slim synonym: "crista terminalis atrii dextri" EXACT LATIN [FMA:9236, FMA:TA] synonym: "crista terminalis cordis" EXACT [FMA:9236] synonym: "crista terminalis of right atrium" EXACT [FMA:9236] xref: EMAPA:37837 {source="MA:th"} xref: FMA:9236 xref: SCTID:277693004 xref: Wikipedia:Crista_terminalis is_a: UBERON:0000064 ! organ part is_a: UBERON:0004120 ! mesoderm-derived structure relationship: contributes_to_morphology_of UBERON:0002078 ! right cardiac atrium relationship: part_of UBERON:0002078 ! right cardiac atrium [Term] id: UBERON:0005983 name: heart layer namespace: uberon def: "The laminar structure of the heart" [MP:0010545] def: "The laminar structure of the heart." [MP:0010545] subset: non_informative subset: pheno_slim is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0004923 ! organ component layer intersection_of: UBERON:0004923 ! organ component layer intersection_of: part_of UBERON:0000948 ! heart relationship: contributes_to_morphology_of UBERON:0000948 ! heart relationship: part_of UBERON:0000948 ! heart [Term] id: UBERON:0005985 name: coronary vessel namespace: uberon def: "Any of the arteries or veins that supply blood to the heart or return blood from the heart muscles to the circulation" [MP:0010551] def: "Any of the arteries or veins that supply blood to the heart or return blood from the heart muscles to the circulation." [MP:0010551] subset: pheno_slim xref: Coronary:circulation xref: MESH:D003331 xref: Wikipedia:Coronary_circulation is_a: UBERON:0000055 ! vessel is_a: UBERON:0004120 ! mesoderm-derived structure intersection_of: UBERON:0000055 ! vessel intersection_of: part_of UBERON:0000948 ! heart relationship: contributes_to_morphology_of UBERON:0000948 ! heart relationship: part_of UBERON:0000948 ! heart property_value: editor_note "TODO - change relation from part_of" xsd:string [Term] id: UBERON:0005989 name: atrioventricular septum namespace: uberon def: "The wall of the heart that separates the right atrium and left ventricle; and is located just above the septal cusp of the tricuspid valve." [MP:0010592] subset: pheno_slim synonym: "membranous atrioventricular septum" EXACT [FMA:7136] xref: Atrioventricular:septum xref: EMAPA:37431 {source="MA:th"} xref: FMA:7136 xref: http://www.snomedbrowser.com/Codes/Details/280151006 xref: SCTID:280151006 xref: Wikipedia:Atrioventricular_septum is_a: UBERON:0002099 ! cardiac septum is_a: UBERON:0010313 ! neural crest-derived structure intersection_of: UBERON:0002099 ! cardiac septum intersection_of: adjacent_to UBERON:0002078 ! right cardiac atrium intersection_of: adjacent_to UBERON:0002084 ! heart left ventricle relationship: adjacent_to UBERON:0002078 ! right cardiac atrium relationship: adjacent_to UBERON:0002084 ! heart left ventricle relationship: develops_from UBERON:0002062 {source="http://www.ncbi.nlm.nih.gov/pubmed/15797462", source="Wikipedia"} ! endocardial cushion relationship: develops_from UBERON:0002062 {source="PMID:15797462", source="Wikipedia"} ! endocardial cushion [Term] id: UBERON:0006003 name: integumentary adnexa namespace: uberon def: "Anatomical structure embedded in or located in the integument that is part of the integumental system. Examples: hair, follicles, skin glands, claws, nails, feathers." [http://code.google.com/p/caro2/issues/detail?id=5, http://orcid.org/0000-0002-6601-2165] subset: pheno_slim synonym: "adnexae cutis" RELATED LATIN [Wikipedia:Skin_appendage] synonym: "adnexae cutis" RELATED LATIN [http://en.wikipedia.org/wiki/Skin_appendage] synonym: "body hair or bristle" NARROW [GO:GO] synonym: "skin adnexa" RELATED [http://en.wikipedia.org/wiki/Skin_appendage] synonym: "skin adnexa" RELATED [Wikipedia:Skin_appendage] synonym: "skin adnexal structure" RELATED [] synonym: "skin appendage" RELATED [http://en.wikipedia.org/wiki/Skin_appendage] synonym: "skin appendage" RELATED [Wikipedia:Skin_appendage] xref: EMAPA:37883 {source="MA:th"} xref: Skin:appendage xref: Wikipedia:Skin_appendage is_a: UBERON:0000064 ! organ part relationship: part_of UBERON:0002416 ! integumental system property_value: editor_note "add subclasses based on resolution of CARO tracker item. Also check: adnexal gland. Note that MP implicitly includes hypodermis." xsd:string property_value: UBPROP:0000001 "the tissue or structures associated with or embedded in the skin such as hair and hair follicles, sweat glands, sebaceous glands and claws or nails[MP:0010678]" xsd:string {source="MP:0010678"} [Term] id: UBERON:0006056 name: posterior surface of head namespace: uberon is_a: UBERON:0036215 ! anatomical surface region intersection_of: UBERON:0036215 ! anatomical surface region intersection_of: in_posterior_side_of UBERON:0000033 ! head relationship: in_posterior_side_of UBERON:0000033 ! head relationship: part_of UBERON:0000033 ! head [Term] id: UBERON:0006207 name: aortico-pulmonary spiral septum namespace: uberon alt_id: UBERON:0005999 def: "The spiral septum that separates the truncus arteriosus into a ventral pulmonary trunk and the dorsal aorta[MP]. The aorticopulmonary septum is developmentally formed from neural crest, specifically the cardiac neural crest, and actively separates the aorta and pulmonary arteries and fuses with the interventricular septum within the heart during development. The actual mechanism of septation of the outflow tract is poorly understood, but is recognized as a dynamic process with contributions from contractile, hemodynamic, and extracellular matrix interactions." [http://en.wikipedia.org/wiki/Aorticopulmonary_septum, MP:0010650] def: "The spiral septum that separates the truncus arteriosus into a ventral pulmonary trunk and the dorsal aorta[MP]. The aorticopulmonary septum is developmentally formed from neural crest, specifically the cardiac neural crest, and actively separates the aorta and pulmonary arteries and fuses with the interventricular septum within the heart during development. The actual mechanism of septation of the outflow tract is poorly understood, but is recognized as a dynamic process with contributions from contractile, hemodynamic, and extracellular matrix interactions." [MP:0010650, Wikipedia:Aorticopulmonary_septum] subset: emapa_ehdaa2 subset: pheno_slim synonym: "aortic septum" RELATED [Wikipedia:Aorticopulmonary_septum] synonym: "aortic septum" RELATED [http://en.wikipedia.org/wiki/Aorticopulmonary_septum] synonym: "aortico-pulmonary septum" EXACT [http://en.wikipedia.org/wiki/Aorticopulmonary_septum] synonym: "aortico-pulmonary septum" EXACT [Wikipedia:Aorticopulmonary_septum] synonym: "aorticopulmonary septum" EXACT [Wikipedia:Aorticopulmonary_septum] synonym: "aorticopulmonary septum" EXACT [http://en.wikipedia.org/wiki/Aorticopulmonary_septum] synonym: "septum aorticopulmonale" EXACT LATIN [http://en.wikipedia.org/wiki/Aorticopulmonary_septum] synonym: "septum aorticopulmonale" EXACT LATIN [Wikipedia:Aorticopulmonary_septum] synonym: "spiral septum" RELATED [http://en.wikipedia.org/wiki/Aorticopulmonary_septum] synonym: "spiral septum" RELATED [Wikipedia:Aorticopulmonary_septum] xref: Aorticopulmonary:septum xref: CALOHA:TS-2409 xref: EHDAA2:0000136 xref: EHDAA:2592 xref: EMAPA:16827 xref: VHOG:0000502 xref: Wikipedia:Aorticopulmonary_septum is_a: UBERON:0004142 ! outflow tract septum is_a: UBERON:0010313 ! neural crest-derived structure intersection_of: UBERON:0002099 ! cardiac septum intersection_of: adjacent_to UBERON:0002333 ! pulmonary trunk intersection_of: adjacent_to UBERON:0005805 ! dorsal aorta relationship: adjacent_to UBERON:0002333 ! pulmonary trunk relationship: adjacent_to UBERON:0005805 ! dorsal aorta relationship: develops_from UBERON:0000095 {source="http://www.ncbi.nlm.nih.gov/pubmed/6844926", source="Wikipedia"} ! cardiac neural crest relationship: develops_from UBERON:0000095 {source="PMID:6844926", source="Wikipedia"} ! cardiac neural crest property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/b/b9/Gray470.png xsd:anyURI [Term] id: UBERON:0006211 name: buccopharyngeal membrane namespace: uberon def: "The thin bilaminar membrane derived from the prechordal plate that is devoid of mesoderm and formed by the apposition of the stomodeal ectoderm with the foregut endoderm; after the embryonic head fold has evolved it lies at the caudal limit of the stomodeum, forming a septum between the primitive mouth and pharynx; the membrane eventually disappears, and thus a communication is established between the mouth and the future pharynx." [MP:0012521] subset: emapa_ehdaa2 subset: pheno_slim synonym: "oral membrane" RELATED [MP:0012521] synonym: "oral plate" RELATED [MP:0012521] synonym: "oropharyngeal membrane" RELATED [Wikipedia:Buccopharyngeal_membrane] synonym: "oropharyngeal membrane" RELATED [http://en.wikipedia.org/wiki/Buccopharyngeal_membrane] synonym: "pharyngeal membrane" RELATED INCONSISTENT [MP:0012521] xref: Buccopharyngeal:membrane xref: EHDAA2:0000189 xref: EHDAA:536 xref: EMAPA:16259 xref: FMA:313607 xref: http://www.snomedbrowser.com/Codes/Details/361412007 xref: SCTID:361412007 xref: VHOG:0000380 xref: Wikipedia:Buccopharyngeal_membrane is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0003037 ! septum relationship: has_developmental_contribution_from UBERON:0000924 ! ectoderm relationship: has_developmental_contribution_from UBERON:0000925 ! endoderm relationship: overlaps UBERON:0000930 ! stomodeum relationship: overlaps UBERON:0001042 ! chordate pharynx relationship: part_of UBERON:0000922 ! embryo relationship: part_of UBERON:0006264 {source="EHDAA2"} ! mouth-foregut junction property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/9/93/Gray977.png xsd:anyURI [Term] id: UBERON:0006218 name: common atrial chamber namespace: uberon subset: emapa_ehdaa2 xref: EHDAA:1267 xref: EMAPA:16342 xref: RETIRED_EHDAA2:0000268 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0002050 ! embryonic structure relationship: part_of UBERON:0002081 ! cardiac atrium [Term] id: UBERON:0006238 name: future brain namespace: uberon def: "The embryonic precursor of the brain." [NLX:94995] subset: cumbo subset: efo_slim subset: emapa_ehdaa2 subset: vertebrate_core synonym: "brain rudiment" EXACT [TAO:0000146] synonym: "embryonic brain" RELATED [BTO:0004726] synonym: "encephalon" NARROW [NLX:94995] synonym: "presumptive brain" EXACT [ZFA:0000146] xref: BAMS:Enc xref: BTO:0004726 xref: EFO:0003431 xref: EHDAA:300 xref: EHDAA:830 xref: EMAPA:16089 xref: FMA:312967 xref: RETIRED_EHDAA2:0000591 xref: TAO:0000146 xref: ZFA:0000146 is_a: UBERON:0006598 ! presumptive structure relationship: has_potential_to_develop_into UBERON:0000955 ! brain relationship: part_of UBERON:0002346 ! neurectoderm property_value: UBPROP:0000001 "The embryonic precursor of the brain and the set of mature brain structures that derive from it (CUMBO)" xsd:string {source="http://neurolex.org/wiki/Cumbo_terms"} property_value: UBPROP:0000001 "The embryonic precursor of the brain and the set of mature brain structures that derive from it (CUMBO)" xsd:string {source="Cumbo:terms"} [Term] id: UBERON:0006239 name: future central tendon namespace: uberon def: "A tendon that has the potential to develop into a central tendon." [OBOL:automatic] subset: emapa_ehdaa2 synonym: "cranial derivative of septum transversum" RELATED [http://orcid.org/0000-0002-6601-2165] synonym: "cranial part of septum transversum" RELATED [http://orcid.org/0000-0002-6601-2165] xref: EHDAA2:0000593 xref: EHDAA:4118 xref: EMAPA:25035 is_a: UBERON:0000043 ! tendon is_a: UBERON:0005291 ! embryonic tissue is_a: UBERON:0006598 ! presumptive structure intersection_of: UBERON:0000043 ! tendon intersection_of: has_potential_to_develop_into UBERON:0006670 ! central tendon of diaphragm relationship: develops_from UBERON:0004161 {notes="mesenchyme", region="cranial part", source="Wikipedia"} ! septum transversum relationship: has_potential_to_develop_into UBERON:0006670 ! central tendon of diaphragm relationship: part_of UBERON:0010084 {source="EHDAA2"} ! future diaphragm property_value: UBPROP:0000011 "The cranial part of the septum transversum gives rise to the central tendon of the diaphragm and is the origin of the myoblasts that invade the pleuroperitoneal folds resulting in the formation of the muscular diaphragm." xsd:string [Term] id: UBERON:0006241 name: future spinal cord namespace: uberon subset: efo_slim subset: vertebrate_core synonym: "presumptive spinal cord" EXACT [ZFA:0000417] synonym: "presumptive spinal cord neural keel" EXACT [TAO:0000417] synonym: "presumptive spinal cord neural plate" EXACT [TAO:0000417] synonym: "presumptive spinal cord neural rod" EXACT [TAO:0000417] xref: EFO:0003438 xref: EHDAA2:0000674 xref: EHDAA:898 xref: EMAPA:16092 xref: EMAPA:16755 xref: TAO:0000417 xref: ZFA:0000417 is_a: UBERON:0006598 ! presumptive structure relationship: has_potential_to_develop_into UBERON:0001049 {source="EHDAA2"} ! neural tube relationship: has_potential_to_develop_into UBERON:0002240 ! spinal cord relationship: part_of UBERON:0001017 ! central nervous system [Term] id: UBERON:0006264 name: mouth-foregut junction namespace: uberon def: "An anatomical junctions that overlaps the mouth and foregut." [OBOL:automatic] subset: emapa_ehdaa2 xref: EHDAA:534 xref: EMAPA:16258 xref: RETIRED_EHDAA2:0001205 xref: VHOG:0000592 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0007651 ! anatomical junction intersection_of: UBERON:0007651 ! anatomical junction intersection_of: overlaps UBERON:0000165 ! mouth intersection_of: overlaps UBERON:0001041 ! foregut relationship: overlaps UBERON:0000165 ! mouth relationship: overlaps UBERON:0001041 ! foregut relationship: part_of UBERON:0001555 ! digestive tract [Term] id: UBERON:0006267 name: notochordal plate namespace: uberon def: "The notochordal plate is the dorsal part of the notochordal process when the ventral portion breaks down. It is continuous laterally with the endoderm that composes the roof of the primitive foregut and is in contact dorsally with the neural tube. The folding off of the notochordal plate gives rise to the notochord." [VHOG:0001212] subset: emapa_ehdaa2 xref: EHDAA2:0001278 xref: EHDAA:264 xref: EMAPA:16101 xref: http://linkedlifedata.com/resource/umls/id/C1518429 xref: NCIT:C34231 xref: UMLS:C1518429 {source="ncithesaurus:Notochordal_Plate"} xref: VHOG:0001212 is_a: UBERON:0000490 {source="EHDAA2"} ! unilaminar epithelium is_a: UBERON:0002050 ! embryonic structure is_a: UBERON:0005291 ! embryonic tissue is_a: UBERON:0010371 ! ecto-epithelium relationship: develops_from UBERON:0006268 {source="EHDAA2"} ! notochordal process property_value: editor_note "TODO - check ordering; awaiting confirmation from JB" xsd:string property_value: UBPROP:0000001 "The notochordal plate is the dorsal part of the notochordal process when the ventral portion breaks down. It is continuous laterally with the endoderm that composes the roof of the primitive foregut and is in contact dorsally with the neural tube. The folding off of the notochordal plate gives rise to the notochord. [Carson_JL, Dehart_DB, Developmental_Dynamics_(1994)_201:_260-278, Gesteland_K_and_Schoenwolf_GC, Inagaki_T, Morphogenesis_of_the_murine_node_and_notochordal_plate, The_prechordal_plate, Vrablic_T, see_Mueller_F_and_O'Rahilly_R, the_rostral_end_of_the_notochord_and_nearby_median_features_in_staged_human_embryos._Cells_Tissues_Organs_(2003)_173:_1-20_and_Sulik_K][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001212", ontology="VHOG", source="http://bgee.unil.ch/"} property_value: UBPROP:0000001 "The notochordal plate is the dorsal part of the notochordal process when the ventral portion breaks down. It is continuous laterally with the endoderm that composes the roof of the primitive foregut and is in contact dorsally with the neural tube. The folding off of the notochordal plate gives rise to the notochord. [Carson_JL, Dehart_DB, Developmental_Dynamics_(1994)_201:_260-278, Gesteland_K_and_Schoenwolf_GC, Inagaki_T, Morphogenesis_of_the_murine_node_and_notochordal_plate, The_prechordal_plate, Vrablic_T, see_Mueller_F_and_O'Rahilly_R, the_rostral_end_of_the_notochord_and_nearby_median_features_in_staged_human_embryos._Cells_Tissues_Organs_(2003)_173:_1-20_and_Sulik_K][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001212", ontology="VHOG", source="http://bgee.unil.ch/"} [Term] id: UBERON:0006268 name: notochordal process namespace: uberon def: "A midline cellular cord formed from the migration of mesenchymal cells from the primitive knot" [http://www.med.umich.edu/lrc/coursepages/m1/embryology/embryo/05embryonicperiod.htm] def: "A midline cellular cord formed from the migration of mesenchymal cells from the primitive knot." [http://www.med.umich.edu/lrc/coursepages/m1/embryology/embryo/05embryonicperiod.htm] comment: The notochordal process grows cranially until it reaches the prechordal plate, the future site of the mouth. In this area the ectoderm is attached directly to the endoderm without intervening mesoderm. This area is known as the oropharyngeal membrane, and it will break down to become the mouth. At the other end of the primitive streak the ectoderm is also fused directly to the endoderm; this is known as the cloacal membrane (proctodeum), or primordial anus. subset: emapa_ehdaa2 synonym: "chordamesoderm" RELATED [] synonym: "presumptive notochord" RELATED [] xref: EHDAA2:0001279 xref: EHDAA:224 xref: EMAPA:16102 xref: FMA:293135 xref: http://linkedlifedata.com/resource/umls/id/C1518430 xref: NCIT:C34232 xref: UMLS:C1518430 {source="ncithesaurus:Notochordal_Process"} xref: VHOG:0001213 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0005423 ! developing anatomical structure relationship: develops_from UBERON:0000924 {source="EHDAA2"} ! ectoderm relationship: only_in_taxon NCBITaxon:7711 ! Chordata [Term] id: UBERON:0006279 name: pleuroperitoneal canal namespace: uberon def: "Each of the canals that links the peritoneal cavity and the caudal part of a pleural cavity." [ISBN:0124020607, VHOG:0001505] subset: emapa_ehdaa2 synonym: "pleuroperitoneal channel" RELATED [VHOG:0001505] xref: EHDAA2:0001481 xref: EHDAA:4128 xref: EMAPA:17704 xref: EMAPA:17707 xref: SCTID:361413002 xref: VHOG:0001505 is_a: UBERON:0003914 {source="EHDAA2"} ! epithelial tube is_a: UBERON:0005291 ! embryonic tissue intersection_of: UBERON:0003914 ! epithelial tube intersection_of: connects UBERON:0001179 ! peritoneal cavity intersection_of: connects UBERON:0002402 ! pleural cavity relationship: connects UBERON:0001179 ! peritoneal cavity relationship: connects UBERON:0002402 ! pleural cavity relationship: only_in_taxon NCBITaxon:7711 ! Chordata relationship: part_of UBERON:0011997 {source="EHDAA2"} ! coelom property_value: UBPROP:0000001 "Each of the canal that links the peritoneal cavity and the caudal part of a pleural cavity. [ISBN:0124020607][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001505", ontology="VHOG", source="http://bgee.unil.ch/"} [Term] id: UBERON:0006283 name: future cardiac ventricle namespace: uberon alt_id: UBERON:0010226 def: "Multi-tissue structure that is part of the heart tube and will become the cardiac ventricle." [ZFA:0001719] comment: The embryonic ventricle or primitive ventricle of the developing heart gives rise to the trabeculated parts of the left and right ventricles. In contrast, the smooth parts of the left and right ventricles originate from the embryological bulbus cordis. The primitive ventricle becomes divided by a septum, the septum inferius or ventricular septum, which grows upward from the lower part of the ventricle, its position being indicated on the surface of the heart by a furrow. Its dorsal part increases more rapidly than its ventral portion, and fuses with the dorsal part of the septum intermedium. For a time an interventricular foramen exists above its ventral portion, but this foramen is ultimately closed by the fusion of the aortic septum with the ventricular septum[WP] synonym: "early heart ventricle" EXACT [] synonym: "embryonic heart ventricle" EXACT [] synonym: "embryonic ventricle" BROAD [] synonym: "future heart ventricle" EXACT [] synonym: "presumptive cardiac ventricle heart tube" EXACT [ZFA:0001719] synonym: "primitive ventricle" EXACT [EHDAA2:0001531] synonym: "primitive ventricle of heart" EXACT [EMAPA:16350] synonym: "primordial cardiac ventricle" EXACT [FMA:71006] synonym: "primordial ventricle" EXACT [FMA:71006] xref: EHDAA2:0001531 xref: EMAPA:16350 xref: Embryonic:ventricle xref: FMA:71006 xref: http://www.snomedbrowser.com/Codes/Details/361524003 xref: NCIT:C34160 xref: SCTID:361524003 xref: TAO:0002231 xref: Wikipedia:Embryonic_ventricle xref: ZFA:0001719 is_a: UBERON:0006598 ! presumptive structure relationship: has_potential_to_develop_into UBERON:0002082 ! cardiac ventricle relationship: part_of UBERON:0004141 {source="ZFA"} ! heart tube relationship: part_of UBERON:0005498 {source="EMAPA"} ! primitive heart tube [Term] id: UBERON:0006304 name: future trigeminal ganglion namespace: uberon comment: See: https://github.com/obophenotype/mouse-anatomy-ontology/issues/13 and https://github.com/obophenotype/uberon/issues/693 -- consider merging into trigeminal ganglion, as this complicates the model subset: emapa_ehdaa2 synonym: "trigeminal preganglion" RELATED [EMAPA:16663] synonym: "trigeminal V preganglion" EXACT [EMAPA:16663] xref: EHDAA:924 xref: EMAPA:16663 xref: RETIRED_EHDAA2:0002089 is_a: UBERON:0003869 ! presumptive ganglion relationship: develops_from UBERON:0005563 ! trigeminal neural crest relationship: has_potential_to_develop_into UBERON:0001675 ! trigeminal ganglion relationship: transformation_of UBERON:0003070 {source="EHDAA2"} ! trigeminal placode complex [Term] id: UBERON:0006311 name: chamber of eyeball namespace: uberon def: "A segment of the eyeball that is filled with refractive media" [http://orcid.org/0000-0002-6601-2165] def: "A segment of the eyeball that is filled with refractive media." [http://orcid.org/0000-0002-6601-2165] synonym: "chamber of eye" RELATED [BTO:0002085] synonym: "eye chamber" EXACT [MA:0002459] synonym: "eyeball chamber" EXACT [FMA:58071] xref: BTO:0002085 xref: EMAPA:37529 {source="MA:th"} xref: FMA:58071 xref: http://linkedlifedata.com/resource/umls/id/C0459556 xref: http://www.snomedbrowser.com/Codes/Details/280540004 xref: MA:0002459 xref: NCIT:C32301 xref: SCTID:280540004 xref: UMLS:C0459556 {source="ncithesaurus:Chamber_of_the_Eye"} is_a: UBERON:0000063 ! organ subunit is_a: UBERON:0004121 ! ectoderm-derived structure intersection_of: UBERON:0000063 ! organ subunit intersection_of: location_of UBERON:0006312 ! ocular refractive media intersection_of: part_of UBERON:0000019 ! camera-type eye relationship: location_of UBERON:0006312 ! ocular refractive media relationship: part_of UBERON:0000019 ! camera-type eye [Term] id: UBERON:0006312 name: ocular refractive media namespace: uberon def: "Body substance in a liquid or semi-solid state in the eyeball which serves to refract light." [http://orcid.org/0000-0002-6601-2165] xref: MA:0001911 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000463 ! organism substance relationship: part_of UBERON:0000019 ! camera-type eye property_value: UBPROP:0000009 "ocular refraction" xsd:string [Term] id: UBERON:0006314 name: bodily fluid namespace: uberon def: "Liquid components of living organisms. includes fluids that are excreted or secreted from the body as well as body water that normally is not." [MESH:A12.207, Wikipedia:Body_fluid] def: "Liquid components of living organisms. includes fluids that are excreted or secreted from the body as well as body water that normally is not." [http://en.wikipedia.org/wiki/Body_fluid, MESH:A12.207] subset: pheno_slim synonym: "body fluid" EXACT [GAID:266] synonym: "fluid" BROAD [] xref: BIRNLEX:20 xref: Body:fluid xref: EMAPA:37441 {source="MA:th"} xref: FMA:280556 xref: GAID:266 xref: galen:BodyFluid xref: MESH:D001826 xref: Wikipedia:Body_fluid is_a: UBERON:0000463 ! organism substance intersection_of: UBERON:0000463 ! organism substance intersection_of: has_quality PATO:0001548 ! quality of a liquid relationship: has_quality PATO:0001548 ! quality of a liquid [Term] id: UBERON:0006331 name: brainstem nucleus namespace: uberon def: "A nucleus of brain that is part of a brainstem." [OBOL:automatic] synonym: "brain stem nucleus" RELATED [EMAPA:32790] xref: EMAPA:32790 xref: MA:0000821 is_a: UBERON:0002308 ! nucleus of brain intersection_of: UBERON:0002308 ! nucleus of brain intersection_of: part_of UBERON:0002298 ! brainstem relationship: part_of UBERON:0002298 ! brainstem [Term] id: UBERON:0006347 name: communicating artery namespace: uberon def: "An artery that connects two larger arteries." [ncithesaurus:Communicating_Artery] comment: Grouping for anterior and posterior xref: EMAPA:18598 xref: http://linkedlifedata.com/resource/umls/id/C1707451 xref: MA:0001938 xref: NCIT:C52851 xref: UMLS:C1707451 {source="ncithesaurus:Communicating_Artery"} is_a: UBERON:0001637 ! artery intersection_of: UBERON:0001637 ! artery intersection_of: UBERON:0001637 ! artery intersection_of: connects UBERON:0001637 {minCardinality="2", maxCardinality="2"} ! artery intersection_of: connects UBERON:0001637 {cardinality="2"} ! artery relationship: connects UBERON:0001637 ! artery [Term] id: UBERON:0006535 name: skin secretion namespace: uberon def: "A portion of organism substance that secreted_by a zone of skin." [OBOL:automatic] synonym: "skin fluid" RELATED [] synonym: "skin fluid/secretion" EXACT [MA:0002537] synonym: "skin substance" RELATED [] xref: MA:0002537 is_a: UBERON:0000463 ! organism substance intersection_of: UBERON:0000463 ! organism substance intersection_of: produced_by UBERON:0000014 ! zone of skin relationship: produced_by UBERON:0000014 ! zone of skin [Term] id: UBERON:0006537 name: female reproductive gland secretion namespace: uberon def: "A portion of organism substance that is secreted by a female reproductive gland." [UBERON:cjm] synonym: "female reproductive system fluid" RELATED [] synonym: "female reproductive system fluid/secretion" EXACT [MA:0002510] synonym: "female reproductive system secretion" RELATED [] xref: MA:0002510 is_a: UBERON:0022293 ! reproductive gland secretion intersection_of: UBERON:0000463 ! organism substance intersection_of: produced_by UBERON:0005398 ! female reproductive gland relationship: produced_by UBERON:0005398 ! female reproductive gland [Term] id: UBERON:0006538 name: respiratory system fluid/secretion namespace: uberon def: "A portion of organism substance that secreted_by a respiratory system." [OBOL:automatic] synonym: "respiratory system fluid" RELATED [] synonym: "respiratory system secretion" RELATED [] xref: EMAPA:36550 xref: http://linkedlifedata.com/resource/umls/id/C1514899 xref: MA:0002533 xref: NCIT:C13722 xref: UMLS:C1514899 {source="ncithesaurus:Respiratory_System_Fluid_or_Secretion"} is_a: UBERON:0000463 ! organism substance intersection_of: UBERON:0000463 ! organism substance intersection_of: produced_by UBERON:0001004 ! respiratory system relationship: produced_by UBERON:0001004 ! respiratory system [Term] id: UBERON:0006562 name: pharynx namespace: uberon def: "The pharynx is the part of the digestive system immediately posterior to the mouth[GO]." [GO:0060465] subset: grouping_class subset: uberon_slim synonym: "anterior part of foregut" RELATED [] synonym: "pharyngeal tube" RELATED [] xref: FBbt:00005380 xref: MAT:0000049 xref: MIAA:0000049 is_a: UBERON:0004921 ! subdivision of digestive tract relationship: only_in_taxon NCBITaxon:33213 ! Bilateria property_value: IAO:0000232 "currently this is an extremely generic class, encompassing both protostomes and deuterostomes." xsd:string property_value: UBPROP:0000007 "branchial" xsd:string property_value: UBPROP:0000007 "pharyngeal" xsd:string [Term] id: UBERON:0006563 name: tunica media of pulmonary trunk namespace: uberon def: "Tunica media of artery which is continuous with the myocardium of right ventricle.[FMA]." [FMA:85030, FMA:FMA] xref: FMA:85030 is_a: UBERON:0007239 ! tunica media of artery intersection_of: UBERON:0002522 ! tunica media intersection_of: part_of UBERON:0002333 ! pulmonary trunk relationship: part_of UBERON:0002333 ! pulmonary trunk [Term] id: UBERON:0006566 name: left ventricle myocardium namespace: uberon def: "A myocardium that is part of a left ventricle of a heart." [http://orcid.org/0000-0002-6601-2165] synonym: "left ventricular myocardium" EXACT [FMA:9558] synonym: "myocardium of left ventricle" EXACT [FMA:9558] xref: EMAPA:17339 xref: FMA:9558 xref: http://www.snomedbrowser.com/Codes/Details/362021000 xref: MA:0002983 xref: SCTID:362021000 is_a: UBERON:0001083 ! myocardium of ventricle intersection_of: UBERON:0001083 ! myocardium of ventricle intersection_of: part_of UBERON:0002084 ! heart left ventricle relationship: continuous_with UBERON:0003618 ! aorta tunica media relationship: part_of UBERON:0002084 ! heart left ventricle property_value: UBPROP:0000001 "Myocardium of ventricle which is continuous with the tunica media of aorta." xsd:string {source="FMA:9558"} [Term] id: UBERON:0006567 name: right ventricle myocardium namespace: uberon def: "A myocardium that is part of a right ventricle of a heart." [http://orcid.org/0000-0002-6601-2165] subset: pheno_slim synonym: "myocardium of right ventricle" EXACT [FMA:9535] synonym: "right ventricular myocardium" EXACT [FMA:9535] xref: EMAPA:17342 xref: FMA:9535 xref: http://www.snomedbrowser.com/Codes/Details/362020004 xref: MA:0002984 xref: SCTID:362020004 is_a: UBERON:0001083 ! myocardium of ventricle intersection_of: UBERON:0001083 ! myocardium of ventricle intersection_of: part_of UBERON:0002080 ! heart right ventricle relationship: continuous_with UBERON:0006563 ! tunica media of pulmonary trunk relationship: part_of UBERON:0002080 ! heart right ventricle property_value: UBPROP:0000001 "Myocardium of ventricle which is continuous with the tunica media of the pulmonary trunk." xsd:string {source="FMA:9535"} [Term] id: UBERON:0006595 name: presumptive endoderm namespace: uberon def: "Presumptive structure of the blastula that will develop into endoderm." [http://orcid.org/0000-0002-6601-2165] subset: efo_slim xref: AAO:0000471 xref: EFO:0003437 xref: TAO:0000416 xref: ZFA:0000416 is_a: UBERON:0006598 ! presumptive structure intersection_of: UBERON:0006598 ! presumptive structure intersection_of: has_potential_to_develop_into UBERON:0000925 ! endoderm intersection_of: part_of UBERON:0000307 ! blastula relationship: has_potential_to_develop_into UBERON:0000925 ! endoderm relationship: only_in_taxon NCBITaxon:6072 ! Eumetazoa relationship: part_of UBERON:0000307 ! blastula [Term] id: UBERON:0006596 name: presumptive blood namespace: uberon subset: efo_slim synonym: "future blood" EXACT [] xref: AAO:0000468 xref: EFO:0003439 xref: TAO:0000568 xref: ZFA:0000568 is_a: UBERON:0006598 ! presumptive structure intersection_of: UBERON:0006598 ! presumptive structure intersection_of: has_potential_to_develop_into UBERON:0000178 ! blood relationship: has_potential_to_develop_into UBERON:0000178 ! blood [Term] id: UBERON:0006598 name: presumptive structure namespace: uberon def: "Portion of embryonic tissue determined by fate mapping to become a structure." [GOC:CVS, GOC:YMB, ZFA:0001116] synonym: "future structure" EXACT [] synonym: "presumptive structures" EXACT [ZFA:0001116] xref: AAO:0000479 xref: TAO:0001116 xref: ZFA:0001116 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0002050 ! embryonic structure intersection_of: UBERON:0005423 ! developing anatomical structure intersection_of: has_potential_to_develop_into UBERON:0000061 ! anatomical structure intersection_of: part_of UBERON:0000922 ! embryo relationship: has_potential_to_develop_into UBERON:0000061 ! anatomical structure property_value: editor_note "Consider merging with anlage" xsd:string [Term] id: UBERON:0006601 name: presumptive ectoderm namespace: uberon def: "Presumptive structure of the blastula that will develop into ectoderm." [http://orcid.org/0000-0002-6601-2165] subset: efo_slim synonym: "presumptive epidermis" RELATED [ZFA:0001376] xref: AAO:0000470 xref: EFO:0003466 xref: TAO:0001376 xref: XAO:0004132 xref: ZFA:0001376 is_a: UBERON:0006598 ! presumptive structure intersection_of: UBERON:0006598 ! presumptive structure intersection_of: has_potential_to_develop_into UBERON:0000924 ! ectoderm intersection_of: part_of UBERON:0000307 ! blastula relationship: has_potential_to_develop_into UBERON:0000924 ! ectoderm relationship: only_in_taxon NCBITaxon:6072 ! Eumetazoa relationship: part_of UBERON:0000307 ! blastula [Term] id: UBERON:0006603 name: presumptive mesoderm namespace: uberon def: "Presumptive structure of the blastula that will develop into mesoderm." [http://orcid.org/0000-0002-6601-2165] subset: efo_slim xref: AAO:0000476 xref: EFO:0003467 xref: TAO:0001377 xref: ZFA:0001377 is_a: UBERON:0006598 ! presumptive structure intersection_of: UBERON:0006598 ! presumptive structure intersection_of: has_potential_to_develop_into UBERON:0000926 ! mesoderm intersection_of: part_of UBERON:0000307 ! blastula relationship: has_potential_to_develop_into UBERON:0000926 ! mesoderm relationship: only_in_taxon NCBITaxon:6072 ! Eumetazoa relationship: part_of UBERON:0000307 ! blastula [Term] id: UBERON:0006670 name: central tendon of diaphragm namespace: uberon def: "The three-lobed cloverleaf-shaped aponeurosis situated at the center of the diaphragm; the central tendon is fused with the fibrous pericardium that provides attachment for the muscle fibers." [MGI:csmith, MP:0012061] subset: pheno_slim synonym: "central tendon" EXACT [FMA:58279] synonym: "centrum tendineum" EXACT [FMA:58279] synonym: "centrum tendineum diaphragmatis" EXACT LATIN [FMA:58279, FMA:TA] xref: EMAPA:17702 xref: FMA:58279 xref: NCIT:C34119 xref: SCTID:244943002 xref: UMLS:C0230162 {source="ncithesaurus:Central_Tendon_of_the_Diaphragm"} xref: VHOG:0001399 xref: Wikipedia:Central_tendon_of_diaphragm is_a: CARO:0000003 ! connected anatomical structure is_a: UBERON:0000043 ! tendon is_a: UBERON:0003570 ! respiratory system connective tissue is_a: UBERON:0003837 ! thoracic segment connective tissue relationship: attaches_to UBERON:0002359 ! fibrous pericardium relationship: immediate_transformation_of UBERON:0006239 {evidence="definitional"} ! future central tendon relationship: part_of UBERON:0001103 {source="VHOG"} ! diaphragm property_value: UBPROP:0000003 "In mammals, the diaphragm muscle divides the thoracoabdominal cavity into thorax and abdomen. In most mammals, the diaphragm is a flat sheet with muscle fibers radiating outward from a central tendon, and the diaphragm's apposition to the cranial surface of the liver gives it a dome-shape. Muscle fiber contraction reduces the curvature of the dome, thereby expanding the thoracic cavity and aspirating air into the lungs.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001399", ontology="VHOG", source="DOI:10.1016/j.resp.2006.06.003", source="http://bgee.unil.ch/"} [Term] id: UBERON:0006677 name: surface of epithelium namespace: uberon def: "An anatomical boundary that adjacent_to a epithelium." [OBOL:automatic] synonym: "epithelium surface" EXACT [FMA:70997] xref: FMA:70997 is_a: UBERON:0036215 ! anatomical surface region intersection_of: UBERON:0036215 ! anatomical surface region intersection_of: bounding_layer_of UBERON:0000483 ! epithelium relationship: bounding_layer_of UBERON:0000483 ! epithelium relationship: part_of UBERON:0000483 ! epithelium [Term] id: UBERON:0006761 name: corneo-scleral junction namespace: uberon def: "the edge of the cornea where it joins the sclera; the limbus is a common site for the occurrence of corneal epithelial neoplasm" [MP:0013477] def: "The edge of the cornea where it joins the sclera; the limbus is a common site for the occurrence of corneal epithelial neoplasm." [MP:0013477] comment: This location has parts such as blood vessels etc. See PMC2868485, http://www.ncbi.nlm.nih.gov/pubmed/2695343 subset: efo_slim subset: pheno_slim subset: vertebrate_core synonym: "cornea limbus" EXACT [] synonym: "corneal limbus" EXACT [GAID:896] synonym: "corneal limbus" EXACT [FMA:58342] synonym: "corneal-scleral limbus" EXACT [PMID:17051547] synonym: "corneal-scleral limbus" EXACT [http://www.ncbi.nlm.nih.gov/pubmed/17051547] synonym: "corneoscleral junction" EXACT [GAID:896] synonym: "limbus corneae" EXACT LATIN [http://en.wikipedia.org/wiki/Corneal_limbus] synonym: "limbus corneae" EXACT LATIN [Wikipedia:Corneal_limbus] synonym: "limbus corneae" RELATED LATIN [http://en.wikipedia.org/wiki/Corneal_limbus] synonym: "limbus corneae" RELATED LATIN [Wikipedia:Corneal_limbus] synonym: "sclerocorneal junction" EXACT [FMA:58342] synonym: "sclerocorneal limbus" EXACT [GAID:896] xref: Corneal:limbus xref: EFO:0001403 xref: EMAPA:37835 {source="MA:th"} xref: FMA:58342 xref: GAID:896 xref: http://www.snomedbrowser.com/Codes/Details/63716004 xref: MESH:D016850 xref: SCTID:63716004 xref: Wikipedia:Corneal_limbus xref: ZFA:0005570 is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0007651 ! anatomical junction intersection_of: UBERON:0007651 ! anatomical junction intersection_of: connects UBERON:0000964 ! cornea intersection_of: connects UBERON:0001773 ! sclera relationship: connects UBERON:0000964 ! cornea relationship: connects UBERON:0001773 ! sclera relationship: part_of UBERON:0000019 ! camera-type eye property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/3/3d/Limbus.png xsd:anyURI [Term] id: UBERON:0006799 name: glandular epithelium namespace: uberon def: "An epithelium that is composed primarily of secretory cells." [http://orcid.org/0000-0002-6601-2165] xref: BTO:0002991 xref: NCIT:C43370 xref: NCIT:C45715 xref: UMLS:C0682578 {source="ncithesaurus:Glandular_Epithelium"} xref: UMLS:C1708242 {source="ncithesaurus:Glandular_Epithelial_Tissue"} is_a: UBERON:0000483 ! epithelium intersection_of: UBERON:0000483 ! epithelium intersection_of: composed_primarily_of CL:0000150 ! glandular epithelial cell relationship: composed_primarily_of CL:0000150 ! glandular epithelial cell property_value: editor_note "consider splitting epithelium from epithelial tissue" xsd:string [Term] id: UBERON:0006815 name: areolar connective tissue namespace: uberon def: "Loose connective tissue located at the outer and inner layers of organs. Examples: submucosal connective tissue, tunica adventitia of artery, papillary dermis, superficial fascia of dorsum of hand." [FMA:63897] synonym: "areolar tissue" RELATED [] synonym: "loose areolar connective tissue" EXACT [FMA:63897] synonym: "loose connective tissue" RELATED [AAO:0000027] xref: AAO:0000027 xref: FMA:63897 xref: http://www.snomedbrowser.com/Codes/Details/68477002 xref: SCTID:68477002 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0011825 {source="FMA"} ! loose connective tissue relationship: has_part CL:1000303 {source="FMA"} ! fibroblast of areolar connective tissue relationship: part_of UBERON:0000030 ! lamina propria relationship: protects UBERON:0000062 ! organ property_value: UBPROP:0000001 "Also known as loose connective tissue. A pliable, mesh-like tissue with a fluid matrix that functions to cushion and protect body organs.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0000027", ontology="AAO", source="AAO:LAP"} property_value: UBPROP:0000002 "relationship loss: subclass connective tissue proper (AAO:0000099)[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0000027", ontology="AAO"} property_value: UBPROP:0000009 "cushions body organs" xsd:string {source="AAO"} [Term] id: UBERON:0006834 name: uterus or analog namespace: uberon def: "A subdivision of a the reproductive tract in a female organism that is the site of embryo development." [http://orcid.org/0000-0002-6601-2165] subset: grouping_class synonym: "uterus" BROAD SENSU [FBbt:00004924] xref: FBbt:00004924 xref: TADS:0000421 xref: WBbt:0006760 is_a: UBERON:0005156 ! reproductive structure is_a: UBERON:0013522 ! subdivision of tube intersection_of: UBERON:0013522 ! subdivision of tube intersection_of: site_of GO:0009790 ! embryo development relationship: only_in_taxon NCBITaxon:33208 ! Metazoa relationship: part_of UBERON:0000474 ! female reproductive system relationship: site_of GO:0009790 ! embryo development [Term] id: UBERON:0006846 name: surface groove namespace: uberon def: "A furrow or an incomplete tube." [AEO:0000161, AEO:JB, https://github.com/obophenotype/human-developmental-anatomy-ontology/issues/4] subset: grouping_class synonym: "groove" RELATED [AEO:0000161] xref: AEO:0000161 xref: EHDAA2_RETIRED:0003161 is_a: UBERON:0003102 ! surface structure intersection_of: UBERON:0003102 ! surface structure intersection_of: has_quality PATO:0002255 ! grooved relationship: has_quality PATO:0002255 ! grooved [Term] id: UBERON:0006876 name: vasculature of organ namespace: uberon def: "A vasculature that is part of a organ." [OBOL:automatic] subset: non_informative synonym: "organ vasculature" EXACT [FMA:74612] synonym: "set of blood vessels of organ" EXACT [FMA:74612] xref: FMA:74612 is_a: UBERON:0002049 ! vasculature intersection_of: UBERON:0002049 ! vasculature intersection_of: part_of UBERON:0000062 ! organ relationship: part_of UBERON:0000062 ! organ [Term] id: UBERON:0006904 name: head mesenchyme from mesoderm namespace: uberon def: "A head mesenchyme that develops_from a mesoderm." [OBOL:automatic] subset: efo_slim subset: vertebrate_core synonym: "cranial mesoderm" RELATED [UBERON:0005280] synonym: "head mesenchyme derived from mesoderm" EXACT [] synonym: "head mesenchyme from head mesoderm" EXACT [EHDAA2:0001118] synonym: "head mesenchyme from mesoderm" EXACT [] synonym: "head mesoderm" RELATED [AAO:0011051, UBERON:0005280] synonym: "mesenchyme derived from head mesoderm" EXACT [EHDAA:1057] synonym: "mesenchyme from head mesoderm" EXACT [] xref: AAO:0011051 xref: EFO:0003337 xref: EFO:0003603 xref: EHDAA2:0001118 xref: EHDAA:655 xref: EMAPA:16099 xref: EMAPA_RETIRED:16270 xref: FMA:293859 xref: TAO:0000998 xref: VHOG:0000185 xref: XAO:0000053 xref: ZFA:0000998 is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0005253 {source="ZFA"} ! head mesenchyme intersection_of: UBERON:0005253 ! head mesenchyme intersection_of: develops_from UBERON:0000926 ! mesoderm relationship: develops_from UBERON:0003063 {source="EHDAA2", source="XAO"} ! prechordal plate property_value: editor_note "merged in 'head mesoderm' from XAO/AAO and EFO here. Partially implements https://github.com/obophenotype/uberon/wiki/The-neural-crest NC meeting scheme" xsd:string [Term] id: UBERON:0006905 name: mandibular process mesenchyme namespace: uberon def: "Mesenchyme that is part of a mandibular prominence." [OBOL:automatic] synonym: "mesenchyme of mandibular process" EXACT [EMAPA:17357] synonym: "mesenchyme of mandibular prominence" EXACT [https://orcid.org/0000-0002-6601-2165] xref: EHDAA2:0001062 xref: EHDAA:5861 xref: EHDAA:5873 xref: EMAPA:17357 is_a: UBERON:0005253 ! head mesenchyme is_a: UBERON:0010314 ! structure with developmental contribution from neural crest intersection_of: UBERON:0003104 ! mesenchyme intersection_of: part_of UBERON:0005867 ! mandibular prominence relationship: part_of UBERON:0005867 ! mandibular prominence [Term] id: UBERON:0006909 name: lumen of digestive tract namespace: uberon def: "An anatomical space that surrounded_by a digestive tract." [OBOL:automatic] synonym: "digestive tract lumen" EXACT [https://orcid.org/0000-0002-6601-2165] synonym: "gut cavity" EXACT [BTO:0000349] synonym: "gut lumen" EXACT [FMA:45677] synonym: "lumen of alimentary tract" EXACT [https://orcid.org/0000-0002-6601-2165] synonym: "lumen of digestive tract" EXACT [https://orcid.org/0000-0002-6601-2165] synonym: "lumen of gut" EXACT [FMA:45677] xref: BTO:0000349 xref: EMAPA:32908 xref: FMA:45677 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000464 ! anatomical space intersection_of: UBERON:0000464 ! anatomical space intersection_of: luminal_space_of UBERON:0001555 ! digestive tract relationship: luminal_space_of UBERON:0001555 ! digestive tract relationship: part_of UBERON:0001555 ! digestive tract [Term] id: UBERON:0006913 name: lip epithelium namespace: uberon def: "An epithelium that is part of a lip." [OBOL:automatic] xref: BTO:0004468 xref: TAO:0005334 xref: ZFA:0005334 is_a: UBERON:0003929 ! digestive tract epithelium intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0001833 ! lip relationship: part_of UBERON:0001833 ! lip property_value: UBPROP:0000001 "The thick, high squamous-stratified epithelium that covers the lips. It contains abundant melanocytes, many mucous cells and has well differentiated taste buds.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0005334", ontology="TAO", source="ZFIN:ZDB-PUB-060921-12"} [Term] id: UBERON:0006914 name: squamous epithelium namespace: uberon def: "An epithelium characterised by its most superficial layer consisting of squamous epithelial cells." [http://en.wikipedia.org/wiki/Squamous_epithelium] def: "An epithelium characterised by its most superficial layer consisting of squamous epithelial cells." [Wikipedia:Squamous_epithelium] xref: BTO:0002072 xref: http://linkedlifedata.com/resource/umls/id/C0221909 xref: http://www.snomedbrowser.com/Codes/Details/40118003 xref: NCIT:C12848 xref: SCTID:40118003 xref: Squamous:epithelium xref: UMLS:C0221909 {source="ncithesaurus:Squamous_Epithelium"} xref: Wikipedia:Squamous_epithelium is_a: UBERON:0000483 ! epithelium intersection_of: UBERON:0000483 ! epithelium intersection_of: has_part CL:0000076 ! squamous epithelial cell relationship: has_part CL:0000076 ! squamous epithelial cell property_value: UBPROP:0000012 "FBbt:00007028 (squamous epithelium) A type of epithelium that is made up of flattened cells which are arranged with their long axes in the plane of the epithelium" xsd:string {external_ontology="FBbt"} [Term] id: UBERON:0006915 name: stratified squamous epithelium namespace: uberon def: "Multilaminar epithelium which consists of more than one layer of squamous cells only one layer of which is in contact with a basement membrane. Examples: keratinized stratified squamous epithelium, epithelium of wall of esophagus.[FMA]." [FMA:45563, Wikipedia:Stratified_squamous_epithelium] def: "Multilaminar epithelium which consists of more than one layer of squamous cells only one layer of which is in contact with a basement membrane. Examples: keratinized stratified squamous epithelium, epithelium of wall of esophagus.[FMA]." [FMA:45563, http://en.wikipedia.org/wiki/Stratified_squamous_epithelium] subset: pheno_slim synonym: "epithelium stratificatum squamosum" EXACT [FMA:45563] xref: FMA:45563 xref: http://en.wikipedia.org/wiki/Stratified_squamous_epithelium xref: http://linkedlifedata.com/resource/umls/id/C0836131 xref: NCIT:C13180 xref: UMLS:C0836131 {source="ncithesaurus:Stratified_Squamous_Epithelium"} xref: Wikipedia:Stratified_squamous_epithelium is_a: UBERON:0000486 ! multilaminar epithelium is_a: UBERON:0006914 ! squamous epithelium intersection_of: UBERON:0000486 ! multilaminar epithelium intersection_of: has_part CL:0000076 ! squamous epithelial cell [Term] id: UBERON:0006920 name: esophagus squamous epithelium namespace: uberon def: "A squamous epithelium that is part of a esophagus." [OBOL:automatic] subset: pheno_slim synonym: "esophageal squamous epithelium" RELATED [OBOL:automatic] synonym: "squamous epithelium of esophagus" RELATED [OBOL:automatic] synonym: "squamous oesophageal epithelium" RELATED [MA:0001567] xref: BTO:0003635 xref: CALOHA:TS-1250 xref: EMAPA:35324 xref: http://linkedlifedata.com/resource/umls/id/C1707950 xref: MA:0001567 xref: NCIT:C49222 xref: UMLS:C1707950 {source="ncithesaurus:Esophageal_Squamous_Epithelium"} is_a: UBERON:0001976 ! epithelium of esophagus is_a: UBERON:0006914 ! squamous epithelium intersection_of: UBERON:0006914 ! squamous epithelium intersection_of: part_of UBERON:0001043 ! esophagus property_value: UBPROP:0000012 "MA introduces basal and squamous subtypes of esophagus epithelium; consider adding the FMA class 'epithelium of esophagus' here, because it is classified as squamous. BTO also has a singleton subclass" xsd:string {external_ontology="MA"} [Term] id: UBERON:0006921 name: stomach squamous epithelium namespace: uberon def: "A squamous epithelium that is part of a stomach." [OBOL:automatic] subset: pheno_slim xref: EMAPA:35824 xref: MA:0001611 is_a: UBERON:0000487 ! simple squamous epithelium is_a: UBERON:0001276 ! epithelium of stomach intersection_of: UBERON:0006914 ! squamous epithelium intersection_of: part_of UBERON:0000945 ! stomach [Term] id: UBERON:0006924 name: stomach glandular epithelium namespace: uberon def: "A glandular epithelium that lines the stomach. The stomach's glandular epithelium is characterized by the presence of gastric glands." [ISBN:0073040584] subset: pheno_slim synonym: "epithelium of gastric gland" NARROW [FMA:63458] synonym: "gastric gland epithelium" RELATED [FMA:63458] xref: EMAPA:17623 xref: EMAPA:35814 xref: FMA:63458 xref: MA:0002784 is_a: UBERON:0001276 ! epithelium of stomach is_a: UBERON:0006929 {source="FMA"} ! glandular columnar epithelium intersection_of: UBERON:0006799 ! glandular epithelium intersection_of: part_of UBERON:0000945 ! stomach relationship: has_part UBERON:0000325 ! gastric gland relationship: part_of UBERON:0006931 ! stomach glandular region mucosa property_value: editor_note "we follow Kardong in treating the glandular epithelium as a distinct entity, and thus as an epithelium which has glands; FMA has 'epithelium of gastric gland', which is part of the gastric gland." xsd:string [Term] id: UBERON:0006925 name: digestive system gland namespace: uberon def: "Any gland that is part of the digestive system." [UBERON:cjm] subset: organ_slim synonym: "digestive gland" RELATED [BTO:0000345] xref: AAO:0000130 xref: BTO:0000345 is_a: UBERON:0002368 ! endocrine gland is_a: UBERON:0013765 ! digestive system element intersection_of: UBERON:0002368 ! endocrine gland intersection_of: part_of UBERON:0001007 ! digestive system [Term] id: UBERON:0006929 name: glandular columnar epithelium namespace: uberon def: "Simple columnar epithelium that constitutes the secretory part of a gland. Examples: epithelium of stomach, luminal epithelium of lactiferous duct.[FMA]." [FMA:64800] xref: FMA:64800 xref: NCIT:C13182 xref: UMLS:C0225337 {source="ncithesaurus:Columnar_Epithelium"} is_a: UBERON:0000485 ! simple columnar epithelium is_a: UBERON:0006799 ! glandular epithelium intersection_of: UBERON:0000485 ! simple columnar epithelium intersection_of: composed_primarily_of CL:0000150 ! glandular epithelial cell [Term] id: UBERON:0006930 name: glandular cuboidal epithelium namespace: uberon xref: FMA:66809 is_a: UBERON:0000484 ! simple cuboidal epithelium is_a: UBERON:0006799 ! glandular epithelium intersection_of: UBERON:0000484 ! simple cuboidal epithelium intersection_of: composed_primarily_of CL:0000150 ! glandular epithelial cell [Term] id: UBERON:0006931 name: stomach glandular region mucosa namespace: uberon def: "Stomach mucosa that is lined with glandular epithelium and part of a stomach glandular region." [http://orcid.org/0000-0002-6601-2165] synonym: "stomach glandular region glandular mucous membrane" EXACT [EMAPA:27167] xref: EMAPA:27167 xref: MA:0001614 is_a: UBERON:0001199 ! mucosa of stomach intersection_of: UBERON:0001199 ! mucosa of stomach intersection_of: part_of UBERON:0011953 ! stomach glandular region relationship: part_of UBERON:0011953 ! stomach glandular region [Term] id: UBERON:0006934 name: sensory epithelium namespace: uberon def: "Simple columnar epithelium made up of cells specialized to serve as sensory cells for the reception of external stimuli, as the sensory cells of the cochlea, vestibule, nasal mucosa, and tongue." [BTO:0000314] synonym: "neuroepithelium" RELATED INCONSISTENT [BTO:0000314] xref: CALOHA:TS-0682 xref: FMA:62410 xref: SCTID:309045006 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000488 ! atypical epithelium intersection_of: UBERON:0000483 ! epithelium intersection_of: has_part CL:0000098 ! sensory epithelial cell relationship: has_part CL:0000098 ! sensory epithelial cell relationship: part_of UBERON:0000010 ! peripheral nervous system property_value: UBPROP:0000012 "note that the definition sourced from Dorlands say 'simple columnar', but FMA says atypical" xsd:string {external_ontology="FMA"} [Term] id: UBERON:0006960 name: ovary stroma namespace: uberon def: "The stroma of the ovary is a peculiar soft tissue, abundantly supplied with blood vessels, consisting for the most part of spindle-shaped cells with a small amount of ordinary connective tissue. These cells have been regarded by some anatomists as unstriped muscle cells, which, indeed, they most resemble; by others as connective-tissue cells. On the surface of the organ this tissue is much condensed, and forms a layer composed of short connective-tissue fibers, with fusiform cells between them. The stroma of the ovary may contain interstitial cells resembling those of the testis." [Wikipedia:Stroma_of_ovary] def: "The stroma of the ovary is a peculiar soft tissue, abundantly supplied with blood vessels, consisting for the most part of spindle-shaped cells with a small amount of ordinary connective tissue. These cells have been regarded by some anatomists as unstriped muscle cells, which, indeed, they most resemble; by others as connective-tissue cells. On the surface of the organ this tissue is much condensed, and forms a layer composed of short connective-tissue fibers, with fusiform cells between them. The stroma of the ovary may contain interstitial cells resembling those of the testis." [http://en.wikipedia.org/wiki/Stroma_of_ovary] synonym: "interstitial tissue of ovary" EXACT [FMA:18626] synonym: "ovarian stroma" EXACT [FMA:18626] synonym: "ovary stroma" EXACT [MA:0002991] synonym: "stroma of the ovary" EXACT [Wikipedia:Stroma_of_ovary] synonym: "stroma of the ovary" EXACT [http://en.wikipedia.org/wiki/Stroma_of_ovary] synonym: "stroma ovarica" EXACT [FMA:18626] synonym: "stroma ovarii" RELATED LATIN [http://en.wikipedia.org/wiki/Stroma_of_ovary] synonym: "stroma ovarii" RELATED LATIN [Wikipedia:Stroma_of_ovary] xref: CALOHA:TS-1246 xref: EMAPA:28880 xref: FMA:18626 xref: http://en.wikipedia.org/wiki/Stroma_of_ovary xref: http://linkedlifedata.com/resource/umls/id/C0737271 xref: http://www.snomedbrowser.com/Codes/Details/259306002 xref: MA:0002991 xref: NCIT:C33638 xref: SCTID:259306002 xref: UMLS:C0737271 {source="ncithesaurus:Stroma_of_the_Ovarian_Cortex"} xref: Wikipedia:Stroma_of_ovary is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0003891 ! stroma is_a: UBERON:0005156 ! reproductive structure intersection_of: UBERON:0003891 ! stroma intersection_of: part_of UBERON:0000992 ! ovary relationship: has_part CL:0002095 {source="FMA"} ! hilus cell of ovary relationship: part_of UBERON:0000992 ! ovary [Term] id: UBERON:0006965 name: vascular cord namespace: uberon def: "The vascular cord is the primordial vasculature that will develop into blood vessels by the process of tubulogenesis[GO]. The vascular cord is composed of angioblast or vascular endothelial cells in a solid linear mass called a cord. The cord then undergoes tubulogenesis to form the lumen of the vessels[ZFA]." [GO:0072360, ZFA:0005077] subset: efo_slim xref: EFO:0003709 xref: TAO:0005077 xref: ZFA:0005077 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0005423 ! developing anatomical structure relationship: has_part CL:0000115 ! endothelial cell relationship: has_part CL:0000566 ! angioblastic mesenchymal cell relationship: part_of UBERON:0014903 ! primordial vasculature relationship: site_of GO:0048754 ! branching morphogenesis of an epithelial tube [Term] id: UBERON:0006966 name: coronary capillary namespace: uberon def: "A capillary that is part of the coronary system." [http://orcid.org/0000-0002-6601-2165] synonym: "heart capillary" EXACT [GO:0003248] xref: ZFA:0005813 is_a: UBERON:0001982 ! capillary is_a: UBERON:0003498 ! heart blood vessel intersection_of: UBERON:0001982 ! capillary intersection_of: part_of UBERON:0000948 ! heart [Term] id: UBERON:0006984 name: anatomical surface namespace: uberon def: "A two dimensional anatomical structure that is the boundary between an anatomical structure and an anatomical substance, an anatomical space or the organism's environment. Examples include the surface of your skin, the surface of the lining of your gut; the surface of the endothelium of you aorta that is in contact with blood.n" [CARO:0001002] def: "A two dimensional anatomical structure that is the boundary between an anatomical structure and an anatomical substance, an anatomical space or the organism's environment. Examples include the surface of your skin, the surface of the lining of your gut; the surface of the endothelium of you aorta that is in contact with blood.n." [CARO:0001002] comment: Old definition: 'Non-material anatomical entity of two dimensions, that is demarcated by anatomical lines or points on the external or internal surfaces of anatomical structures.' Note, in the new definition, the space referred to is not necessarily an anatomical space. It may be the outside of an organism. subset: upper_level xref: BILA:0000010 xref: CARO:0001002 xref: EHDAA2_RETIRED:0003192 xref: FMA:24137 xref: http://linkedlifedata.com/resource/umls/id/C1515977 xref: NCIT:C34022 xref: UMLS:C1515977 {source="ncithesaurus:Anatomic_Surface"} is_a: UBERON:0010199 {notes="via morphological boundary in CARO"} ! bona-fide anatomical boundary [Term] id: UBERON:0007005 name: cardiogenic splanchnic mesoderm namespace: uberon def: "The splanchnic mesoderm in the cardiogenic region where the heart develops; it gives rise to endocardial heart tubes that fuse to form the primordial cardiac tube, the heart primordium[web]. Two migratory heart primordia that move ventrally during the course of neurulation, and then fuse[XAO]." [http://www.drugs.com/dict/cardiogenic-mesoderm.html, https://github.com/obophenotype/insect_neuroanatomy_ontology/issues/7, XAO:0000235] subset: efo_slim subset: pheno_slim synonym: "cardiac mesoderm" RELATED [XAO:0000235] synonym: "cardiogenic mesoderm" RELATED [http://www.drugs.com/dict/cardiogenic-mesoderm.html] synonym: "cardiogenic region" RELATED [http://orcid.org/0000-0002-6601-2165] synonym: "cardiogenic splanchnopleure" EXACT [EHDAA2:0000214] synonym: "heart primordia" RELATED [XAO:0000235] xref: AAO:0011021 xref: BILA:0000051 xref: EFO:0000315 xref: EHDAA2:0000214 xref: EHDAA:385 xref: FMA:293143 xref: http://www.snomedbrowser.com/Codes/Details/360387000 xref: SCTID:360387000 xref: VHOG:0001641 xref: XAO:0000235 is_a: CARO:0000003 ! connected anatomical structure is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0005291 ! embryonic tissue relationship: developmentally_induced_by UBERON:0009881 ! anterior lateral plate mesoderm relationship: develops_from UBERON:0004872 ! splanchnic layer of lateral plate mesoderm relationship: part_of UBERON:0004140 ! primary heart field relationship: part_of UBERON:0009881 ! anterior lateral plate mesoderm property_value: editor_note "consider FBbt:00005541 ! cardiogenic mesoderm" xsd:string property_value: editor_note "review EHDAA2 placement" xsd:string [Term] id: UBERON:0007010 name: cleaving embryo namespace: uberon def: "Organism at the cleavage stage." [OBOL:automatic] xref: BILA:0000058 is_a: UBERON:0000922 ! embryo intersection_of: UBERON:0000468 ! multicellular organism intersection_of: existence_ends_with UBERON:0000107 ! cleavage stage intersection_of: existence_starts_with UBERON:0000107 ! cleavage stage relationship: existence_ends_with UBERON:0000107 ! cleavage stage relationship: existence_starts_with UBERON:0000107 ! cleavage stage [Term] id: UBERON:0007021 name: sexually immature organism namespace: uberon def: "A multicellular organism that is at the juvenile stage." [OBOL:automatic] synonym: "juvenile" BROAD [] synonym: "juvenile organism" EXACT [BILA:0000076] synonym: "juveniles" EXACT PLURAL [TAO:0002047] xref: BILA:0000076 xref: Category:Juvenile\:organism xref: TAO:0002047 is_a: UBERON:0000468 ! multicellular organism intersection_of: UBERON:0000468 ! multicellular organism intersection_of: existence_ends_with UBERON:0000112 ! sexually immature stage intersection_of: existence_starts_with UBERON:0000112 ! sexually immature stage relationship: existence_ends_with UBERON:0000112 ! sexually immature stage relationship: existence_starts_with UBERON:0000112 ! sexually immature stage relationship: has_quality PATO:0001190 ! juvenile property_value: UBPROP:0000001 "Whole organism that is not fully grown or sexually mature.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0002047", ontology="TAO", source="TAO:wd"} [Term] id: UBERON:0007023 name: adult organism namespace: uberon def: "A multicellular organism that existence_ends_with a post-juvenile adult stage and existence_starts_with a post-juvenile adult stage." [OBOL:automatic] synonym: "adult" BROAD [] synonym: "adults" EXACT PLURAL [TAO:0002046] xref: BILA:0000078 xref: Category:Adult\:organism xref: FBbt:00003004 xref: galen:Adult xref: HAO:0000087 xref: http://linkedlifedata.com/resource/umls/id/C0001675 xref: NCIT:C17600 xref: TAO:0002046 xref: UMLS:C0001675 {source="ncithesaurus:Adult"} is_a: UBERON:0000468 ! multicellular organism intersection_of: UBERON:0000468 ! multicellular organism intersection_of: existence_ends_with UBERON:0000113 ! post-juvenile adult stage intersection_of: existence_starts_with UBERON:0000113 ! post-juvenile adult stage relationship: existence_ends_with UBERON:0000113 ! post-juvenile adult stage relationship: existence_starts_with UBERON:0000113 ! post-juvenile adult stage property_value: UBPROP:0000001 "Whole organism that is fully grown or sexually mature.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0002046", ontology="TAO", source="TAO:wd"} [Term] id: UBERON:0007026 name: presumptive gut namespace: uberon synonym: "embryonic digestive tube" RELATED [] synonym: "future digestive tract" EXACT [] synonym: "future digestive tube" EXACT [] synonym: "future gut" EXACT [] synonym: "primitive gut" EXACT [] synonym: "primordial digestive tube" RELATED [] synonym: "primordial gut" RELATED [] xref: BILA:0000084 xref: http://linkedlifedata.com/resource/umls/id/C1514442 xref: http://www.snomedbrowser.com/Codes/Details/360394002 xref: NCIT:C34268 xref: SCTID:360394002 xref: UMLS:C1514442 {source="ncithesaurus:Primordial_Gut"} is_a: UBERON:0006598 ! presumptive structure intersection_of: UBERON:0006598 ! presumptive structure intersection_of: has_potential_to_develop_into UBERON:0001555 ! digestive tract relationship: existence_starts_during UBERON:0000109 ! gastrula stage relationship: has_developmental_contribution_from UBERON:0000925 ! endoderm relationship: has_developmental_contribution_from UBERON:0000926 ! mesoderm relationship: has_potential_to_develop_into UBERON:0001555 ! digestive tract property_value: UBPROP:0000011 "The endodermal cells generate only the lining of the digestive tube and its glands; mesodermal mesenchyme cells will surround this tube to provide the muscles for peristalsis" xsd:string {source="NCBIBook:NBK10107"} [Term] id: UBERON:0007037 name: mechanosensory system namespace: uberon xref: BILA:0000142 is_a: UBERON:0001032 ! sensory system intersection_of: UBERON:0001032 ! sensory system intersection_of: capable_of GO:0050954 ! sensory perception of mechanical stimulus relationship: capable_of GO:0050954 ! sensory perception of mechanical stimulus [Term] id: UBERON:0007098 name: mandibular neural crest namespace: uberon def: "Cranial neural crest that migrates into the mandibular arch." [ZFA:0007064] xref: TAO:0007064 xref: XAO:0000024 xref: ZFA:0007064 is_a: UBERON:0003099 {source="ZFA"} ! cranial neural crest relationship: part_of UBERON:0003852 {source="ZFA"} ! rhombencephalon neural crest [Term] id: UBERON:0007100 name: primary circulatory organ namespace: uberon def: "A hollow, muscular organ, which, by contracting rhythmically, keeps up the circulation of the blood or analogs[GO,modified]." [GO:0007507] comment: Gene notes: Bmp, Nkx, Gata subset: grouping_class synonym: "adult heart" RELATED [FBbt:00003154] synonym: "dorsal tube" NARROW [Wikipedia:Heart] synonym: "dorsal tube" NARROW [http://en.wikipedia.org/wiki/Heart] synonym: "heart" NARROW [GO:0007507] xref: FBbt:00003154 xref: http://www.sciencemag.org/content/313/5795/1922/F1.large.jpg xref: SPD:0000130 xref: TADS:0000147 is_a: UBERON:0015228 ! circulatory organ intersection_of: UBERON:0015228 ! circulatory organ intersection_of: capable_of GO:0008015 ! blood circulation relationship: capable_of GO:0008015 {notes="GO uses blood circulation generically to include the haemolymphatic fluid of arthropods"} ! blood circulation relationship: has_part CL:0002494 ! cardiocyte property_value: UBPROP:0000008 "note we reserve the subclass 'heart' from the vertebrate multi-chambered heart. 'The first heart-like organ is believed to have appeared 500my ago in an ancestral bilaterian'. Amniotes: four-chambered heart. Amphibians: two atria, one ventricle, pulmonary; fish: single atrium and ventricle; amphioxus: tubular, non-striated, closed, unidirectional; ascidians: tubular, striated, open, bidirectional; arthropods: tubular, open; C elegans: contractile pharynx; Cnideria: striated muscle cells associated with gastrodermis" xsd:string [Term] id: UBERON:0007134 name: trunk ganglion namespace: uberon def: "Ganglion which is located in the trunk." [ZFIN:curator] subset: efo_slim synonym: "body ganglion" EXACT [MAT:0000344] synonym: "trunk ganglia" EXACT PLURAL [ZFA:0001573] xref: EFO:0000901 xref: MAT:0000344 xref: MIAA:0000344 xref: TAO:0001573 xref: ZFA:0001573 is_a: UBERON:0000045 ! ganglion is_a: UBERON:0005177 ! trunk region element intersection_of: UBERON:0000045 ! ganglion intersection_of: part_of UBERON:0002100 ! trunk [Term] id: UBERON:0007135 name: neural keel namespace: uberon def: "An intermediate stage (between the neural plate and neural rod) during the early segmentation period in the morphogenesis of the central nervous system primordium; the keel is roughly triangular shaped in cross section." [ZFIN:ZDB-PUB-961014-576] subset: efo_slim synonym: "presumptive central nervous system" RELATED [ZFA:0000131] xref: EFO:0003497 xref: TAO:0000131 xref: ZFA:0000131 is_a: UBERON:0016879 ! future central nervous system relationship: develops_from UBERON:0003075 ! neural plate property_value: UBPROP:0000001 "An intermediate stage (between the neural plate and neural rod) during the early segmentation period in the morphogenesis of the central nervous system primordium; the keel is roughly triangular shaped in cross section. Kimmel et al, 1995.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0000131", ontology="TAO", source="ZFIN:curator"} [Term] id: UBERON:0007188 name: mesothelium of serous pericardium namespace: uberon def: "A mesothelium that is part of a serous pericardium." [OBOL:automatic] synonym: "mesothelium of pericardium" EXACT [FMA:18149] synonym: "pericardial mesothelium" EXACT [FMA:18149] synonym: "serous pericardium mesothelium" EXACT [FMA:18149] xref: BTO:0003157 xref: EMAPA:16133 xref: FMA:18149 xref: http://www.snomedbrowser.com/Codes/Details/67300002 xref: SCTID:67300002 is_a: UBERON:0003388 ! mesothelium of pericardial cavity intersection_of: UBERON:0001136 ! mesothelium intersection_of: part_of UBERON:0002357 ! serous pericardium relationship: part_of UBERON:0002357 ! serous pericardium [Term] id: UBERON:0007195 name: stroma of bone marrow namespace: uberon def: "The stroma of the bone marrow is all tissue not directly involved in the primary function of hematopoiesis. The yellow bone marrow belongs here, and makes the majority of the bone marrow stroma, in addition to stromal cells located in the red bone marrow. Yellow bone marrow is found in the Medullary cavity. Still, the stroma is indirectly involved in hematopoiesis, since it provides the hematopoietic microenvironment that facilitates hematopoiesis by the parenchymal cells. For instance, they generate colony stimulating factors, affecting hematopoiesis." [Wikipedia:Bone_marrow#Stroma] def: "The stroma of the bone marrow is all tissue not directly involved in the primary function of hematopoiesis. The yellow bone marrow belongs here, and makes the majority of the bone marrow stroma, in addition to stromal cells located in the red bone marrow. Yellow bone marrow is found in the Medullary cavity. Still, the stroma is indirectly involved in hematopoiesis, since it provides the hematopoietic microenvironment that facilitates hematopoiesis by the parenchymal cells. For instance, they generate colony stimulating factors, affecting hematopoiesis." [http://en.wikipedia.org/wiki/Bone_marrow#Stroma] synonym: "bone marrow stroma" EXACT [FMA:21426] xref: CALOHA:TS-0085 xref: FMA:21426 xref: Stroma xref: Wikipedia:Bone_marrow#Stroma is_a: UBERON:0003891 ! stroma is_a: UBERON:0004120 ! mesoderm-derived structure intersection_of: UBERON:0003891 ! stroma intersection_of: part_of UBERON:0002371 ! bone marrow relationship: has_part CL:0002240 ! marrow fibroblast relationship: has_part UBERON:0000332 ! yellow bone marrow relationship: has_part UBERON:0003909 ! sinusoid relationship: part_of UBERON:0002371 ! bone marrow [Term] id: UBERON:0007197 name: hermaphroditic organism namespace: uberon def: "Multicellular organism that can produce both male and female gametes." [http://orcid.org/0000-0001-9114-8737] synonym: "dioecious organism" RELATED [BILA:0000029] synonym: "hermaphrodite" RELATED [WBbt:0007849] synonym: "monoecious organism" EXACT [] xref: AAO:0010035 xref: BILA:0000029 xref: CARO:0000029 xref: HAO:0000029 xref: TADS:0000601 xref: WBbt:0007849 is_a: UBERON:0000468 ! multicellular organism [Term] id: UBERON:0007204 name: brachiocephalic vasculature namespace: uberon def: "The vasculature consisting of brachiocephalic arteries and veins." [http://orcid.org/0000-0002-6601-2165] is_a: UBERON:0002049 ! vasculature [Term] id: UBERON:0007213 name: mesenchyme derived from head neural crest namespace: uberon def: "Mesenchyme that develops_from a cranial neural crest." [OBOL:automatic] subset: efo_slim subset: vertebrate_core synonym: "head mesenchyme from cranial neural crest" EXACT [] synonym: "head mesenchyme from neural crest" EXACT [EHDAA2:0000735] synonym: "head neural crest derived mesenchyme" EXACT [] xref: EFO:0003572 xref: EHDAA2:0000735 xref: EMAPA:16169 xref: EMAPA:16271 xref: EMAPA_RETIRED:16271 xref: TAO:0000787 xref: ZFA:0000787 is_a: UBERON:0005253 {source="ZFA"} ! head mesenchyme is_a: UBERON:0014387 ! mesenchyme derived from neural crest intersection_of: UBERON:0003104 ! mesenchyme intersection_of: develops_from UBERON:0003099 ! cranial neural crest relationship: develops_from UBERON:0003099 ! cranial neural crest [Term] id: UBERON:0007214 name: mesenchyme derived from trunk neural crest namespace: uberon def: "Mesenchyme that develops_from a trunk neural crest." [OBOL:automatic] subset: vertebrate_core synonym: "trunk mesenchyme from neural crest" EXACT [EHDAA2:0002093] synonym: "trunk neural crest derived mesenchyme" EXACT [] xref: EHDAA2:0002093 xref: EMAPA:16182 xref: TAO:0000999 xref: ZFA:0000999 is_a: UBERON:0005256 ! trunk mesenchyme is_a: UBERON:0014387 ! mesenchyme derived from neural crest intersection_of: UBERON:0003104 ! mesenchyme intersection_of: develops_from UBERON:0003083 ! trunk neural crest relationship: develops_from UBERON:0003083 ! trunk neural crest [Term] id: UBERON:0007237 name: 1st arch mandibular component namespace: uberon synonym: "ventral mandibular arch" RELATED [VHOG:0000510] synonym: "ventral pharyngeal arch 1" EXACT [VHOG:0000510] synonym: "ventral visceral arch 1" RELATED [VHOG:0000510] xref: EHDAA2:0000031 xref: EHDAA:583 xref: EMAPA:16382 xref: VHOG:0000510 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0002050 ! embryonic structure relationship: part_of UBERON:0004362 {source="EHDAA2"} ! pharyngeal arch 1 property_value: editor_note "relationship to Meckel's cartilage to be added" xsd:string property_value: UBPROP:0000003 "Subsequent vertebrate evolution has also involved major alterations to the pharynx; perhaps the most notable occurred with the evolution of the gnathostomes. This involved substantial modifications to the most anterior pharyngeal segments, with the jaw forming from the first, anterior, pharyngeal segment, while the second formed its supporting apparatus, the hyoid.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000510", ontology="VHOG", source="DOI:10.1046/j.1469-7580.2001.19910133.x Graham A. The development and evolution of the pharyngeal arches. J Anat (2001)", source="http://bgee.unil.ch/"} property_value: UBPROP:0000003 "Subsequent vertebrate evolution has also involved major alterations to the pharynx; perhaps the most notable occurred with the evolution of the gnathostomes. This involved substantial modifications to the most anterior pharyngeal segments, with the jaw forming from the first, anterior, pharyngeal segment, while the second formed its supporting apparatus, the hyoid.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000510", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1046/j.1469-7580.2001.19910133.x Graham A. The development and evolution of the pharyngeal arches. J Anat (2001)"} [Term] id: UBERON:0007239 name: tunica media of artery namespace: uberon def: "A tunica media that is part of a artery." [OBOL:automatic] synonym: "arterial media" EXACT [EV:0100029] synonym: "tunica media (arteriae)" EXACT [FMA:14273] xref: EMAPA:36294 xref: EV:0100029 xref: FMA:14273 xref: http://linkedlifedata.com/resource/umls/id/C1710627 xref: http://www.snomedbrowser.com/Codes/Details/84300001 xref: NCIT:C49321 xref: SCTID:84300001 xref: UMLS:C1710627 {source="ncithesaurus:Venous_System_Smooth_Muscle_Tissue"} is_a: UBERON:0002522 ! tunica media intersection_of: UBERON:0002522 ! tunica media intersection_of: part_of UBERON:0001637 ! artery relationship: part_of UBERON:0000415 ! artery wall [Term] id: UBERON:0007240 name: tunica adventitia of artery namespace: uberon def: "A tunica adventitia that is part of a artery." [OBOL:automatic] synonym: "arterial adventitia" EXACT [EV:0100030] synonym: "tunica externa (adventitia)(arteriae)" EXACT [FMA:14274] xref: EMAPA:36295 xref: EV:0100030 xref: FMA:14274 xref: http://www.snomedbrowser.com/Codes/Details/113261001 xref: SCTID:113261001 is_a: UBERON:0005734 ! tunica adventitia of blood vessel intersection_of: UBERON:0005734 ! tunica adventitia of blood vessel intersection_of: part_of UBERON:0001637 ! artery relationship: has_part CL:1000306 {source="FMA"} ! fibroblast of tunica adventitia of artery relationship: part_of UBERON:0000415 ! artery wall [Term] id: UBERON:0007241 name: tunica adventitia of vein namespace: uberon def: "A tunica adventitia that is part of a vein." [OBOL:automatic] synonym: "tunica externa (adventitia)(venae)" EXACT [FMA:14355] synonym: "venous adventitia" EXACT [EV:0100034] xref: EMAPA:36310 xref: EV:0100034 xref: FMA:14355 xref: http://www.snomedbrowser.com/Codes/Details/13202006 xref: SCTID:13202006 is_a: UBERON:0005734 ! tunica adventitia of blood vessel intersection_of: UBERON:0005734 ! tunica adventitia of blood vessel intersection_of: part_of UBERON:0001638 ! vein relationship: part_of UBERON:0001638 ! vein [Term] id: UBERON:0007242 name: tunica intima of vein namespace: uberon def: "A tunica intima that is part of a vein." [OBOL:automatic] synonym: "tunica interna (intima)(venae)" EXACT [FMA:14353] synonym: "venous intima" EXACT [EV:0100032] xref: EMAPA:36308 xref: EV:0100032 xref: FMA:14353 xref: http://www.snomedbrowser.com/Codes/Details/2436009 xref: SCTID:2436009 is_a: UBERON:0002523 ! tunica intima is_a: UBERON:0004797 ! blood vessel layer intersection_of: UBERON:0002523 ! tunica intima intersection_of: part_of UBERON:0001638 ! vein relationship: part_of UBERON:0001638 ! vein [Term] id: UBERON:0007243 name: tunica media of vein namespace: uberon def: "A tunica media that is part of a vein." [OBOL:automatic] synonym: "tunica media (venae)" EXACT [FMA:14354] synonym: "venous media" EXACT [EV:0100033] xref: EMAPA:36309 xref: EV:0100033 xref: FMA:14354 xref: http://www.snomedbrowser.com/Codes/Details/42049001 xref: SCTID:42049001 is_a: UBERON:0002522 ! tunica media intersection_of: UBERON:0002522 ! tunica media intersection_of: part_of UBERON:0001638 ! vein relationship: part_of UBERON:0001638 ! vein [Term] id: UBERON:0007245 name: nuclear complex of neuraxis namespace: uberon def: "Gray matter of the central nervous system which is a collection of clustered nuclei." [http://orcid.org/0000-0002-6601-2165] synonym: "cluster of neural nuclei" RELATED [] synonym: "neural nuclei" RELATED [] synonym: "nuclear complex" RELATED [] xref: FMA:256381 xref: FMA:84059 is_a: UBERON:0002020 ! gray matter intersection_of: UBERON:0002020 ! gray matter intersection_of: composed_primarily_of UBERON:0000125 ! neural nucleus relationship: composed_primarily_of UBERON:0000125 ! neural nucleus [Term] id: UBERON:0007247 name: nucleus of superior olivary complex namespace: uberon def: "Any of the nuclei that comprise the superior olivary complex (superior olive). This includes both the primary nuclei such as the lateral and medial nuclei, as well as periolivary nuclei." [http://orcid.org/0000-0002-6601-2165] subset: grouping_class subset: pheno_slim synonym: "superior olivary complex nucleus" EXACT [FMA:72246] xref: FMA:72246 xref: SCTID:369024009 is_a: UBERON:0006331 ! brainstem nucleus is_a: UBERON:0009662 ! hindbrain nucleus intersection_of: UBERON:0002308 ! nucleus of brain intersection_of: part_of UBERON:0002128 ! superior olivary complex relationship: part_of UBERON:0002128 ! superior olivary complex property_value: IAO:0000232 "this class exists largely for consistency with the FMA. It is defined trivially with respect to the SOC. The class may be removed in future." xsd:string [Term] id: UBERON:0007269 name: pectoral appendage musculature namespace: uberon def: "Any collection of muscles that is part of a pectoral appendage." [OBOL:automatic] subset: efo_slim synonym: "pectoral fin muscle" NARROW [ZFA:0000563] synonym: "pectoral fin musculature" NARROW SENSU [ZFA:0000563] xref: EFO:0003540 xref: TAO:0000563 xref: ZFA:0000563 is_a: UBERON:0007271 ! appendage musculature is_a: UBERON:0014793 ! musculature of pectoral complex intersection_of: UBERON:0001015 ! musculature intersection_of: part_of UBERON:0004710 ! pectoral appendage relationship: part_of UBERON:0004710 ! pectoral appendage property_value: editor_note "currently defined by location rather than attachment" xsd:string [Term] id: UBERON:0007270 name: pelvic appendage musculature namespace: uberon def: "Any collection of muscles that is part of a pelvic appendage." [OBOL:automatic] synonym: "pelvic fin musculature" NARROW SENSU [ZFA:0000258] xref: TAO:0000258 xref: ZFA:0000258 is_a: UBERON:0007271 ! appendage musculature is_a: UBERON:0014792 ! musculature of pelvic complex intersection_of: UBERON:0001015 ! musculature intersection_of: part_of UBERON:0004709 ! pelvic appendage relationship: part_of UBERON:0004709 ! pelvic appendage property_value: editor_note "currently defined by location rather than attachment" xsd:string property_value: UBPROP:0000001 "Musculature that is part of the pelvic fin.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0000258", ontology="TAO", source="TAO:curator"} [Term] id: UBERON:0007271 name: appendage musculature namespace: uberon def: "Any collection of muscles that is part of an appendage." [OBOL:automatic] synonym: "fin musculature" NARROW SENSU [ZFA:0000207] xref: TAO:0000207 xref: ZFA:0000207 is_a: UBERON:0001015 ! musculature intersection_of: UBERON:0001015 ! musculature intersection_of: part_of UBERON:0000026 ! appendage relationship: part_of UBERON:0000026 ! appendage property_value: editor_note "currently defined by location rather than attachment" xsd:string [Term] id: UBERON:0007272 name: pectoral appendage skeleton namespace: uberon def: "Skeletal subdivision consisting of the anterior appendicular limb skeleton, excluding the pectoral girdle." [VSAO:0005000, VSAO:NI] synonym: "cheiropterygium" RELATED [VSAO:0005000, VSAO:NI] xref: VSAO:0005000 is_a: UBERON:0011582 ! paired limb/fin skeleton intersection_of: UBERON:0010912 ! subdivision of skeleton intersection_of: skeleton_of UBERON:0004710 ! pectoral appendage relationship: only_in_taxon NCBITaxon:7742 ! Vertebrata relationship: part_of UBERON:0004710 {source="VSAO"} ! pectoral appendage relationship: skeleton_of UBERON:0004710 ! pectoral appendage [Term] id: UBERON:0007273 name: pelvic appendage skeleton namespace: uberon def: "The collection of all skeletal elements in a pelvic appendage region." [https://orcid.org/0000-0002-6601-2165] is_a: UBERON:0011582 ! paired limb/fin skeleton intersection_of: UBERON:0010912 ! subdivision of skeleton intersection_of: skeleton_of UBERON:0004709 ! pelvic appendage relationship: only_in_taxon NCBITaxon:7742 ! Vertebrata relationship: part_of UBERON:0004709 {source="VSAO"} ! pelvic appendage relationship: skeleton_of UBERON:0004709 ! pelvic appendage [Term] id: UBERON:0007277 name: presumptive hindbrain namespace: uberon def: "The rhombencephalon (or hindbrain) is a developmental categorization of portions of the central nervous system in vertebrates. The rhombencephalon can be subdivided in a variable number of transversal swellings called rhombomeres. In the human embryo eight rhombomeres can be distinguished, from caudal to rostral: Rh7-Rh1 and the isthmus (the most rostral rhombomere). A rare disease of the rhombencephalon, 'rhombencephalosynapsis' is characterized by a missing vermis resulting in a fused cerebellum. Patients generally present with cerebellar ataxia. The caudal rhombencephalon has been generally considered as the initiation site for neural tube closure." [http://en.wikipedia.org/wiki/Rhombencephalon] def: "The rhombencephalon (or hindbrain) is a developmental categorization of portions of the central nervous system in vertebrates. The rhombencephalon can be subdivided in a variable number of transversal swellings called rhombomeres. In the human embryo eight rhombomeres can be distinguished, from caudal to rostral: Rh7-Rh1 and the isthmus (the most rostral rhombomere). A rare disease of the rhombencephalon, 'rhombencephalosynapsis' is characterized by a missing vermis resulting in a fused cerebellum. Patients generally present with cerebellar ataxia. The caudal rhombencephalon has been generally considered as the initiation site for neural tube closure." [Wikipedia:Rhombencephalon] subset: efo_slim synonym: "embryonic rhombencephalon" RELATED [CALOHA:TS-2118] synonym: "future hindbrain" RELATED [https://orcid.org/0000-0002-6601-2165] synonym: "presumptive rhombencephalon" EXACT [ZFA:0000569] synonym: "rhombencephalon" RELATED [EHDAA2:0001630] xref: BAMS:HB xref: CALOHA:TS-2118 xref: EFO:0003440 xref: EHDAA2:0001630 xref: FMA:295640 xref: http://en.wikipedia.org/wiki/Rhombencephalon xref: TAO:0000569 xref: Wikipedia:Rhombencephalon xref: ZFA:0000569 is_a: UBERON:0006598 ! presumptive structure intersection_of: UBERON:0006598 ! presumptive structure intersection_of: has_potential_to_develop_into UBERON:0002028 ! hindbrain relationship: develops_from UBERON:0003076 {source="XAO-abduced"} ! posterior neural tube relationship: has_developmental_contribution_from UBERON:0003852 {source="cjm"} ! rhombencephalon neural crest relationship: has_potential_to_develop_into UBERON:0002028 ! hindbrain relationship: part_of UBERON:0006238 ! future brain property_value: editor_note "TODO - unify naming conventions" xsd:string property_value: UBPROP:0000001 "The embryonic rhombencephalon can be subdivided in a variable number of transversal swellings called rhombomeres. Rhombomeres Rh7-Rh4 form the myelencephalon that will give the medulla oblongata. Rhombomeres Rh3-Rh1 form the metencephalon that will form the pons and the cerebellum[NPX:PDR]." xsd:string {source="NPX:PDR"} [Term] id: UBERON:0007278 name: presumptive sinus venosus namespace: uberon def: "Portion of tissue that is part of the heart tube and will become the sinus venosus." [ZFA:0001722] xref: TAO:0002234 xref: ZFA:0001722 is_a: UBERON:0006598 ! presumptive structure intersection_of: UBERON:0006598 ! presumptive structure intersection_of: has_potential_to_develop_into UBERON:0002063 ! sinus venosus relationship: has_potential_to_develop_into UBERON:0002063 ! sinus venosus relationship: part_of UBERON:0004141 {source="ZFA"} ! heart tube [Term] id: UBERON:0007280 name: presumptive endocardium namespace: uberon def: "A presumptive structure that has the potential to develop into a endocardium." [OBOL:automatic] xref: TAO:0002233 xref: ZFA:0001724 is_a: UBERON:0006598 ! presumptive structure intersection_of: UBERON:0006598 ! presumptive structure intersection_of: has_potential_to_develop_into UBERON:0002165 ! endocardium relationship: develops_from UBERON:0003084 ! heart primordium relationship: has_potential_to_develop_into UBERON:0002165 ! endocardium relationship: part_of UBERON:0005498 ! primitive heart tube property_value: UBPROP:0000001 "Portion of tissue that is part of the heart tube and will become the endocardium.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0002233", ontology="TAO", source="ZFIN:curator"} [Term] id: UBERON:0007281 name: presumptive midbrain hindbrain boundary namespace: uberon def: "Embryonic structure that gives rise to the midbrain hindbrain boundary." [ZFA:0001187] subset: efo_slim synonym: "presumptive MHB" EXACT [https://orcid.org/0000-0002-6601-2165] synonym: "presumptive midbrain-hindbrain boundary" EXACT [ZFA:0001187] xref: EFO:0003446 xref: TAO:0001187 xref: XAO:0004086 xref: ZFA:0001187 is_a: UBERON:0006598 ! presumptive structure intersection_of: UBERON:0006598 ! presumptive structure intersection_of: has_potential_to_develop_into UBERON:0003052 ! midbrain-hindbrain boundary relationship: has_potential_to_develop_into UBERON:0003052 ! midbrain-hindbrain boundary relationship: part_of UBERON:0006238 {source="ZFA"} ! future brain [Term] id: UBERON:0007282 name: presumptive segmental plate namespace: uberon def: "A presumptive structure that has the potential to develop into a presomitic mesoderm." [OBOL:automatic] subset: efo_slim synonym: "presumptive segmental plates" RELATED PLURAL [ZFA:0000053] xref: EFO:0003421 xref: TAO:0000053 xref: ZFA:0000053 is_a: UBERON:0006598 ! presumptive structure intersection_of: UBERON:0006598 ! presumptive structure intersection_of: has_potential_to_develop_into UBERON:0003059 ! presomitic mesoderm relationship: develops_from UBERON:0009618 {consistent_with="https://github.com/obophenotype/uberon/wiki/The-neural-crest", source="EDHAA2"} ! trunk paraxial mesoderm relationship: has_potential_to_develop_into UBERON:0003059 ! presomitic mesoderm [Term] id: UBERON:0007284 name: presumptive neural plate namespace: uberon def: "A presumptive structure that has the potential to develop into a neural plate." [OBOL:automatic] subset: efo_slim synonym: "prospective neuroectoderm" EXACT [ZFA:0000063] synonym: "prospective vegetal ectoderm" EXACT [ZFA:0000063] xref: EFO:0003424 xref: TAO:0000063 xref: ZFA:0000063 is_a: UBERON:0016879 ! future central nervous system intersection_of: UBERON:0006598 ! presumptive structure intersection_of: has_potential_to_develop_into UBERON:0003075 ! neural plate relationship: develops_from UBERON:0002346 ! neurectoderm relationship: has_potential_to_develop_into UBERON:0003075 ! neural plate relationship: part_of UBERON:0004734 ! gastrula property_value: editor_note "consider merging" xsd:string property_value: UBPROP:0000001 "Region of the gastrula which gives rise to the neural plate.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0000063", ontology="TAO", source="ZFIN:curator"} [Term] id: UBERON:0007285 name: presumptive paraxial mesoderm namespace: uberon def: "The part of the blastula that has the potential to develop into a paraxial mesoderm." [https://github.com/obophenotype/uberon/issues/1277, UBERON:cjm] subset: efo_slim synonym: "future paraxial mesenchyme" EXACT [UBERON:cjm] synonym: "future paraxial mesoderm" EXACT [] xref: EFO:0003443 xref: TAO:0000591 xref: XAO:0004134 xref: ZFA:0000591 is_a: UBERON:0006598 ! presumptive structure intersection_of: UBERON:0006598 {source="https://github.com/obophenotype/uberon/issues/1277"} ! presumptive structure intersection_of: UBERON:0006598 {source="https://github.com/obophenotype/uberon/issues/1277"} ! presumptive structure intersection_of: has_potential_to_develop_into UBERON:0003077 {source="https://github.com/obophenotype/uberon/issues/1277"} ! paraxial mesoderm intersection_of: has_potential_to_develop_into UBERON:0003077 {source="https://github.com/obophenotype/uberon/issues/1277"} ! paraxial mesoderm intersection_of: part_of UBERON:0000307 {source="https://github.com/obophenotype/uberon/issues/1277"} ! blastula intersection_of: part_of UBERON:0000307 {source="https://github.com/obophenotype/uberon/issues/1277"} ! blastula relationship: has_potential_to_develop_into UBERON:0003077 ! paraxial mesoderm relationship: part_of UBERON:0000307 ! blastula [Term] id: UBERON:0007300 name: pectoral appendage blood vessel namespace: uberon def: "A blood vessel that is part of a pectoral appendage." [OBOL:automatic] synonym: "pectoral fin blood vessel" NARROW SENSU [ZFA:0005301] xref: TAO:0005301 xref: ZFA:0005301 is_a: UBERON:0007301 ! appendage blood vessel intersection_of: UBERON:0001981 ! blood vessel intersection_of: part_of UBERON:0004710 ! pectoral appendage relationship: part_of UBERON:0004710 ! pectoral appendage [Term] id: UBERON:0007301 name: appendage blood vessel namespace: uberon def: "A blood vessel that is part of a limb/fin." [OBOL:automatic] synonym: "fin blood vessel" NARROW SENSU [ZFA:0005299] synonym: "limb blood vessel" NARROW SENSU [] xref: TAO:0005299 xref: ZFA:0005299 is_a: UBERON:0001981 ! blood vessel intersection_of: UBERON:0001981 ! blood vessel intersection_of: part_of UBERON:0000026 ! appendage relationship: part_of UBERON:0007304 ! appendage vasculature [Term] id: UBERON:0007302 name: pectoral appendage vasculature namespace: uberon def: "A vasculature that is part of a pectoral appendage." [OBOL:automatic] synonym: "pectoral fin vasculature" NARROW SENSU [ZFA:0005096] xref: TAO:0005096 xref: ZFA:0005096 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0007304 ! appendage vasculature intersection_of: UBERON:0002049 ! vasculature intersection_of: part_of UBERON:0004710 ! pectoral appendage relationship: part_of UBERON:0004710 ! pectoral appendage [Term] id: UBERON:0007303 name: pharyngeal vasculature namespace: uberon def: "A vasculature that is part of a chordate pharynx." [OBOL:automatic] synonym: "branchial vasculature" EXACT [ZFA:0005003] xref: TAO:0005003 xref: ZFA:0005003 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0006876 ! vasculature of organ intersection_of: UBERON:0002049 ! vasculature intersection_of: part_of UBERON:0001042 ! chordate pharynx relationship: part_of UBERON:0001042 ! chordate pharynx [Term] id: UBERON:0007304 name: appendage vasculature namespace: uberon def: "A vasculature that is part of a limb/fin." [OBOL:automatic] synonym: "fin vasculature" NARROW SENSU [ZFA:0005095] xref: TAO:0005095 xref: ZFA:0005095 is_a: UBERON:0002049 ! vasculature intersection_of: UBERON:0002049 ! vasculature intersection_of: part_of UBERON:0000026 ! appendage relationship: part_of UBERON:0000026 ! appendage [Term] id: UBERON:0007376 name: outer epithelium namespace: uberon def: "The epidermis is the entire outer epithelial layer of an animal, it may be a single layer that produces an extracellular material (e.g. the cuticle of arthropods) or a complex stratified squamous epithelium, as in the case of many vertebrate species[GO]." [GO:0008544] subset: grouping_class synonym: "epidermis" EXACT [GO:0008544] synonym: "epidermis (sensu Metazoa)" EXACT [] synonym: "hypoderm" RELATED INCONSISTENT [BTO:0000313] synonym: "hypodermis" RELATED INCONSISTENT [GO:0008544, WBbt:0005733] synonym: "outer epidermal layer" EXACT [] synonym: "outer epithelial layer" EXACT [] xref: BSA:0000073 xref: BTO:0000313 xref: Epidermis:(zoology) xref: FBbt:00004993 xref: HAO:0000298 xref: TADS:0000109 xref: WBbt:0005733 xref: Wikipedia:Epidermis_(zoology) is_a: UBERON:0003102 ! surface structure is_a: UBERON:0010371 ! ecto-epithelium intersection_of: UBERON:0000483 ! epithelium intersection_of: bounding_layer_of UBERON:0000468 ! multicellular organism intersection_of: develops_from UBERON:0007383 ! enveloping layer of ectoderm relationship: bounding_layer_of UBERON:0000468 ! multicellular organism relationship: develops_from UBERON:0007383 ! enveloping layer of ectoderm property_value: editor_note "this grouping class exists primarily to align with GO - see GO:0008544." xsd:string [Term] id: UBERON:0007383 name: enveloping layer of ectoderm namespace: uberon def: "Outermost layer of cells surrounding the embryo." [http://orcid.org/0000-0002-6601-2165] subset: efo_slim synonym: "enveloping layer" EXACT [ZFIN:ZDB-PUB-961014-576] synonym: "EVL" EXACT [ZFA:0000086] xref: EFO:0003425 xref: TAO:0000086 xref: ZFA:0000086 is_a: UBERON:0000490 ! unilaminar epithelium is_a: UBERON:0005291 ! embryonic tissue is_a: UBERON:0010371 ! ecto-epithelium relationship: bounding_layer_of UBERON:0000922 ! embryo relationship: develops_from UBERON:0000076 ! external ectoderm property_value: UBPROP:0000001 "Outermost monolayer of cells surrounding the embryo that become very flattened in the blastula and give rise to the periderm. Sometimes used synonymously with periderm. Kimmel et al, 1995.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0000086", ontology="TAO", source="ZFIN:curator"} property_value: UBPROP:0000002 "relationship loss: develops_from superficial blastomere (TAO:0001484)[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0000086", ontology="TAO"} property_value: UBPROP:0000008 "Originally this tissue is one cell layer thick but in most vertebrates it soon becomes a two layered structure. The outer layer gives rise to the periderm." xsd:string [Term] id: UBERON:0007389 name: paired limb/fin cartilage namespace: uberon def: "A cartilage tissue that is part of a paired limb or fin." [http://orcid.org/0000-0002-6601-2165] subset: homology_grouping xref: TAO:0001543 xref: ZFA:0001543 is_a: UBERON:0002418 ! cartilage tissue intersection_of: UBERON:0002418 ! cartilage tissue intersection_of: part_of UBERON:0004708 ! paired limb/fin relationship: part_of UBERON:0002091 ! appendicular skeleton relationship: part_of UBERON:0004708 ! paired limb/fin property_value: UBPROP:0000001 "Cartilage which is part of one of the paired fins.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0001543", ontology="TAO", source="ZFIN:curator"} [Term] id: UBERON:0007390 name: pectoral appendage cartilage tissue namespace: uberon def: "A cartilage tissue that is part of a pectoral appendage." [OBOL:automatic] synonym: "pectoral fin cartilage" RELATED [TAO:0000257] xref: TAO:0000257 xref: ZFA:0000257 is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0007389 ! paired limb/fin cartilage intersection_of: UBERON:0002418 ! cartilage tissue intersection_of: part_of UBERON:0004710 ! pectoral appendage relationship: only_in_taxon NCBITaxon:7742 ! Vertebrata relationship: part_of UBERON:0007272 ! pectoral appendage skeleton property_value: UBPROP:0000001 "Cartilage which is part of the pectoral fin.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0000257", ontology="TAO", source="ZFIN:curator"} [Term] id: UBERON:0007391 name: pelvic appendage cartilage tissue namespace: uberon def: "A cartilage tissue that is part of a pelvic appendage." [OBOL:automatic] synonym: "pelvic fin cartilage" RELATED [TAO:0001459] xref: TAO:0001459 xref: ZFA:0001459 is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0007389 ! paired limb/fin cartilage intersection_of: UBERON:0002418 ! cartilage tissue intersection_of: part_of UBERON:0004709 ! pelvic appendage relationship: only_in_taxon NCBITaxon:7742 ! Vertebrata relationship: part_of UBERON:0007273 ! pelvic appendage skeleton property_value: UBPROP:0000001 "Cartilage which is part of the pelvic fin.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0001459", ontology="TAO", source="ZFIN:curator"} [Term] id: UBERON:0007414 name: nucleus of midbrain tegmentum namespace: uberon alt_id: UBERON:0012277 def: "A nucleus of brain that spans a midbrain tegmentum." [OBOL:automatic] synonym: "tegmental nuclei" EXACT PLURAL [] synonym: "tegmental nucleus" EXACT [ZFA:0005577] xref: FMA:258768 xref: ZFA:0005577 is_a: UBERON:0000125 ! neural nucleus intersection_of: UBERON:0000125 ! neural nucleus intersection_of: overlaps UBERON:0001943 ! midbrain tegmentum relationship: overlaps UBERON:0001943 ! midbrain tegmentum property_value: IAO:0000232 "this class groups together any nuclei in the tegmentum region, possibly including disparate structures across species" xsd:string [Term] id: UBERON:0007473 name: lumen of epithelial sac namespace: uberon alt_id: EHDAA2:0003079 def: "The space within an epithelial sphere." [AEO:JB] synonym: "cavity of vesicle" EXACT [AEO:0000079] xref: AEO:0000079 is_a: UBERON:0012467 ! enclosed anatomical space intersection_of: UBERON:0000464 ! anatomical space intersection_of: luminal_space_of UBERON:0007499 ! epithelial sac relationship: luminal_space_of UBERON:0007499 ! epithelial sac relationship: part_of UBERON:0007499 ! epithelial sac [Term] id: UBERON:0007475 name: matrix-based tissue namespace: uberon alt_id: EHDAA2:0003081 def: "A tissue whose predominant feature is extracellular matrix which may or may not be highly hydrated or calcified." [AEO:JB] xref: AEO:0000081 xref: EHDAA2:0003081 is_a: UBERON:0000479 ! tissue intersection_of: UBERON:0000479 ! tissue intersection_of: composed_primarily_of GO:0031012 ! extracellular matrix relationship: composed_primarily_of GO:0031012 ! extracellular matrix [Term] id: UBERON:0007499 name: epithelial sac namespace: uberon def: "An epithelial tube that is open at one end only." [AEO:JB, UBERONREF:0000001] xref: AEO:0000115 xref: EHDAA2:0003115 is_a: UBERON:0003914 {source="AEO"} ! epithelial tube is_a: UBERON:0009856 ! sac intersection_of: UBERON:0000483 ! epithelium intersection_of: has_quality PATO:0001987 ! saccular [Term] id: UBERON:0007500 name: epithelial tube open at both ends namespace: uberon def: "An epithelial tube open at both ends that allows fluid flow." [AEO:JB, UBERONREF:0000001] xref: AEO_RETIRED:0000116 xref: RETIRED_EHDAA2:0003116 is_a: UBERON:0003914 {source="AEO"} ! epithelial tube [Term] id: UBERON:0007503 name: epithelial vesicle namespace: uberon alt_id: EHDAA2:0003119 def: "A closed epithelium with a lumen." [AEO:JB] xref: AEO:0000119 xref: EHDAA2:0003119 is_a: UBERON:0000483 {source="AEO"} ! epithelium [Term] id: UBERON:0007524 name: dense mesenchyme tissue namespace: uberon alt_id: EHDAA2:0003146 def: "Mesenchyme with little extracellular matrix." [AEO:JB] xref: AEO:0000146 xref: EHDAA2:0003146 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0003104 {source="AEO"} ! mesenchyme relationship: has_part CL:0000057 {source="AEO"} ! fibroblast [Term] id: UBERON:0007530 name: migrating mesenchyme population namespace: uberon alt_id: EHDAA2:0003152 def: "Mesenchymal cells that are migrating." [AEO:JB] xref: AEO:0000152 xref: EHDAA2:0003152 is_a: UBERON:0003104 ! mesenchyme intersection_of: UBERON:0003104 ! mesenchyme intersection_of: participates_in GO:0016477 ! cell migration relationship: participates_in GO:0016477 ! cell migration property_value: editor_note "this class will be an important part of the NC reorganization" xsd:string [Term] id: UBERON:0007592 name: ciliated columnar epithelium namespace: uberon def: "Simple columnar epithelium in which the luminal side of the cells bears cilia. Examples: epithelium of trachea, epithelium of uterine tube.[FMA]." [FMA:64798] xref: FMA:64798 is_a: UBERON:0000485 {source="FMA"} ! simple columnar epithelium is_a: UBERON:0007601 ! ciliated epithelium intersection_of: UBERON:0000485 ! simple columnar epithelium intersection_of: has_part CL:0000067 ! ciliated epithelial cell property_value: UBPROP:0000008 "In humans, Ciliated columnar epithelial cells are found mainly in the tracheal and bronchial regions of the pulmonary system and also in the fallopian tubes of the female reproductive system" xsd:string property_value: UBPROP:0000009 "Ciliated columnar epithelium in the pulmonary system is interspersed with goblet cells that secrete mucous to form a mucosal layer apical to the epithelial layer. The rowing-like action of epithelial cilia work in tandem with goblet cells to propel mucus away from the lungs, preventing particulate matter from causing infection[http://www.bio.davidson.edu/people/kabernd/berndcv/lab/epithelialinfoweb/ciliated%20columnar%20epithelium.html]" xsd:string [Term] id: UBERON:0007601 name: ciliated epithelium namespace: uberon def: "Epithelium bearing vibratile cilia on the free surface." [http://medical-dictionary.thefreedictionary.com/ciliated+epithelium] is_a: UBERON:0000483 ! epithelium intersection_of: UBERON:0000483 ! epithelium intersection_of: has_part CL:0000067 ! ciliated epithelial cell relationship: has_part CL:0000067 ! ciliated epithelial cell [Term] id: UBERON:0007616 name: layer of synovial tissue namespace: uberon def: "A thin, loose vascular connective tissue that makes up the membranes surrounding joints and the sheaths protecting tendons (particularly flexor tendons in the hands and feet) where they pass over bony prominences. Synovial tissue contains synovial cells, which secrete a viscous liquid called synovial fluid; this liquid contains protein and hyaluronic acid and serves as a lubricant and nutrient for the joint cartilage surfaces[BTO]. Synovial tissue can be found in tendons (tissues that connect muscle to bone), bursae (fluid-filled, cushioning sacs found in spaces between tendons, ligaments, and bones), and the cavity (hollow enclosed area) that separates the bones of a freely movable joint, such as the knee or elbow[BTO]." [BTO:0001338, http://www.britannica.com/EBchecked/topic/578563/synovial-tissue] synonym: "stratum synoviale" NARROW [FMA:TA] synonym: "synovial layer" NARROW [FMA:66762] synonym: "synovial membrane" NARROW [FMA:66762] synonym: "synovial tissue" RELATED [BTO:0001338] synonym: "synovium" EXACT [CALOHA:TS-0998] xref: BTO:0001338 xref: CALOHA:TS-0998 xref: FMA:66762 is_a: UBERON:0000042 ! serous membrane intersection_of: UBERON:0000042 ! serous membrane intersection_of: produces UBERON:0001090 ! synovial fluid relationship: composed_primarily_of UBERON:0002384 {source="BTO"} ! connective tissue relationship: produces UBERON:0001090 ! synovial fluid [Term] id: UBERON:0007617 name: synovial cavity of joint namespace: uberon def: "An anatomical cavity that surrounded_by a synovial joint." [OBOL:automatic] synonym: "articular cavity (synovial joint)" EXACT [FMA:11356] synonym: "cavitas articularis (junctura synovialis)" EXACT [FMA:11356] synonym: "cavity of synovial joint" EXACT [FMA:11356] synonym: "joint cavity" RELATED [FMA:11356] synonym: "synovial cavity" RELATED [FMA:11356] xref: FMA:11356 is_a: UBERON:0002553 ! anatomical cavity intersection_of: UBERON:0002553 ! anatomical cavity intersection_of: luminal_space_of UBERON:0002217 ! synovial joint relationship: luminal_space_of UBERON:0002217 ! synovial joint relationship: part_of UBERON:0002217 ! synovial joint [Term] id: UBERON:0007625 name: pigment epithelium of eye namespace: uberon def: "Epithelial layer of the retina, ciliary body, or iris composed of cells containing pigment granules." [MP:0005200] def: "epithelial layer of the retina, ciliary body, or iris composed of cells containing pigment granules." [MP:0005200] subset: pheno_slim synonym: "eye pigment epithelium" RELATED [MESH:A09.371.670] xref: GAID:907 xref: MESH:D010857 is_a: UBERON:0019304 ! sensory organ epithelium intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0000970 ! eye relationship: part_of UBERON:0000970 ! eye [Term] id: UBERON:0007635 name: nucleus of medulla oblongata namespace: uberon def: "A neural nucleus that is part of a medulla oblongata." [OBOL:automatic] xref: FMA:258772 xref: SCTID:304943004 is_a: UBERON:0006331 ! brainstem nucleus is_a: UBERON:0009662 ! hindbrain nucleus intersection_of: UBERON:0000125 ! neural nucleus intersection_of: part_of UBERON:0001896 ! medulla oblongata relationship: part_of UBERON:0001896 ! medulla oblongata [Term] id: UBERON:0007641 name: trigeminal nuclear complex namespace: uberon def: "The sensory trigeminal nerve nuclei are the largest of the cranial nerve nuclei, and extend through the whole of the midbrain, pons and medulla. There is also a distinct trigeminal motor nucleus that is medial to the chief sensory nucleus[WP]." [Wikipedia:Trigeminal_nerve_nuclei] synonym: "nuclei trigemini" RELATED LATIN [Wikipedia:Trigeminal_nerve_nuclei] synonym: "trigeminal nuclei" EXACT [FMA:71248] xref: BIRNLEX:4096 xref: BM:V xref: CALOHA:TS-2077 xref: DHBA:266441713 xref: FMA:71248 xref: HBA:9203 xref: http://braininfo.rprc.washington.edu/centraldirectory.aspx?ID=2021 xref: UMLS:C0040999 {source="BIRNLEX:4096"} xref: Wikipedia:Trigeminal_nerve_nuclei is_a: UBERON:0007245 {source="FMA"} ! nuclear complex of neuraxis relationship: extends_fibers_into UBERON:0001645 ! trigeminal nerve relationship: overlaps UBERON:0003023 {source="FMA"} ! pontine tegmentum property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/3/30/Gray696.png xsd:anyURI property_value: UBPROP:0000012 "in MA and FMA this is part of the pons / pontime tegmentum. We weaken this to overlaps to avoid inconsistency. In NIF this is a composite structure spanning multiple regions, which is more appropriate." xsd:string {external_ontology="MA"} [Term] id: UBERON:0007651 name: anatomical junction namespace: uberon def: "An anatomical structure that connects two structures" [http://code.google.com/p/caro2/issues/detail?id=15] def: "An anatomical structure that connects two structures." [http://code.google.com/p/caro2/issues/detail?id=15] subset: upper_level synonym: "anatomical junction" EXACT [] synonym: "junction" BROAD [] xref: FMA:5898 xref: http://www.snomedbrowser.com/Codes/Details/91833003 xref: SCTID:91833003 is_a: UBERON:0000061 {source="FMA"} ! anatomical structure relationship: connects UBERON:0000061 {minCardinality="2"} ! anatomical structure [Term] id: UBERON:0007688 name: anlage namespace: uberon def: "Anlagen are populations of contiguous cells, typically arranged in one plane, that are morphologically indistinct, but that already correspond in extent to a later organ/tissue." [FBbt:00005426, http://flybase.org/reports/FBrf0178740.html, JB:DEF] subset: efo_slim synonym: "developmental field" EXACT [] synonym: "field" BROAD [] synonym: "future organ" RELATED [] synonym: "organ field" RELATED [] xref: AEO:0000170 xref: Anlage:(biology) xref: EFO:0001649 xref: EHDAA2:0003170 xref: FBbt:00005426 xref: Wikipedia:Anlage_(biology) is_a: UBERON:0000479 {source="FBbt"} ! tissue is_a: UBERON:0005423 {source="AEO", source="FBbt"} ! developing anatomical structure [Term] id: UBERON:0007690 name: early pharyngeal endoderm namespace: uberon def: "." [http://dev.biologists.org/content/128/22/4573.full] comment: relation conflict: ZFA vs EHDAA2. Note EHDAA2 term renamed to 'early PA endoderm' subset: efo_slim synonym: "early pharyngeal arch endoderm" EXACT [EHDAA2:0001457] synonym: "pharyngeal arch endoderm" RELATED [] synonym: "pharyngeal endoderm" RELATED [ZFA:0001104] synonym: "pharyngeal region endoderm" RELATED [EHDAA2:0001456] xref: EFO:0003626 xref: EHDAA2:0001457 xref: EHDAA:962 xref: EMAPA:32754 xref: FMA:293087 xref: TAO:0001104 xref: ZFA:0001104 is_a: UBERON:0003258 ! endoderm of foregut is_a: UBERON:0005291 ! embryonic tissue relationship: part_of UBERON:0009722 {source="cjm"} ! entire pharyngeal arch endoderm [Term] id: UBERON:0007719 name: bone of reproductive organ namespace: uberon def: "A bone that is part of a reproductive organ." [https://github.com/obophenotype/uberon/issues/1158, OBOL:automatic] synonym: "baculum" NARROW [] synonym: "os penis/os clitoris" RELATED [] is_a: UBERON:0001474 ! bone element is_a: UBERON:0005156 ! reproductive structure intersection_of: UBERON:0001474 ! bone element intersection_of: part_of UBERON:0003133 ! reproductive organ relationship: part_of UBERON:0003133 ! reproductive organ property_value: RO:0002161 NCBITaxon:9606 {source="Wikipedia"} [Term] id: UBERON:0007771 name: epidermis gland namespace: uberon def: "A gland that is part of a epidermis." [OBOL:automatic] subset: grouping_class synonym: "epidermal gland" EXACT [] synonym: "gland of epidermis" EXACT [FMA:59153] xref: FMA:59153 is_a: UBERON:0002419 ! skin gland intersection_of: UBERON:0002530 ! gland intersection_of: part_of UBERON:0001003 ! skin epidermis relationship: part_of UBERON:0001003 ! skin epidermis [Term] id: UBERON:0007779 name: transudate namespace: uberon def: "Any bodily fluid that has passed through a membrane such as the capillary wall, as a result of unbalanced hydrostatic and osmotic forces" [http://medical-dictionary.thefreedictionary.com/transudate] def: "Any bodily fluid that has passed through a membrane such as the capillary wall, as a result of unbalanced hydrostatic and osmotic forces." [http://medical-dictionary.thefreedictionary.com/transudate] synonym: "plasma ultrafiltrate" RELATED [] xref: FMA:12276 xref: GAID:1195 xref: MESH:D005122 xref: ncithesaurus:Transudate is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0006314 ! bodily fluid intersection_of: UBERON:0000463 ! organism substance intersection_of: filtered_through UBERON:0001982 ! capillary intersection_of: has_quality PATO:0001548 ! quality of a liquid intersection_of: transformation_of UBERON:0001969 ! blood plasma relationship: develops_from UBERON:0001969 ! blood plasma relationship: filtered_through UBERON:0001982 ! capillary relationship: only_in_taxon NCBITaxon:7742 ! Vertebrata relationship: transformation_of UBERON:0001969 ! blood plasma property_value: UBPROP:0000007 "transudative" xsd:string property_value: UBPROP:0000010 "characteristically low in protein and cellular content (unless there has been secondary concentration)" xsd:string [Term] id: UBERON:0007794 name: secretion of serous gland namespace: uberon def: "Any fluid produced by a serous gland." [UBERON:cjm] synonym: "serosal fluid" EXACT [http://en.wikipedia.org/wiki/Serous_fluid] synonym: "serosal fluid" EXACT [Wikipedia:Serous_fluid] synonym: "serous fluid" BROAD [] synonym: "serous gland fluid" EXACT [] xref: Serous:fluid xref: Wikipedia:Serous_fluid is_a: UBERON:0000456 ! secretion of exocrine gland is_a: UBERON:0006314 ! bodily fluid intersection_of: UBERON:0006314 ! bodily fluid intersection_of: produced_by UBERON:0000409 ! serous gland relationship: produced_by UBERON:0000409 ! serous gland [Term] id: UBERON:0007798 name: vascular system namespace: uberon def: "Anatomical system that consists of all blood and lymph vessels." [http://orcid.org/0000-0002-6601-2165] subset: pheno_slim synonym: "Gefaesssystem@de" RELATED [BTO:0001085] xref: BTO:0001085 xref: CALOHA:TS-2053 xref: EHDAA2:0004520 xref: EMAPA:35905 xref: http://linkedlifedata.com/resource/umls/id/C0489903 xref: MA:0002718 xref: NCIT:C33854 xref: UMLS:C0489903 {source="ncithesaurus:Vascular_System"} is_a: UBERON:0000467 ! anatomical system relationship: part_of UBERON:0004535 {source="MA"} ! cardiovascular system property_value: editor_note "consider merging with vasculature" xsd:string property_value: UBPROP:0000001 "The cardiovascular and lymphatic systems, collectively[ncithesaurus:Vascular_System]." xsd:string {source="ncithesaurus:Vascular_System"} property_value: UBPROP:0000012 "in both MA and BTO, the arterial system and venous sytem are subtypes of the vascular system" xsd:string {external_ontology="MA"} [Term] id: UBERON:0007808 name: adipose tissue of abdominal region namespace: uberon def: "Adipose tissue that is located in the abdominal region. This includes any subcutaneous fat, visceral fat or encapsulated adipose tissue depots." [CALOHA:paula, http://orcid.org/0000-0002-6601-2165, https://github.com/obophenotype/uberon/issues/259, MGI:csmith] subset: efo_slim synonym: "abdominal adipose tissue" RELATED [BTO:0004041] synonym: "abdominal fat" RELATED [BTO:0004041] synonym: "intra-abdominal fat" RELATED [BTO:0004041] xref: CALOHA:TS-0002 xref: EFO:0003771 is_a: UBERON:0001013 ! adipose tissue is_a: UBERON:0003567 ! abdomen connective tissue intersection_of: UBERON:0001013 ! adipose tissue intersection_of: part_of UBERON:0000916 ! abdomen property_value: http://purl.org/dc/elements/1.1/contributor https://github.com/cindyJax property_value: http://purl.org/dc/elements/1.1/contributor https://github.com/cmungall property_value: http://purl.org/dc/elements/1.1/contributor https://github.com/paulacalipho [Term] id: UBERON:0007811 name: craniocervical region namespace: uberon def: "The anteriormost subdivision of the body that includes the head, jaws, pharyngeal region and the neck (if present). In vertebrates this is the subdivision that includes the cervical vertebrae." [https://orcid.org/0000-0002-6601-2165] subset: pheno_slim synonym: "cephalic area" RELATED [https://github.com/obophenotype/uberon/issues/379] synonym: "cephalic part of animal" RELATED [http://en.wikipedia.org/wiki/Head] synonym: "cephalic part of animal" RELATED [Wikipedia:Head] synonym: "cephalic region" RELATED [https://github.com/obophenotype/uberon/issues/379] synonym: "head and neck" RELATED [FMA:280881] synonym: "head or neck" RELATED [] xref: CALOHA:TS-2356 xref: EV:0100009 xref: FMA:280881 xref: galen:HeadAndNeck xref: http://linkedlifedata.com/resource/umls/id/C0460004 xref: http://www.snomedbrowser.com/Codes/Details/361355005 xref: MA:0000006 xref: NCIT:C12418 xref: SCTID:361355005 xref: UMLS:C0460004 {source="ncithesaurus:Head_and_Neck"} xref: WikipediaCategory:Head_and_neck is_a: UBERON:0000475 {source="MA"} ! organism subdivision relationship: has_part UBERON:0000033 ! head relationship: has_part UBERON:0000974 {gci_relation="part_of", gci_filler="NCBITaxon:32523"} ! neck relationship: has_part UBERON:0006562 ! pharynx relationship: part_of UBERON:0000153 ! anterior region of body relationship: part_of UBERON:0013702 ! body proper [Term] id: UBERON:0007823 name: appendage girdle region namespace: uberon alt_id: UBERON:0007824 def: "An organism subdivision that encompasses the region containing the pectoral or pelvic girdle. Note that this includes both the skeletal elements and associated tissues (integument, muscle, etc)." [https://orcid.org/0000-0002-6601-2165, UBERONREF:0000003] synonym: "fin girdle" RELATED SENSU [] synonym: "fin girdle region" RELATED SENSU [] synonym: "girdle" BROAD [] synonym: "girdle region" BROAD [] synonym: "limb girdle" RELATED SENSU [] synonym: "limb girdle region" RELATED SENSU [] xref: EMAPA:37854 {source="MA:th"} xref: FMA:24874 xref: VSAO:0000303 is_a: CARO:0000003 ! connected anatomical structure is_a: UBERON:0000475 ! organism subdivision intersection_of: UBERON:0000475 ! organism subdivision intersection_of: has_skeleton UBERON:0010719 ! girdle skeleton relationship: has_skeleton UBERON:0010719 ! girdle skeleton relationship: only_in_taxon NCBITaxon:7742 ! Vertebrata relationship: part_of UBERON:0010707 ! appendage girdle complex property_value: IAO:0000232 "this encompasses non-skeletal tissue" xsd:string property_value: UBPROP:0000001 "An organism subdivision that encompasses the region containing the pectoral or pelvic girdle. Note that this includes both the skeletal elements and associated tissues (integument, muscle, etc). There are only two instances of appendage girdle regions per organism.[VSAO]" xsd:string {date_retrieved="2012-08-14", external_class="VSAO:0000303", ontology="VSAO", source="https://orcid.org/0000-0002-6601-2165"} [Term] id: UBERON:0007828 name: girdle bone/zone namespace: uberon def: "A bone that is part of a appendage girdle region." [OBOL:automatic] synonym: "girdle bone" EXACT [MA:0000291] xref: EMAPA:35379 xref: MA:0000291 is_a: UBERON:0010740 ! bone of appendage girdle complex intersection_of: UBERON:0001474 ! bone element intersection_of: part_of UBERON:0007823 ! appendage girdle region relationship: part_of UBERON:0010719 ! girdle skeleton [Term] id: UBERON:0007829 name: pectoral girdle bone namespace: uberon def: "A bone that is part of a pectoral girdle region." [OBOL:automatic] subset: vertebrate_core synonym: "bone of pectoral girdle" EXACT [] xref: EMAPA:35669 xref: MA:0000292 is_a: UBERON:0007828 {source="MA"} ! girdle bone/zone is_a: UBERON:0010741 ! bone of pectoral complex intersection_of: UBERON:0001474 ! bone element intersection_of: part_of UBERON:0001421 ! pectoral girdle region relationship: part_of UBERON:0007831 ! pectoral girdle skeleton [Term] id: UBERON:0007830 name: pelvic girdle bone/zone namespace: uberon def: "A bone element or fused bone that is part of pelvic girdle." [https://orcid.org/0000-0002-6601-2165] subset: pheno_slim subset: vertebrate_core synonym: "bone of pelvic girdle" EXACT [] synonym: "pelvic girdle bone" EXACT [MA:0000293] xref: EMAPA:18028 xref: http://linkedlifedata.com/resource/umls/id/C0030786 xref: http://www.snomedbrowser.com/Codes/Details/426214007 xref: MA:0000293 xref: NCIT:C33287 xref: UMLS:C0030786 {source="ncithesaurus:Pelvic_Bone"} is_a: UBERON:0003828 ! abdominal segment bone is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0005179 ! pelvic region element is_a: UBERON:0005913 ! zone of bone organ is_a: UBERON:0007828 {source="MA"} ! girdle bone/zone is_a: UBERON:0010742 ! bone of pelvic complex intersection_of: UBERON:0001474 ! bone element intersection_of: part_of UBERON:0007832 ! pelvic girdle skeleton relationship: part_of UBERON:0007832 ! pelvic girdle skeleton property_value: editor_note "check sacrum, coccyx (MA does NOT include these)" xsd:string property_value: UBPROP:0000008 "typically the ilium, ischium and pubis. These can alternately be considered individual bones, or zones of a single fused bone" xsd:string [Term] id: UBERON:0007831 name: pectoral girdle skeleton namespace: uberon def: "A subdivision of a limb or fin skeleton consisting of bones which connects the upper limb or fin to the axial skeleton on each side. It consists of the clavicle and scapula in humans and, in those species with three bones in the pectoral girdle, the coracoid. Some mammalian species (e.g. the dog and the horse) have only the scapula. In humans, the only joints between the shoulder girdle and axial skeleton are the sternoclavicular joints on each side. No joint exists between each scapula and the rib cage; instead the muscular connection between the two permits relatively great mobility of the shoulder girdle in relation to the pelvic girdle. In those species having only the scapula, no joint exists between the forelimb and the thorax, the only attachment being muscular[WP]. Examples: There are only two instances, right and left pectoral girdle skeletons." [http://en.wikipedia.org/wiki/Pectoral_girdle] subset: efo_slim subset: vertebrate_core synonym: "cingulum pectorale" RELATED LATIN [http://en.wikipedia.org/wiki/Pectoral_girdle] synonym: "pectoral girdle" RELATED INCONSISTENT [VSAO:0000156] synonym: "scapular girdle" RELATED [TAO:0000407] synonym: "skeletal parts of pectoral girdle" EXACT [https://orcid.org/0000-0002-6601-2165] synonym: "skeleton of pectoral girdle" EXACT [https://orcid.org/0000-0002-6601-2165] xref: AAO:0000422 xref: AAO:0000754 xref: EFO:0000946 xref: EHDAA2:0001420 xref: FMA:24141 xref: http://linkedlifedata.com/resource/umls/id/C0427245 xref: MAT:0000181 xref: MIAA:0000181 xref: NCIT:C33547 xref: Pectoral:girdle xref: TAO:0000407 xref: UMLS:C0427245 {source="ncithesaurus:Shoulder_Girdle"} xref: VHOG:0001156 xref: VSAO:0000156 xref: XAO:0003063 xref: ZFA:0000407 is_a: UBERON:0010719 ! girdle skeleton intersection_of: UBERON:0010912 ! subdivision of skeleton intersection_of: part_of UBERON:0001421 ! pectoral girdle region intersection_of: skeleton_of UBERON:0001421 ! pectoral girdle region relationship: part_of UBERON:0001421 ! pectoral girdle region relationship: part_of UBERON:0012475 ! skeleton of pectoral complex relationship: skeleton_of UBERON:0001421 ! pectoral girdle region property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/2/22/Pectoral_girdle_front_diagram.svg xsd:anyURI property_value: UBPROP:0000001 "Anatomical cluster of paired dermal and endochondral bones that attaches to the dorso-posterior part of the cranium, and support the radials and pectoral fin. It consists of two components: the primary pectoral girdle consisting of the endochondral coracoid, scapula and mesocoracoid bones, and the secondary pectoral girdle consisting of the dermal posttemporal, supracleithrum, cleithrum and poscleithrum(thra) bones.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0000407", ontology="TAO", source="TAO:wd"} property_value: UBPROP:0000001 "Girdle skeleton consisting of a set of bones linking the axial series to the forelimb/fin skeleton and offering anchoring areas for forelimb/fin and caudal musculature.[VSAO]" xsd:string {date_retrieved="2012-08-14", external_class="VSAO:0000156", ontology="VSAO", source="https://orcid.org/0000-0002-6601-2165"} property_value: UBPROP:0000001 "Skeletal structure immediately behind the head attached to the vertebral column by muscles and supporting the forelimbs.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0000422", ontology="AAO", source="AAO:LAP"} property_value: UBPROP:0000003 "The pectoral girdle is clearly of dual origin, composed of dermal as well as endochondral bones. The endochondral component, the scapulocoracoid, evolved by fusion or enlargment of several basal fin elements. (...) The dermal component of the shoulder girdle evolved from dermal bones of the body's surface. (...) Like endochondral bones, these dermal bones were passed along to tetrapods (...).[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001156", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.336 and Figure 9.18"} property_value: UBPROP:0000012 "Note that the VSAO and many ontologies use the label 'pectoral girdle' to denote the skeletal region specifically." xsd:string {external_ontology="VSAO"} [Term] id: UBERON:0007832 name: pelvic girdle skeleton namespace: uberon def: "Skeletal subdivision consisting of a set of bones linking the axial series to the hindlimb zeugopodium and offering anchoring areas for hindlimb and caudal musculature." [http://en.wikipedia.org/wiki/Pelvis, VSAO:0000155] subset: efo_slim subset: vertebrate_core synonym: "pelvic girdle" RELATED INCONSISTENT [VSAO:0000155] synonym: "pelvic girdle skeleton" EXACT [VSAO:0000155] synonym: "skeletal parts of pelvic girdle" EXACT [https://orcid.org/0000-0002-6601-2165] synonym: "skeleton of pelvic girdle" EXACT [https://orcid.org/0000-0002-6601-2165] xref: AAO:0000426 xref: AAO:0000768 xref: EFO:0000947 xref: EHDAA2:0001426 xref: EHDAA:7149 xref: EHDAA:8324 xref: EMAPA:18028 xref: FMA:87592 xref: galen:PelvicGirdle xref: http://en.wikipedia.org/wiki/Pelvis xref: http://people.eku.edu/ritchisong/pectoralgirdles.gif xref: MAT:0000182 xref: MIAA:0000182 xref: TAO:0000565 xref: VHOG:0000305 xref: VSAO:0000155 xref: XAO:0003064 xref: ZFA:0000565 is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0010719 ! girdle skeleton intersection_of: UBERON:0010912 ! subdivision of skeleton intersection_of: part_of UBERON:0001271 ! pelvic girdle region intersection_of: skeleton_of UBERON:0001271 ! pelvic girdle region relationship: develops_from UBERON:0010377 {source="http://www.ncbi.nlm.nih.gov/pubmed/21455939"} ! mesenchyme from somatopleure relationship: part_of UBERON:0001271 ! pelvic girdle region relationship: part_of UBERON:0012476 ! skeleton of pelvic complex relationship: skeleton_of UBERON:0001271 ! pelvic girdle region property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/f/fe/Gray242.png xsd:anyURI property_value: editor_note "need to resolve whether this is a paired structure or a single belt (Paired in FMA - implicitly paired in VSAO)" xsd:string property_value: UBPROP:0000001 "Anatomical cluster by which the hind limbs are supported and attached to the vertebral column.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0000426", ontology="AAO", source="AAO:LAP"} property_value: UBPROP:0000001 "Anatomical cluster that consists of the paired basipterygia which support the pelvic fin.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0000565", ontology="TAO", source="TAO:wd"} property_value: UBPROP:0000001 "Girdle skeleton consisting of a set of bones linking the axial series to the hindlimb/fin skeleton and offering anchoring areas for hindlimb/fin and caudal musculature.[VSAO]" xsd:string {date_retrieved="2012-08-14", external_class="VSAO:0000155", ontology="VSAO", source="https://orcid.org/0000-0002-6601-2165"} property_value: UBPROP:0000003 "The pelvic girdle is never joined by contributions of dermal bone. From its first appearance in placoderms, the pelvic girdle is exclusively endoskeletal. It arose from pterygiophores, perhaps several times, in support of the fin.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000305", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.333"} property_value: UBPROP:0000012 "Note that the VSAO and many ontologies use the label 'pelvic girdle' to denote the skeletal region specifically. We place the EHDAA2 class here, note that this includes the pre-cartilage condensation as parts" xsd:string {external_ontology="VSAO"} [Term] id: UBERON:0007842 name: membrane bone namespace: uberon def: "Bone element that arises as a result of intramembranous ossification." [GO_REF:0000034, http://dx.plos.org/10.1371/journal.pone.0051070, https://github.com/obophenotype/uberon/issues/267, VSAO:0000023] synonym: "membrane bones" RELATED PLURAL [ZFA:0001636] xref: AEO:0000085 xref: EHDAA2:0003085 xref: TAO:0001645 xref: VSAO:0000023 xref: XAO:0004014 xref: ZFA:0001636 is_a: UBERON:0001474 {source="VSAO"} ! bone element relationship: output_of GO:0001957 ! intramembranous ossification property_value: UBPROP:0000001 "Bone element that arises as a result of intramembranous ossification.[VSAO]" xsd:string {date_retrieved="2012-08-14", external_class="VSAO:0000023", ontology="VSAO", source="GO_REF:0000034, http://dx.plos.org/10.1371/journal.pone.0051070", source="PSPUB:0000170"} property_value: UBPROP:0000001 "Intramembranous bone that forms deep in the organism.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0001645", ontology="TAO", source="TAO:wd"} [Term] id: UBERON:0007844 name: cartilage element namespace: uberon def: "Skeletal element that is composed of cartilage tissue and may be permanent or transient." [GO_REF:0000034, http://dx.plos.org/10.1371/journal.pone.0051070, PSPUB:0000170, VSAO:0000000] subset: organ_slim subset: pheno_slim synonym: "cartilage" RELATED [VSAO:0000000] synonym: "cartilage organ" EXACT [FMA:55107] synonym: "cartilaginous element" EXACT [https://orcid.org/0000-0002-6601-2165] synonym: "chondrogenic element" EXACT [VSAO:0000000] xref: AAO:0011130 xref: CALOHA:TS-0118 xref: EMAPA:32730 xref: FMA:55107 xref: VSAO:0000000 xref: XAO:0004013 xref: ZFA:0001501 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0004765 {source="VSAO"} ! skeletal element intersection_of: UBERON:0004765 ! skeletal element intersection_of: composed_primarily_of UBERON:0002418 ! cartilage tissue relationship: composed_primarily_of UBERON:0002418 ! cartilage tissue relationship: develops_from UBERON:0005863 {source="VSAO"} ! cartilaginous condensation relationship: has_part UBERON:0002418 {source="VSAO"} ! cartilage tissue property_value: UBPROP:0000012 "TAO still mixes tissue and element" xsd:string {external_ontology="TAO"} [Term] id: UBERON:0007845 name: regular connective tissue namespace: uberon def: "Connective tissue, which consists of fibroblasts, the intercellular matrix of which contains a regular network of collagen and elastic fiber bundles. Examples: bone (tissue), cartilage (tissue), dense regular connective tissue." [FMA:20103] xref: FMA:20103 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0002384 {source="FMA"} ! connective tissue disjoint_from: UBERON:0011821 ! irregular connective tissue relationship: has_part CL:0000057 ! fibroblast relationship: has_part GO:0071953 ! elastic fiber relationship: has_part UBERON:0011860 ! collection of collagen fibrils property_value: editor_note "the connective tissue hierarchy largely follows FMA with definitions from VSAO. Note that in FMA, loose-CT is irregular-CT. This means regular-CT is necessarily equivalent to dense-regular-CT (assuming a JEPD classification)." xsd:string [Term] id: UBERON:0007846 name: dense regular connective tissue namespace: uberon def: "Connective tissue that is dominated by collagen fibres organized into a definitive pattern (e.g., parallel to one another), with comparatively fewer cells (mostly fibroblasts)." [GO_REF:0000034, http://dx.plos.org/10.1371/journal.pone.0051070, PSPUB:0000170, VSAO:0000050] synonym: "dense fibrous connective tissue" EXACT [FMA:64781] synonym: "dense regular collagenous connective tissue" EXACT [FMA:64781] synonym: "dense regular collagenous tissue" EXACT [FMA:64781] synonym: "regular dense connective tissue" EXACT [] synonym: "typus regularis (textus connectivus collagenosus compactus)" EXACT [FMA:64781] xref: FMA:64781 xref: http://en.wikipedia.org/wiki/Dense_regular_connective_tissue xref: http://linkedlifedata.com/resource/umls/id/C0225333 xref: http://www.snomedbrowser.com/Codes/Details/22560007 xref: NCIT:C33453 xref: SCTID:22560007 xref: UMLS:C0225333 {source="ncithesaurus:Regular_Dense_Connective_Tissue"} xref: VSAO:0000050 xref: Wikipedia:Dense_regular_connective_tissue xref: XAO:0004030 is_a: UBERON:0007845 {source="FMA"} ! regular connective tissue is_a: UBERON:0011823 {source="ncithesaurus"} ! dense connective tissue intersection_of: UBERON:0007845 ! regular connective tissue intersection_of: composed_primarily_of UBERON:0011860 ! collection of collagen fibrils intersection_of: has_part GO:0071953 ! elastic fiber property_value: UBPROP:0000001 "Connective tissue that is dominated by collagen fibres organized into a definitive pattern (e.g., parallel to one another), with comparatively fewer cells (mostly fibroblasts).[VSAO]" xsd:string {date_retrieved="2012-08-14", external_class="VSAO:0000050", ontology="VSAO", source="GO_REF:0000034, http://dx.plos.org/10.1371/journal.pone.0051070", source="PSPUB:0000170"} property_value: UBPROP:0000001 "Regular connective tissue, the intercellular matrix of which consists predominantly of collagen fiber bundles arranged in parallel arrays.[FMA]" xsd:string {date_retrieved="2012-08-29", external_class="FMA:64781", ontology="FMA"} [Term] id: UBERON:0007914 name: bone of craniocervical region namespace: uberon def: "A bone that is part of a craniocervical region." [OBOL:automatic] synonym: "cranial bone" RELATED [] synonym: "head or neck bone" EXACT [MA:0000569] xref: EMAPA:37245 {source="MA:th"} xref: MA:0000569 is_a: UBERON:0001474 {source="MA"} ! bone element intersection_of: UBERON:0001474 ! bone element intersection_of: part_of UBERON:0007811 ! craniocervical region relationship: part_of UBERON:0007811 {source="MA"} ! craniocervical region [Term] id: UBERON:0008114 name: joint of girdle namespace: uberon def: "A skeletal joint that is part of a appendage girdle region." [OBOL:automatic] subset: grouping_class synonym: "girdle joint" EXACT [OBOL:automatic] xref: MA:0001505 is_a: UBERON:0000982 {source="MA"} ! skeletal joint intersection_of: UBERON:0000982 ! skeletal joint intersection_of: part_of UBERON:0007823 ! appendage girdle region relationship: connects UBERON:0007828 ! girdle bone/zone relationship: only_in_taxon NCBITaxon:7742 ! Vertebrata relationship: part_of UBERON:0007823 ! appendage girdle region [Term] id: UBERON:0008115 name: surface of cartilage namespace: uberon def: "An anatomical surface that is part of a cartilage element." [OBOL:automatic] synonym: "cartilage surface" EXACT [FMA:76668] xref: FMA:76668 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0036215 ! anatomical surface region intersection_of: UBERON:0036215 ! anatomical surface region intersection_of: bounding_layer_of UBERON:0007844 ! cartilage element relationship: bounding_layer_of UBERON:0007844 ! cartilage element relationship: part_of UBERON:0007844 ! cartilage element [Term] id: UBERON:0008196 name: muscle of pectoral girdle namespace: uberon def: "Any muscle organ that is part of a pectoral girdle region." [OBOL:automatic] subset: pheno_slim synonym: "muscle of shoulder girdle" EXACT [FMA:37347] synonym: "pectoral girdle muscle" EXACT [FMA:37347] xref: EMAPA:17748 xref: FMA:37347 is_a: UBERON:0010891 ! pectoral complex muscle intersection_of: UBERON:0014892 ! skeletal muscle organ intersection_of: part_of UBERON:0001421 ! pectoral girdle region relationship: part_of UBERON:0004471 ! musculature of pectoral girdle property_value: UBPROP:0000012 "EMAPA has both non-skeletal and skeletal types, with the non-skeletal also including a chest muscle, so we place the skeletal class here as the most accurate" xsd:string {external_ontology="EMAPA"} [Term] id: UBERON:0008203 name: pelvic cavity namespace: uberon def: "The part of the ventral body cavity that is within the pelvis." [UBERON:cjm] synonym: "cavitas pelvis" RELATED LATIN [http://en.wikipedia.org/wiki/Pelvic_cavity] synonym: "space of pelvic compartment" EXACT [FMA:9738] xref: EMAPA:37235 {source="MA:th"} xref: FMA:9738 xref: http://www.snomedbrowser.com/Codes/Details/281903009 xref: MA:0003089 xref: Pelvic:cavity is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0002553 ! anatomical cavity intersection_of: UBERON:0002553 ! anatomical cavity intersection_of: luminal_space_of UBERON:0002355 ! pelvic region of trunk intersection_of: part_of UBERON:0002323 ! coelemic cavity lumen relationship: luminal_space_of UBERON:0002355 ! pelvic region of trunk relationship: part_of UBERON:0002355 ! pelvic region of trunk relationship: part_of UBERON:0035819 ! abdominopelvic cavity property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/e/ee/Scheme_body_cavities-en.svg xsd:anyURI [Term] id: UBERON:0008229 name: craniocervical region musculature namespace: uberon def: "Musculature system of the pharyngeal and head regions." [ZFA:0000328, ZFA:curator] synonym: "head muscles" RELATED [ZFA:0000328] synonym: "head or neck muscle" EXACT [MA:0000571] synonym: "head or neck muscle" RELATED [MA:0000571] xref: EMAPA:37259 {source="MA:th"} xref: MA:0000571 xref: TAO:0000328 xref: ZFA:0000328 is_a: UBERON:0001015 {source="MA"} ! musculature intersection_of: UBERON:0001015 ! musculature intersection_of: part_of UBERON:0007811 ! craniocervical region relationship: part_of UBERON:0007811 {source="MA"} ! craniocervical region property_value: UBPROP:0000012 "in MA this is restricted to skeletal muscles" xsd:string {external_ontology="MA"} [Term] id: UBERON:0008231 name: dorsal thoracic segment of trunk namespace: uberon def: "Subdivision of thorax, which in humans is the posterior part of the thorax and is demarcated from the chest by the external surface of the posterolateral part of the rib cage and the anterior surface of the thoracic vertebral column; together with the chest, it constitutes the thorax." [FMA:24217] synonym: "back of thorax" RELATED [FMA:24217] synonym: "dorsum of thorax" EXACT [FMA:24217] synonym: "posterior part of thorax" EXACT [FMA:24217] synonym: "thoracic back" EXACT [FMA:24217] synonym: "thoracic part of back" EXACT [FMA:24217] synonym: "upper back" EXACT [MA:0000028] xref: EMAPA:37234 {source="MA:th"} xref: FMA:24217 xref: MA:0000028 xref: SCTID:362666008 is_a: UBERON:0000475 ! organism subdivision relationship: part_of UBERON:0000915 {source="MA"} ! thoracic segment of trunk relationship: part_of UBERON:0000915 {source="FMA"} ! thoracic segment of trunk relationship: part_of UBERON:0011270 {source="FMA"} ! dorsal trunk [Term] id: UBERON:0008243 name: upper back muscle namespace: uberon def: "A muscle of back that is part of a dorsal thoracic segment of trunk." [OBOL:automatic] xref: EMAPA:37261 {source="MA:th"} xref: MA:0000508 xref: SCTID:305071003 is_a: UBERON:0002324 ! muscle of back is_a: UBERON:0003830 {source="MA"} ! thoracic segment muscle intersection_of: UBERON:0002324 ! muscle of back intersection_of: part_of UBERON:0008231 ! dorsal thoracic segment of trunk relationship: part_of UBERON:0008231 {source="MA"} ! dorsal thoracic segment of trunk [Term] id: UBERON:0008307 name: heart endothelium namespace: uberon def: "An endothelium that is part of a heart [Automatically generated definition]." [OBOL:automatic] synonym: "cardiac endothelium" RELATED [BTO:0004293] xref: BTO:0004293 is_a: UBERON:0004852 ! cardiovascular system endothelium intersection_of: UBERON:0001986 ! endothelium intersection_of: part_of UBERON:0000948 ! heart relationship: part_of UBERON:0000948 ! heart property_value: IAO:0000232 "this class includes any endothelia that are part of the heart. This might include the endocardial epithelia, as well as endothelia of vessels that are considered strictly part of the heart (e.g. outflow tract). As a grouping class, this may lack utility, and pending review this class may be obsoleted. For annotation consider a more specific class." xsd:string [Term] id: UBERON:0008339 name: microvascular endothelium namespace: uberon xref: BTO:0003122 is_a: UBERON:0004852 {source="BTO"} ! cardiovascular system endothelium [Term] id: UBERON:0008814 name: pharyngeal arch system namespace: uberon def: "A transient embryonic complex that comprises the pharyngeal arches, bulges of tissues of mesoderm and neural crest derivation through which pass nerves and pharyngeal arch arteries. The arches are separated internally by pharyngeal pouches, evaginations of foregut endoderm, and externally by pharyngeal clefts, invaginations of surface ectoderm. The development of the system ends when the stucture it contributes to are forming, which may include (depending on species) the thymus, thyroid, parathyroids, maxilla, mandible, aortic arch, cardiac outflow tract, external and middle ear[GO,modified]." [GO:0060037, GOC:dph] synonym: "embryonic pharyngeal complex" EXACT [] synonym: "pharyngeal apparatus" EXACT [] synonym: "pharyngeal arch complex" RELATED [] synonym: "pharyngeal arch region" RELATED [EHDAA2:0000187] synonym: "pharyngeal arches and clefts" RELATED [] synonym: "pharyngeal complex" RELATED [] synonym: "pharyngeal system" EXACT [GO:0060037] xref: EHDAA2:0000187 xref: FMA:293041 xref: http://linkedlifedata.com/resource/umls/id/C1519038 xref: NCIT:C34248 xref: UMLS:C1519038 {source="ncithesaurus:Pharyngeal_Apparatus"} is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000477 ! anatomical cluster relationship: only_in_taxon NCBITaxon:7711 ! Chordata relationship: part_of UBERON:0000922 ! embryo relationship: part_of UBERON:0009145 ! pharyngeal region of foregut property_value: editor_note "Currently defined in a vertebrate specific manner. The arch system has origins in basal deuterostomes, consider generalizing" xsd:string [Term] id: UBERON:0008816 name: embryonic head namespace: uberon def: "A head that is part of a embryo." [OBOL:automatic] subset: non_informative xref: CALOHA:TS-0246 xref: FBbt:00000155 xref: FMA:293011 is_a: UBERON:0000033 ! head intersection_of: UBERON:0000033 ! head intersection_of: part_of UBERON:0000922 ! embryo relationship: part_of UBERON:0000922 ! embryo [Term] id: UBERON:0008823 name: neural tube derived brain namespace: uberon def: "A brain that develops_from a neural tube." [https://github.com/obophenotype/uberon/issues/338, OBOL:automatic] synonym: "vertebrate brain" NARROW [] is_a: UBERON:0000489 {source="ZFA"} ! cavitated compound organ is_a: UBERON:0000955 ! brain intersection_of: UBERON:0000955 ! brain intersection_of: develops_from UBERON:0001049 ! neural tube relationship: develops_from UBERON:0001049 ! neural tube relationship: part_of UBERON:0000033 {source="FMA"} ! head property_value: editor_note "a reasoner should automatically classify all the vertebrate ontology brain classes here" xsd:string property_value: seeAlso https://github.com/obophenotype/uberon/issues/338 xsd:anyURI [Term] id: UBERON:0008876 name: hypodermis skeletal muscle layer namespace: uberon alt_id: UBERON:0010934 def: "Any skeletal muscle organ in the hypodermis / superficial fascia." [ISBN:0123813611, MP:0011157] subset: pheno_slim synonym: "hypodermal muscle layer" EXACT [MP:0011157] synonym: "hypodermis muscle layer" EXACT [MP:0011157] synonym: "panniculus carnosus" NARROW [MP:0011157] synonym: "superficial fascia muscular layer" EXACT [] xref: EMAPA:18188 xref: MA:0003140 is_a: CARO:0000003 ! connected anatomical structure is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0004253 ! skin muscle is_a: UBERON:0014892 ! skeletal muscle organ intersection_of: UBERON:0014892 ! skeletal muscle organ intersection_of: part_of UBERON:0002072 ! hypodermis relationship: contributes_to_morphology_of UBERON:0001015 ! musculature relationship: contributes_to_morphology_of UBERON:0002072 ! hypodermis relationship: has_muscle_insertion UBERON:0002097 ! skin of body relationship: located_in UBERON:0002190 {source="MP-def"} ! subcutaneous adipose tissue relationship: part_of RO:0002577 ! system relationship: part_of UBERON:0002072 ! hypodermis property_value: editor_note "We follow MP and treat this as part of the hypodermis, although some sources may consider the hypodermis to be superficial to this" xsd:string [Term] id: UBERON:0008886 name: pulmonary vascular system namespace: uberon def: "The part of the cardiovascular system consisting of all pulmonary arteries and all pulmonary veins." [http://en.wikipedia.org/wiki/Pulmonary_circulation, ISBN:0073040584] def: "The part of the cardiovascular system consisting of all pulmonary arteries and all pulmonary veins." [ISBN:0073040584, Wikipedia:Pulmonary_circulation] synonym: "pulmonary circulatory system" EXACT [FMA:45621] synonym: "pulmonary system" EXACT [ISBN:0073040584] xref: FMA:45621 xref: Pulmonary:circulation xref: Wikipedia:Pulmonary_circulation is_a: UBERON:0007798 {source="Obol"} ! vascular system is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: has_part UBERON:0002012 ! pulmonary artery relationship: has_part UBERON:0002016 ! pulmonary vein property_value: UBPROP:0000001 "Subdivision of cardiovascular system which has as its parts the pulmonary arterial and venous tree organs.[FMA]" xsd:string {ontology="FMA", source="FMA:45621"} [Term] id: UBERON:0008895 name: splanchnocranium namespace: uberon def: "Subdivision of endoskeleton derived from pharyngeal arches" [http://en.wikipedia.org/wiki/Facial_skeleton, https://orcid.org/0000-0002-6601-2165, ISBN:0073040584] def: "Subdivision of endoskeleton derived from pharyngeal arches." [http://en.wikipedia.org/wiki/Facial_skeleton, https://orcid.org/0000-0002-6601-2165, ISBN:0073040584] def: "Subdivision of endoskeleton derived from pharyngeal arches." [https://orcid.org/0000-0002-6601-2165, ISBN:0073040584, Wikipedia:Facial_skeleton] synonym: "branchial arch skeleton" RELATED [] synonym: "gill arch skeleton" RELATED [] synonym: "pharyngeal arch" RELATED INCONSISTENT [VSAO:0000149] synonym: "pharyngeal arch skeleton" RELATED [ZFA:0001216] synonym: "pharyngeal endoskeleton" EXACT [http://orcid.org/0000-0002-6601-2165] synonym: "pharyngeal skeleton" RELATED [ZFA:0001216] synonym: "visceral cranium" RELATED [http://orcid.org/0000-0002-6601-2165] synonym: "visceral skeletal system" RELATED [http://orcid.org/0000-0002-6601-2165] synonym: "visceral skeleton" RELATED [UBERONREF:0000007] synonym: "viscerocranium" EXACT INCONSISTENT [VHOG:0000315, Wikipedia:Viscerocranium, ZFA:0001216] synonym: "viscerocranium" EXACT INCONSISTENT [http://en.wikipedia.org/wiki/Viscerocranium, VHOG:0000315, ZFA:0001216] xref: AAO:0010157 xref: Facial:skeleton xref: TAO:0001216 xref: VHOG:0000315 xref: VSAO:0000149 xref: Wikipedia:Facial_skeleton xref: XAO:0003176 xref: ZFA:0001216 is_a: UBERON:0010314 ! structure with developmental contribution from neural crest is_a: UBERON:0011159 ! primary subdivision of cranial skeletal system disjoint_from: UBERON:0011156 ! facial skeleton relationship: develops_from UBERON:0002539 {source="https://github.com/obophenotype/uberon/issues/83"} ! pharyngeal arch relationship: develops_from UBERON:0002539 {source="https://github.com/obophenotype/uberon/issues/83"} ! pharyngeal arch relationship: has_developmental_contribution_from UBERON:0003099 {notes="redundant", source="http://www.ncbi.nlm.nih.gov/pubmed/11237469", source="Grays"} ! cranial neural crest relationship: has_developmental_contribution_from UBERON:0003099 {notes="redundant", source="Grays", source="PMID:11237469"} ! cranial neural crest relationship: overlaps UBERON:0011156 {gci_relation="part_of", gci_filler="NCBITaxon:89593"} ! facial skeleton property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/7/77/Illu_facial_bones.jpg xsd:anyURI property_value: UBPROP:0000001 "Anatomical cluster that is part of the cranium and consists of the jaws, hyoid and branchial arches.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0001216", ontology="TAO", source="ZFIN:curator"} property_value: UBPROP:0000001 "Anatomical cluster that is part of the cranium and consists of the jaws, hyoid, and branchial arches.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0010157", ontology="AAO", source="AAO:EJS"} property_value: UBPROP:0000001 "The part of the skull derived from the embryonic pharyngeal arches. [Biology_Online][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000315", ontology="VHOG", source="http://bgee.unil.ch/"} property_value: UBPROP:0000001 "The part of the skull derived from the embryonic pharyngeal arches. [Biology_Online][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000315", ontology="VHOG", source="http://bgee.unil.ch/"} property_value: UBPROP:0000003 "The skull of ancestral tetrapods has the three basic components that we have been considering: (1) chondrocranium, (2) splanchnocranium, and (3) dermatocranium (reference 1); Each part of the skull arises from a separate phylogenetic source. The most ancient part is the splanchnocranium (visceral cranium), which first arose to support pharyngeal slits in protochordates (reference 2).[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000315", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.242, ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.235"} property_value: UBPROP:0000003 "The skull of ancestral tetrapods has the three basic components that we have been considering: (1) chondrocranium, (2) splanchnocranium, and (3) dermatocranium (reference 1); Each part of the skull arises from a separate phylogenetic source. The most ancient part is the splanchnocranium (visceral cranium), which first arose to support pharyngeal slits in protochordates (reference 2).[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000315", ontology="VHOG", source="ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.242, ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.235", source="http://bgee.unil.ch/"} property_value: UBPROP:0000012 "many sources define this as the part of the endoskeletal that is from pharyngeal arches - this would make it part-disjoint from dermatocranium. However, there are many bones in AOs that have part-paths to both" xsd:string property_value: UBPROP:0000012 "VSAO labels this term 'pharyngeal arch' (2012-06-01) - however, it clearly means pharyngeal arch skeleton." xsd:string {external_ontology="VSAO"} [Term] id: UBERON:0008907 name: dermal bone namespace: uberon def: "Skeletal element that forms superficially in the organism, usually in association with the ectoderm[VSAO]." [GO_REF:0000034, http://dx.plos.org/10.1371/journal.pone.0051070, https://github.com/obophenotype/uberon/issues/267, VSAO:0000130] synonym: "dermal bones" RELATED PLURAL [ZFA:0001590] xref: AAO:0010769 xref: Dermal:bone xref: TAO:0001590 xref: VSAO:0000130 xref: Wikipedia:Dermal_bone xref: XAO:0004015 xref: ZFA:0001590 is_a: UBERON:0004756 {source="wd"} ! dermal skeletal element is_a: UBERON:0007842 {source="VSAO"} ! membrane bone intersection_of: UBERON:0001474 ! bone element intersection_of: part_of UBERON:0010364 ! dermal skeleton relationship: part_of UBERON:0010364 {source="VSAO"} ! dermal skeleton property_value: UBPROP:0000001 "Intramembranous bone that forms superficially in the organism.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0001590", ontology="TAO", source="TAO:wd"} property_value: UBPROP:0000012 "other AOs are not yet in sync with this classification" xsd:string [Term] id: UBERON:0008909 name: perichordal bone namespace: uberon def: "Bone element that is adjacent to the notochord." [GO_REF:0000034, http://dx.plos.org/10.1371/journal.pone.0051070, VSAO:0000307] synonym: "perichordal bone" RELATED [ZFA:0001629] synonym: "perichordal bones" EXACT PLURAL [ZFA:0001629] xref: AAO:0010777 xref: TAO:0001639 xref: VSAO:0000307 xref: ZFA:0001629 is_a: UBERON:0012075 {notes="not in VSAO", source="ZFA"} ! replacement bone intersection_of: UBERON:0001474 ! bone element intersection_of: adjacent_to UBERON:0002328 ! notochord relationship: adjacent_to UBERON:0002328 ! notochord property_value: editor_note "We go with the latest VSAO in making this a subtype of bone, and add a logical definition based on the textual definition in VSAO. We also include the subtyping under 'replacement bone', for consistency with ZFA" xsd:string property_value: UBPROP:0000001 "Replacement bone that forms within the connective tissue surrounding the notochord.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0001639", ontology="TAO", source="TAO:wd"} [Term] id: UBERON:0008946 name: lung parenchyma namespace: uberon def: "A parenchyma that is part of a lung." [OBOL:automatic] synonym: "parenchyma of lung" RELATED [BTO:0000763] synonym: "pulmonary parenchyma" RELATED [EMAPA:35522] synonym: "respiratory portion of lung" EXACT [FMA:27360] xref: EMAPA:35522 xref: FMA:27360 xref: MA:0003168 xref: SCTID:201712001 is_a: UBERON:0000353 {source="FMA"} ! parenchyma is_a: UBERON:0004119 ! endoderm-derived structure intersection_of: UBERON:0000353 ! parenchyma intersection_of: part_of UBERON:0002048 ! lung relationship: part_of UBERON:0002048 {source="FMA"} ! lung [Term] id: UBERON:0008947 name: respiratory primordium namespace: uberon xref: EHDAA2:0004069 xref: http://linkedlifedata.com/resource/umls/id/C1514898 xref: NCIT:C34283 xref: UMLS:C1514898 {source="ncithesaurus:Respiratory_Primordium"} is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0001048 {source="Obol"} ! primordium relationship: has_potential_to_develop_into UBERON:0001004 ! respiratory system relationship: part_of UBERON:0003258 ! endoderm of foregut [Term] id: UBERON:0008998 name: vasculature of brain namespace: uberon alt_id: UBERON:0005284 def: "System pertaining to blood vessels in the brain." [BTO:0003840] subset: efo_slim synonym: "brain vasculature" EXACT [] synonym: "cerebrovascular system" EXACT [BTO:0003840] synonym: "intracerebral vasculature" EXACT [FMA:61935] xref: BTO:0003840 xref: EFO:0003491 xref: EMAPA:35186 xref: FMA:242007 xref: FMA:61935 xref: http://www.snomedbrowser.com/Codes/Details/362029003 xref: SCTID:362029003 xref: TAO:0000099 xref: ZFA:0000099 is_a: UBERON:0006876 ! vasculature of organ is_a: UBERON:0036303 ! vasculature of central nervous system relationship: part_of UBERON:0000955 ! brain [Term] id: UBERON:0009015 name: upper back skin namespace: uberon def: "A zone of skin that is part of a dorsal thoracic segment of trunk." [OBOL:automatic] xref: EMAPA:37280 {source="MA:th"} xref: MA:0000510 xref: SCTID:304890003 is_a: UBERON:0001068 ! skin of back is_a: UBERON:0001418 {source="MA"} ! skin of thorax intersection_of: UBERON:0000014 ! zone of skin intersection_of: part_of UBERON:0008231 ! dorsal thoracic segment of trunk relationship: part_of UBERON:0008231 ! dorsal thoracic segment of trunk [Term] id: UBERON:0009030 name: left pulmonary vein namespace: uberon def: "Vein that drains left lung and returns blood to the heart." [http://orcid.org/0000-0002-6601-2165] xref: EMAPA:37165 {source="MA:th"} xref: http://linkedlifedata.com/resource/umls/id/C0226670 xref: http://www.snomedbrowser.com/Codes/Details/304057004 xref: MA:0002207 xref: NCIT:C48946 xref: SCTID:304057004 xref: UMLS:C0226670 {source="ncithesaurus:Left_Pulmonary_Vein"} is_a: UBERON:0002016 ! pulmonary vein intersection_of: UBERON:0002016 ! pulmonary vein intersection_of: drains UBERON:0002168 ! left lung relationship: drains UBERON:0002168 ! left lung property_value: UBPROP:0000001 "A vein that returns oxygenated blood from the left lung to the left atrium of the heart[ncithesaurus:Left_Pulmonary_Vein]." xsd:string {source="ncithesaurus:Left_Pulmonary_Vein"} [Term] id: UBERON:0009032 name: right pulmonary vein namespace: uberon def: "Vein that drains right lung and returns blood to the heart." [http://orcid.org/0000-0002-6601-2165] xref: EMAPA:37379 {source="MA:th"} xref: http://linkedlifedata.com/resource/umls/id/C0226669 xref: http://www.snomedbrowser.com/Codes/Details/304056008 xref: MA:0002208 xref: NCIT:C48947 xref: SCTID:304056008 xref: UMLS:C0226669 {source="ncithesaurus:Right_Pulmonary_Vein"} is_a: UBERON:0002016 ! pulmonary vein intersection_of: UBERON:0002016 ! pulmonary vein intersection_of: drains UBERON:0002167 ! right lung relationship: drains UBERON:0002167 ! right lung property_value: UBPROP:0000001 "A vein that returns oxygenated blood from the right lung to the left atrium of the heart[ncithesaurus:Right_Pulmonary_Vein]." xsd:string {source="ncithesaurus:Right_Pulmonary_Vein"} [Term] id: UBERON:0009097 name: gravid organism namespace: uberon def: "An organism containing a developing embryo, fetus, or unborn offspring within the body." [BTO:0004733] synonym: "gravid" RELATED [BTO:0004733] synonym: "pregnant adult" RELATED [BTO:0004733] synonym: "pregnant adult stage" RELATED [BTO:0004733] synonym: "pregnant organism" RELATED [] synonym: "pregnant stage" RELATED [BTO:0004733] xref: BTO:0004733 is_a: UBERON:0007023 ! adult organism intersection_of: UBERON:0007023 ! adult organism intersection_of: has_part UBERON:0000922 ! embryo relationship: has_part UBERON:0000922 ! embryo relationship: only_in_taxon NCBITaxon:6072 ! Eumetazoa relationship: participates_in GO:0007565 ! female pregnancy [Term] id: UBERON:0009117 name: indifferent gonad namespace: uberon def: "A gonad prior to differentiating into a definitive testis or ovary." [http://www.medterms.com/script/main/art.asp?articlekey=8981] comment: typically part of the embryo - however, in male tammar wallabies the gonads are indifferent at the neonatal stage[8827321] subset: organ_slim synonym: "gonad rudiment" RELATED [] xref: EHDAA2:0000716 xref: http://linkedlifedata.com/resource/umls/id/C1512703 xref: NCIT:C34192 xref: UMLS:C1512703 {source="ncithesaurus:Indifferent_Gonad"} is_a: UBERON:0000991 ! gonad relationship: part_of UBERON:0009196 ! indifferent external genitalia [Term] id: UBERON:0009127 name: epibranchial ganglion namespace: uberon def: "Cranial ganglion which develops from an epibranchial placode." [PMID:20133851, ZFIN:curator] comment: Epibranchial ganglia orchestrate the development of the cranial neurogenic crest synonym: "epibranchial ganglia" EXACT PLURAL [ZFA:0001555] xref: TAO:0001555 xref: ZFA:0001555 is_a: UBERON:0001714 {source="ZFA"} ! cranial ganglion is_a: UBERON:0004121 ! ectoderm-derived structure intersection_of: UBERON:0001714 ! cranial ganglion intersection_of: develops_from UBERON:0003078 ! epibranchial placode relationship: develops_from UBERON:0003078 {source="NCBIBook:NBK53175"} ! epibranchial placode [Term] id: UBERON:0009129 name: right atrium endocardium namespace: uberon def: "Endocardium that is part of the right atrium." [http://orcid.org/0000-0002-6601-2165] synonym: "endocardium of right atrium" EXACT [FMA:7281] synonym: "right atrial endocardium" EXACT [FMA:7281] synonym: "right atrium endocardial tissue" RELATED [VHOG:0001228] xref: EHDAA2:0000274 xref: FMA:7281 xref: http://www.snomedbrowser.com/Codes/Details/3194006 xref: NCIT:C102339 xref: SCTID:3194006 xref: VHOG:0001228 is_a: UBERON:0000487 ! simple squamous epithelium is_a: UBERON:0002166 ! endocardium of atrium is_a: UBERON:0005291 ! embryonic tissue is_a: UBERON:0010314 ! structure with developmental contribution from neural crest is_a: UBERON:0012275 ! meso-epithelium intersection_of: UBERON:0002165 ! endocardium intersection_of: part_of UBERON:0002078 ! right cardiac atrium relationship: develops_from UBERON:0005092 {source="EHDAA2"} ! right horn of sinus venosus relationship: part_of UBERON:0002078 ! right cardiac atrium relationship: part_of UBERON:0006218 {source="EHDAA2"} ! common atrial chamber [Term] id: UBERON:0009133 name: pleuroperitoneal membrane namespace: uberon alt_id: UBERON:0009146 def: "A fold of tissue which extends into the peritoneal cavity of the developing embryo and participates in the separation of the pleural and peritoneal cavities." [http://medical-dictionary.thefreedictionary.com/pleuroperitoneal+membrane, Wikipedia:Pleuroperitoneal] synonym: "pleuroperitoneal fold" EXACT [VHOG:0000757] synonym: "pleuroperitoneal membranes" EXACT PLURAL [EHDAA2:0001483] xref: EHDAA2:0001483 xref: EMAPA:17709 xref: NCIT:C34256 xref: SCTID:361429005 xref: UMLS:C1283968 {source="ncithesaurus:Pleuroperitoneal_Membrane"} xref: VHOG:0000757 xref: Wikipedia:Pleuroperitoneal is_a: UBERON:0002050 {source="EHDAA2"} ! embryonic structure is_a: UBERON:0005291 ! embryonic tissue relationship: adjacent_to UBERON:0001179 ! peritoneal cavity relationship: adjacent_to UBERON:0002402 ! pleural cavity property_value: UBPROP:0000003 "In hagfishes a transverse septum extends upward from the ventral body wall posterior to the heart, partly separating an anterior pericardial cavity from a larger peritoneal cavity. (...) These basic relationships have not been modified by urodeles. The small pericardial cavity remains far forward where it is separated by a transverse septum from the principal coelom, which may now be called a pleuroperitoneal cavity because slender lungs are present. (...) The heart [of other tetrapods] is separated from the lungs (and liver if present) by more or less horizontal partitions that have their origin in the embryo as folds on the serous membrane of the right and left lateral body walls. These grow out to join in the midline of the body. They are called lateral mesocardia (birds) or pleuropericardial membranes. Posteriorly they join the transverse septum to form the adult pericardial membrane, or pericardium. (...) In their partitioning of their coelom, embryonic mammals resemble first early fishes (incomplete partition, posterior to heart, consisting of the transverse septum) and then reptiles (pericardium derived from transverse septum and pleuropericardial membranes). Mammals then separate paired pleural cavities from the peritoneal cavity by a diaphragm. The ventral portion of this organ comes from the transverse septum. The dorsal portion is derived from the dorsal mesentery and from still another pair of outgrowths from the lateral body wall, the pleuroperitoneal membranes.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000757", ontology="VHOG", source="ISBN:978-0471090588 Hildebrand M, Analysis of vertebrate structure (1983) p.205-206", source="http://bgee.unil.ch/"} [Term] id: UBERON:0009141 name: craniocervical region vein namespace: uberon def: "A vein that is part of a craniocervical region." [OBOL:automatic] synonym: "craniocervical vein" EXACT [] synonym: "head and neck veins" EXACT [EHDAA2:0004542] synonym: "vein of head and neck" EXACT [] xref: EHDAA2:0004542 xref: http://www.snomedbrowser.com/Codes/Details/32945007 xref: SCTID:32945007 is_a: UBERON:0013140 ! systemic vein intersection_of: UBERON:0001638 ! vein intersection_of: part_of UBERON:0007811 ! craniocervical region relationship: part_of UBERON:0007811 ! craniocervical region [Term] id: UBERON:0009142 name: entire embryonic mesenchyme namespace: uberon alt_id: UBERON:0003313 def: "Sum total of mesenchyme in the embryo." [https://github.com/obophenotype/human-developmental-anatomy-ontology/issues/7] xref: EHDAA2:0001113 xref: EHDAA:177 xref: EMAPA:16097 is_a: BFO:0000040 ! material entity is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000477 ! anatomical cluster relationship: composed_primarily_of UBERON:0003104 ! mesenchyme relationship: has_developmental_contribution_from UBERON:0000926 {source="EHDAA2"} ! mesoderm relationship: has_part UBERON:0003104 ! mesenchyme relationship: part_of UBERON:0000922 ! embryo property_value: editor_note "consider adding new class (EMAPA:16097) for mesenchyme of embryo (some mesenchyme is extraembryonic - e.g. amnion mesoderm)" xsd:string [Term] id: UBERON:0009145 name: pharyngeal region of foregut namespace: uberon synonym: "pharyngeal region" EXACT [EMAPA:16549] xref: EMAPA:16549 xref: RETIRED_EHDAA2:0001454 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0005423 ! developing anatomical structure relationship: part_of UBERON:0001041 {source="EHDAA2"} ! foregut [Term] id: UBERON:0009196 name: indifferent external genitalia namespace: uberon subset: organ_slim xref: EHDAA2:0004021 is_a: UBERON:0004176 {source="cjm"} ! external genitalia relationship: part_of UBERON:0000922 ! embryo [Term] id: UBERON:0009479 name: ectoderm of buccopharyngeal membrane namespace: uberon def: "An ectoderm that is part of a buccopharyngeal membrane." [OBOL:automatic] subset: emapa_ehdaa2 xref: EHDAA2:0000190 xref: EMAPA:16260 is_a: UBERON:0000924 ! ectoderm intersection_of: UBERON:0000924 ! ectoderm intersection_of: part_of UBERON:0006211 ! buccopharyngeal membrane relationship: part_of UBERON:0006211 ! buccopharyngeal membrane [Term] id: UBERON:0009480 name: endoderm of buccopharyngeal membrane namespace: uberon def: "An endoderm that is part of a buccopharyngeal membrane." [OBOL:automatic] subset: emapa_ehdaa2 xref: EHDAA2:0000191 xref: EMAPA:16261 is_a: UBERON:0000925 ! endoderm intersection_of: UBERON:0000925 ! endoderm intersection_of: part_of UBERON:0006211 ! buccopharyngeal membrane relationship: part_of UBERON:0006211 ! buccopharyngeal membrane [Term] id: UBERON:0009494 name: pharyngeal arch mesenchymal region namespace: uberon def: "A portion of mesenchymal tissue associated with an individual pharyngeal arch." [https://orcid.org/0000-0002-6601-2165] subset: pheno_slim synonym: "branchial arch mesenchyme" EXACT [MP:0011262] synonym: "pharyngeal arch mesenchyme" EXACT [https://orcid.org/0000-0002-6601-2165] xref: EMAPA:32755 xref: FMA:295694 is_a: UBERON:0005253 ! head mesenchyme is_a: UBERON:0007524 {source="EHDAA2"} ! dense mesenchyme tissue is_a: UBERON:0010314 ! structure with developmental contribution from neural crest intersection_of: UBERON:0003104 ! mesenchyme intersection_of: part_of UBERON:0002539 ! pharyngeal arch relationship: has_developmental_contribution_from UBERON:0003099 {source="cjm"} ! cranial neural crest relationship: part_of UBERON:0002539 ! pharyngeal arch relationship: part_of UBERON:0010046 ! entire pharyngeal arch associated mesenchyme property_value: editor_note "this represents a part of the entire arch mesenchyme (UBERON:0010046), and is therefore a superclass of the individual arch mesenchyme classes. Alternate definition: primordial embryonic connective tissue associated with the branchial arches, consisting of mesenchymal cells supported in interlaminar jelly, that derive mostly from the mesoderm and contribute to facial and cranial nerve-associated structures." xsd:string {source="MP:0011262"} [Term] id: UBERON:0009569 name: subdivision of trunk namespace: uberon subset: non_informative synonym: "region of trunk" EXACT [FMA:25054] synonym: "trunk subdivision" EXACT [FMA:25054] xref: FMA:25054 xref: http://www.snomedbrowser.com/Codes/Details/22943007 xref: SCTID:22943007 is_a: UBERON:0000475 ! organism subdivision relationship: part_of UBERON:0002100 ! trunk [Term] id: UBERON:0009570 name: spinal cord sulcus limitans namespace: uberon def: "A sulcus limitans of neural tube that is part of a future spinal cord." [OBOL:automatic] synonym: "spinal cord lateral wall sulcus limitans" EXACT [EHDAA2:0001265] xref: EHDAA2:0001265 xref: EMAPA:17584 xref: VHOG:0001548 is_a: UBERON:0005478 ! sulcus limitans of neural tube intersection_of: UBERON:0005478 ! sulcus limitans of neural tube intersection_of: part_of UBERON:0006241 ! future spinal cord relationship: part_of UBERON:0006241 ! future spinal cord [Term] id: UBERON:0009576 name: medulla oblongata sulcus limitans namespace: uberon def: "A sulcus limitans of neural tube that is part of a future medulla oblongata." [OBOL:automatic] xref: EHDAA2:0001100 xref: EMAPA:17561 is_a: UBERON:0005478 ! sulcus limitans of neural tube is_a: UBERON:0010314 ! structure with developmental contribution from neural crest intersection_of: UBERON:0005478 ! sulcus limitans of neural tube intersection_of: part_of UBERON:0001896 ! medulla oblongata relationship: develops_from UBERON:0009578 {source="EHDAA2"} ! myelencephalon sulcus limitans relationship: part_of UBERON:0001896 ! medulla oblongata [Term] id: UBERON:0009577 name: metencephalon sulcus limitans namespace: uberon def: "A sulcus limitans of neural tube that is part of a future metencephalon." [OBOL:automatic] xref: EHDAA2:0001161 xref: EMAPA:17567 is_a: UBERON:0005478 ! sulcus limitans of neural tube is_a: UBERON:0010314 ! structure with developmental contribution from neural crest intersection_of: UBERON:0005478 ! sulcus limitans of neural tube intersection_of: part_of UBERON:0010092 ! future metencephalon relationship: part_of UBERON:0010092 ! future metencephalon [Term] id: UBERON:0009578 name: myelencephalon sulcus limitans namespace: uberon def: "A sulcus limitans of neural tube that is part of a future myelencephalon." [OBOL:automatic] xref: EHDAA2:0001945 is_a: UBERON:0005478 ! sulcus limitans of neural tube is_a: UBERON:0010314 ! structure with developmental contribution from neural crest intersection_of: UBERON:0005478 ! sulcus limitans of neural tube intersection_of: part_of UBERON:0010096 ! future myelencephalon relationship: part_of UBERON:0010096 ! future myelencephalon [Term] id: UBERON:0009581 name: midbrain mantle layer namespace: uberon synonym: "mantle layer lateral wall mesencephalon" RELATED [VHOG:0000910] synonym: "mantle layer lateral wall midbrain" EXACT [VHOG:0000910] synonym: "midbrain lateral wall mantle layer" EXACT [] xref: EHDAA2:0001172 xref: EMAPA:16977 xref: VHOG:0000910 is_a: UBERON:0004061 ! neural tube mantle layer intersection_of: UBERON:0004061 ! neural tube mantle layer intersection_of: part_of UBERON:0009616 ! presumptive midbrain relationship: part_of UBERON:0009616 ! presumptive midbrain [Term] id: UBERON:0009583 name: spinal cord mantle layer namespace: uberon synonym: "mantle layer lateral wall spinal cord" EXACT [VHOG:0000911] synonym: "spinal cord lateral wall mantle layer" EXACT [] xref: EMAPA:17580 xref: VHOG:0000911 is_a: UBERON:0004061 ! neural tube mantle layer intersection_of: UBERON:0004061 ! neural tube mantle layer intersection_of: part_of UBERON:0006241 ! future spinal cord relationship: part_of UBERON:0006241 ! future spinal cord [Term] id: UBERON:0009584 name: 1st arch mandibular mesenchyme namespace: uberon alt_id: UBERON:0010043 def: "Mesenchyme that is part of a 1st arch mandibular component." [OBOL:automatic] synonym: "mandibular component mesenchyme" RELATED [] synonym: "mandibular mesenchyme" RELATED [] synonym: "mesenchymal region of mandibular component of first pharyngeal arch" EXACT [https://orcid.org/0000-0002-6601-2165] synonym: "mesenchyme of mandibular component" EXACT [EMAPA:16385] xref: EHDAA2:0000034 xref: EMAPA:16385 is_a: UBERON:0010042 ! 1st arch mesenchyme intersection_of: UBERON:0003104 ! mesenchyme intersection_of: part_of UBERON:0007237 ! 1st arch mandibular component relationship: part_of UBERON:0007237 {source="EMAPA"} ! 1st arch mandibular component [Term] id: UBERON:0009602 name: left lung associated mesenchyme namespace: uberon def: "Mesenchyme that is part of a developing left lung." [OBOL:automatic] synonym: "left lung mesenchyme" EXACT [EMAPA:17654] xref: EHDAA2:0000944 xref: EMAPA:16730 xref: EMAPA:17654 is_a: UBERON:0004883 ! lung mesenchyme intersection_of: UBERON:0003104 ! mesenchyme intersection_of: part_of UBERON:0002168 ! left lung relationship: part_of UBERON:0002168 ! left lung [Term] id: UBERON:0009603 name: right lung associated mesenchyme namespace: uberon def: "Mesenchyme that is part of a developing right lung." [OBOL:automatic] synonym: "right lung mesenchyme" EXACT [EMAPA:17662] xref: EHDAA2:0001739 xref: EMAPA:17662 is_a: UBERON:0004883 ! lung mesenchyme intersection_of: UBERON:0003104 ! mesenchyme intersection_of: part_of UBERON:0002167 ! right lung relationship: part_of UBERON:0002167 ! right lung [Term] id: UBERON:0009611 name: midbrain neural plate namespace: uberon def: "A neural plate that develops_from a presumptive midbrain." [OBOL:automatic] xref: TAO:0007019 xref: ZFA:0007019 is_a: UBERON:0003075 ! neural plate intersection_of: UBERON:0003075 {source="ZFA"} ! neural plate intersection_of: develops_from UBERON:0009616 {source="ZFA"} ! presumptive midbrain relationship: develops_from UBERON:0009616 ! presumptive midbrain relationship: part_of UBERON:0003056 {source="ZFA"} ! pre-chordal neural plate [Term] id: UBERON:0009614 name: hindbrain neural plate namespace: uberon def: "A neural plate that develops_from a presumptive hindbrain." [OBOL:automatic] xref: TAO:0007022 xref: ZFA:0007022 is_a: UBERON:0003075 ! neural plate is_a: UBERON:0010314 ! structure with developmental contribution from neural crest intersection_of: UBERON:0003075 {source="ZFA"} ! neural plate intersection_of: develops_from UBERON:0007277 {source="ZFA"} ! presumptive hindbrain relationship: develops_from UBERON:0007277 ! presumptive hindbrain relationship: part_of UBERON:0003057 {source="ZFA"} ! chordal neural plate [Term] id: UBERON:0009615 name: midbrain hindbrain boundary neural plate namespace: uberon synonym: "MHB neural plate" EXACT [https://orcid.org/0000-0002-6601-2165] synonym: "midbrain-hindbrain boundary neural plate" EXACT [ZFA:0007044] xref: TAO:0007044 xref: ZFA:0007044 is_a: UBERON:0006598 ! presumptive structure relationship: develops_from UBERON:0007281 ! presumptive midbrain hindbrain boundary relationship: immediate_transformation_of UBERON:0007281 {notes="https://github.com/obophenotype/uberon/issues/438", source="Bgee:AN"} ! presumptive midbrain hindbrain boundary relationship: part_of UBERON:0003075 {source="ZFA"} ! neural plate property_value: editor_note "TODO - developmental relationships for lines" xsd:string [Term] id: UBERON:0009616 name: presumptive midbrain namespace: uberon def: "A presumptive structure that has the potential to develop into a midbrain." [OBOL:automatic] subset: efo_slim synonym: "early midbrain" RELATED [https://orcid.org/0000-0002-6601-2165] synonym: "future midbrain" RELATED [https://orcid.org/0000-0002-6601-2165] synonym: "mesencephalon" RELATED [EHDAA2:0000615] synonym: "presumptive mesencephalon" EXACT [ZFA:0000148] xref: BAMS:MES xref: EFO:0003432 xref: EHDAA2:0000615 xref: EMAPA:16140 xref: http://en.wikipedia.org/wiki/Mesencephalon xref: TAO:0000148 xref: Wikipedia:Mesencephalon xref: ZFA:0000148 is_a: UBERON:0006598 ! presumptive structure intersection_of: UBERON:0006598 ! presumptive structure intersection_of: has_potential_to_develop_into UBERON:0001891 ! midbrain relationship: develops_from UBERON:0003080 ! anterior neural tube relationship: develops_from UBERON:0010286 {source="ZFA"} ! midbrain neural tube relationship: has_potential_to_develop_into UBERON:0001891 ! midbrain relationship: part_of UBERON:0006238 {source="ZFA"} ! future brain property_value: editor_note "TODO - unify naming conventions" xsd:string [Term] id: UBERON:0009617 name: head paraxial mesoderm namespace: uberon def: "Bilateral mesenchymal mesoderm parallel and immediately adjacent to the neural tube/notochord; it generates a subset of extra-ocular, and other head, muscles." [PMID:21610022] def: "Bilateral mesenchymal mesoderm parallel and immediately adjacent to the neural tube/notochord; it generates a subset of extra-ocular, and other head, muscles." [http://www.ncbi.nlm.nih.gov/pubmed/21610022] synonym: "cephalic paraxial mesenchyme" EXACT [https://orcid.org/0000-0002-6601-2165] synonym: "cephalic paraxial mesoderm" EXACT [https://orcid.org/0000-0002-6601-2165] synonym: "cranial paraxial mesenchyme" EXACT [https://orcid.org/0000-0002-6601-2165] synonym: "cranial paraxial mesoderm" EXACT [https://orcid.org/0000-0002-6601-2165] synonym: "head paraxial mesenchyme" EXACT [EHDAA2:0000736, https://github.com/obophenotype/uberon/issues/30] synonym: "somitomere" RELATED [] synonym: "somitomeric mesoderm" RELATED [] xref: EHDAA2:0000736 xref: EHDAA:364 xref: EMAPA:16171 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0005253 ! head mesenchyme relationship: part_of UBERON:0003077 ! paraxial mesoderm relationship: part_of UBERON:0005253 {source="EHDAA2"} ! head mesenchyme property_value: UBPROP:0000011 "A major contributor to neurocranium [PMID:16313393]" xsd:string [Term] id: UBERON:0009618 name: trunk paraxial mesoderm namespace: uberon synonym: "trunk and cervical paraxial mesenchyme" EXACT [EHDAA2:0002094] synonym: "trunk paraxial mesenchyme" RELATED [https://github.com/obophenotype/uberon/issues/30] xref: EHDAA2:0002094 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0005256 ! trunk mesenchyme relationship: part_of UBERON:0003077 ! paraxial mesoderm relationship: part_of UBERON:0005256 {source="EHDAA2"} ! trunk mesenchyme [Term] id: UBERON:0009657 name: artery of lip namespace: uberon synonym: "labial artery" BROAD [MA:0001987] synonym: "labial artery" EXACT [MA:0001987] xref: EMAPA:37092 {source="MA:th"} xref: http://linkedlifedata.com/resource/umls/id/C1708633 xref: MA:0001987 xref: NCIT:C52947 xref: UMLS:C1708633 {source="ncithesaurus:Labial_Artery"} is_a: UBERON:0001637 ! artery intersection_of: UBERON:0001637 ! artery intersection_of: supplies UBERON:0001833 ! lip relationship: part_of RO:0002577 ! system relationship: supplies UBERON:0001833 ! lip [Term] id: UBERON:0009661 name: midbrain nucleus namespace: uberon def: "Nucleus located in the midbrain." [ZFIN:curator] xref: SCTID:279285003 xref: TAO:0002209 xref: ZFA:0001665 is_a: UBERON:0002308 ! nucleus of brain intersection_of: UBERON:0002308 ! nucleus of brain intersection_of: part_of UBERON:0001891 ! midbrain relationship: part_of UBERON:0001891 ! midbrain [Term] id: UBERON:0009662 name: hindbrain nucleus namespace: uberon def: "Nucleus located within the hindbrain." [ZFIN:curator] xref: TAO:0002177 xref: ZFA:0001658 is_a: UBERON:0002308 ! nucleus of brain intersection_of: UBERON:0002308 ! nucleus of brain intersection_of: part_of UBERON:0002028 ! hindbrain relationship: part_of UBERON:0002028 ! hindbrain [Term] id: UBERON:0009712 name: endocardium of right ventricle namespace: uberon def: "Any endocardium that is part of the right ventricle of the heart." [http://orcid.org/0000-0002-6601-2165] synonym: "endocardial lining of right ventricle" RELATED [EMAPA:17341] synonym: "right ventricle endocardial tissue" RELATED [VHOG:0001235] synonym: "right ventricle endocardium" EXACT [VHOG:0001235] synonym: "right ventricular endocardium" EXACT [FMA:9536] xref: EHDAA2:0002188 xref: EMAPA:17341 xref: FMA:9536 xref: http://www.snomedbrowser.com/Codes/Details/8911002 xref: NCIT:C102343 xref: SCTID:8911002 xref: VHOG:0001235 is_a: CARO:0000003 ! connected anatomical structure is_a: UBERON:0001081 ! endocardium of ventricle is_a: UBERON:0010314 ! structure with developmental contribution from neural crest intersection_of: UBERON:0001081 ! endocardium of ventricle intersection_of: part_of UBERON:0002080 ! heart right ventricle relationship: attaches_to UBERON:0006567 {source="FMA"} ! right ventricle myocardium relationship: develops_from UBERON:0004706 {source="EHDAA2"} ! bulbus cordis relationship: part_of UBERON:0002080 ! heart right ventricle property_value: UBPROP:0000001 "Endocardium of ventricle which is continuous tricuspid valve, pulmonary valve and with the tunica intima of the pulmonary trunk." xsd:string {source="FMA:9536"} [Term] id: UBERON:0009713 name: endocardium of left ventricle namespace: uberon def: "Any endocardium that is part of the left ventricle of the heart." [http://orcid.org/0000-0002-6601-2165] synonym: "endocardial lining of left ventricle" RELATED [EMAPA:17338] synonym: "left ventricle endocardial tissue" RELATED [VHOG:0001233] synonym: "left ventricle endocardium" EXACT [VHOG:0001233] synonym: "left ventricular endocardium" EXACT [FMA:9559] xref: EHDAA2:0002182 xref: EMAPA:17338 xref: FMA:9559 xref: http://www.snomedbrowser.com/Codes/Details/191004004 xref: SCTID:191004004 xref: VHOG:0001233 is_a: CARO:0000003 ! connected anatomical structure is_a: UBERON:0001081 ! endocardium of ventricle intersection_of: UBERON:0001081 ! endocardium of ventricle intersection_of: part_of UBERON:0002084 ! heart left ventricle relationship: attaches_to UBERON:0006566 {source="FMA"} ! left ventricle myocardium relationship: part_of UBERON:0002084 ! heart left ventricle property_value: UBPROP:0000001 "Endocardium of ventricle which is continuous with mitral valve, aortic valve, atrioventricular septum and the tunica intima of the aorta." xsd:string {source="FMA:9559"} [Term] id: UBERON:0009715 name: stomodeal lumen namespace: uberon def: "An anatomical cavity that surrounded_by a stomodeum." [OBOL:automatic] synonym: "lumen of stomatodaeum" EXACT [] synonym: "lumen of stomodeum" EXACT [] synonym: "stomatodeal cavity" EXACT [] is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000464 ! anatomical space intersection_of: UBERON:0000464 ! anatomical space intersection_of: luminal_space_of UBERON:0000930 ! stomodeum relationship: luminal_space_of UBERON:0000930 ! stomodeum relationship: part_of UBERON:0000930 ! stomodeum [Term] id: UBERON:0009722 name: entire pharyngeal arch endoderm namespace: uberon synonym: "pharyngeal arch endoderm" RELATED [EHDAA2:0004621] xref: EHDAA2:0004621 xref: EMAPA:32754 xref: FMA:293087 is_a: UBERON:0005291 ! embryonic tissue is_a: UBERON:0005911 ! endo-epithelium is_a: UBERON:0015833 ! foregut epithelium relationship: part_of UBERON:0003929 {source="EHDAA2"} ! digestive tract epithelium relationship: part_of UBERON:0008814 ! pharyngeal arch system [Term] id: UBERON:0009751 name: cardiac mesenchyme namespace: uberon def: "The embryonic connective tissue made up of loosely aggregated mesenchymal cells, supported by interlaminar jelly, that gives rise to the developing cardiac structures" [MP:0011264] def: "The embryonic connective tissue made up of loosely aggregated mesenchymal cells, supported by interlaminar jelly, that gives rise to the developing cardiac structures." [MP:0011264] subset: pheno_slim synonym: "heart mesenchyme" EXACT [EMAPA:36438] xref: EHDAA2:0004162 xref: EMAPA:36438 is_a: UBERON:0003104 ! mesenchyme is_a: UBERON:0004120 ! mesoderm-derived structure intersection_of: UBERON:0003104 ! mesenchyme intersection_of: part_of UBERON:0000948 ! heart relationship: part_of UBERON:0000948 ! heart property_value: editor_note "decide whether to merge with cardiac mesoderm. In EHDAA2 this lasts CS12->unbounded, includes mesenchyme of individual components as parts" xsd:string [Term] id: UBERON:0009758 name: abdominal ganglion namespace: uberon def: "A ganglion that is part of a abdominal segment of trunk." [OBOL:automatic] xref: SCTID:280508003 is_a: UBERON:0005173 ! abdominal segment element is_a: UBERON:0007134 ! trunk ganglion intersection_of: UBERON:0000045 ! ganglion intersection_of: part_of UBERON:0002417 ! abdominal segment of trunk [Term] id: UBERON:0009778 name: pleural sac namespace: uberon def: "A serous sac that has the pleura and the pleural cavity as parts." [https://github.com/obophenotype/uberon/issues/86] subset: non_informative xref: EHDAA2:0004737 xref: FMA:9690 xref: SCTID:361996004 is_a: UBERON:0004119 ! endoderm-derived structure is_a: UBERON:0005906 ! serous sac is_a: UBERON:0015212 ! lateral structure intersection_of: UBERON:0005906 ! serous sac intersection_of: has_part UBERON:0000977 ! pleura intersection_of: has_part UBERON:0002402 ! pleural cavity relationship: has_part UBERON:0000977 ! pleura relationship: has_part UBERON:0002402 ! pleural cavity relationship: in_lateral_side_of UBERON:0001004 {source="FMA-abduced-lr"} ! respiratory system relationship: part_of UBERON:0001558 {source="FMA"} ! lower respiratory tract property_value: UBPROP:0000012 "despite its name the class EHDAA2:0004737 is not a true cavity, it corresponds to what we call the sac" xsd:string {external_ontology="EHDAA2"} [Term] id: UBERON:0009842 name: glandular acinus namespace: uberon def: "The many-lobed berry cluster of cells that is the terminous of a gland where the secretion is produced is acinar in form." [Wikipedia:Acinus] def: "The many-lobed berry cluster of cells that is the terminous of a gland where the secretion is produced is acinar in form." [http://en.wikipedia.org/wiki/Acinus] synonym: "acini" RELATED PLURAL [Wikipedia:Acinus] synonym: "acini" RELATED PLURAL [http://en.wikipedia.org/wiki/Acinus] synonym: "acinus" BROAD [FMA:55588] xref: FMA:55588 xref: http://en.wikipedia.org/wiki/Acinus xref: Wikipedia:Acinus is_a: UBERON:0034922 ! cell cluster intersection_of: UBERON:0034922 ! cell cluster intersection_of: has_part CL:0000151 ! secretory cell intersection_of: has_quality PATO:0002422 ! acinar intersection_of: part_of UBERON:0002530 ! gland relationship: has_part CL:0000151 ! secretory cell relationship: has_quality PATO:0002422 ! acinar relationship: part_of UBERON:0002530 ! gland property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/9/99/Gray1105.png xsd:anyURI property_value: UBPROP:0000007 "acinar" xsd:string [Term] id: UBERON:0009854 name: digestive tract diverticulum namespace: uberon def: "Branch or outpocketing of the digestive tract." [https://orcid.org/0000-0002-6601-2165] synonym: "diverticulum of gut" RELATED [FBbt:00100316] synonym: "intestinal pouch" RELATED [] xref: FBbt:00100316 is_a: UBERON:0004921 ! subdivision of digestive tract is_a: UBERON:0009856 ! sac intersection_of: UBERON:0009856 ! sac intersection_of: part_of UBERON:0001555 ! digestive tract [Term] id: UBERON:0009856 name: sac namespace: uberon synonym: "diverticulum" RELATED [] synonym: "pouch" EXACT [] xref: galen:Diverticulum is_a: UBERON:0000061 ! anatomical structure intersection_of: UBERON:0000061 ! anatomical structure intersection_of: has_quality PATO:0001987 ! saccular relationship: has_quality PATO:0001987 ! saccular [Term] id: UBERON:0009870 name: zone of stomach namespace: uberon alt_id: UBERON:0009034 def: "A division of the stomach. The stomach can be divided based on mucosal histology (glandular epithelium and gastric glands) and the relative position and type of gastric gland." [ISBN:0073040584, Wikipedia:Stomach#Sections] synonym: "gastric zone" EXACT [FMA:14558] synonym: "region of stomach" EXACT [] synonym: "section of stomach" EXACT [] xref: EMAPA:35821 xref: FMA:14558 xref: MA:0002561 xref: SCTID:245415005 xref: Wikipedia:Stomach#Sections is_a: UBERON:0004921 ! subdivision of digestive tract is_a: UBERON:0034944 ! zone of organ intersection_of: UBERON:0034944 ! zone of organ intersection_of: part_of UBERON:0000945 ! stomach relationship: part_of UBERON:0000945 ! stomach property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/2/29/Regions_of_stomach.svg xsd:anyURI property_value: editor_note "We follow Kardong in defining stomach regions by gland, but we also include 'body of stomach'. In future we may want to have different partitions of the stomach" xsd:string [Term] id: UBERON:0009881 name: anterior lateral plate mesoderm namespace: uberon subset: efo_slim synonym: "ALPM" EXACT [ZFA:0005041] xref: EFO:0003704 xref: TAO:0005041 xref: ZFA:0005041 is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0005291 ! embryonic tissue relationship: part_of UBERON:0003081 {source="ZFA"} ! lateral plate mesoderm [Term] id: UBERON:0009889 name: secondary heart field namespace: uberon def: "A specific region of the lateral mesoderm that will form the majority of the mesodermal component of the right ventricle, arterial pole (outflow tract) and venous pole (inflow tract)." [GO:0003139, GOC:mtg_heart, GOC:rl] synonym: "anterior heart field" EXACT [http://www.ncbi.nlm.nih.gov/pubmed/17276708] synonym: "anterior heart field" EXACT [PMID:17276708] synonym: "anterior/second heart field" EXACT [Geisha:syn, NCBITaxon:8782] synonym: "second heart field" EXACT [XAO:0004186] synonym: "SHF" RELATED [XAO:0004186] xref: XAO:0004186 is_a: UBERON:0002050 ! embryonic structure is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0005291 ! embryonic tissue is_a: UBERON:0007688 ! anlage relationship: anterior_to UBERON:0004140 {source="PMID:17276708"} ! primary heart field relationship: anterior_to UBERON:0004140 {source="http://www.ncbi.nlm.nih.gov/pubmed/17276708"} ! primary heart field relationship: dorsal_to UBERON:0004140 {source="PMID:17276708"} ! primary heart field relationship: dorsal_to UBERON:0004140 {source="http://www.ncbi.nlm.nih.gov/pubmed/17276708"} ! primary heart field relationship: only_in_taxon NCBITaxon:7742 ! Vertebrata relationship: part_of UBERON:0003081 {source="GO:0003129"} ! lateral plate mesoderm property_value: UBPROP:0000001 "extra-cardiac population of mesodermal progenitors that gives rise to the right ventricle and outflow tract[PMID:17276708]." xsd:string {source="http://www.ncbi.nlm.nih.gov/pubmed/17276708"} property_value: UBPROP:0000001 "extra-cardiac population of mesodermal progenitors that gives rise to the right ventricle and outflow tract[PMID:17276708]." xsd:string {source="PMID:17276708"} property_value: UBPROP:0000008 "In general, the two studies in chick concluded that the contribution of the SHF was to the outflow tract, whereas the mouse work suggested that the second lineage contributed more broadly to the heart, including the outflow tract and much or all of the right ventricle [11-14]. These different conclusions may represent differences in the experimental approaches used or may represent bona fide differences in the contribution of the second lineage to the hearts of birds compared to mammals [11]. Alternatively, the secondary/anterior heart fields described in the chick may represent a subset of a broader field that makes a more substantial contribution to the heart, as the mouse studies suggested" xsd:string {source="PMID:17276708"} property_value: UBPROP:0000008 "In general, the two studies in chick concluded that the contribution of the SHF was to the outflow tract, whereas the mouse work suggested that the second lineage contributed more broadly to the heart, including the outflow tract and much or all of the right ventricle [11-14]. These different conclusions may represent differences in the experimental approaches used or may represent bona fide differences in the contribution of the second lineage to the hearts of birds compared to mammals [11]. Alternatively, the secondary/anterior heart fields described in the chick may represent a subset of a broader field that makes a more substantial contribution to the heart, as the mouse studies suggested" xsd:string {source="http://www.ncbi.nlm.nih.gov/pubmed/17276708"} property_value: UBPROP:0000011 "in mouse has left ventricular identity[PMID:22855565]" xsd:string [Term] id: UBERON:0009891 name: facial mesenchyme namespace: uberon def: "Mesenchyme that is part of a developing face." [OBOL:automatic] synonym: "face mesenchyme" EXACT [] synonym: "mesenchyme of face" EXACT [] xref: EMAPA:35337 xref: FMA:302884 is_a: UBERON:0005253 ! head mesenchyme intersection_of: UBERON:0003104 ! mesenchyme intersection_of: part_of UBERON:0001456 ! face relationship: part_of UBERON:0001456 ! face [Term] id: UBERON:0009920 name: optic neural crest namespace: uberon xref: EHDAA2:0001315 xref: EHDAA:1122 is_a: UBERON:0007213 ! mesenchyme derived from head neural crest is_a: UBERON:0007530 {source="EHDAA2"} ! migrating mesenchyme population relationship: part_of UBERON:0007213 {source="EHDAA2"} ! mesenchyme derived from head neural crest [Term] id: UBERON:0009953 name: post-embryonic organism namespace: uberon def: "A multicellular organism that existence_starts_with a post-embryonic stage." [OBOL:automatic] synonym: "post-hatching organism" NARROW [https://orcid.org/0000-0002-6601-2165] synonym: "post-natal organism" NARROW [https://orcid.org/0000-0002-6601-2165] synonym: "postnatal mouse" NARROW [MA:0002405] synonym: "postnatal organism" EXACT [] synonym: "TS28 mouse" NARROW [MA:0002405] xref: MA:0002405 is_a: UBERON:0000468 ! multicellular organism intersection_of: UBERON:0000468 ! multicellular organism intersection_of: existence_starts_with UBERON:0000092 ! post-embryonic stage relationship: existence_starts_with UBERON:0000092 ! post-embryonic stage property_value: seeAlso https://github.com/obophenotype/uberon/issues/667 xsd:anyURI [Term] id: UBERON:0009955 name: neurogenic placode namespace: uberon def: "Cranial ectodermal placode with potential to develop into a component of the nervous system, such as nerves or ganglia." [http://orcid.org/0000-0002-6601-2165, PMID:11523831] subset: efo_slim synonym: "neurogenic placodes" EXACT PLURAL [ZFA:0001309] synonym: "placodae neurogenicae" RELATED LATIN [Wikipedia:Neurogenic_placodes] xref: EFO:0003460 xref: TAO:0001309 xref: Wikipedia:Neurogenic_placodes xref: XAO:0004620 xref: ZFA:0001309 is_a: UBERON:0002546 {source="cjm"} ! cranial placode intersection_of: UBERON:0005085 ! ectodermal placode intersection_of: has_potential_to_developmentally_contribute_to CL:0000540 ! neuron intersection_of: has_potential_to_developmentally_contribute_to UBERON:0001714 ! cranial ganglion intersection_of: has_potential_to_developmentally_contribute_to UBERON:0001785 ! cranial nerve disjoint_from: UBERON:0011814 ! non-neurogenic ectodermal placode relationship: develops_from UBERON:2007013 ! preplacodal ectoderm relationship: has_potential_to_developmentally_contribute_to CL:0000540 ! neuron relationship: has_potential_to_developmentally_contribute_to UBERON:0001714 ! cranial ganglion relationship: has_potential_to_developmentally_contribute_to UBERON:0001785 ! cranial nerve property_value: IAO:0000232 "Includes: trigeminal, otic, lateral line and epibranchial placodes." xsd:string property_value: UBPROP:0000008 "While some sensory placodes (otic and olfactory) may have homologues in basal chordates (Wada et al., 1998), the so-called neurogenenic placodes (trigeminal, otic, lateral line and epibranchial placodes) appear to have emerged at a later time (Shimeld and Holland, 2000)" xsd:string {source="NCBIBook:NBK53171"} [Term] id: UBERON:0010000 name: multicellular anatomical structure namespace: uberon def: "An anatomical structure that has more than one cell as a part." [CARO:0010000] subset: upper_level synonym: "multicellular structure" EXACT [FBbt:00100313] xref: CARO:0010000 xref: FBbt:00100313 is_a: UBERON:0000061 ! anatomical structure intersection_of: UBERON:0000061 ! anatomical structure intersection_of: has_quality PATO:0001993 ! multicellular relationship: has_part CL:0000000 ! cell relationship: has_quality PATO:0001993 ! multicellular [Term] id: UBERON:0010001 name: cell cluster organ namespace: uberon def: "A small cluster of cells of various types which form a discrete structure, largely delimited by a morphological boundary and whose components work together to make the whole structure capable of a specific function." [CARO:0010001] comment: Examples include arthropod sensilla. subset: upper_level xref: CARO:0010001 xref: FBbt:00007229 is_a: UBERON:0000062 {source="CARO"} ! organ is_a: UBERON:0034922 {source="CARO"} ! cell cluster disjoint_from: UBERON:0011216 {source="FBbt"} ! organ system subdivision [Term] id: UBERON:0010031 name: 6th arch mesenchyme namespace: uberon def: "Mesenchyme that is part of a pharyngeal arch 6." [OBOL:automatic] synonym: "6th branchial arch mesenchyme" RELATED [] synonym: "6th pharyngeal arch mesenchyme" EXACT [] synonym: "pharyngeal arch 6 mesenchyme" RELATED [] xref: EHDAA2:0004076 xref: EMAPA:32765 xref: FMA:318209 is_a: UBERON:0009494 ! pharyngeal arch mesenchymal region intersection_of: UBERON:0003104 ! mesenchyme intersection_of: part_of UBERON:0003117 ! pharyngeal arch 6 relationship: part_of UBERON:0003117 ! pharyngeal arch 6 [Term] id: UBERON:0010039 name: food storage organ namespace: uberon def: "An organ of the digestive tract that is capable of retaining and storing food." [https://orcid.org/0000-0002-6601-2165] subset: functional_classification subset: grouping_class xref: BSA:0000123 xref: TADS:0000172 xref: TGMA:0001041 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0013765 ! digestive system element relationship: part_of UBERON:0001555 ! digestive tract relationship: part_of UBERON:0005409 ! alimentary part of gastrointestinal system property_value: IAO:0000232 "This is a very broad functionally defined grouping class that collects disparate structures from insects to vertebrates" xsd:string [Term] id: UBERON:0010042 name: 1st arch mesenchyme namespace: uberon def: "Mesenchyme that is part of a pharyngeal arch 1." [OBOL:automatic] synonym: "mesenchyme of 1st arch" EXACT [EMAPA:16128] xref: EMAPA:16128 is_a: UBERON:0009494 ! pharyngeal arch mesenchymal region intersection_of: UBERON:0003104 ! mesenchyme intersection_of: part_of UBERON:0004362 ! pharyngeal arch 1 relationship: part_of UBERON:0004362 ! pharyngeal arch 1 [Term] id: UBERON:0010046 name: entire pharyngeal arch associated mesenchyme namespace: uberon def: "The sum total of mesenchymal tissue in the pharyngeal arch region. Pharyngeal mesenchyme is undifferentiated, loose connective tissue derived mostly from mesoderm, and also contains ectodermally derived neural crest cells." [https://orcid.org/0000-0002-6601-2165, XAO:0004524] synonym: "associated mesenchyme of pharyngeal region" EXACT [EMAPA:16550] synonym: "entire branchial arch associated mesenchyme" EXACT [https://orcid.org/0000-0002-6601-2165] synonym: "pharyngeal arch associated mesenchyme" EXACT [EHDAA2:0001459] xref: EHDAA2:0001459 xref: EMAPA:16550 xref: XAO:0004524 is_a: UBERON:0005291 ! embryonic tissue is_a: UBERON:0007524 {source="EHDAA2"} ! dense mesenchyme tissue is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: has_developmental_contribution_from UBERON:0003099 {source="cjm"} ! cranial neural crest relationship: part_of UBERON:0008814 {source="EHDAA2"} ! pharyngeal arch system [Term] id: UBERON:0010047 name: oral gland namespace: uberon alt_id: UBERON:0003293 def: "Gland of the epithelium lining the oral cavity. The most common are the salivary glands." [ISBN:0073040584] synonym: "buccal gland" NARROW [] synonym: "gland of oral opening" RELATED [] synonym: "gland of oral region" RELATED [] synonym: "mouth gland" RELATED [] synonym: "oral cavity gland" RELATED [] synonym: "oral region gland" RELATED [] xref: EHDAA2:0001327 xref: EHDAA:2181 xref: EMAPA:16572 xref: EMAPA:16723 xref: VHOG:0000652 is_a: UBERON:0002365 ! exocrine gland is_a: UBERON:0003408 ! gland of digestive tract intersection_of: UBERON:0002530 ! gland intersection_of: part_of UBERON:0000165 ! mouth relationship: part_of UBERON:0000165 ! mouth property_value: UBPROP:0000012 "Note that Kardong classifies lacrimal glands here. EHDAA2 includes pituitary primordium, as this develops from oral mucosa" xsd:string {external_ontology="EHDAA2"} [Term] id: UBERON:0010077 name: cuboidal epithelium namespace: uberon def: "An epithelium consisting of cuboidal epithelial cells." [http://en.wikipedia.org/wiki/Cuboidal_epithelium] def: "An epithelium consisting of cuboidal epithelial cells." [Wikipedia:Cuboidal_epithelium] xref: Cuboidal:epithelium xref: http://linkedlifedata.com/resource/umls/id/C0682577 xref: NCIT:C32415 xref: UMLS:C0682577 {source="ncithesaurus:Cuboidal_Epithelium"} xref: Wikipedia:Cuboidal_epithelium is_a: UBERON:0000483 ! epithelium property_value: editor_note "TODO - coordinate with CL, add cuboidal cell" xsd:string property_value: UBPROP:0000012 "in NCIT this is glandular" xsd:string {external_ontology="NCIT"} [Term] id: UBERON:0010083 name: future dermis namespace: uberon def: "Mesenchyme that has the potential to develop into a dermis." [OBOL:automatic] xref: EHDAA2:0000598 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0003104 ! mesenchyme intersection_of: UBERON:0003104 ! mesenchyme intersection_of: has_potential_to_develop_into UBERON:0002067 ! dermis relationship: develops_from UBERON:0003089 {source="EHDAA2"} ! sclerotome relationship: develops_from UBERON:0004016 {source="XAO"} ! dermatome relationship: has_potential_to_develop_into UBERON:0002067 ! dermis relationship: part_of UBERON:0002199 {source="EHDAA2"} ! integument property_value: editor_note "check development" xsd:string [Term] id: UBERON:0010084 name: future diaphragm namespace: uberon def: "A structure that will develop into a diaphragm." [http://orcid.org/0000-0002-6601-2165] xref: EHDAA2:0000599 is_a: CARO:0000003 ! connected anatomical structure is_a: UBERON:0006598 ! presumptive structure intersection_of: UBERON:0006598 ! presumptive structure intersection_of: has_potential_to_develop_into UBERON:0001103 ! diaphragm relationship: developmentally_induced_by UBERON:0009133 {source="PMID:23586979"} ! pleuroperitoneal membrane relationship: develops_from UBERON:0005594 {source="PMID:23586979"} ! head somite relationship: has_potential_to_develop_into UBERON:0001103 ! diaphragm relationship: located_in UBERON:0002323 {source="EHDAA2"} ! coelemic cavity lumen [Term] id: UBERON:0010092 name: future metencephalon namespace: uberon def: "A developing anatomical structure that has the potential to develop into a metencephalon." [OBOL:automatic] xref: EHDAA2:0000623 is_a: UBERON:0006598 ! presumptive structure intersection_of: UBERON:0006598 ! presumptive structure intersection_of: has_potential_to_develop_into UBERON:0001895 ! metencephalon relationship: has_potential_to_develop_into UBERON:0001895 ! metencephalon relationship: part_of UBERON:0002028 ! hindbrain [Term] id: UBERON:0010096 name: future myelencephalon namespace: uberon def: "A developing anatomical structure that has the potential to develop into a myelencephalon." [OBOL:automatic] xref: EHDAA2:0000640 is_a: UBERON:0006598 ! presumptive structure intersection_of: UBERON:0006598 ! presumptive structure intersection_of: has_potential_to_develop_into UBERON:0005290 ! myelencephalon relationship: has_potential_to_develop_into UBERON:0005290 ! myelencephalon relationship: part_of UBERON:0002028 ! hindbrain [Term] id: UBERON:0010125 name: future superior salivatory nucleus namespace: uberon def: "A gray matter that has the potential to develop into a superior salivatory nucleus." [OBOL:automatic] xref: EHDAA2:0004644 is_a: UBERON:0002020 ! gray matter intersection_of: UBERON:0002020 ! gray matter intersection_of: has_potential_to_develop_into UBERON:0002149 ! superior salivatory nucleus relationship: has_potential_to_develop_into UBERON:0002149 ! superior salivatory nucleus [Term] id: UBERON:0010131 name: conducting tissue of heart namespace: uberon def: "Any portion of cardiac muscle tissue that is part of the conducting system of heart or the Purkinje fibers." [http://orcid.org/0000-0002-6601-2165] synonym: "specialized conducting tissue of heart" EXACT [FMA:83378] synonym: "specialized muscle tissue of heart" EXACT [FMA:83378] xref: EHDAA2:0004528 xref: FMA:83378 is_a: UBERON:0001133 ! cardiac muscle tissue [Term] id: UBERON:0010133 name: neuroendocrine gland namespace: uberon def: "Any of the organized aggregations of cells that function as secretory or excretory organs and that release hormones in response to neural stimuli." [ISBN:0-683-40008-8, MP:0000631] subset: pheno_slim synonym: "neuroendocrine system gland" EXACT [] xref: MA:0000720 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0002368 ! endocrine gland intersection_of: UBERON:0002368 ! endocrine gland intersection_of: part_of UBERON:0001016 ! nervous system relationship: has_part CL:0000165 ! neuroendocrine cell relationship: part_of UBERON:0001016 ! nervous system [Term] id: UBERON:0010136 name: epithelial sheet namespace: uberon def: "An epithelial sheet is a flat surface consisting of closely packed epithelial cells." [GO:0002011] is_a: UBERON:0000483 ! epithelium [Term] id: UBERON:0010161 name: lumen of blood vessel namespace: uberon def: "An anatomical cavity that surrounded_by a blood vessel." [OBOL:automatic] synonym: "blood vessel lumen" EXACT [] xref: FMA:312610 xref: http://www.snomedbrowser.com/Codes/Details/91747007 xref: SCTID:91747007 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000464 ! anatomical space intersection_of: UBERON:0000464 ! anatomical space intersection_of: luminal_space_of UBERON:0001981 ! blood vessel relationship: luminal_space_of UBERON:0001981 ! blood vessel relationship: part_of UBERON:0001981 ! blood vessel [Term] id: UBERON:0010188 name: protuberance namespace: uberon def: "A roughly circular bulge in a surface." [EHDAA2:0003250] xref: AEO:0000205 xref: EHDAA2:0003250 xref: FMA:82506 is_a: UBERON:0034944 {source="FMA"} ! zone of organ property_value: editor_note "requires review" xsd:string [Term] id: UBERON:0010190 name: pair of dorsal aortae namespace: uberon def: "The paired arterial structures of the embryo that supplies each developing somite via efferent segmental arteries; the dorsal aortae articulate with the umbilical arteries, which return mixed blood to the villi of the chorion for reoxygenation." [ISBN:0-914294-08-3, MP:0004787] subset: pheno_slim synonym: "paired dorsal aortae" EXACT [EHDAA2:0000410] xref: EHDAA2:0000410 xref: EMAPA:18606 xref: MA:0000476 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000481 {source="EHDAA2"} ! multi-tissue structure relationship: has_part UBERON:0005805 ! dorsal aorta relationship: part_of UBERON:0010191 {source="EHDAA2"} ! aortic system [Term] id: UBERON:0010191 name: aortic system namespace: uberon xref: EHDAA2:0004512 is_a: UBERON:0011216 ! organ system subdivision relationship: only_in_taxon NCBITaxon:7742 ! Vertebrata relationship: part_of UBERON:0004571 {source="Wikipedia"} ! systemic arterial system [Term] id: UBERON:0010192 name: genital artery namespace: uberon def: "One of the laterally paired arteries that supply the gonads." [http://en.wikipedia.org/wiki/Gonadal_artery, ISBN:0073040584] def: "One of the laterally paired arteries that supply the gonads." [ISBN:0073040584, Wikipedia:Gonadal_artery] synonym: "gonadal artery" EXACT [] xref: Gonadal:artery xref: Wikipedia:Gonadal_artery is_a: UBERON:0012254 ! abdominal aorta artery intersection_of: UBERON:0004573 ! systemic artery intersection_of: supplies UBERON:0000991 ! gonad relationship: supplies UBERON:0000991 ! gonad [Term] id: UBERON:0010199 name: bona-fide anatomical boundary namespace: uberon def: "An anatomical boundary that corresponds to some physical discontinuity." [CARO:0001004] comment: One might argue that all boundaries are actually fiat in the sense that there must be some fiat element at a fine enough scale of granularity. This ontology choses to ignore this issue as below the level of granularity relevant to anatomy. (DOS121102) subset: upper_level xref: CARO:0001004 is_a: UBERON:0000466 {source="CARO"} ! immaterial anatomical entity [Term] id: UBERON:0010227 name: future cardiac atrium namespace: uberon def: "Multi-tissue structure that is part of the heart tube and will become the cardiac atrium." [ZFA:0001718] synonym: "presumptive atrium heart tube" EXACT [ZFA:0001718] synonym: "primordial atrium" EXACT [FMA:71005] synonym: "primordial cardiac atrium" EXACT [FMA:71005] xref: FMA:71005 xref: TAO:0002228 xref: ZFA:0001718 is_a: UBERON:0006598 ! presumptive structure relationship: has_potential_to_develop_into UBERON:0002081 ! cardiac atrium relationship: part_of UBERON:0004141 {source="ZFA"} ! heart tube [Term] id: UBERON:0010230 name: eyeball of camera-type eye namespace: uberon def: "The core globe-shaped component of the camera-type eye." [UBERON:cjm] subset: pheno_slim synonym: "bulbus oculi" EXACT [] synonym: "eye" RELATED INCONSISTENT [] synonym: "eye globe" EXACT [VHOG:0001616] synonym: "eyeball" EXACT [FMA:12513] synonym: "globe" RELATED [HP:0100886, MIAA:0000283] xref: FMA:12513 xref: http://en.wikipedia.org/wiki/Globe_(human_eye) xref: http://www.snomedbrowser.com/Codes/Details/244486005 xref: MIAA:0000283 xref: SCTID:244486005 xref: VHOG:0001616 xref: Wikipedia:Globe_(human_eye) is_a: UBERON:0000020 ! sense organ is_a: UBERON:0004121 ! ectoderm-derived structure relationship: contributes_to_morphology_of UBERON:0000019 ! camera-type eye relationship: part_of UBERON:0000019 {source="FMA"} ! camera-type eye property_value: IAO:0000232 "See notes for camera-type eye" xsd:string property_value: UBPROP:0000202 FMA:264089 [Term] id: UBERON:0010243 name: merocrine gland namespace: uberon def: "An exocrine gland whose secretions are excreted via exocytosis from secretory cells into an epithelial-walled duct or ducts and thence onto a bodily surface or into the lumen; the gland releases its product and no part of the gland is lost or damaged." [MGI:anna, MP:0013544, Wikipedia:Merocrine] subset: pheno_slim xref: BTO:0002324 xref: MA:0003041 xref: Wikipedia:Merocrine is_a: UBERON:0002365 ! exocrine gland intersection_of: UBERON:0002365 ! exocrine gland intersection_of: capable_of GO:0006887 ! exocytosis relationship: capable_of GO:0006887 ! exocytosis property_value: UBPROP:0000007 "merocrine" xsd:string [Term] id: UBERON:0010252 name: 1st arch mandibular mesenchyme from neural crest namespace: uberon def: "Mesenchyme that develops_from a neural crest and is part of a 1st arch mandibular mesenchyme." [OBOL:automatic] xref: EHDAA2:0000037 is_a: UBERON:0009584 ! 1st arch mandibular mesenchyme is_a: UBERON:0010259 {source="inferred"} ! 1st arch mesenchyme from neural crest intersection_of: UBERON:0003104 ! mesenchyme intersection_of: develops_from UBERON:0002342 ! neural crest intersection_of: part_of UBERON:0009584 ! 1st arch mandibular mesenchyme relationship: develops_from UBERON:0007098 ! mandibular neural crest relationship: part_of UBERON:0009584 {source="EHDAA2"} ! 1st arch mandibular mesenchyme relationship: part_of UBERON:0010258 {source="EHDAA2"} ! mesenchyme from rhombencephalic neural crest [Term] id: UBERON:0010256 name: 4th arch mesenchyme from neural crest namespace: uberon def: "Mesenchyme that develops_from a neural crest and is part of a 4th arch mesenchyme." [OBOL:automatic] synonym: "4th pharyngeal arch mesenchyme derived from neural crest" EXACT [VHOG:0000580] synonym: "branchial arch 4 mesenchyme from neural crest" RELATED [] synonym: "mesenchyme derived from neural crest of mesenchyme of 4th arch" EXACT [EMAPA:16772] synonym: "neural crest derived arch 4 mesenchyme" EXACT [] synonym: "pharyngeal arch 4 mesenchyme from neural crest" EXACT [] xref: EHDAA2:0000098 xref: EMAPA:16772 xref: VHOG:0000580 is_a: UBERON:0005691 ! 4th arch mesenchyme is_a: UBERON:0010258 ! mesenchyme from rhombencephalic neural crest is_a: UBERON:0010359 ! pharyngeal arch mesenchyme from neural crest intersection_of: UBERON:0003104 ! mesenchyme intersection_of: develops_from UBERON:0002342 ! neural crest intersection_of: part_of UBERON:0005691 ! 4th arch mesenchyme relationship: part_of UBERON:0005691 {source="EHDAA2"} ! 4th arch mesenchyme relationship: part_of UBERON:0010258 {source="EHDAA2"} ! mesenchyme from rhombencephalic neural crest property_value: UBPROP:0000003 "In all vertebrates, the pharyngeal apparatus develops from a series of bulges found on the lateral surface of the head, the pharyngeal arches, which consist of a number of different embryonic cell types. Each arch has an external covering of ectoderm and inner covering of endoderm, and between these a mesenchymal filling of neural crest with a central core of mesoderm.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000580", ontology="VHOG", source="http://bgee.unil.ch/", source="DOI:10.1046/j.1469-7580.2001.19910133.x Graham A. The development and evolution of the pharyngeal arches. J Anat (2001)"} [Term] id: UBERON:0010257 name: 6th arch mesenchyme from neural crest namespace: uberon def: "Mesenchyme that develops_from a neural crest and is part of a 6th arch mesenchyme." [OBOL:automatic] synonym: "branchial arch 6 mesenchyme from neural crest" RELATED [] synonym: "neural crest derived arch 6 mesenchyme" EXACT [] synonym: "pharyngeal arch 6 mesenchyme from neural crest" EXACT [] xref: EHDAA2:0004077 is_a: UBERON:0010031 ! 6th arch mesenchyme is_a: UBERON:0010258 ! mesenchyme from rhombencephalic neural crest is_a: UBERON:0010359 ! pharyngeal arch mesenchyme from neural crest intersection_of: UBERON:0003104 ! mesenchyme intersection_of: develops_from UBERON:0002342 ! neural crest intersection_of: part_of UBERON:0010031 ! 6th arch mesenchyme relationship: part_of UBERON:0010031 {source="EHDAA2"} ! 6th arch mesenchyme relationship: part_of UBERON:0010258 {source="EHDAA2"} ! mesenchyme from rhombencephalic neural crest [Term] id: UBERON:0010258 name: mesenchyme from rhombencephalic neural crest namespace: uberon def: "Mesenchyme that develops_from a rhombencephalon neural crest." [OBOL:automatic] xref: EHDAA2:0004423 is_a: UBERON:0007213 ! mesenchyme derived from head neural crest intersection_of: UBERON:0003104 ! mesenchyme intersection_of: develops_from UBERON:0003852 ! rhombencephalon neural crest relationship: develops_from UBERON:0003852 ! rhombencephalon neural crest relationship: part_of UBERON:0007213 {source="EHDAA2"} ! mesenchyme derived from head neural crest [Term] id: UBERON:0010259 name: 1st arch mesenchyme from neural crest namespace: uberon def: "Mesenchyme that develops_from a neural crest and is part of a 1st arch mesenchyme." [OBOL:automatic] synonym: "branchial arch 1 mesenchyme from neural crest" RELATED [] synonym: "mesenchyme derived from neural crest of mesenchyme of 1st arch" EXACT [EMAPA:16129] synonym: "neural crest derived arch 1 mesenchyme" EXACT [] synonym: "pharyngeal arch 1 mesenchyme from neural crest" EXACT [] xref: EMAPA:16129 is_a: UBERON:0010042 ! 1st arch mesenchyme is_a: UBERON:0010258 ! mesenchyme from rhombencephalic neural crest is_a: UBERON:0010359 ! pharyngeal arch mesenchyme from neural crest intersection_of: UBERON:0003104 ! mesenchyme intersection_of: develops_from UBERON:0002342 ! neural crest intersection_of: part_of UBERON:0010042 ! 1st arch mesenchyme relationship: part_of UBERON:0010042 ! 1st arch mesenchyme [Term] id: UBERON:0010285 name: midbrain basal plate namespace: uberon def: "Portion of tissue that is dorsolateral to the floor plate and part of the midbrain." [ZFA:0000761] subset: efo_slim synonym: "basal plate midbrain" EXACT [TAO:0000761] synonym: "basal plate midbrain region" EXACT [ZFA:0000761] xref: DHBA:12322 xref: EFO:0003567 xref: EHDAA2:0004375 xref: TAO:0000761 xref: ZFA:0000761 is_a: UBERON:0002020 {source="EHDAA2"} ! gray matter relationship: part_of UBERON:0009581 {source="EHDAA2"} ! midbrain mantle layer relationship: part_of UBERON:0010286 {source="ZFA"} ! midbrain neural tube [Term] id: UBERON:0010286 name: midbrain neural tube namespace: uberon def: "Portion of neural tube that gives rise to the midbrain." [ZFA:0007039] xref: TAO:0007039 xref: ZFA:0007039 is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0005291 ! embryonic tissue relationship: part_of UBERON:0003080 {source="ZFA"} ! anterior neural tube property_value: editor_note "we follow ZFA in temporally dividing midbrain NT from presumptive midbrain, but in future this may be collapsed" xsd:string [Term] id: UBERON:0010291 name: layer of sclera namespace: uberon def: "." [Wikipedia:Sclera#Histology] def: "." [http://en.wikipedia.org/wiki/Sclera#Histology] xref: Histology xref: Wikipedia:Sclera#Histology is_a: UBERON:0004923 ! organ component layer is_a: UBERON:0010313 ! neural crest-derived structure relationship: part_of UBERON:0001773 {source="cjm"} ! sclera [Term] id: UBERON:0010294 name: scleral endothelium namespace: uberon def: "An endothelium that is part of a sclera." [OBOL:automatic] is_a: UBERON:0001986 ! endothelium is_a: UBERON:0010291 {source="Wikipedia"} ! layer of sclera is_a: UBERON:0015808 ! eye epithelium intersection_of: UBERON:0001986 ! endothelium intersection_of: part_of UBERON:0001773 ! sclera [Term] id: UBERON:0010295 name: substantia propria of sclera namespace: uberon def: "A stroma that is part of a sclera." [OBOL:automatic] synonym: "scleral stroma" EXACT [FMA:58365] synonym: "stroma of sclera" EXACT [FMA:58365] synonym: "subsantia propria" BROAD [] synonym: "subsantia propria sclerae" EXACT [FMA:58365] synonym: "substantia propria sclerae" EXACT LATIN [FMA:58365, FMA:TA] xref: FMA:58365 xref: http://linkedlifedata.com/resource/umls/id/C1704397 xref: http://www.snomedbrowser.com/Codes/Details/368851004 xref: NCIT:C33652 xref: SCTID:368851004 xref: UMLS:C1704397 {source="ncithesaurus:Substantia_Propria"} is_a: UBERON:0003891 ! stroma is_a: UBERON:0010291 {source="Wikipedia"} ! layer of sclera intersection_of: UBERON:0003891 ! stroma intersection_of: part_of UBERON:0001773 ! sclera [Term] id: UBERON:0010299 name: scleral mesenchyme namespace: uberon def: "Mesenchyme surrounding the developing optic cup which develops into the sclera." [https://orcid.org/0000-0002-6601-2165, PMID:16496288] def: "Mesenchyme surrounding the developing optic cup which develops into the sclera." [http://www.ncbi.nlm.nih.gov/pubmed/16496288, https://orcid.org/0000-0002-6601-2165] is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0003104 ! mesenchyme intersection_of: UBERON:0003104 ! mesenchyme intersection_of: has_potential_to_develop_into UBERON:0001773 ! sclera relationship: has_potential_to_develop_into UBERON:0001773 ! sclera relationship: surrounds UBERON:0003072 ! optic cup property_value: UBPROP:0000011 "The mesenchyme surrounding the developing optic cup differentiates into the sclera, the dense fibrous coat of the eye.. http://www.ncbi.nlm.nih.gov/pubmed/16496288" xsd:string [Term] id: UBERON:0010303 name: extraembryonic epithelium namespace: uberon def: "An epithelium that is part of a extraembryonic structure." [OBOL:automatic] synonym: "extra-embryonic epithelium" EXACT [] is_a: UBERON:0000483 ! epithelium is_a: UBERON:0005292 ! extraembryonic tissue intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0000478 ! extraembryonic structure relationship: part_of UBERON:0000478 ! extraembryonic structure [Term] id: UBERON:0010312 name: immature eye namespace: uberon def: "Developing anatomical structure that develops into the eyeball and associated structures." [ZFA:0001678] synonym: "future eye" EXACT [] xref: TAO:0002201 xref: ZFA:0001678 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0005423 ! developing anatomical structure intersection_of: UBERON:0005423 ! developing anatomical structure intersection_of: has_developmental_contribution_from UBERON:0003071 ! eye primordium relationship: develops_from UBERON:0003071 {evidence="definitional"} ! eye primordium relationship: has_developmental_contribution_from UBERON:0003071 ! eye primordium property_value: UBPROP:0000001 "Multi-tissue structure that consists of the structures that develop into the retina and lens.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0002201", ontology="TAO", source="ZFIN:curator"} [Term] id: UBERON:0010313 name: neural crest-derived structure namespace: uberon def: "An anatomical structure that develops from the neural crest." [https://orcid.org/0000-0002-6601-2165] subset: grouping_class is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0010314 ! structure with developmental contribution from neural crest intersection_of: UBERON:0000061 ! anatomical structure intersection_of: develops_from UBERON:0002342 ! neural crest relationship: develops_from UBERON:0002342 ! neural crest property_value: IAO:0000232 "Grouping term for query purposes" xsd:string [Term] id: UBERON:0010314 name: structure with developmental contribution from neural crest namespace: uberon def: "An anatomical structure that has some part that develops from the neural crest." [https://orcid.org/0000-0002-6601-2165] subset: grouping_class is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000061 ! anatomical structure intersection_of: UBERON:0000061 ! anatomical structure intersection_of: has_developmental_contribution_from UBERON:0002342 ! neural crest relationship: has_developmental_contribution_from UBERON:0002342 ! neural crest property_value: IAO:0000232 "Grouping term for query purposes" xsd:string [Term] id: UBERON:0010316 name: germ layer / neural crest namespace: uberon is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0002050 ! embryonic structure is_a: UBERON:0005291 ! embryonic tissue relationship: develops_from UBERON:0002532 ! epiblast (generic) [Term] id: UBERON:0010321 name: skeletal element of eye region namespace: uberon def: "A skeletal element that is part of a orbital region." [OBOL:automatic] synonym: "eye skeleton" RELATED [] synonym: "ocular skeleton" RELATED [] synonym: "skeletal element of orbital region" RELATED [] is_a: UBERON:0004765 ! skeletal element is_a: UBERON:0010313 ! neural crest-derived structure intersection_of: UBERON:0004765 ! skeletal element intersection_of: part_of UBERON:0004088 ! orbital region relationship: part_of UBERON:0004088 ! orbital region relationship: part_of UBERON:0011156 ! facial skeleton [Term] id: UBERON:0010323 name: cranial skeletal system namespace: uberon def: "Skeletal subdivision of the head including skull (cranium plus mandible), pharyngeal and/or hyoid apparatus." [GO_REF:0000034, http://dx.plos.org/10.1371/journal.pone.0051070, PSPUB:0000170, VSAO:0000049] synonym: "cranial skeleton" NARROW [] synonym: "cranium" RELATED INCONSISTENT [ZFA:0000737] synonym: "osteocranium" NARROW [] xref: AAO:0000109 xref: AAO:0000971 xref: AAO:0010185 xref: TAO:0000737 xref: VSAO:0000049 xref: XAO:0003075 xref: ZFA:0000737 is_a: UBERON:0000075 ! subdivision of skeletal system relationship: only_in_taxon NCBITaxon:89593 ! Craniata relationship: part_of UBERON:0011137 ! axial skeletal system property_value: editor_note "we use 'cranial skeletal system', so that we can include the skull, which has joints/sutures as parts (recall, we follow FMA in distinguishing between the skeleton and skeletal system - only the latter includes joints)" xsd:string property_value: IAO:0000232 "that the cranial skeleton includes the pharyngeal arch skeleton. It is thus more inclusive that the cranium itself, and extends beyond the head in tetrapods. The AAO class called 'skull' belongs here, as it includes the whole splanchnocranium" xsd:string property_value: UBPROP:0000001 "Bony structure that encases the central nervous system and the primary sense organs of sight, olfaction, hearing, and equilibrium.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0000109", ontology="AAO", source="AAO:LAP"} property_value: UBPROP:0000001 "Skeletal system which is part of the skull, including the splanchnocranium, chondrocranium, and dermatocranium.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0000737", ontology="TAO", source="ZFIN:curator"} [Term] id: UBERON:0010329 name: paired limb/fin bud mesenchyme namespace: uberon def: "Mesenchyme that is part of a limb/fin bud." [OBOL:automatic] is_a: UBERON:0010377 ! mesenchyme from somatopleure intersection_of: UBERON:0003104 ! mesenchyme intersection_of: part_of UBERON:0004357 ! paired limb/fin bud relationship: develops_from UBERON:0010377 {source="EHDAA2-abduced"} ! mesenchyme from somatopleure relationship: part_of UBERON:0004357 ! paired limb/fin bud [Term] id: UBERON:0010336 name: mandibular process mesenchyme from neural crest namespace: uberon def: "Mesenchyme that develops_from a neural crest and is part of a mandibular process mesenchyme." [OBOL:automatic] xref: EHDAA2:0004603 is_a: UBERON:0006905 ! mandibular process mesenchyme is_a: UBERON:0010258 ! mesenchyme from rhombencephalic neural crest intersection_of: UBERON:0003104 ! mesenchyme intersection_of: develops_from UBERON:0002342 ! neural crest intersection_of: part_of UBERON:0006905 ! mandibular process mesenchyme relationship: develops_from UBERON:0010252 {source="EHDAA2"} ! 1st arch mandibular mesenchyme from neural crest relationship: part_of UBERON:0006905 {source="EHDAA2"} ! mandibular process mesenchyme [Term] id: UBERON:0010337 name: mandibular process mesenchyme from head mesenchyme namespace: uberon def: "Mesenchyme that develops_from a head mesenchyme from mesoderm and is part of a mandibular process mesenchyme." [OBOL:automatic] xref: EHDAA2:0004604 is_a: UBERON:0006904 ! head mesenchyme from mesoderm is_a: UBERON:0006905 ! mandibular process mesenchyme intersection_of: UBERON:0003104 ! mesenchyme intersection_of: develops_from UBERON:0006904 ! head mesenchyme from mesoderm intersection_of: part_of UBERON:0006905 ! mandibular process mesenchyme relationship: develops_from UBERON:0010339 {source="EHDAA2"} ! 1st arch mandibular mesenchyme from head mesenchyme relationship: part_of UBERON:0006905 {source="EHDAA2"} ! mandibular process mesenchyme [Term] id: UBERON:0010339 name: 1st arch mandibular mesenchyme from head mesenchyme namespace: uberon def: "Mesenchyme that develops_from a head mesenchyme from mesoderm and is part of a 1st arch mandibular mesenchyme." [OBOL:automatic] xref: EHDAA2:0000036 is_a: UBERON:0009584 ! 1st arch mandibular mesenchyme is_a: UBERON:0010341 ! 1st arch mesenchyme from head mesenchyme intersection_of: UBERON:0003104 ! mesenchyme intersection_of: develops_from UBERON:0006904 ! head mesenchyme from mesoderm intersection_of: part_of UBERON:0009584 ! 1st arch mandibular mesenchyme relationship: part_of UBERON:0009584 {source="EHDAA2"} ! 1st arch mandibular mesenchyme [Term] id: UBERON:0010341 name: 1st arch mesenchyme from head mesenchyme namespace: uberon def: "Mesenchyme that develops_from a head mesenchyme from mesoderm and is part of a 1st arch mesenchyme." [OBOL:automatic] synonym: "mesenchyme derived from head mesoderm of mesenchyme of 1st arch" EXACT [EMAPA:16130] xref: EMAPA:16130 is_a: UBERON:0006904 ! head mesenchyme from mesoderm is_a: UBERON:0010042 ! 1st arch mesenchyme is_a: UBERON:0010360 ! pharyngeal arch mesenchyme from head mesenchyme intersection_of: UBERON:0003104 ! mesenchyme intersection_of: develops_from UBERON:0006904 ! head mesenchyme from mesoderm intersection_of: part_of UBERON:0010042 ! 1st arch mesenchyme relationship: part_of UBERON:0010042 {source="EMAPA"} ! 1st arch mesenchyme [Term] id: UBERON:0010345 name: 4th arch mesenchyme from head mesenchyme namespace: uberon def: "Mesenchyme that develops_from a head mesenchyme from mesoderm and is part of a 4th arch mesenchyme." [OBOL:automatic] synonym: "branchial arch 4 mesenchyme from head mesenchyme" RELATED [] synonym: "head mesenchyme derived arch 4 mesenchyme" EXACT [] synonym: "mesenchyme derived from head mesoderm of mesenchyme of 4th arch" EXACT [EMAPA:16771] synonym: "pharyngeal arch 4 mesenchyme from head mesenchyme" EXACT [] xref: EHDAA2:0000097 xref: EMAPA:16771 is_a: UBERON:0005691 ! 4th arch mesenchyme is_a: UBERON:0006904 ! head mesenchyme from mesoderm is_a: UBERON:0010360 ! pharyngeal arch mesenchyme from head mesenchyme intersection_of: UBERON:0003104 ! mesenchyme intersection_of: develops_from UBERON:0006904 ! head mesenchyme from mesoderm intersection_of: part_of UBERON:0005691 ! 4th arch mesenchyme relationship: part_of UBERON:0005691 {source="EHDAA2"} ! 4th arch mesenchyme [Term] id: UBERON:0010347 name: 6th arch mesenchyme from head mesenchyme namespace: uberon def: "Mesenchyme that develops_from a head mesenchyme from mesoderm and is part of a 6th arch mesenchyme." [OBOL:automatic] synonym: "branchial arch 6 mesenchyme from head mesenchyme" RELATED [] synonym: "head mesenchyme derived arch 6 mesenchyme" EXACT [] synonym: "pharyngeal arch 6 mesenchyme from head mesenchyme" EXACT [] xref: EHDAA2:0004078 is_a: UBERON:0006904 ! head mesenchyme from mesoderm is_a: UBERON:0010031 ! 6th arch mesenchyme is_a: UBERON:0010360 ! pharyngeal arch mesenchyme from head mesenchyme intersection_of: UBERON:0003104 ! mesenchyme intersection_of: develops_from UBERON:0006904 ! head mesenchyme from mesoderm intersection_of: part_of UBERON:0010031 ! 6th arch mesenchyme relationship: part_of UBERON:0010031 {source="EHDAA2"} ! 6th arch mesenchyme [Term] id: UBERON:0010359 name: pharyngeal arch mesenchyme from neural crest namespace: uberon def: "Mesenchyme that develops_from a neural crest and is part of a entire pharyngeal arch associated mesenchyme." [OBOL:automatic] comment: Partially implements https://github.com/obophenotype/uberon/wiki/The-neural-crest NC meeting scheme synonym: "arch mesenchyme from neural crest" EXACT [] synonym: "branchial arch mesenchyme from neural crest" EXACT [] synonym: "neural crest derived arch mesenchyme" EXACT [] is_a: UBERON:0005291 ! embryonic tissue is_a: UBERON:0014387 ! mesenchyme derived from neural crest intersection_of: UBERON:0003104 ! mesenchyme intersection_of: develops_from UBERON:0002342 ! neural crest intersection_of: part_of UBERON:0010046 ! entire pharyngeal arch associated mesenchyme relationship: part_of UBERON:0010046 ! entire pharyngeal arch associated mesenchyme [Term] id: UBERON:0010360 name: pharyngeal arch mesenchyme from head mesenchyme namespace: uberon def: "Mesenchyme that develops_from a head mesenchyme from mesoderm and is part of a entire pharyngeal arch associated mesenchyme." [OBOL:automatic] comment: Partially implements https://github.com/obophenotype/uberon/wiki/The-neural-crest NC meeting scheme synonym: "arch mesenchyme from head mesenchyme" EXACT [] synonym: "branchial arch mesenchyme from head mesenchyme" EXACT [] synonym: "head mesenchyme derived arch mesenchyme" EXACT [] is_a: UBERON:0003104 ! mesenchyme is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0005291 ! embryonic tissue intersection_of: UBERON:0003104 ! mesenchyme intersection_of: develops_from UBERON:0006904 ! head mesenchyme from mesoderm intersection_of: part_of UBERON:0010046 ! entire pharyngeal arch associated mesenchyme relationship: develops_from UBERON:0006904 ! head mesenchyme from mesoderm relationship: part_of UBERON:0010046 ! entire pharyngeal arch associated mesenchyme [Term] id: UBERON:0010362 name: endoskeleton namespace: uberon def: "Skeletal subdivision that undergoes indirect development and includes elements that develop as a replacement or substitution of other elements or tissues." [GO_REF:0000034, http://dx.plos.org/10.1371/journal.pone.0051070, PSPUB:0000170, VSAO:0000037] synonym: "replacement skeleton" EXACT [VSAO:curator] xref: http://en.wikipedia.org/wiki/Endoskeleton xref: VSAO:0000037 xref: Wikipedia:Endoskeleton xref: XAO:0004026 is_a: UBERON:0010912 {source="VSAO"} ! subdivision of skeleton relationship: composed_primarily_of UBERON:0010522 ! replacement element relationship: only_in_taxon NCBITaxon:7742 ! Vertebrata property_value: UBPROP:0000001 "An endoskeleton is an internal support structure of an animal, composed of mineralized tissue. Endoskeleton develops within the skin or in the deeper body tissues. The vertebrate is basically an endoskeleton made up of two types of tissues (bone and cartilage). During early embryonic development the endoskeleton is composed of notochord and cartilage. The notochord in most vertebrates is replaced by vertebral column and cartilage is replaced by bone in most adults. In three phyla and one subclass of animals, endoskeletons of various complexity are found: Chordata, Echinodermata, Porifera, and Coleoidea. An endoskeleton may function purely for support (as in the case of sponges), but often serves as an attachment site for muscle and a mechanism for transmitting muscular forces. A true endoskeleton is derived from mesodermal tissue. Such a skeleton is present in echinoderms and chordates. The poriferan 'skeleton' consists of microscopic calcareous or siliceous spicules or a spongin network. The Coleoidae do not have a true endoskeleton in the evolutionary sense; here, a mollusk exoskeleton evolved into several sorts of internal structure, the 'cuttlebone' of cuttlefish being the best-known version. Yet they do have cartilaginous tissue in their body, even if it is not mineralized, especially in the head, where it forms a primitive cranium. The endoskeleton gives shape,support and protection to the body and provides a mean of locomotion.[Wikipedia:Endoskeleton]t" xsd:string {source="Wikipedia:Endoskeleton"} property_value: UBPROP:0000001 "An endoskeleton is an internal support structure of an animal, composed of mineralized tissue. Endoskeleton develops within the skin or in the deeper body tissues. The vertebrate is basically an endoskeleton made up of two types of tissues (bone and cartilage). During early embryonic development the endoskeleton is composed of notochord and cartilage. The notochord in most vertebrates is replaced by vertebral column and cartilage is replaced by bone in most adults. In three phyla and one subclass of animals, endoskeletons of various complexity are found: Chordata, Echinodermata, Porifera, and Coleoidea. An endoskeleton may function purely for support (as in the case of sponges), but often serves as an attachment site for muscle and a mechanism for transmitting muscular forces. A true endoskeleton is derived from mesodermal tissue. Such a skeleton is present in echinoderms and chordates. The poriferan 'skeleton' consists of microscopic calcareous or siliceous spicules or a spongin network. The Coleoidae do not have a true endoskeleton in the evolutionary sense; here, a mollusk exoskeleton evolved into several sorts of internal structure, the 'cuttlebone' of cuttlefish being the best-known version. Yet they do have cartilaginous tissue in their body, even if it is not mineralized, especially in the head, where it forms a primitive cranium. The endoskeleton gives shape,support and protection to the body and provides a mean of locomotion.[Wikipedia:Endoskeleton]t" xsd:string {source="http://en.wikipedia.org/wiki/Endoskeleton"} [Term] id: UBERON:0010363 name: endochondral element namespace: uberon def: "A skeletal element that has the potential to participate in endochondral ossification, and may participate in intramembranous ossification." [GO_REF:0000034, http://dx.plos.org/10.1371/journal.pone.0051070, PSPUB:0000170, VSAO:0000139] synonym: "endochondral replacement element" EXACT [VSAO:0000139] xref: VSAO:0000139 xref: XAO:0004017 xref: ZFA:0005620 is_a: UBERON:0004765 {source="VSAO"} ! skeletal element property_value: seeAlso https://github.com/obophenotype/uberon/wiki/Modeling-endochondral-elements-Design-Pattern xsd:anyURI [Term] id: UBERON:0010364 name: dermal skeleton namespace: uberon def: "Skeletal subdivision that undergoes direct development and includes elements that either develop in association with the basement membrane of the ectoderm or are homologous with such elements; includes dermatocranium, components of the appendicular skeleton, teeth and tooth-like elements of the oropharynx, and integumentary elements." [GO_REF:0000034, http://dx.plos.org/10.1371/journal.pone.0051070, PSPUB:0000170, VSAO:0000035] comment: This ontology covers metazoa, so we do not use exoskeleton as primary label, as in VSAO synonym: "dermal skeletal system" RELATED [VSAO:curator] synonym: "dermoskeleton" RELATED [VSAO:curator] synonym: "desmoskeleton" RELATED [VSAO:curator] synonym: "exoskeleton" BROAD INCONSISTENT [VSAO:curator] xref: VSAO:0000035 xref: XAO:0004025 is_a: UBERON:0010912 {source="VSAO"} ! subdivision of skeleton relationship: only_in_taxon NCBITaxon:7742 ! Vertebrata [Term] id: UBERON:0010371 name: ecto-epithelium namespace: uberon def: "Epithelium composed of cells that develops from the ectoderm[FMA,modified]." [FMA:69064] synonym: "ectoderm-derived epithelium" EXACT [] xref: FMA:69064 is_a: UBERON:0000483 ! epithelium is_a: UBERON:0004121 ! ectoderm-derived structure intersection_of: UBERON:0000483 ! epithelium intersection_of: develops_from UBERON:0000924 ! ectoderm relationship: composed_primarily_of CL:0002077 ! ecto-epithelial cell [Term] id: UBERON:0010377 name: mesenchyme from somatopleure namespace: uberon def: "Mesenchyme that develops_from a somatopleure." [OBOL:automatic] xref: EHDAA2:0001120 is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0005291 ! embryonic tissue is_a: UBERON:0007524 {source="EHDAA2"} ! dense mesenchyme tissue intersection_of: UBERON:0003104 ! mesenchyme intersection_of: develops_from UBERON:0004874 ! somatopleure intersection_of: part_of UBERON:0000922 ! embryo relationship: develops_from UBERON:0004874 ! somatopleure relationship: part_of UBERON:0009142 {source="EHDAA2"} ! entire embryonic mesenchyme property_value: editor_note "the way this class is defined also includes extraembryonic mesenchyme such as the amniotic mesenchyme; in future this may be restricted to embryonic derivatives" xsd:string [Term] id: UBERON:0010378 name: mesenchyme from splanchnopleure namespace: uberon def: "Mesenchyme that develops_from a splanchnopleure." [OBOL:automatic] xref: EHDAA2:0001122 is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0005291 ! embryonic tissue is_a: UBERON:0007524 {source="EHDAA2"} ! dense mesenchyme tissue intersection_of: UBERON:0003104 ! mesenchyme intersection_of: develops_from UBERON:0004873 ! splanchnopleure intersection_of: part_of UBERON:0000922 ! embryo relationship: develops_from UBERON:0004873 ! splanchnopleure relationship: part_of UBERON:0009142 {source="EHDAA2"} ! entire embryonic mesenchyme [Term] id: UBERON:0010409 name: ocular surface region namespace: uberon def: "The integrated unit (of the eye) that consists of the conjunctiva, the corneal surface, and the ocular mucosal adnexa including the lid margins and the meibomian gland openings, the lacrimal glands and the lacrimal drainage system, all which are critical to maintain ocular surface integrity and provide protection from external antigens and pathogenic microorganisms." [MP:0013754] subset: pheno_slim synonym: "eye surface" EXACT [MA:0002486] synonym: "eye surface region" EXACT [] synonym: "ocular surface" EXACT [] xref: EMAPA:35336 xref: MA:0002486 is_a: UBERON:0000063 ! organ subunit is_a: UBERON:0004121 ! ectoderm-derived structure relationship: part_of UBERON:0000019 ! camera-type eye relationship: superficial_to UBERON:0022288 ! surface of eyeball [Term] id: UBERON:0010427 name: ciliary processes namespace: uberon def: "The ciliary processes are formed by the inward folding of the various layers of the choroid, i.e. , the choroid proper and the lamina basalis, and are received between corresponding foldings of the suspensory ligament of the lens." [http://en.wikipedia.org/wiki/Ciliary_processes] def: "The ciliary processes are formed by the inward folding of the various layers of the choroid, i.e. , the choroid proper and the lamina basalis, and are received between corresponding foldings of the suspensory ligament of the lens." [Wikipedia:Ciliary_processes] synonym: "ciliary process" RELATED [http://en.wikipedia.org/wiki/Ciliary_processes] synonym: "ciliary process" RELATED [Wikipedia:Ciliary_processes] synonym: "ciliary processes" EXACT [FMA:76551] synonym: "ciliary processes set" EXACT [FMA:76551] synonym: "processus ciliares" EXACT LATIN [FMA:TA] synonym: "processus ciliares" RELATED LATIN [Wikipedia:Ciliary_processes] synonym: "processus ciliares" RELATED LATIN [http://en.wikipedia.org/wiki/Ciliary_processes] synonym: "set of ciliary processes" EXACT [FMA:76551] xref: Ciliary:processes xref: FMA:76551 xref: http://www.snomedbrowser.com/Codes/Details/280860001 xref: SCTID:280860001 xref: Wikipedia:Ciliary_processes is_a: UBERON:0000481 ! multi-tissue structure is_a: UBERON:0004121 ! ectoderm-derived structure relationship: part_of UBERON:0001775 ! ciliary body property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/b/b2/Gray875.png xsd:anyURI [Term] id: UBERON:0010428 name: flat bone namespace: uberon def: "A bone that is shaped as a broad flat plate and composed of two thin layers of compact tissue enclosing between them a variable quantity of cancellous tissue, which is the location of red bone marrow." [Wikipedia:Flat_bone] def: "A bone that is shaped as a broad flat plate and composed of two thin layers of compact tissue enclosing between them a variable quantity of cancellous tissue, which is the location of red bone marrow." [http://en.wikipedia.org/wiki/Flat_bone] comment: Examples: cranium, the ilium, sternum, rib cage, the sacrum and the scapula; the occipital, parietal, frontal, nasal, lacrimal, vomer, scapula, os coxC&, sternum, and ribs synonym: "os planum" RELATED LATIN [http://en.wikipedia.org/wiki/Flat_bone] synonym: "os planum" RELATED LATIN [Wikipedia:Flat_bone] xref: Flat:bone xref: FMA:7476 xref: galen:FlatBone xref: http://linkedlifedata.com/resource/umls/id/C0222649 xref: http://www.snomedbrowser.com/Codes/Details/332907008 xref: NCIT:C32616 xref: SCTID:332907008 xref: UMLS:C0222649 {source="ncithesaurus:Flat_Bone"} xref: Wikipedia:Flat_bone is_a: UBERON:0001474 {source="FMA"} ! bone element relationship: has_quality PATO:0000407 ! flat property_value: UBPROP:0000008 "In an adult mammal, most red blood cells are formed in flat bones" xsd:string property_value: UBPROP:0000009 "Flat bones are those bones which are found where the principal requirement is either extensive protection or the provision of broad surfaces for muscular attachment" xsd:string [Term] id: UBERON:0010498 name: pseudostratified columnar epithelium namespace: uberon def: "A simple columnar epithelium that looks stratified but is not, because its cells are arranged with their nuclei at different levels." [http://en.wikipedia.org/wiki/Pseudostratified_columnar_epithelium, http://medical-dictionary.thefreedictionary.com/pseudostratified+epithelium] def: "A simple columnar epithelium that looks stratified but is not, because its cells are arranged with their nuclei at different levels." [http://medical-dictionary.thefreedictionary.com/pseudostratified+epithelium, Wikipedia:Pseudostratified_columnar_epithelium] xref: FMA:45572 xref: http://en.wikipedia.org/wiki/Pseudostratified_columnar_epithelium xref: http://linkedlifedata.com/resource/umls/id/C0836138 xref: http://linkedlifedata.com/resource/umls/id/C1514590 xref: NCIT:C33419 xref: NCIT:C49316 xref: UMLS:C0836138 {source="ncithesaurus:Pseudostratified_Columnar_Epithelium"} xref: UMLS:C1514590 {source="ncithesaurus:Pseudostratified_Epithelium"} xref: Wikipedia:Pseudostratified_columnar_epithelium is_a: UBERON:0000485 {source="FMA"} ! simple columnar epithelium property_value: UBPROP:0000009 "Pseudostratified epithelia function in secretion or absorption. If a specimen looks stratified but has cilia, then it is a pseudostratified ciliated epithelium, since stratified epithelia do not have cilia." xsd:string property_value: UBPROP:0000012 "glandular in NCIT; we consider the two NCIT terms synonymous" xsd:string {external_ontology="NCIT"} [Term] id: UBERON:0010499 name: pseudostratified ciliated columnar epithelium namespace: uberon def: "Epithelium composed of a single layer of cells, appearing as layered because the column-shaped cells vary in height so the nuclei are at different levels. The basal portions of all the cells are in contact with the basement membrane. It lines the respiratory system and the male reproductive tract. The cilia in the respiratory tract are motile, while the stereocilia in the male reproductive tract are immobile." [NCIT:NCIT] synonym: "epithelium pseudostratificatum columnare ciliatum (trachea et bronchi)" EXACT [FMA:13146] xref: FMA:13146 xref: http://linkedlifedata.com/resource/umls/id/C0506992 xref: NCIT:C13181 xref: UMLS:C0506992 {source="ncithesaurus:Pseudostratified_Columnar_Ciliated_Epithelium"} is_a: UBERON:0007592 ! ciliated columnar epithelium is_a: UBERON:0010498 ! pseudostratified columnar epithelium intersection_of: UBERON:0010498 ! pseudostratified columnar epithelium intersection_of: has_part CL:0000067 ! ciliated epithelial cell [Term] id: UBERON:0010522 name: replacement element namespace: uberon def: "Skeletal element that forms as a replacement or substitution of another element or tissue." [GO_REF:0000034, http://dx.plos.org/10.1371/journal.pone.0051070, PSPUB:0000170, VSAO:0000135] xref: VSAO:0000135 xref: XAO:0004016 xref: ZFA:0005624 is_a: UBERON:0004765 {source="VSAO"} ! skeletal element relationship: part_of UBERON:0010362 {source="cjm"} ! endoskeleton [Term] id: UBERON:0010523 name: microcirculatory vessel namespace: uberon def: "A vessel of the microcirculature, lying between the arterioles and venules; includes capillaries (blood and lymphatic), metarterioles and arteriovenous anastomoses." [http://orcid.org/0000-0002-6601-2165, MESH:A07.231.432, ZFA:0005251] synonym: "microcirculatory vessels" RELATED PLURAL [TAO:0005251] xref: MESH:A07.231.432 xref: TAO:0005251 xref: ZFA:0005251 is_a: UBERON:0000055 ! vessel relationship: part_of UBERON:0002049 {source="ZFA"} ! vasculature [Term] id: UBERON:0010707 name: appendage girdle complex namespace: uberon def: "An organism subdivision that includes both an appendage and its associated girdle region. Note that this includes both the skeletal elements and associated tissues (integument, muscle, etc)." [https://github.com/obophenotype/uberon/wiki/Appendages-and-the-appendicular-skeleton, https://orcid.org/0000-0002-6601-2165] subset: pheno_slim synonym: "appendage complex" EXACT [https://orcid.org/0000-0002-6601-2165] synonym: "appendage-girdle complex" EXACT [https://orcid.org/0000-0002-6601-2165] synonym: "appendage/girdle complex" EXACT [VSAO:0000214] synonym: "girdle plus limb or fin" EXACT [https://orcid.org/0000-0002-6601-2165] synonym: "limb" RELATED INCONSISTENT [FMA:7182] xref: EMAPA:37858 {source="MA:th"} xref: FMA:7182 xref: VSAO:0000214 is_a: UBERON:0000475 ! organism subdivision is_a: UBERON:0015212 ! lateral structure relationship: functionally_related_to GO:0040011 ! locomotion relationship: in_lateral_side_of UBERON:0000468 ! multicellular organism relationship: only_in_taxon NCBITaxon:7742 ! Vertebrata property_value: editor_note "It is still called a complex when one of the two parts is missing (?) There are fossil fishes with only an outgrowth (no record of a girdle), including thelodonts (which have a suprabranchial fin) as well as some anaspids which have a distinctive 'paired fin' (with differing published assertions on whether it's homologous to a pec fin or pelvic fin or both or neither). There are many fishes and other vertebrates with only a girdle and no outgrowth.[VSAO]" xsd:string property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0001-9114-8737 property_value: UBPROP:0000001 "Anatomical group that consists of the soft and skeletal tissues of the appendicular region of the body and the appendage proper.[VSAO]" xsd:string {date_retrieved="2012-08-14", external_class="VSAO:0000214", ontology="VSAO", source="GO_REF:0000034, http://dx.plos.org/10.1371/journal.pone.0051070"} property_value: UBPROP:0000005 "It is still called a complex when one of the two parts is missing (?) There are fossil fishes with only an outgrowth (no record of a girdle), including thelodonts (which have a suprabranchial fin) as well as some anaspids which have a distinctive 'paired fin' (with differing published assertions on whether it's homologous to a pec fin or pelvic fin or both or neither). There are many fishes and other vertebrates with only a girdle and no outgrowth.[VSAO]" xsd:string {date_retrieved="2012-09-06", external_class="VSAO:0000214", ontology="VSAO", source="Curator"} property_value: UBPROP:0000012 "note that the FMA uses the term 'limb' to refer to the entire appendage complex (free limb plus girdle region)" xsd:string {external_ontology="FMA"} creation_date: 2012-04-23T10:46:51Z [Term] id: UBERON:0010708 name: pectoral complex namespace: uberon def: "Appendage girdle complex that when present, encompasses the pectoral appendicular skeleton and the pectoral girdle." [VSAO:0000213] subset: pheno_slim synonym: "pectoral appendage/girdle complex" EXACT [VSAO:0000213] synonym: "pectoral girdle plus anterior limb or fin" EXACT [https://orcid.org/0000-0002-6601-2165] synonym: "pectoral girdle plus pectoral limb or fin" EXACT [https://orcid.org/0000-0002-6601-2165] synonym: "upper limb" RELATED INCONSISTENT [FMA:7183] synonym: "upper limb and pectoral girdle" RELATED HUMAN_PREFERRED [https://orcid.org/0000-0002-6601-2165] synonym: "upper limb and shoulder" RELATED [https://orcid.org/0000-0002-6601-2165] xref: EMAPA:37860 {source="MA:th"} xref: FMA:7183 xref: http://www.snomedbrowser.com/Codes/Details/110716002 xref: VSAO:0000213 is_a: CARO:0000003 ! connected anatomical structure is_a: UBERON:0010707 ! appendage girdle complex intersection_of: UBERON:0010707 ! appendage girdle complex intersection_of: has_part UBERON:0001421 ! pectoral girdle region relationship: has_part UBERON:0001421 ! pectoral girdle region relationship: has_skeleton UBERON:0012475 ! skeleton of pectoral complex property_value: UBPROP:0000001 "Appendage girdle complex that when present, encompasses the pectoral appendage and half of the pectoral girdle.[VSAO]" xsd:string {date_retrieved="2012-08-14", external_class="VSAO:0000213", ontology="VSAO", source="VSAO:MAH"} property_value: UBPROP:0000012 "note that the FMA uses the terms 'upper limb' and 'lower limb' to refer to the entire appendage complex (free limb plus girdle region)" xsd:string {external_ontology="FMA"} [Term] id: UBERON:0010709 name: pelvic complex namespace: uberon def: "Appendage girdle complex that when present, encompasses the pelvic appendicular skeleton and the pelvic girdle." [VSAO:0000215] subset: pheno_slim synonym: "lower limb" RELATED INCONSISTENT [FMA:7184] synonym: "lower limb and pelvic girdle" RELATED HUMAN_PREFERRED [https://orcid.org/0000-0002-6601-2165] synonym: "lower limb and pelvis" RELATED [https://orcid.org/0000-0002-6601-2165] synonym: "pelvic appendage/girdle complex" EXACT [VSAO:0000215] synonym: "pelvic girdle plus pelvic limb or fin" EXACT [https://orcid.org/0000-0002-6601-2165] synonym: "pelvic girdle plus posterior limb or fin" EXACT [https://orcid.org/0000-0002-6601-2165] xref: EMAPA:37863 {source="MA:th"} xref: FMA:7184 xref: http://www.snomedbrowser.com/Codes/Details/416631005 xref: VSAO:0000215 is_a: CARO:0000003 ! connected anatomical structure is_a: UBERON:0010707 ! appendage girdle complex intersection_of: UBERON:0010707 ! appendage girdle complex intersection_of: has_part UBERON:0001271 ! pelvic girdle region relationship: has_part UBERON:0001271 ! pelvic girdle region relationship: has_skeleton UBERON:0012476 ! skeleton of pelvic complex property_value: UBPROP:0000001 "Appendage girdle complex that when present, encompasses the pelvic appendage and the pelvic girdle.[VSAO]" xsd:string {date_retrieved="2012-08-14", external_class="VSAO:0000215", ontology="VSAO", source="VSAO:MAH"} property_value: UBPROP:0000012 "note that the FMA uses the terms 'upper limb' and 'lower limb' to refer to the entire appendage complex (free limb plus girdle region). Note the MA class 'hindlimb' may also belong here" xsd:string {external_ontology="FMA"} [Term] id: UBERON:0010719 name: girdle skeleton namespace: uberon def: "The subdivision of the skeleton of either the pectoral or pelvic girdle." [https://orcid.org/0000-0002-6601-2165] synonym: "skeleton of girdle" EXACT [] xref: AAO:0010686 xref: VSAO:0000302 is_a: CARO:0000003 ! connected anatomical structure is_a: UBERON:0010912 ! subdivision of skeleton intersection_of: UBERON:0010912 ! subdivision of skeleton intersection_of: skeleton_of UBERON:0007823 ! appendage girdle region relationship: part_of RO:0002577 ! system relationship: part_of UBERON:0002091 ! appendicular skeleton relationship: part_of UBERON:0007823 ! appendage girdle region relationship: proximally_connected_to UBERON:0002090 ! postcranial axial skeleton relationship: skeleton_of UBERON:0007823 ! appendage girdle region property_value: UBPROP:0000001 "Skeletal subdivision that is part of the appendage girdle region.[VSAO]" xsd:string {date_retrieved="2012-08-14", external_class="VSAO:0000302", ontology="VSAO", source="GO_REF:0000034, http://dx.plos.org/10.1371/journal.pone.0051070"} property_value: UBPROP:0000002 "relationship type change: subclass skeletal subdivision (VSAO:0000042) CHANGED TO: part_of subdivision of skeleton (UBERON:0010912)[VSAO]" xsd:string {date_retrieved="2012-08-14", external_class="VSAO:0000302", ontology="VSAO"} property_value: UBPROP:0000002 "relationship type change: subclass skeletal subdivision (VSAO:0000042) CHANGED TO: proximally_connected_to subdivision of skeleton (UBERON:0010912)[VSAO]" xsd:string {date_retrieved="2012-08-14", external_class="VSAO:0000302", ontology="VSAO"} [Term] id: UBERON:0010740 name: bone of appendage girdle complex namespace: uberon def: "A bone that is part of an appendage girdle complex (i.e. any bone in a limb, fin or girdle)." [https://orcid.org/0000-0002-6601-2165, UBERONREF:0000003] subset: pheno_slim synonym: "bone of extended limb/fin region" RELATED [https://orcid.org/0000-0002-6601-2165, UBERONREF:0000003] synonym: "limb bone" RELATED [MA:0000688, UBERONREF:0000003] xref: EMAPA:35494 xref: MA:0000688 is_a: UBERON:0001474 ! bone element intersection_of: UBERON:0001474 ! bone element intersection_of: part_of UBERON:0010707 ! appendage girdle complex relationship: contributes_to_morphology_of UBERON:0002091 ! appendicular skeleton relationship: part_of UBERON:0002091 {notes="UBERONREF:0000003"} ! appendicular skeleton relationship: part_of UBERON:0010707 ! appendage girdle complex [Term] id: UBERON:0010741 name: bone of pectoral complex namespace: uberon def: "A bone that is part of a pectoral complex. Examples: scapula, manus phalanx, any carpal bone, any bone of the pectoral fin." [https://orcid.org/0000-0002-6601-2165, UBERONREF:0000003] subset: pheno_slim synonym: "bone of forelimb or pectoral fin or pectoral girdle" RELATED [https://orcid.org/0000-0002-6601-2165, UBERONREF:0000003] synonym: "forelimb bone" RELATED [MA:0000612, UBERONREF:0000003] synonym: "wing bone" NARROW SENSU [UBERONREF:0000003] xref: EMAPA:32623 xref: EMAPA:35933 xref: MA:0000612 is_a: UBERON:0010740 ! bone of appendage girdle complex intersection_of: UBERON:0001474 ! bone element intersection_of: part_of UBERON:0010708 ! pectoral complex relationship: part_of UBERON:0010708 ! pectoral complex property_value: editor_note "considering adding pectoral and pelvic complex skeleton classes" xsd:string property_value: UBPROP:0000012 "note that the MA class includes girdle parts so it belongs here;" xsd:string {external_ontology="MA"} [Term] id: UBERON:0010742 name: bone of pelvic complex namespace: uberon def: "A bone that is part of a pelvic complex. Examples: pubis, ischium, fot phalanx, any tarsal bone, any bone of the pelvic fin or girdle." [https://orcid.org/0000-0002-6601-2165, UBERONREF:0000003] subset: pheno_slim synonym: "hindlimb bone" RELATED [MA:0000660, UBERONREF:0000003] xref: EMAPA:32633 xref: EMAPA:35934 xref: MA:0000660 is_a: UBERON:0010740 {source="MA"} ! bone of appendage girdle complex intersection_of: UBERON:0001474 ! bone element intersection_of: part_of UBERON:0010709 ! pelvic complex relationship: part_of UBERON:0010709 ! pelvic complex property_value: UBPROP:0000012 "the MA class called 'hindlimb bone' belongs here, as it includes bones in the pelvic girdle" xsd:string {external_ontology="MA"} [Term] id: UBERON:0010890 name: pelvic complex muscle namespace: uberon def: "Muscles of the pelvic girdle, hindlimb or pelvic fin." [https://orcid.org/0000-0002-6601-2165] subset: pheno_slim synonym: "lower limb muscle" RELATED INCONSISTENT [FMA:9622] synonym: "muscle of lower limb" RELATED INCONSISTENT [FMA:9622] synonym: "muscle of pelvic girdle and leg" RELATED [] synonym: "pelvic girdle and hind limb muscles" EXACT [AAO:0000218] synonym: "pelvic girdle or hind limb muscle" NARROW [https://orcid.org/0000-0002-6601-2165] synonym: "pelvic girdle or posterior limb muscle" NARROW [https://orcid.org/0000-0002-6601-2165] xref: AAO:0000218 xref: EMAPA:32634 xref: FMA:9622 xref: MA:0000663 is_a: UBERON:0014892 ! skeletal muscle organ intersection_of: UBERON:0014892 ! skeletal muscle organ intersection_of: part_of UBERON:0010709 ! pelvic complex relationship: part_of UBERON:0014792 {source="prolog"} ! musculature of pelvic complex property_value: UBPROP:0000001 "Muscles of the pelvic girdle, thigh, leg (crus), and foot (pes).[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0000218", ontology="AAO", source="AAO:EJS"} [Term] id: UBERON:0010891 name: pectoral complex muscle namespace: uberon def: "A muscle of a pectoral girdle, pectoral fin or anterior limb." [https://orcid.org/0000-0002-6601-2165] synonym: "muscle of pectoral girdle and limb" RELATED [] synonym: "muscle of pectoral girdle and wing" NARROW SENSU [NCBITaxon:8782] synonym: "muscle of upper limb" NARROW INCONSISTENT [FMA:9621] synonym: "pectoral girdle and fore limb muscles" EXACT [AAO:0010687] synonym: "upper limb muscle" NARROW INCONSISTENT [FMA:9621] xref: AAO:0010687 xref: EMAPA:32624 xref: FMA:9621 xref: MA:0000615 is_a: UBERON:0014892 ! skeletal muscle organ intersection_of: UBERON:0014892 ! skeletal muscle organ intersection_of: part_of UBERON:0010708 ! pectoral complex relationship: part_of UBERON:0014793 {source="prolog"} ! musculature of pectoral complex property_value: editor_note "the MA class belongs here, based on its current child classes" xsd:string property_value: UBPROP:0000001 "Muscles of the pectoral girdle, arm, forearm, and hand (brachium, antebrachium, manus respectively).[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0010687", ontology="AAO", source="AAO:EJS"} [Term] id: UBERON:0010912 name: subdivision of skeleton namespace: uberon def: "Anatomical cluster consisting of the skeletal elements (i.e. bone elements, cartilage elements, cartilage condensations) that are part of an individual subdivision of the organism. Excludes joints." [https://orcid.org/0000-0002-6601-2165, UBERONREF:0000003] subset: non_informative synonym: "skeletal subdivision" EXACT [VSAO:0000042] synonym: "subdivision of skeleton (in vivo)" RELATED [FMA:23879] xref: FMA:23879 xref: http://www.snomedbrowser.com/Codes/Details/129140006 xref: SCTID:129140006 xref: VSAO:0000042 is_a: UBERON:0011216 {source="cjm"} ! organ system subdivision relationship: part_of UBERON:0000075 {source="UBERONREF:0000003"} ! subdivision of skeletal system relationship: part_of UBERON:0004288 {source="VSAO"} ! skeleton property_value: UBPROP:0000001 "Anatomical cluster consisting of the skeletal elements that are part of the skeleton.[VSAO]" xsd:string {date_retrieved="2012-08-14", external_class="VSAO:0000042", notes="incorrect", ontology="VSAO", source="VSAO:curator"} [Term] id: UBERON:0010959 name: craniocervical muscle namespace: uberon def: "Any muscle organ that is part of either the head or the neck." [http://orcid.org/0000-0002-6601-2165] synonym: "muscle of head and neck" RELATED [] synonym: "muscle of head or neck" EXACT [] xref: http://linkedlifedata.com/resource/umls/id/C0448281 xref: NCIT:C32716 xref: UMLS:C0448281 {source="ncithesaurus:Head_and_Neck_Muscle"} is_a: UBERON:0014892 ! skeletal muscle organ intersection_of: UBERON:0014892 ! skeletal muscle organ intersection_of: part_of UBERON:0007811 ! craniocervical region relationship: part_of UBERON:0008229 {source="prolog"} ! craniocervical region musculature [Term] id: UBERON:0011004 name: pharyngeal arch cartilage namespace: uberon def: "A cartilage element that is part of a splanchnocranium." [OBOL:automatic] subset: efo_slim synonym: "pharyngeal arch cartilages" EXACT PLURAL [ZFA:0001460] synonym: "splanchnocranium cartilage" EXACT [ZFA:0001460] xref: EFO:0003689 xref: TAO:0001460 xref: ZFA:0001460 is_a: UBERON:0003933 {source="ZFA"} ! cranial cartilage is_a: UBERON:0010314 ! structure with developmental contribution from neural crest intersection_of: UBERON:0007844 ! cartilage element intersection_of: part_of UBERON:0008895 ! splanchnocranium relationship: develops_from UBERON:0002539 ! pharyngeal arch relationship: part_of UBERON:0008895 {source="ZFA"} ! splanchnocranium [Term] id: UBERON:0011090 name: skeleton of right pelvic girdle namespace: uberon def: "A skeleton of pelvic girdle that is part of a right pelvic girdle region." [OBOL:automatic] xref: FMA:87593 is_a: UBERON:0007832 ! pelvic girdle skeleton intersection_of: UBERON:0007832 ! pelvic girdle skeleton intersection_of: part_of UBERON:0011092 ! right pelvic girdle region relationship: part_of UBERON:0011092 ! right pelvic girdle region [Term] id: UBERON:0011091 name: skeleton of left pelvic girdle namespace: uberon def: "A skeleton of pelvic girdle that is part of a left pelvic girdle region." [OBOL:automatic] xref: FMA:87594 is_a: UBERON:0007832 ! pelvic girdle skeleton intersection_of: UBERON:0007832 ! pelvic girdle skeleton intersection_of: part_of UBERON:0011093 ! left pelvic girdle region relationship: part_of UBERON:0011093 ! left pelvic girdle region [Term] id: UBERON:0011092 name: right pelvic girdle region namespace: uberon def: "A pelvic girdle region that is in the right side of a multicellular organism." [OBOL:automatic] synonym: "right pelvic girdle" EXACT INCONSISTENT [FMA:16582] xref: FMA:16582 is_a: UBERON:0001271 ! pelvic girdle region intersection_of: UBERON:0001271 ! pelvic girdle region intersection_of: in_right_side_of UBERON:0000468 ! multicellular organism relationship: has_skeleton UBERON:0011090 ! skeleton of right pelvic girdle relationship: in_right_side_of UBERON:0000468 ! multicellular organism property_value: UBPROP:0000006 https://github.com/obophenotype/uberon/wiki/Modeling-paired-structures-Design-Pattern xsd:anyURI [Term] id: UBERON:0011093 name: left pelvic girdle region namespace: uberon def: "A pelvic girdle region that is in the left side of a multicellular organism." [OBOL:automatic] synonym: "left pelvic girdle" EXACT INCONSISTENT [FMA:16583] xref: FMA:16583 is_a: UBERON:0001271 ! pelvic girdle region intersection_of: UBERON:0001271 ! pelvic girdle region intersection_of: in_left_side_of UBERON:0000468 ! multicellular organism relationship: has_skeleton UBERON:0011091 ! skeleton of left pelvic girdle relationship: in_left_side_of UBERON:0000468 ! multicellular organism property_value: UBPROP:0000006 https://github.com/obophenotype/uberon/wiki/Modeling-paired-structures-Design-Pattern xsd:anyURI [Term] id: UBERON:0011107 name: synovial joint of pelvic girdle namespace: uberon def: "A synovial joint that is part of a pelvic girdle region." [OBOL:automatic] synonym: "joint of pelvic girdle" EXACT [] synonym: "pelvic girdle joint" EXACT [FMA:35173] xref: FMA:35173 xref: http://linkedlifedata.com/resource/umls/id/C0827002 xref: NCIT:C32890 xref: UMLS:C0827002 {source="ncithesaurus:Joint_of_the_Pelvic_Girdle"} is_a: UBERON:0002217 ! synovial joint is_a: UBERON:0008114 ! joint of girdle intersection_of: UBERON:0002217 ! synovial joint intersection_of: part_of UBERON:0001271 ! pelvic girdle region relationship: connects UBERON:0007830 ! pelvic girdle bone/zone relationship: part_of UBERON:0001271 ! pelvic girdle region [Term] id: UBERON:0011108 name: synovial joint of pectoral girdle namespace: uberon def: "A synovial joint that is part of a pectoral girdle region." [OBOL:automatic] synonym: "joint of shoulder girdle" EXACT [] synonym: "pectoral girdle joint" EXACT [FMA:35243] xref: FMA:35243 xref: http://www.snomedbrowser.com/Codes/Details/303080001 is_a: UBERON:0002217 ! synovial joint is_a: UBERON:0008114 ! joint of girdle intersection_of: UBERON:0002217 ! synovial joint intersection_of: part_of UBERON:0001421 ! pectoral girdle region relationship: connects UBERON:0007829 ! pectoral girdle bone relationship: part_of UBERON:0001421 ! pectoral girdle region property_value: UBPROP:0000012 "in FMA, these are part of the bony pectoral girdle" xsd:string {external_ontology="FMA"} [Term] id: UBERON:0011134 name: nonsynovial joint namespace: uberon def: "Joint in which the articulating bones or cartilages are connected by ligaments or fibrocartilage without an intervening synovial cavity. Examples: sagittal suture, inferior tibiofibular syndesmosis, costochondral joint, pubic symphysis." [FMA:7491] synonym: "solid joint" EXACT [FMA:7491] xref: FMA:7491 is_a: UBERON:0000982 {source="FMA"} ! skeletal joint [Term] id: UBERON:0011137 name: axial skeletal system namespace: uberon def: "Subdivision of the skeletal system which consists of the axial skeleton plus associated joints." [https://orcid.org/0000-0002-6601-2165] xref: FMA:7483 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000075 {source="FMA"} ! subdivision of skeletal system relationship: has_part UBERON:0000982 ! skeletal joint relationship: has_part UBERON:0005944 ! axial skeleton plus cranial skeleton property_value: seeAlso http://purl.obolibrary.org/obo/uberon/docs/The-axial-skeleton xsd:anyURI [Term] id: UBERON:0011138 name: postcranial axial skeletal system namespace: uberon def: "Subdivision of the skeletal system which consists of the postcranial axial skeleton plus associated joints." [https://github.com/obophenotype/uberon/issues/44, https://orcid.org/0000-0002-6601-2165] synonym: "axial skeletal system" BROAD [https://github.com/obophenotype/uberon/wiki/The-axial-skeleton] synonym: "post-cranial axial skeletal system" EXACT [] xref: FMA:302077 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000075 {source="FMA"} ! subdivision of skeletal system relationship: develops_from UBERON:0003089 {source="cjm"} ! sclerotome property_value: http://purl.org/dc/elements/1.1/contributor https://github.com/cmungall property_value: seeAlso http://purl.obolibrary.org/obo/uberon/docs/The-axial-skeleton xsd:anyURI [Term] id: UBERON:0011156 name: facial skeleton namespace: uberon def: "Subdivision of skull that consists of the facial bones." [http://en.wikipedia.org/wiki/Facial_skeleton, http://www.bartleby.com/107/37.html, https://orcid.org/0000-0002-6601-2165, MP:0005274] def: "Subdivision of skull that consists of the facial bones." [http://www.bartleby.com/107/37.html, https://orcid.org/0000-0002-6601-2165, MP:0005274, Wikipedia:Facial_skeleton] subset: pheno_slim synonym: "facial bone" RELATED [MA:0000318] synonym: "facial skeleton" EXACT [FMA:53673] synonym: "ossa facialia" RELATED LATIN [http://en.wikipedia.org/wiki/Facial_skeleton] synonym: "ossa facialia" RELATED LATIN [Wikipedia:Facial_skeleton] synonym: "ossa faciei" RELATED LATIN [http://en.wikipedia.org/wiki/Facial_skeleton] synonym: "ossa faciei" RELATED LATIN [Wikipedia:Facial_skeleton] synonym: "viscerocranium" RELATED INCONSISTENT [MA:0000318] xref: EHDAA2:0002206 xref: EHDAA:8361 xref: EMAPA:18022 xref: Facial:skeleton xref: FMA:53673 xref: MA:0000318 xref: Wikipedia:Facial_skeleton is_a: UBERON:0010313 ! neural crest-derived structure is_a: UBERON:0011158 {source="FMA"} ! primary subdivision of skull relationship: part_of UBERON:0001456 {source="FMA"} ! face property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/7/77/Illu_facial_bones.jpg xsd:anyURI [Term] id: UBERON:0011158 name: primary subdivision of skull namespace: uberon def: "The skull can be divided into two: the neurocranium and the facial skeleton" [http://orcid.org/0000-0002-6601-2165] def: "The skull can be divided into two: the neurocranium and the facial skeleton." [http://orcid.org/0000-0002-6601-2165] subset: non_informative synonym: "skull subdivision" EXACT [FMA:54964] synonym: "subdivision of skull" EXACT [FMA:54964] xref: FMA:54964 is_a: UBERON:0000075 {source="FMA"} ! subdivision of skeletal system relationship: part_of UBERON:0003129 ! skull [Term] id: UBERON:0011159 name: primary subdivision of cranial skeletal system namespace: uberon subset: non_informative is_a: UBERON:0000075 {source="FMA"} ! subdivision of skeletal system relationship: part_of UBERON:0010323 ! cranial skeletal system [Term] id: UBERON:0011164 name: neurocranium bone namespace: uberon def: "A bone that is part of a neurocranium [Automatically generated definition]." [OBOL:automatic] synonym: "chondrocranium bone" EXACT [MA:0001478] xref: EMAPA:35238 xref: http://www.snomedbrowser.com/Codes/Details/120229002 xref: MA:0001478 xref: SCTID:120229002 is_a: UBERON:0004766 ! cranial bone intersection_of: UBERON:0001474 ! bone element intersection_of: part_of UBERON:0001703 ! neurocranium relationship: part_of UBERON:0001703 ! neurocranium [Term] id: UBERON:0011215 name: central nervous system cell part cluster namespace: uberon def: "A multi cell part structure that is part of a central nervous system." [OBOL:automatic] subset: upper_level synonym: "cell part cluster of neuraxis" EXACT [FMA:83143] synonym: "neuraxis layer" EXACT [FMA:83143] xref: FMA:83143 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0005162 ! multi cell part structure intersection_of: UBERON:0005162 ! multi cell part structure intersection_of: part_of UBERON:0001017 ! central nervous system relationship: part_of UBERON:0001017 ! central nervous system [Term] id: UBERON:0011216 name: organ system subdivision namespace: uberon def: "A subdivision of an anatomical system." [http://orcid.org/0000-0002-6601-2165] subset: upper_level xref: FBbt:00007330 xref: FMA:67509 xref: http://www.snomedbrowser.com/Codes/Details/91690000 xref: SCTID:91690000 is_a: UBERON:0010000 {source="FBbt"} ! multicellular anatomical structure relationship: part_of UBERON:0000467 ! anatomical system [Term] id: UBERON:0011222 name: intra-ocular muscle namespace: uberon synonym: "intrinsic muscle of eyeball" EXACT [] synonym: "intrinsic ocular muscle" EXACT [EMAPA:18808] xref: AAO:0010038 xref: EMAPA:18808 xref: FMA:49150 is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0004277 ! eye muscle relationship: part_of UBERON:0003386 {source="EMAPA"} ! smooth muscle of eye property_value: UBPROP:0000001 "Muscles within the eye (bulbus oculi).[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0010038", ontology="AAO", source="AAO:EJS"} [Term] id: UBERON:0011233 name: synovial membrane of synovial tendon sheath namespace: uberon def: "Synovial sac which surrounds parts of one or more tendons. Examples: synovial tendon sheath of manual digit 2, radial bursa." [FMA:45087, Wikipedia:Synovial_sheath] def: "Synovial sac which surrounds parts of one or more tendons. Examples: synovial tendon sheath of manual digit 2, radial bursa." [FMA:45087, http://en.wikipedia.org/wiki/Synovial_sheath] comment: Alternate def: A synovial sheath is a layer of a tendon sheath containing tendons in the hand and foot. They lie internal to the fibrous tendon sheaths. An example is the common synovial sheath for the flexor tendons. [Wikipedia:Synovial_sheath] synonym: "synovium" BROAD [BTO:0001823] xref: BTO:0001823 xref: FMA:40878 xref: Synovial:sheath xref: Wikipedia:Synovial_sheath is_a: UBERON:0007616 ! layer of synovial tissue intersection_of: UBERON:0007616 ! layer of synovial tissue intersection_of: bounding_layer_of UBERON:0000304 ! tendon sheath relationship: bounding_layer_of UBERON:0000304 ! tendon sheath relationship: part_of UBERON:0000304 ! tendon sheath [Term] id: UBERON:0011234 name: fibrous membrane of synovial tendon sheath namespace: uberon xref: FMA:40877 is_a: UBERON:0004923 ! organ component layer intersection_of: UBERON:0004923 ! organ component layer intersection_of: bounding_layer_of UBERON:0000304 ! tendon sheath intersection_of: composed_primarily_of UBERON:0011824 ! fibrous connective tissue relationship: bounding_layer_of UBERON:0000304 ! tendon sheath relationship: composed_primarily_of UBERON:0011824 ! fibrous connective tissue relationship: part_of UBERON:0000304 ! tendon sheath [Term] id: UBERON:0011249 name: appendicular skeletal system namespace: uberon def: "Subdivision of the skeletal system which consists of the appendicular skeleton plus associated joints." [https://orcid.org/0000-0002-6601-2165] xref: FMA:7484 xref: VHOG:0001666 xref: VSAO:0000306 is_a: UBERON:0000075 ! subdivision of skeletal system relationship: has_part UBERON:0000982 ! skeletal joint relationship: has_part UBERON:0002091 ! appendicular skeleton property_value: seeAlso https://github.com/obophenotype/uberon/wiki/Appendages-and-the-appendicular-skeleton xsd:anyURI property_value: UBPROP:0000001 "Skeletal system which consists of the appendicular skeleton plus associated joints.[VSAO]" xsd:string {date_retrieved="2012-08-14", external_class="VSAO:0000306", ontology="VSAO", source="https://orcid.org/0000-0002-6601-2165"} property_value: UBPROP:0000001 "Skeletal system which consists of the appendicular skeleton plus associated joints.[VSAO]" xsd:string {date_retrieved="2012-08-14", external_class="VSAO:0000306", ontology="VSAO", source="https://orcid.org/0000-0002-6601-2165"} [Term] id: UBERON:0011270 name: dorsal trunk namespace: uberon def: "The part of the trunk that is in the dorsum[cjm]." [http://en.wikipedia.org/wiki/Human_back, UBERONREF:0000006] def: "The part of the trunk that is in the dorsum[cjm]." [UBERONREF:0000006, Wikipedia:Human_back] synonym: "back of trunk" EXACT [FMA:25056] synonym: "dorsal part of trunk" EXACT [] synonym: "dorsum of trunk" EXACT [FMA:25056] synonym: "trunk back" EXACT [FMA:25056] xref: EMAPA:35162 xref: FMA:25056 xref: Human:back xref: MA:0000020 xref: Wikipedia:Human_back is_a: UBERON:0009569 {source="FMA"} ! subdivision of trunk relationship: part_of UBERON:0001137 {source="FMA"} ! dorsum property_value: UBPROP:0000008 "In humans, the subdivision of trunk which is demarcated from the trunk proper by the external surface of the posterolateral part of the rib cage, the anterior surface of the thoracic vertebral column and the posterior axillary lines, the external surface of the posterior abdominal wall; together with the trunk proper, it constitutes the trunk[FMA]" xsd:string [Term] id: UBERON:0011272 name: embryonic skin basal layer namespace: uberon synonym: "basal cell layer of skin" RELATED [] synonym: "outer epithelium of body" RELATED [Wikipathways:WP2062] xref: EHDAA2:0001845 is_a: UBERON:0000490 {source="EHDAA2"} ! unilaminar epithelium is_a: UBERON:0010371 ! ecto-epithelium relationship: develops_from UBERON:0000076 {source="EHDAA2"} ! external ectoderm relationship: part_of UBERON:0002199 {source="EHDAA2"} ! integument property_value: editor_note "compare with 'stratum basale of epidermis'. This class is the source for many adult structures - see WP2062. See also: 'enveloping layer of ectoderm'" xsd:string [Term] id: UBERON:0011362 name: cranial blood vasculature namespace: uberon def: "A blood vasculature that is part of a head." [OBOL:automatic] synonym: "cranial blood vessel" EXACT [ZFA:0005297] synonym: "cranial blood vessels" RELATED PLURAL [TAO:0005297] synonym: "set of blood vessels of head" EXACT [] xref: TAO:0005297 xref: ZFA:0005297 is_a: UBERON:0002200 ! vasculature of head is_a: UBERON:0004537 ! blood vasculature intersection_of: UBERON:0004537 ! blood vasculature intersection_of: part_of UBERON:0000033 ! head property_value: UBPROP:0000001 "Blood vessel part of cranial vasculature.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0005297", ontology="TAO", source="ZFIN:curator"} [Term] id: UBERON:0011565 name: lumen of gastrointestinal system namespace: uberon synonym: "cavity of digestive tract" EXACT [] synonym: "cavity of gastrointestinal tract" EXACT [] synonym: "gastrointestinal tract lumen" EXACT [FMA:54364] synonym: "lumen of gastrointestinal tract" EXACT [FMA:54364] xref: FMA:54364 xref: http://www.snomedbrowser.com/Codes/Details/432899004 xref: SCTID:432899004 is_a: UBERON:0002553 ! anatomical cavity relationship: part_of UBERON:0001007 ! digestive system [Term] id: UBERON:0011566 name: lumen of esophagus namespace: uberon def: "An anatomical cavity that is part of a esophagus." [OBOL:automatic] subset: pheno_slim synonym: "cavity of eosophagus" EXACT [] synonym: "cavity of esophagus" EXACT [FMA:9398] synonym: "eosophageal cavity" EXACT [] synonym: "eosophageal lumen" EXACT [] synonym: "eosophagus lumen" EXACT [] synonym: "esophageal cavity" EXACT [FMA:9398] synonym: "esophageal lumen" EXACT [FMA:9398] synonym: "esophagus lumen" EXACT [FMA:9398] xref: EMAPA:18380 xref: FMA:9398 xref: http://www.snomedbrowser.com/Codes/Details/322648002 xref: SCTID:322648002 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000464 ! anatomical space intersection_of: UBERON:0000464 ! anatomical space intersection_of: luminal_space_of UBERON:0001043 ! esophagus relationship: luminal_space_of UBERON:0001043 ! esophagus relationship: part_of UBERON:0001043 ! esophagus relationship: part_of UBERON:0011565 {source="FMA"} ! lumen of gastrointestinal system [Term] id: UBERON:0011582 name: paired limb/fin skeleton namespace: uberon def: "The collection of all skeletal elements in an individual limb or fin." [https://orcid.org/0000-0002-6601-2165] subset: homology_grouping synonym: "limb/fin skeleton" EXACT [VSAO:0000301] synonym: "skeletal parts of limb/fin" EXACT [] synonym: "skeleton of limb/fin" EXACT [] xref: VSAO:0000301 is_a: CARO:0000003 ! connected anatomical structure is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0010912 ! subdivision of skeleton intersection_of: UBERON:0010912 ! subdivision of skeleton intersection_of: skeleton_of UBERON:0004708 ! paired limb/fin relationship: develops_from UBERON:0003081 {source="ISBN:9780878932504"} ! lateral plate mesoderm relationship: part_of UBERON:0002091 ! appendicular skeleton relationship: part_of UBERON:0004708 ! paired limb/fin relationship: skeleton_of UBERON:0004708 ! paired limb/fin property_value: UBPROP:0000001 "Skeletal subdivision that is part of the paired limb/fin.[VSAO]" xsd:string {date_retrieved="2012-08-14", external_class="VSAO:0000301", ontology="VSAO", source="GO_REF:0000034, http://dx.plos.org/10.1371/journal.pone.0051070"} [Term] id: UBERON:0011585 name: cell condensation namespace: uberon def: "Anatomical structure that is an aggregation of similar cells from which cartilages and bones form, and from which chondrogenesis and osteogenesis are initiated during repair and/or regeneration. (Hall and Miyake 1995)." [GO_REF:0000034, http://dx.plos.org/10.1371/journal.pone.0051070, PSPUB:0000170, VSAO:0000006] xref: VSAO:0000006 xref: XAO:0004021 is_a: UBERON:0000061 {source="VSAO"} ! anatomical structure property_value: editor_note "consider obsoleting, coordinate with VSAO" xsd:string [Term] id: UBERON:0011595 name: jaw region namespace: uberon def: "A subdivision of the head that corresponds to the jaw skeleton, containing both soft tissue, skeleton and teeth (when present). The jaw region is divided into upper and lower regions." [http://orcid.org/0000-0002-6601-2165] xref: EMAPA:32905 xref: NCIT:C114916 is_a: CARO:0000003 ! connected anatomical structure is_a: UBERON:0000475 ! organism subdivision is_a: UBERON:0010314 ! structure with developmental contribution from neural crest intersection_of: UBERON:0000475 ! organism subdivision intersection_of: has_skeleton UBERON:0001708 ! jaw skeleton relationship: has_part UBERON:0001708 ! jaw skeleton relationship: has_skeleton UBERON:0001708 ! jaw skeleton relationship: only_in_taxon NCBITaxon:7776 ! Gnathostomata relationship: part_of UBERON:0000165 {source="EMAPA", source="FMA-abduced", source="ZFA-abduced"} ! mouth property_value: seeAlso http://eol.org/collections/11578 xsd:anyURI [Term] id: UBERON:0011596 name: future lower lip namespace: uberon synonym: "lower jaw future lip" EXACT [EHDAA2:0001020] xref: EHDAA2:0001020 is_a: UBERON:0000490 {source="EHDAA2"} ! unilaminar epithelium is_a: UBERON:0003236 ! epithelium of lower jaw relationship: develops_from UBERON:0005867 {source="Mandibular:prominence"} ! mandibular prominence relationship: develops_from UBERON:0005867 {source="Wikipedia:Mandibular_prominence"} ! mandibular prominence [Term] id: UBERON:0011642 name: oral epithelium from ectoderm namespace: uberon def: "An epithelium that develops_from a ectoderm and is part of a oral epithelium." [OBOL:automatic] xref: EHDAA2:0004137 is_a: UBERON:0000490 {source="EHDAA2"} ! unilaminar epithelium is_a: UBERON:0002424 ! oral epithelium is_a: UBERON:0010371 ! ecto-epithelium intersection_of: UBERON:0000483 ! epithelium intersection_of: develops_from UBERON:0000924 ! ectoderm intersection_of: part_of UBERON:0002424 ! oral epithelium relationship: develops_from UBERON:0009479 {source="EHDAA2"} ! ectoderm of buccopharyngeal membrane relationship: part_of UBERON:0002424 ! oral epithelium [Term] id: UBERON:0011648 name: jaw muscle namespace: uberon subset: efo_slim subset: pheno_slim synonym: "mandibular muscle" EXACT [TAO:0000236] synonym: "mandibular muscles" EXACT PLURAL [TAO:0000236] xref: AAO:0000247 xref: EFO:0003511 xref: TAO:0000236 xref: XAO:0003269 xref: ZFA:0000236 is_a: UBERON:0002376 ! cranial muscle relationship: capable_of_part_of GO:0071626 ! mastication [Term] id: UBERON:0011676 name: subdivision of organism along main body axis namespace: uberon def: "A major subdivision of an organism that divides an organism along its main body axis (typically anterio-posterior axis). In vertebrates, this is based on the vertebral column." [https://orcid.org/0000-0002-6601-2165] subset: upper_level synonym: "axial subdivision of organism" EXACT [] synonym: "body segment" RELATED [] synonym: "main body segment" RELATED [] is_a: UBERON:0000475 ! organism subdivision relationship: part_of UBERON:0013701 ! main body axis property_value: editor_note "Ideally this would be disjoint with analagous class for appendicular axes, but currently 'appendages' like antennae, horns cause a problem" xsd:string [Term] id: UBERON:0011695 name: embryonic cardiovascular system namespace: uberon def: "A cardiovascular system that is part of a conceptus." [OBOL:automatic] synonym: "conceptus cardiovascular system" EXACT [] synonym: "embryonic circulatory system" RELATED [] synonym: "fetal circulatory system" RELATED [] xref: EHDAA2:0000216 xref: FMA:305965 xref: NCIT:C34148 is_a: UBERON:0004535 ! cardiovascular system intersection_of: UBERON:0004535 ! cardiovascular system intersection_of: part_of UBERON:0004716 ! conceptus relationship: part_of UBERON:0004716 ! conceptus [Term] id: UBERON:0011772 name: lower jaw opening namespace: uberon def: "An anatomical space that is part of a bone of lower jaw." [OBOL:automatic] xref: AAO:0000273 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000464 ! anatomical space intersection_of: UBERON:0000464 ! anatomical space intersection_of: luminal_space_of UBERON:0004768 ! bone of lower jaw relationship: luminal_space_of UBERON:0004768 ! bone of lower jaw relationship: part_of UBERON:0004768 ! bone of lower jaw [Term] id: UBERON:0011777 name: nucleus of spinal cord namespace: uberon def: "A neural nucleus that is part of the spinal cord." [http://orcid.org/0000-0002-6601-2165] subset: grouping_class synonym: "spinal cord nucleus" EXACT [FMA:77011] xref: FMA:77011 is_a: UBERON:0000125 ! neural nucleus intersection_of: UBERON:0000125 ! neural nucleus intersection_of: part_of UBERON:0002240 ! spinal cord relationship: part_of UBERON:0002240 ! spinal cord [Term] id: UBERON:0011779 name: nerve of head region namespace: uberon def: "A nerve that is part of a head." [OBOL:automatic] subset: grouping_class synonym: "cephalic nerve" RELATED [] synonym: "head nerve" RELATED [] is_a: UBERON:0001021 ! nerve intersection_of: UBERON:0001021 ! nerve intersection_of: part_of UBERON:0000033 ! head relationship: part_of UBERON:0000033 ! head [Term] id: UBERON:0011814 name: non-neurogenic ectodermal placode namespace: uberon def: "Ectodermal placode that does not develop into a component of the nervous system." [http://orcid.org/0000-0002-6601-2165, http://www.ncbi.nlm.nih.gov/pubmed/11523831] def: "Ectodermal placode that does not develop into a component of the nervous system." [http://orcid.org/0000-0002-6601-2165, PMID:11523831] is_a: UBERON:0005085 {source="cjm"} ! ectodermal placode [Term] id: UBERON:0011820 name: atrioventricular region namespace: uberon def: "An anatomical junction that divides and overlaps with and atrium and a ventricle in the heart." [http://orcid.org/0000-0002-6601-2165] synonym: "atrial ventricular junction" RELATED [GO:0003294] synonym: "atrioventricular junction" RELATED [FMA:85125, GO:0003294] synonym: "atrioventricular segment" RELATED [PMID:21234997] synonym: "atrioventricular segment" RELATED [http://www.ncbi.nlm.nih.gov/pubmed/21234997] synonym: "AV region" RELATED [PMID:21234997] synonym: "AV region" RELATED [http://www.ncbi.nlm.nih.gov/pubmed/21234997] synonym: "AV segment" RELATED [http://www.ncbi.nlm.nih.gov/pubmed/21234997] synonym: "AV segment" RELATED [PMID:21234997] xref: EHDAA2:0004149 xref: FMA:85125 is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0007651 ! anatomical junction intersection_of: UBERON:0007651 ! anatomical junction intersection_of: connects UBERON:0002081 ! cardiac atrium intersection_of: connects UBERON:0002082 ! cardiac ventricle intersection_of: part_of UBERON:0000948 ! heart relationship: connects UBERON:0002081 ! cardiac atrium relationship: connects UBERON:0002082 ! cardiac ventricle relationship: part_of UBERON:0000948 ! heart [Term] id: UBERON:0011821 name: irregular connective tissue namespace: uberon def: "Connective tissue, which consists of a population of connective tissue cells, the intercellular matrix of which contains an irregular network of collagen and elastic fiber bundles. Examples: areolar tissue, mucoid tissue, connective tissue of peritoneum, connective tissue of fibrous pericardium." [FMA:20107] xref: FMA:20107 is_a: UBERON:0002384 {source="FMA"} ! connective tissue [Term] id: UBERON:0011822 name: dense irregular connective tissue namespace: uberon def: "Irregular connective tissue is an irregular connective tissue, the intercellular matrix of which contains a dense irregular network of collagen and elastic fiber bundles. Examples: connective tissue of peritoneum, connective tissue of fibrous pericardium." [FMA:20109, http://en.wikipedia.org/wiki/Dense_irregular_connective_tissue] def: "Irregular connective tissue is an irregular connective tissue, the intercellular matrix of which contains a dense irregular network of collagen and elastic fiber bundles. Examples: connective tissue of peritoneum, connective tissue of fibrous pericardium." [FMA:20109, Wikipedia:Dense_irregular_connective_tissue] synonym: "irregular dense connective tissue" EXACT [] synonym: "typus irregularis (textus connectivus collagenosus compactus)" EXACT [FMA:20109] xref: FMA:20109 xref: http://en.wikipedia.org/wiki/Dense_irregular_connective_tissue xref: http://linkedlifedata.com/resource/umls/id/C0738366 xref: NCIT:C32882 xref: UMLS:C0738366 {source="ncithesaurus:Irregular_Dense_Connective_Tissue"} xref: Wikipedia:Dense_irregular_connective_tissue is_a: UBERON:0011821 {source="FMA"} ! irregular connective tissue is_a: UBERON:0011823 ! dense connective tissue intersection_of: UBERON:0011821 ! irregular connective tissue intersection_of: composed_primarily_of UBERON:0011860 ! collection of collagen fibrils intersection_of: has_part GO:0071953 ! elastic fiber relationship: has_part GO:0071953 ! elastic fiber property_value: UBPROP:0000001 "Tissue characterized by a thick, random arrangement of collagen and elastin fibers with very few cells. The majority of the cells are fibroblasts, but mast cells and macrophages may also be seen. It is found in the dermis, periosteum, perichondrium, capsules of organs and sheaths of nerves and muscles[NCIT]" xsd:string {date_retrieved="2012-08-29", external_class="ncithesaurus:Irregular_Dense_Connective_Tissue", ontology="NCIT"} [Term] id: UBERON:0011823 name: dense connective tissue namespace: uberon def: "Dense connective tissue is mainly composed of collagen type I. Crowded between the collagen fibers are rows of fibroblasts, fiber-forming cells, that manufacture the fibers. Dense connective tissue forms strong, rope-like structures such as tendons and ligaments. Tendons attach skeletal muscles to bones; ligaments connect bones to bones at joints. Ligaments are more stretchy and contain more elastic fibers than tendons. Dense connective tissue also make up the lower layers of the skin (dermis), where it is arranged in sheets" [http://en.wikipedia.org/wiki/Dense_connective_tissue] def: "Dense connective tissue is mainly composed of collagen type I. Crowded between the collagen fibers are rows of fibroblasts, fiber-forming cells, that manufacture the fibers. Dense connective tissue forms strong, rope-like structures such as tendons and ligaments. Tendons attach skeletal muscles to bones; ligaments connect bones to bones at joints. Ligaments are more stretchy and contain more elastic fibers than tendons. Dense connective tissue also make up the lower layers of the skin (dermis), where it is arranged in sheets." [Wikipedia:Dense_connective_tissue] def: "Dense connective tissue is mainly composed of collagen type I. Crowded between the collagen fibers are rows of fibroblasts, fiber-forming cells, that manufacture the fibers. Dense connective tissue forms strong, rope-like structures such as tendons and ligaments. Tendons attach skeletal muscles to bones; ligaments connect bones to bones at joints. Ligaments are more stretchy and contain more elastic fibers than tendons. Dense connective tissue also make up the lower layers of the skin (dermis), where it is arranged in sheets." [http://en.wikipedia.org/wiki/Dense_connective_tissue] xref: AAO:0000121 xref: http://en.wikipedia.org/wiki/Dense_connective_tissue xref: http://linkedlifedata.com/resource/umls/id/C1511770 xref: NCIT:C32450 xref: UMLS:C1511770 {source="ncithesaurus:Dense_Connective_Tissue"} xref: Wikipedia:Dense_connective_tissue is_a: UBERON:0002384 ! connective tissue intersection_of: UBERON:0002384 ! connective tissue intersection_of: composed_primarily_of UBERON:0011860 ! collection of collagen fibrils disjoint_from: UBERON:0011825 ! loose connective tissue relationship: composed_primarily_of UBERON:0011860 ! collection of collagen fibrils relationship: has_part UBERON:0011860 ! collection of collagen fibrils property_value: editor_note "our OWL definition states that this is differentiated from other connective tissue types by virtue of the fact that the collage fiber component predominates, as opposed to cells and fluid." xsd:string property_value: UBPROP:0000001 "Connective tissue in which the fibrous component predominates. The cells, ground substance, and tissue fluid represent a minor component[NCIT]" xsd:string {date_retrieved="2012-08-29", external_class="ncithesaurus:Dense_Connective_Tissue", ontology="NCIT"} [Term] id: UBERON:0011824 name: fibrous connective tissue namespace: uberon xref: FMA:75634 xref: http://www.snomedbrowser.com/Codes/Details/363130003 xref: SCTID:363130003 is_a: UBERON:0011822 {source="FMA"} ! dense irregular connective tissue [Term] id: UBERON:0011825 name: loose connective tissue namespace: uberon def: "Irregular connective tissue, the intercellular matrix of which contains a sparse irregular network of collagen and elastic fiber bundles. Examples: areolar tissue, neuroglial tissue, mucoid tissue." [FMA:19783] synonym: "textus connectivus collagenosus laxus" EXACT LATIN [FMA:19783, FMA:TA] synonym: "textus connectivus laxus" EXACT LATIN [FMA:19783, FMA:TA] xref: FMA:19783 xref: http://en.wikipedia.org/wiki/Loose_connective_tissue xref: http://linkedlifedata.com/resource/umls/id/C1253917 xref: NCIT:C33007 xref: UMLS:C1253917 {source="ncithesaurus:Loose_Connective_Tissue"} xref: Wikipedia:Loose_connective_tissue is_a: UBERON:0011821 {source="FMA"} ! irregular connective tissue [Term] id: UBERON:0011858 name: acinus of exocrine gland namespace: uberon def: "An acinus that is part of a exocrine gland." [OBOL:automatic] synonym: "exocrine gland acinus" EXACT [] is_a: UBERON:0009842 ! glandular acinus intersection_of: UBERON:0009842 ! glandular acinus intersection_of: part_of UBERON:0002365 ! exocrine gland relationship: part_of UBERON:0002365 ! exocrine gland [Term] id: UBERON:0011860 name: collection of collagen fibrils namespace: uberon xref: FMA:63212 xref: MESH:D024022 xref: NCIT:C32339 xref: NIF_Subcellular:sao7547390221 is_a: UBERON:0000476 {source="ZFA"} ! acellular anatomical structure relationship: composed_primarily_of GO:0005581 ! collagen trimer relationship: composed_primarily_of GO:0098643 ! banded collagen fibril property_value: seeAlso UBERON:0007377 property_value: UBPROP:0000012 "the FMA class specifically refers to ureter" xsd:string {external_ontology="FMA"} [Term] id: UBERON:0011861 name: aorta collagen fibril namespace: uberon def: "The connective tissue bundles in the extracellular matrix of aorta tissue that are composed of collagen, and play a role in tissue strength and elasticity." [MP:0011640] subset: pheno_slim is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0011860 ! collection of collagen fibrils intersection_of: UBERON:0011860 ! collection of collagen fibrils intersection_of: part_of UBERON:0004664 ! aorta tunica adventitia relationship: contributes_to_morphology_of UBERON:0004664 ! aorta tunica adventitia relationship: part_of UBERON:0004664 ! aorta tunica adventitia [Term] id: UBERON:0011862 name: pulmonary collagen fibril namespace: uberon def: "The connective tissue bundles in the extracellular matrix of pulmonary tissue that are composed of collagen, and play a role in tissue strength and elasticity." [MP:0011641] subset: pheno_slim is_a: UBERON:0004119 ! endoderm-derived structure is_a: UBERON:0011860 ! collection of collagen fibrils intersection_of: UBERON:0011860 ! collection of collagen fibrils intersection_of: part_of UBERON:0002048 ! lung relationship: contributes_to_morphology_of UBERON:0002048 ! lung relationship: part_of UBERON:0002048 ! lung [Term] id: UBERON:0011863 name: bone collagen fibril namespace: uberon def: "The connective tissue bundles in the extracellular matrix of bone tissue that are composed of collagen, and play a role in tissue strength and elasticity." [MP:0011642] subset: pheno_slim is_a: UBERON:0011860 ! collection of collagen fibrils intersection_of: UBERON:0011860 ! collection of collagen fibrils intersection_of: part_of UBERON:0001474 ! bone element relationship: part_of UBERON:0001474 ! bone element [Term] id: UBERON:0011864 name: tendon collagen fibril namespace: uberon def: "The connective tissue bundles in the extracellular matrix of tendon tissue that are composed of collagen, and play a role in tissue strength and elasticity." [MP:0011643] subset: pheno_slim is_a: UBERON:0011860 ! collection of collagen fibrils intersection_of: UBERON:0011860 ! collection of collagen fibrils intersection_of: part_of UBERON:0000043 ! tendon relationship: contributes_to_morphology_of UBERON:0000043 ! tendon relationship: part_of UBERON:0000043 ! tendon [Term] id: UBERON:0011865 name: corneal stroma collagen fibril namespace: uberon def: "The connective tissue bundles in the extracellular matrix of corneal stroma that are composed of collagen, and play a role in tissue strength and elasticity." [MP:0011650] subset: pheno_slim is_a: UBERON:0010313 ! neural crest-derived structure is_a: UBERON:0011860 ! collection of collagen fibrils intersection_of: UBERON:0011860 ! collection of collagen fibrils intersection_of: part_of UBERON:0001777 ! substantia propria of cornea relationship: contributes_to_morphology_of UBERON:0001777 ! substantia propria of cornea relationship: part_of UBERON:0001777 ! substantia propria of cornea [Term] id: UBERON:0011892 name: anterior uvea namespace: uberon def: "Front (ventral) portion of the vascular, pigmentary, or middle coat of the eye, including the ciliary body and the iris." [MP:0005194] subset: pheno_slim synonym: "anterior part of uveal tract" EXACT [] synonym: "anterior uveal tract" EXACT [] synonym: "anterior vascular layer of the eyeball" EXACT [] synonym: "anterior vascular tunic of the eye" EXACT [] synonym: "ciliary body and iris" RELATED [] synonym: "Haller tunica vascula" EXACT [MP:0005194] synonym: "tunica vasculosa bulbosa" EXACT [MP:0005194] synonym: "vasculosa oculi" RELATED [MP:0005194] synonym: "ventral uveal tract" EXACT [] xref: EMAPA:37417 {source="MA:th"} xref: http://www.snomedbrowser.com/Codes/Details/280656002 xref: SCTID:280656002 is_a: UBERON:0000481 {source="ZFA"} ! multi-tissue structure is_a: UBERON:0004121 ! ectoderm-derived structure relationship: contributes_to_morphology_of UBERON:0001768 ! uvea relationship: contributes_to_morphology_of UBERON:0001801 ! anterior segment of eyeball relationship: has_part UBERON:0001769 ! iris relationship: has_part UBERON:0001775 ! ciliary body relationship: part_of UBERON:0001768 {source="MP"} ! uvea [Term] id: UBERON:0011899 name: epimysium namespace: uberon def: "Epimysium is a layer of connective tissue which ensheaths the entire muscle. It is composed of dense irregular connective tissue. It is continuous with fascia and other connective tissue wrappings of muscle including the endomysium, and perimysium. It is also continuous with tendons where it becomes thicker and collagenous." [Wikipedia:Epimysium] def: "Epimysium is a layer of connective tissue which ensheaths the entire muscle. It is composed of dense irregular connective tissue. It is continuous with fascia and other connective tissue wrappings of muscle including the endomysium, and perimysium. It is also continuous with tendons where it becomes thicker and collagenous." [http://en.wikipedia.org/wiki/Epimysium] synonym: "epimysia" RELATED PLURAL [Wikipedia:Epimysium] synonym: "epimysia" RELATED PLURAL [http://en.wikipedia.org/wiki/Epimysium] synonym: "fascia of muscle organ" EXACT [FMA:9726] xref: FMA:9726 xref: http://en.wikipedia.org/wiki/Epimysium xref: http://linkedlifedata.com/resource/umls/id/C0504096 xref: NCIT:C32527 xref: UMLS:C0504096 {source="ncithesaurus:Epimysium"} xref: Wikipedia:Epimysium is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0011822 {source="FMA"} ! dense irregular connective tissue relationship: bounding_layer_of UBERON:0014892 ! skeletal muscle organ relationship: continuous_with UBERON:0000043 ! tendon relationship: part_of UBERON:0001134 {source="FMA"} ! skeletal muscle tissue property_value: UBPROP:0000009 "The Epimysium also protects muscles from friction against other muscles and bones" xsd:string [Term] id: UBERON:0011953 name: stomach glandular region namespace: uberon def: "A region of the stomach that is lined with glandular epithelium." [http://orcid.org/0000-0002-6601-2165] subset: pheno_slim synonym: "glandular stomach" RELATED [] xref: EMAPA:17623 xref: MA:0001613 xref: NCIT:C77661 xref: SCTID:27633001 xref: UMLS:C0227197 {source="ncithesaurus:Glandular_Stomach"} is_a: UBERON:0009870 ! zone of stomach intersection_of: UBERON:0009870 ! zone of stomach intersection_of: has_part UBERON:0006924 ! stomach glandular epithelium relationship: has_part UBERON:0006924 ! stomach glandular epithelium property_value: editor_note "as currently defined, this would include the cardiac antrum; however, the intent may be to exclude the cardiac glands and in mice for this to be part of the region distal to the margo plicatus" xsd:string [Term] id: UBERON:0011997 name: coelom namespace: uberon def: "The aggregate of the coelemic cavity lumen plus the membranes that line the lumen." [http://en.wikipedia.org/wiki/Body_cavity, http://en.wikipedia.org/wiki/Coelom, UBERON:cjm] def: "The aggregate of the coelemic cavity lumen plus the membranes that line the lumen." [UBERON:cjm, Wikipedia:Body_cavity, Wikipedia:Coelom] synonym: "coelem" RELATED [] synonym: "coelomic cavity" RELATED [EHDAA2:0004731] synonym: "enterocoelom" NARROW [NCBITaxon:33511] synonym: "haemocoelom" NARROW [] synonym: "schizocoelom" NARROW [] xref: EHDAA2:0004731 xref: http://en.wikipedia.org/wiki/Coelom xref: Wikipedia:Coelom is_a: UBERON:0000481 {source="EHDAA2"} ! multi-tissue structure relationship: only_in_taxon NCBITaxon:33213 ! Bilateria property_value: editor_note "EHDAA2 distingsuishes between the lumen, the lining, and the 'coelomic cavity', which despire it's name, is not a space - it is the aggregate of space plus lining." xsd:string property_value: RO:0002161 NCBITaxon:147099 {source="Wikipedia:Acoelomorpha"} property_value: RO:0002161 NCBITaxon:147099 {source="http://en.wikipedia.org/wiki/Acoelomorpha"} property_value: UBPROP:0000007 "coelomic" xsd:string [Term] id: UBERON:0012054 name: myocoele namespace: uberon def: "The cavity within a myotome." [http://medical-dictionary.thefreedictionary.com/myocoele] xref: EMAPA:31134 xref: VHOG:0001283 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0002553 ! anatomical cavity intersection_of: UBERON:0002553 ! anatomical cavity intersection_of: luminal_space_of UBERON:0003082 ! myotome relationship: luminal_space_of UBERON:0003082 ! myotome relationship: part_of UBERON:0003082 ! myotome property_value: UBPROP:0000003 "The central cavity within the mesoderm is the paired primary or embryonic coelom. Parts of the embryonic coelom often become enclosed in the mesoderm, forming a myocoel within the epimere, a nephrocoel within the mesomere, and simple coelom (body cavity) within the lateral plate mesoderm.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001283", ontology="VHOG", source="ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.166 and Figure 5.6", source="http://bgee.unil.ch/"} property_value: UBPROP:0000003 "The central cavity within the mesoderm is the paired primary or embryonic coelom. Parts of the embryonic coelom often become enclosed in the mesoderm, forming a myocoel within the epimere, a nephrocoel within the mesomere, and simple coelom (body cavity) within the lateral plate mesoderm.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001283", ontology="VHOG", source="http://bgee.unil.ch/", source="ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.166 and Figure 5.6"} [Term] id: UBERON:0012075 name: replacement bone namespace: uberon def: "Bone that forms as a replacement of another structural tissue." [ZFA:0001628] synonym: "replacement bones" EXACT PLURAL [ZFA:0001628] xref: AAO:0010768 xref: TAO:0001637 xref: ZFA:0001628 is_a: UBERON:0001474 {source="ZFA"} ! bone element is_a: UBERON:0010522 {source="ZFA"} ! replacement element property_value: UBPROP:0000001 "Bone that forms as a replacement of another structural tissue.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0001637", ontology="TAO", source="TAO:wd"} property_value: UBPROP:0000012 "This class was introduced to be consistent with the ZFA hierarchy. The corresponding TAO term was obsoleted, and never introduced into VSAO. Note that VSAO does have replacement element." xsd:string {external_ontology="ZFA"} [Term] id: UBERON:0012125 name: dermatological-muscosal system namespace: uberon def: "Anatomical system that consists of the integumental system plus all mucosae and submucosae." [https://github.com/obophenotype/uberon/issues/53] synonym: "dermatological system" RELATED [OBI:MC] is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000467 ! anatomical system relationship: existence_ends_during UBERON:0000066 ! fully formed stage relationship: has_part UBERON:0000009 ! submucosa relationship: has_part UBERON:0000344 ! mucosa relationship: has_part UBERON:0002072 ! hypodermis relationship: has_part UBERON:0002097 ! skin of body property_value: http://purl.org/dc/elements/1.1/contributor https://github.com/cmungall property_value: http://purl.org/dc/elements/1.1/contributor https://github.com/mcourtot [Term] id: UBERON:0012172 name: stomach primordium namespace: uberon def: "A primordium that has the potential to develop into a stomach." [OBOL:automatic] subset: efo_slim synonym: "stomach endoderm" RELATED [EFO:0002580] xref: EFO:0002580 xref: NCIT:C34305 xref: UMLS:C1514976 {source="ncithesaurus:Stomach_Primordium"} is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0001048 ! primordium intersection_of: UBERON:0001048 ! primordium intersection_of: has_potential_to_develop_into UBERON:0000945 ! stomach relationship: has_potential_to_develop_into UBERON:0000945 ! stomach relationship: part_of UBERON:0003258 ! endoderm of foregut [Term] id: UBERON:0012180 name: head or neck skin namespace: uberon def: "A zone of skin that is part of a craniocervical region." [OBOL:automatic] xref: EMAPA:37276 {source="MA:th"} xref: http://linkedlifedata.com/resource/umls/id/C1522650 xref: MA:0000574 xref: NCIT:C12294 xref: UMLS:C1522650 {source="ncithesaurus:Skin_of_the_Scalp_and_Neck"} is_a: UBERON:0000014 ! zone of skin intersection_of: UBERON:0000014 ! zone of skin intersection_of: part_of UBERON:0007811 ! craniocervical region relationship: part_of UBERON:0007811 ! craniocervical region [Term] id: UBERON:0012193 name: phrenic vein namespace: uberon def: "The veins that run parallel to the phrenic arteries which include the two superior and two inferior phrenic veins." [ncithesaurus:Phrenic_Vein] xref: EMAPA:37180 {source="MA:th"} xref: MA:0002194 xref: NCIT:C53062 xref: UMLS:C1709532 {source="ncithesaurus:Phrenic_Vein"} is_a: UBERON:0001638 ! vein intersection_of: UBERON:0001638 ! vein intersection_of: drains UBERON:0001103 ! diaphragm relationship: drains UBERON:0001103 ! diaphragm [Term] id: UBERON:0012254 name: abdominal aorta artery namespace: uberon def: "An artery that originates from the abdominal aorta." [http://en.wikipedia.org/wiki/Abdominal_aorta#Branches, https://orcid.org/0000-0002-6601-2165] def: "An artery that originates from the abdominal aorta." [https://orcid.org/0000-0002-6601-2165, Wikipedia:Abdominal_aorta#Branches] subset: pheno_slim synonym: "abdominal artery" EXACT [] synonym: "artery of abdomen" EXACT [] xref: http://www.snomedbrowser.com/Codes/Details/281470000 xref: SCTID:281470000 is_a: UBERON:0004573 ! systemic artery intersection_of: UBERON:0001637 ! artery intersection_of: branching_part_of UBERON:0001516 ! abdominal aorta relationship: branching_part_of UBERON:0001516 ! abdominal aorta relationship: part_of UBERON:0001516 ! abdominal aorta [Term] id: UBERON:0012274 name: columnar epithelium namespace: uberon def: "An epithelium that consists of columnar epithelial cells. Columnar epithelia are epithelial cells whose heights are at least four times their width. Columnar epithelia are divided into simple (or unilayered), and the rarer stratified (or multi-layered).[WP, modified]." [http://en.wikipedia.org/wiki/Columnar_epithelium] def: "An epithelium that consists of columnar epithelial cells. Columnar epithelia are epithelial cells whose heights are at least four times their width. Columnar epithelia are divided into simple (or unilayered), and the rarer stratified (or multi-layered).[WP, modified]." [Wikipedia:Columnar_epithelium] xref: Columnar:epithelium xref: Wikipedia:Columnar_epithelium is_a: UBERON:0000483 ! epithelium relationship: has_part CL:0000075 ! columnar/cuboidal epithelial cell [Term] id: UBERON:0012275 name: meso-epithelium namespace: uberon def: "Epithelium that derives from the mesoderm. [Automatically generated definition]." [OBOL:automatic] synonym: "mesoderm-derived epithelium" EXACT [] synonym: "mesoepithelium" EXACT [] xref: FMA:86452 is_a: UBERON:0000483 ! epithelium is_a: UBERON:0004120 ! mesoderm-derived structure intersection_of: UBERON:0000483 ! epithelium intersection_of: develops_from UBERON:0000926 ! mesoderm [Term] id: UBERON:0012314 name: embryonic facial prominence namespace: uberon def: "One of five swellings formed during the development of the face" [http://www.indiana.edu/~anat550/hnanim/face/face.html] def: "One of five swellings formed during the development of the face." [http://www.indiana.edu/~anat550/hnanim/face/face.html] synonym: "embryonic facial process" RELATED [] synonym: "facial primordium" RELATED [] synonym: "primordium of face" RELATED [] xref: FMA:293103 xref: http://www.snomedbrowser.com/Codes/Details/89066004 xref: SCTID:89066004 is_a: UBERON:0002050 ! embryonic structure relationship: only_in_taxon NCBITaxon:7742 ! Vertebrata relationship: part_of UBERON:0000033 ! head [Term] id: UBERON:0012320 name: cervical artery namespace: uberon def: "An artery of the neck" [https://orcid.org/0000-0002-6601-2165] def: "An artery of the neck." [https://orcid.org/0000-0002-6601-2165] xref: EMAPA:37075 {source="MA:th"} xref: http://linkedlifedata.com/resource/umls/id/C1707349 xref: NCIT:C52850 xref: UMLS:C1707349 {source="ncithesaurus:Cervical_Artery"} is_a: UBERON:0001637 ! artery is_a: UBERON:0003502 ! neck blood vessel intersection_of: UBERON:0001637 ! artery intersection_of: part_of UBERON:0000974 ! neck [Term] id: UBERON:0012321 name: deep cervical artery namespace: uberon def: "The deep cervical artery (Profunda cervicalis) is an artery of the neck." [Wikipedia:Deep_cervical_artery] def: "The deep cervical artery (Profunda cervicalis) is an artery of the neck." [http://en.wikipedia.org/wiki/Deep_cervical_artery] synonym: "profunda cervicalis" RELATED [Wikipedia:Deep_cervical_artery] synonym: "profunda cervicalis" RELATED [http://en.wikipedia.org/wiki/Deep_cervical_artery] xref: FMA:10659 xref: http://en.wikipedia.org/wiki/Deep_cervical_artery xref: http://www.snomedbrowser.com/Codes/Details/244223002 xref: SCTID:244223002 xref: Wikipedia:Deep_cervical_artery is_a: UBERON:0012320 ! cervical artery intersection_of: UBERON:0012320 ! cervical artery intersection_of: part_of UBERON:0035551 ! deep vasculature relationship: branching_part_of UBERON:0004688 {source="FMA"} ! costo-cervical trunk relationship: part_of UBERON:0004688 ! costo-cervical trunk relationship: part_of UBERON:0035551 ! deep vasculature [Term] id: UBERON:0012324 name: transverse cervical artery namespace: uberon def: "The transverse cervical artery (transverse artery of neck, transversa colli artery) is a branch of the thyrocervical trunk, running at a higher level than the suprascapular artery." [http://en.wikipedia.org/wiki/Transverse_cervical_artery] synonym: "cervical artery" RELATED [http://en.wikipedia.org/wiki/Transverse_cervical_artery] synonym: "cervical artery" RELATED [MA:0001936] synonym: "cervical transverse artery" RELATED [http://en.wikipedia.org/wiki/Transverse_cervical_artery] synonym: "descending branch of the transverse cervical" RELATED [http://en.wikipedia.org/wiki/Transverse_cervical_artery] synonym: "transversalis artery colli" RELATED [http://en.wikipedia.org/wiki/Transverse_cervical_artery] synonym: "transversalis colli artery" RELATED [http://en.wikipedia.org/wiki/Transverse_cervical_artery] synonym: "transverse cervical" RELATED [http://en.wikipedia.org/wiki/Transverse_cervical_artery] synonym: "transverse cervical vessels" RELATED [http://en.wikipedia.org/wiki/Transverse_cervical_artery] xref: FMA:10664 xref: http://en.wikipedia.org/wiki/Transverse_cervical_artery xref: http://www.snomedbrowser.com/Codes/Details/244224008 xref: MA:0001936 is_a: UBERON:0012320 ! cervical artery property_value: UBPROP:0000012 "Unclear if MA class belongs here or in parent" xsd:string {external_ontology="MA"} [Term] id: UBERON:0012360 name: bone of jaw namespace: uberon def: "A bone element that is part of a jaw region." [OBOL:automatic] synonym: "jaw bone" EXACT [] xref: EMAPA:35453 xref: http://www.snomedbrowser.com/Codes/Details/369003004 xref: MA:0003130 xref: SCTID:369003004 is_a: UBERON:0003462 ! facial bone is_a: UBERON:0013765 ! digestive system element intersection_of: UBERON:0001474 ! bone element intersection_of: part_of UBERON:0011595 ! jaw region relationship: part_of UBERON:0001708 ! jaw skeleton property_value: editor_note "Do not manually classify under here - bones are automatically classified" xsd:string [Term] id: UBERON:0012375 name: subserosa namespace: uberon def: "A layer of tissue between the muscularis and serosa." [Wikipedia:Subserosa] def: "A layer of tissue between the muscularis and serosa." [http://en.wikipedia.org/wiki/Subserosa] comment: Contains nerves, blood vessels, lymphatics and lymph nodes xref: FMA:45636 xref: http://en.wikipedia.org/wiki/Subserosa xref: http://linkedlifedata.com/resource/umls/id/C0225334 xref: http://www.snomedbrowser.com/Codes/Details/2255006 xref: NCIT:C94494 xref: SCTID:2255006 xref: UMLS:C0225334 {source="ncithesaurus:Subserosa"} xref: Wikipedia:Subserosa is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0004923 ! organ component layer intersection_of: UBERON:0004923 ! organ component layer intersection_of: adjacent_to UBERON:0000042 ! serous membrane intersection_of: composed_primarily_of UBERON:0006815 ! areolar connective tissue relationship: adjacent_to UBERON:0000042 ! serous membrane relationship: composed_primarily_of UBERON:0006815 ! areolar connective tissue relationship: only_in_taxon NCBITaxon:7742 ! Vertebrata [Term] id: UBERON:0012416 name: respiratory system arterial smooth muscle namespace: uberon xref: EMAPA:37567 {source="MA:th"} xref: MA:0001802 is_a: UBERON:0004297 ! respiratory system blood vessel smooth muscle is_a: UBERON:0004695 ! arterial system smooth muscle intersection_of: UBERON:0001135 ! smooth muscle tissue intersection_of: part_of UBERON:0003643 ! respiratory system arterial blood vessel relationship: part_of UBERON:0003643 ! respiratory system arterial blood vessel [Term] id: UBERON:0012418 name: respiratory system venous smooth muscle namespace: uberon def: "A smooth muscle tissue that is part of a respiratory system venous blood vessel." [OBOL:automatic] xref: EMAPA:37586 {source="MA:th"} xref: MA:0001812 is_a: UBERON:0004696 ! venous system smooth muscle intersection_of: UBERON:0001135 ! smooth muscle tissue intersection_of: part_of UBERON:0003476 ! respiratory system venous blood vessel relationship: part_of UBERON:0003476 ! respiratory system venous blood vessel [Term] id: UBERON:0012429 name: hematopoietic tissue namespace: uberon def: "Blood-forming tissue, consisting of reticular fibers and cells." [http://encyclopedia2.thefreedictionary.com/hematopoietic+tissue] synonym: "bone marrow tissue" NARROW [NCBITaxon:9606] synonym: "haemopoietic tissue" EXACT [FMA:14073] synonym: "hematopoietic tissue" EXACT [FMA:14073] synonym: "hemopoietic tissue" EXACT [FMA:14073] synonym: "textus haemopoieticus" EXACT [FMA:14073] xref: CALOHA:TS-2142 xref: FMA:14073 xref: http://linkedlifedata.com/resource/umls/id/C0229619 xref: NCIT:C13051 xref: UMLS:C0229619 {source="ncithesaurus:Hematopoietic_Tissue"} is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0034769 {source="FMA"} ! lymphomyeloid tissue intersection_of: UBERON:0000479 ! tissue intersection_of: site_of GO:0030097 ! hemopoiesis relationship: part_of UBERON:0002390 {source="defitional"} ! hematopoietic system relationship: site_of GO:0030097 ! hemopoiesis property_value: UBPROP:0000008 "Bone marrow in humans, kidney interstitium in Danio, within a stroma of reticuloendothelial tissue" xsd:string [Term] id: UBERON:0012430 name: tunica fibrosa of eyeball namespace: uberon def: "The sclera and cornea form the fibrous tunic of the bulb of the eye; the sclera is opaque, and constitutes the posterior five-sixths of the tunic; the cornea is transparent, and forms the anterior sixth." [http://en.wikipedia.org/wiki/Fibrous_tunic_of_eyeball] def: "The sclera and cornea form the fibrous tunic of the bulb of the eye; the sclera is opaque, and constitutes the posterior five-sixths of the tunic; the cornea is transparent, and forms the anterior sixth." [Wikipedia:Fibrous_tunic_of_eyeball] synonym: "corneosclera" RELATED [http://en.wikipedia.org/wiki/Fibrous_tunic_of_eyeball] synonym: "corneosclera" RELATED [Wikipedia:Fibrous_tunic_of_eyeball] synonym: "fibrous layer of eyeball" EXACT [FMA:58102] synonym: "fibrous tunic" RELATED [Wikipedia:Fibrous_tunic_of_eyeball] synonym: "fibrous tunic" RELATED [http://en.wikipedia.org/wiki/Fibrous_tunic_of_eyeball] synonym: "tunica fibrosa" BROAD [] xref: FMA:58102 xref: http://en.wikipedia.org/wiki/Fibrous_tunic_of_eyeball xref: http://www.snomedbrowser.com/Codes/Details/361318005 xref: SCTID:361318005 xref: Wikipedia:Fibrous_tunic_of_eyeball is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0004923 {source="FMA"} ! organ component layer is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: has_part UBERON:0000964 ! cornea relationship: has_part UBERON:0001773 ! sclera relationship: part_of UBERON:0010230 ! eyeball of camera-type eye property_value: RO:0002175 NCBITaxon:7955 {source="DOI:10.1177/0192623311409597"} property_value: RO:0002175 NCBITaxon:7955 {source="https://doi.org/10.1177/0192623311409597"} [Term] id: UBERON:0012466 name: extraembryonic cavity namespace: uberon synonym: "extraembryonic cavities" RELATED PLURAL [EHDAA2:0000472] xref: EHDAA2:0000472 xref: EMAPA:16054 xref: VHOG:0000767 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000464 ! anatomical space intersection_of: UBERON:0000464 ! anatomical space intersection_of: part_of UBERON:0016887 ! entire extraembryonic component relationship: part_of UBERON:0016887 ! entire extraembryonic component [Term] id: UBERON:0012467 name: enclosed anatomical space namespace: uberon def: "An anatomical space with no opening to another space or to the exterior." [AEO:0000222] synonym: "closed anatomical space" EXACT [] xref: AEO:0000222 is_a: UBERON:0000464 ! anatomical space intersection_of: UBERON:0000464 ! anatomical space intersection_of: has_quality PATO:0000608 ! closed relationship: has_quality PATO:0000608 ! closed [Term] id: UBERON:0012475 name: skeleton of pectoral complex namespace: uberon def: "The collection of all skeletal elements in a pectoral complex - i.e. the combination of free limb or fin plus pectoral girdle." [https://orcid.org/0000-0002-6601-2165] subset: pheno_slim synonym: "bones of upper limb" RELATED [FMA:24139] synonym: "ossa membri superioris" RELATED [FMA:TA] synonym: "pectoral complex skeleton" RELATED [https://orcid.org/0000-0002-6601-2165] synonym: "set of bones of upper limb" RELATED [FMA:24139] synonym: "skeleton of anterior limb/fin and girdle" RELATED [https://orcid.org/0000-0002-6601-2165] synonym: "upper limb skeleton" RELATED [FMA:24139] xref: FMA:24139 is_a: CARO:0000003 ! connected anatomical structure is_a: UBERON:0010912 ! subdivision of skeleton intersection_of: UBERON:0010912 ! subdivision of skeleton intersection_of: skeleton_of UBERON:0010708 ! pectoral complex relationship: part_of UBERON:0002091 ! appendicular skeleton relationship: part_of UBERON:0010708 {source="FMA"} ! pectoral complex relationship: skeleton_of UBERON:0010708 ! pectoral complex [Term] id: UBERON:0012476 name: skeleton of pelvic complex namespace: uberon def: "The collection of all skeletal elements in a pelvic complex - i.e. the combination of free limb or fin plus pelvic girdle." [https://orcid.org/0000-0002-6601-2165] subset: pheno_slim synonym: "bones of lower limb" RELATED [FMA:24140] synonym: "lower limb skeleton" RELATED [FMA:24140] synonym: "ossa membri inferioris" RELATED [FMA:TA] synonym: "pelvic complex skeleton" RELATED [https://orcid.org/0000-0002-6601-2165] synonym: "set of bones of lower limb" RELATED [FMA:24140] synonym: "skeleton of posterior limb/fin and girdle" RELATED [https://orcid.org/0000-0002-6601-2165] xref: FMA:24140 is_a: CARO:0000003 ! connected anatomical structure is_a: UBERON:0010912 ! subdivision of skeleton intersection_of: UBERON:0010912 ! subdivision of skeleton intersection_of: skeleton_of UBERON:0010709 ! pelvic complex relationship: part_of UBERON:0002091 ! appendicular skeleton relationship: part_of UBERON:0010709 {source="FMA"} ! pelvic complex relationship: skeleton_of UBERON:0010709 ! pelvic complex [Term] id: UBERON:0012504 name: adventitia of esophagus namespace: uberon def: "An adventitia that is part of a esophagus." [OBOL:automatic] synonym: "adventitia of oesophagus" EXACT [FMA:63006] synonym: "adventitious layer of esophagus" EXACT [FMA:63006] synonym: "esophageal adventitia" EXACT [FMA:63006] synonym: "esophagus adventitia" EXACT [FMA:63006] synonym: "tunica adventitia (esophagus)" EXACT [FMA:63006] synonym: "tunica adventitia oesophageae" EXACT [FMA:TA] xref: FMA:63006 xref: http://www.snomedbrowser.com/Codes/Details/85950006 xref: SCTID:85950006 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0005742 ! adventitia intersection_of: UBERON:0005742 ! adventitia intersection_of: part_of UBERON:0001043 ! esophagus relationship: part_of UBERON:0001043 ! esophagus [Term] id: UBERON:0013126 name: vein of abdomen namespace: uberon def: "A vein that is part of a abdomen." [OBOL:automatic] subset: grouping_class synonym: "abdominal vein" EXACT [] xref: http://www.snomedbrowser.com/Codes/Details/281473003 xref: SCTID:281473003 is_a: UBERON:0001638 ! vein is_a: UBERON:0003497 ! abdomen blood vessel intersection_of: UBERON:0001638 ! vein intersection_of: part_of UBERON:0000916 ! abdomen property_value: editor_note "TODO mirror representation of abdominal aorta" xsd:string property_value: IAO:0000232 "this class groups all veins that are in the abdomen. The term 'abdominal vein' may have specific meanings in different contexts. The lateral abdominal veins are present in fishes but usually merged or absent in tetrapods; in amphibians, the L&R abdominal veins merge into the ventral abdominal vein" xsd:string [Term] id: UBERON:0013136 name: vein of lip namespace: uberon def: "A vein that drains a lip." [OBOL:automatic] synonym: "labial vein" RELATED [] synonym: "labial vein of face" EXACT [] synonym: "lip vein" EXACT [OBOL:automatic] synonym: "vena labialis" EXACT LATIN [] xref: http://www.snomedbrowser.com/Codes/Details/367664002 xref: SCTID:367664002 is_a: UBERON:0003496 ! head blood vessel is_a: UBERON:0003502 ! neck blood vessel is_a: UBERON:0009141 ! craniocervical region vein intersection_of: UBERON:0001638 ! vein intersection_of: drains UBERON:0001833 ! lip relationship: drains UBERON:0001833 ! lip relationship: part_of UBERON:0001653 ! facial vein relationship: tributary_of UBERON:0001653 {source="FMA"} ! facial vein [Term] id: UBERON:0013140 name: systemic vein namespace: uberon def: "Any vein within the general circulation that transports blood back to the right atrium of the heart." [ncithesaurus:Systemic_Vein] synonym: "systemic venous tree organ part" EXACT [FMA:66644] xref: FMA:66644 xref: http://linkedlifedata.com/resource/umls/id/C0447117 xref: http://www.snomedbrowser.com/Codes/Details/244389004 xref: NCIT:C33719 xref: SCTID:244389004 xref: UMLS:C0447117 {source="ncithesaurus:Systemic_Vein"} is_a: UBERON:0001638 ! vein intersection_of: UBERON:0001638 ! vein intersection_of: part_of UBERON:0004581 ! systemic venous system relationship: part_of UBERON:0004581 ! systemic venous system [Term] id: UBERON:0013232 name: serous acinus namespace: uberon def: "The secretory unit of a serous gland. The acinar portion is composed of serous secreting cells." [http://orcid.org/0000-0002-6601-2165, http://www.siumed.edu/~dking2/intro/glands.htm] synonym: "acinus of serous gland" EXACT [] xref: FMA:86279 is_a: UBERON:0011858 ! acinus of exocrine gland intersection_of: UBERON:0009842 ! glandular acinus intersection_of: part_of UBERON:0000409 ! serous gland relationship: composed_primarily_of CL:0000313 ! serous secreting cell relationship: part_of UBERON:0000409 ! serous gland [Term] id: UBERON:0013411 name: cranial cavity namespace: uberon def: "Anatomical cavity that is the lumen of the skull and contains the brain." [UBERON:cjm] synonym: "cavitas cranii" EXACT LATIN [FMA:9644, FMA:TA] synonym: "intracranial cavity" RELATED [http://en.wikipedia.org/wiki/Cranial_cavity] synonym: "intracranial cavity" RELATED [Wikipedia:Cranial_cavity] synonym: "intracranial space" RELATED [Wikipedia:Cranial_cavity] synonym: "intracranial space" RELATED [http://en.wikipedia.org/wiki/Cranial_cavity] xref: Cranial:cavity xref: EMAPA:37497 {source="MA:th"} xref: FMA:9644 xref: http://braininfo.rprc.washington.edu/centraldirectory.aspx?ID=2806 xref: http://linkedlifedata.com/resource/umls/id/C0230041 xref: http://www.snomedbrowser.com/Codes/Details/264452006 xref: MA:0003061 xref: NCIT:C77638 xref: SCTID:264452006 xref: UMLS:C0230041 {source="ncithesaurus:Cranial_Cavity"} xref: Wikipedia:Cranial_cavity is_a: UBERON:0002553 ! anatomical cavity intersection_of: UBERON:0002553 ! anatomical cavity intersection_of: luminal_space_of UBERON:0003129 ! skull relationship: luminal_space_of UBERON:0003129 ! skull relationship: part_of UBERON:0003129 {source="Wikipedia"} ! skull property_value: depicted:by http://upload.wikimedia.org/wikipedia/commons/e/ee/Scheme_body_cavities-en.svg xsd:anyURI [Term] id: UBERON:0013479 name: lung endothelium namespace: uberon def: "A blood vessel endothelium that is part of a lung [Automatically generated definition]." [OBOL:automatic] synonym: "respiratory endothelium" RELATED [BTO:0004128] xref: BTO:0004128 xref: CALOHA:TS-0573 is_a: UBERON:0000077 ! mixed endoderm/mesoderm-derived structure is_a: UBERON:0000115 ! lung epithelium is_a: UBERON:0004702 ! respiratory system blood vessel endothelium intersection_of: UBERON:0004638 ! blood vessel endothelium intersection_of: part_of UBERON:0002048 ! lung [Term] id: UBERON:0013514 name: space surrounding organism namespace: uberon def: "The space that surrounds an organism." [https://orcid.org/0000-0002-6601-2165] synonym: "external to organism" EXACT [] synonym: "outside of body" EXACT [] is_a: UBERON:0000464 ! anatomical space intersection_of: UBERON:0000464 ! anatomical space intersection_of: surrounds UBERON:0000468 ! multicellular organism relationship: surrounds UBERON:0000468 ! multicellular organism [Term] id: UBERON:0013522 name: subdivision of tube namespace: uberon is_a: UBERON:0000064 ! organ part relationship: has_part UBERON:0000060 ! anatomical wall relationship: has_part UBERON:0000464 ! anatomical space relationship: part_of UBERON:0000025 ! tube relationship: subdivision_of UBERON:0000025 ! tube [Term] id: UBERON:0013525 name: stomach lumen namespace: uberon def: "The anatomical space that is enclosed by a stomach." [http://orcid.org/0000-0002-6601-2165] synonym: "cavity of stomach" EXACT [FMA:14585] synonym: "gastric cavity" RELATED [FMA:14585] xref: EMAPA:18395 xref: FMA:14585 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000464 ! anatomical space intersection_of: UBERON:0000464 ! anatomical space intersection_of: luminal_space_of UBERON:0000945 ! stomach relationship: luminal_space_of UBERON:0000945 ! stomach relationship: part_of UBERON:0011565 {source="FMA"} ! lumen of gastrointestinal system property_value: UBPROP:0000001 "Organ cavity which is bound by the internal surface of the wall of stomach. Examples: There is only one cavity of stomach[FMA:14585]." xsd:string {source="FMA:14585"} [Term] id: UBERON:0013685 name: foramen of skull namespace: uberon def: "Anatomical space that is an opening in a bone of the skull." [http://orcid.org/0000-0002-6601-2165, TAO:curator] synonym: "cranial conduit" NARROW [FMA:53165] synonym: "cranial foramen" NARROW [] synonym: "foramen of skull" EXACT [Wikipedia:Foramina_of_the_skull] synonym: "foramen of skull" EXACT [http://en.wikipedia.org/wiki/Foramina_of_the_skull] synonym: "foramina of the skull" RELATED PLURAL [http://en.wikipedia.org/wiki/Foramina_of_the_skull] synonym: "foramina of the skull" RELATED PLURAL [Wikipedia:Foramina_of_the_skull] xref: FMA:53165 xref: http://en.wikipedia.org/wiki/Foramina_of_the_skull xref: http://www.snomedbrowser.com/Codes/Details/276742007 xref: SCTID:276742007 xref: Wikipedia:Foramina_of_the_skull is_a: UBERON:0005744 ! bone foramen intersection_of: UBERON:0005744 ! bone foramen intersection_of: part_of UBERON:0003129 ! skull relationship: part_of UBERON:0003129 ! skull [Term] id: UBERON:0013686 name: anatomical conduit space namespace: uberon def: "An anatomical space which is the lumen of some anatomical conduit and connects two or more spaces together[FMA,modified]." [FMA:9338, http://orcid.org/0000-0002-6601-2165] synonym: "foramen space" NARROW [] xref: FMA:9338 is_a: UBERON:0000464 {source="FMA"} ! anatomical space relationship: connects UBERON:0000464 {cardinality="2"} ! anatomical space relationship: connects UBERON:0000464 {minCardinality="2", maxCardinality="2"} ! anatomical space relationship: luminal_space_of UBERON:0004111 ! anatomical conduit relationship: part_of UBERON:0004111 ! anatomical conduit [Term] id: UBERON:0013694 name: brain endothelium namespace: uberon def: "Vascular endothelium found in blood vessels of the blood-brain-barrier." [CALOHA:TS-0092] synonym: "cerebromicrovascular endothelium" RELATED [CALOHA:TS-0092] xref: BTO:0001852 xref: BTO:0003248 xref: CALOHA:TS-0092 is_a: UBERON:0001986 ! endothelium is_a: UBERON:0010371 ! ecto-epithelium intersection_of: UBERON:0001986 ! endothelium intersection_of: part_of UBERON:0000955 ! brain relationship: part_of UBERON:0000955 ! brain [Term] id: UBERON:0013700 name: axial musculature namespace: uberon def: "Musculature of the head and neck, spine, and ribs." [HP:0003327] xref: EHDAA2:0000159 xref: EMAPA:18166 is_a: CARO:0000003 ! connected anatomical structure is_a: UBERON:0001015 ! musculature intersection_of: UBERON:0001015 ! musculature intersection_of: attaches_to UBERON:0005944 ! axial skeleton plus cranial skeleton intersection_of: part_of UBERON:0013701 ! main body axis relationship: attaches_to UBERON:0005944 ! axial skeleton plus cranial skeleton relationship: part_of RO:0002577 ! system relationship: part_of UBERON:0013701 ! main body axis [Term] id: UBERON:0013701 name: main body axis namespace: uberon def: "A principle subdivision of an organism that includes all structures along the primary axis, typically the anterior-posterior axis, from head to tail, including structures of the body proper where present (for example, ribs), but excluding appendages." [https://orcid.org/0000-0002-6601-2165] subset: non_informative is_a: UBERON:0000475 ! organism subdivision relationship: only_in_taxon NCBITaxon:6072 ! Eumetazoa [Term] id: UBERON:0013702 name: body proper namespace: uberon def: "The region of the organism associated with the visceral organs." [AEO:0000103] subset: non_informative synonym: "body" RELATED [AEO:0000103] synonym: "whole body" RELATED [BTO:0001489] xref: AEO:0000103 xref: BTO:0001489 xref: EMAPA:36031 xref: FMA:231424 is_a: UBERON:0000475 {source="AEO"} ! organism subdivision relationship: part_of UBERON:0013701 ! main body axis property_value: UBPROP:0000001 "Cardinal body part, which consists of a maximal set of diverse subclasses of organ and organ part spatially associated with the vertebral column and ribcage. Examples: There is only one body proper[FMA:231424]." xsd:string {source="FMA:231424"} [Term] id: UBERON:0013704 name: notochordal canal namespace: uberon def: "A tubular passage that extends from the primitive pit into the head process during the early stages of embryonic development in mammals. It perforates the splanchnopleure layer so that the yolk sac and the amnion are connected temporarily." [http://medical-dictionary.thefreedictionary.com/notochordal+canal] synonym: "chordal canal" RELATED [] xref: FMA:293127 xref: http://linkedlifedata.com/resource/umls/id/C1518428 xref: NCIT:C34230 xref: UMLS:C1518428 {source="ncithesaurus:Notochordal_Canal"} is_a: UBERON:0004111 ! anatomical conduit is_a: UBERON:0004121 ! ectoderm-derived structure intersection_of: UBERON:0004111 ! anatomical conduit intersection_of: part_of UBERON:0006268 ! notochordal process relationship: part_of UBERON:0006268 ! notochordal process [Term] id: UBERON:0013727 name: notochordal fluid namespace: uberon def: "Fluid contained within the notochordal canal" [http://animaldiversity.org/accounts/Latimeria_chalumnae/, http://orcid.org/0000-0002-6601-2165] def: "Fluid contained within the notochordal canal." [http://animaldiversity.org/accounts/Latimeria_chalumnae/, http://orcid.org/0000-0002-6601-2165] comment: Distinct feature of coelocanths synonym: "notochord fluid" EXACT [] synonym: "portion of notochordal fluid" EXACT [] is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0006314 ! bodily fluid intersection_of: UBERON:0006314 ! bodily fluid intersection_of: located_in UBERON:0013704 ! notochordal canal intersection_of: part_of UBERON:0036242 ! post-embryonic notochord relationship: located_in UBERON:0013704 ! notochordal canal relationship: part_of UBERON:0036242 ! post-embryonic notochord [Term] id: UBERON:0013754 name: integumentary system layer namespace: uberon def: "A organ component layer that is part of a integumental system." [OBOL:automatic] def: "An organ component layer that is part of a integumental system." [OBOL:automatic] subset: non_informative synonym: "layer of skin" NARROW [] synonym: "skin layer" NARROW [] xref: http://www.snomedbrowser.com/Codes/Details/314820002 xref: SCTID:314820002 is_a: UBERON:0004923 ! organ component layer intersection_of: UBERON:0004923 ! organ component layer intersection_of: part_of UBERON:0002416 ! integumental system relationship: part_of UBERON:0002416 ! integumental system [Term] id: UBERON:0013755 name: arterial blood namespace: uberon def: "A blood that is part of a artery." [OBOL:automatic] subset: pheno_slim synonym: "arterial blood" EXACT [FMA:83066] synonym: "blood in artery" EXACT [FMA:83066] synonym: "portion of arterial blood" EXACT [FMA:83066] xref: FMA:83066 is_a: UBERON:0000178 ! blood intersection_of: UBERON:0000178 ! blood intersection_of: part_of UBERON:0001637 ! artery relationship: part_of UBERON:0001637 ! artery [Term] id: UBERON:0013756 name: venous blood namespace: uberon def: "A blood that is part of a vein." [OBOL:automatic] synonym: "blood in vein" EXACT [FMA:83067] synonym: "portion of venous blood" EXACT [FMA:83067] synonym: "venous blood" EXACT [FMA:83067] xref: FMA:83067 is_a: UBERON:0000178 ! blood intersection_of: UBERON:0000178 ! blood intersection_of: part_of UBERON:0001638 ! vein relationship: part_of UBERON:0001638 ! vein [Term] id: UBERON:0013757 name: capillary blood namespace: uberon def: "A blood that is part of a capillary." [OBOL:automatic] synonym: "blood in capillary" EXACT [] synonym: "portion of blood in capillary" EXACT [FMA:263901] synonym: "portion of capillary blood" EXACT [] xref: FMA:263901 xref: NCIT:C32212 is_a: UBERON:0000178 ! blood intersection_of: UBERON:0000178 ! blood intersection_of: part_of UBERON:0001982 ! capillary relationship: part_of UBERON:0001982 ! capillary [Term] id: UBERON:0013765 name: digestive system element namespace: uberon def: "Any of the organs or elements that are part of the digestive system. Examples: tongue, esophagus, spleen, crop, lunge feeding organ, tooth elements." [http://orcid.org/0000-0002-6601-2165] subset: grouping_class subset: pheno_slim synonym: "digestive organ" EXACT [] synonym: "digestive system organ" EXACT [] xref: EMAPA:37843 {source="MA:th"} xref: http://www.snomedbrowser.com/Codes/Details/272627002 xref: SCTID:272627002 is_a: UBERON:0000062 ! organ intersection_of: UBERON:0000062 ! organ intersection_of: part_of UBERON:0001007 ! digestive system relationship: part_of UBERON:0001007 ! digestive system [Term] id: UBERON:0013768 name: great vessel of heart namespace: uberon def: "Great vessels is a term used to refer collectively to the large vessels that bring blood to and from the heart." [http://en.wikipedia.org/wiki/Great_vessels] def: "Great vessels is a term used to refer collectively to the large vessels that bring blood to and from the heart." [Wikipedia:Great_vessels] comment: Groupings may vary - typically pulmonary vessels and aorta and vena cavae subset: grouping_class synonym: "great vessel" BROAD [] synonym: "great vessel of thorax" EXACT [] xref: EMAPA:36460 xref: Great:vessels xref: http://www.snomedbrowser.com/Codes/Details/304066000 xref: SCTID:304066000 xref: Wikipedia:Great_vessels is_a: UBERON:0001981 ! blood vessel [Term] id: UBERON:0014387 name: mesenchyme derived from neural crest namespace: uberon def: "Mesenchyme that develops_from the neural crest[Automatically generated definition]." [https://github.com/obophenotype/uberon/issues/248, OBOL:automatic] synonym: "mesenchyme from neural crest" EXACT [] synonym: "neural crest derived mesenchyme" EXACT [] synonym: "neural crest mesenchyme" EXACT [] xref: EMAPA:32735 xref: FMA:293883 is_a: UBERON:0003104 ! mesenchyme is_a: UBERON:0010313 ! neural crest-derived structure intersection_of: UBERON:0003104 ! mesenchyme intersection_of: develops_from UBERON:0002342 ! neural crest [Term] id: UBERON:0014398 name: respiratory muscle namespace: uberon def: "Muscle that is part of the respiratory system." [http://orcid.org/0000-0002-6601-2165] subset: pheno_slim is_a: UBERON:0003831 ! respiratory system muscle intersection_of: UBERON:0001630 ! muscle organ intersection_of: capable_of_part_of GO:0007585 ! respiratory gaseous exchange by respiratory system relationship: capable_of_part_of GO:0007585 ! respiratory gaseous exchange by respiratory system relationship: composed_primarily_of UBERON:0001134 ! skeletal muscle tissue property_value: IAO:0000232 "this class may be merged with 'respiratory system muscle'; check intercostals" xsd:string [Term] id: UBERON:0014399 name: sinusoidal space namespace: uberon def: "An anatomical space that is enclosed by a sinusoid." [OBOL:automatic] synonym: "lumen of sinusoid" EXACT [FMA:63133] synonym: "sinusoid lumen" EXACT [FMA:63133] xref: FMA:63133 is_a: UBERON:0010161 ! lumen of blood vessel intersection_of: UBERON:0000464 ! anatomical space intersection_of: luminal_space_of UBERON:0003909 ! sinusoid relationship: luminal_space_of UBERON:0003909 ! sinusoid relationship: part_of UBERON:0003909 ! sinusoid [Term] id: UBERON:0014402 name: sex-specific anatomical structure namespace: uberon def: "A part of the body present only in a specific gender." [AEO:0000174, AEO:JB] synonym: "gender-specific" EXACT [] synonym: "gender-specific anatomical structure" EXACT [AEO:0000174] synonym: "sex-specific" EXACT [] xref: AEO:0000174 xref: WBbt:0005752 is_a: UBERON:0000061 ! anatomical structure intersection_of: UBERON:0000061 ! anatomical structure intersection_of: output_of GO:0007548 ! sex differentiation relationship: output_of GO:0007548 ! sex differentiation [Term] id: UBERON:0014404 name: female anatomical structure namespace: uberon def: "A part of the body present only in females." [AEO:0000176, AEO:JB] xref: AEO:0000176 is_a: UBERON:0014402 ! sex-specific anatomical structure intersection_of: UBERON:0014402 ! sex-specific anatomical structure intersection_of: part_of UBERON:0003100 ! female organism relationship: part_of UBERON:0003100 ! female organism [Term] id: UBERON:0014454 name: visceral abdominal adipose tissue namespace: uberon def: "Subcutaneous adipose tissue that is located in the peritoneal cavity." [CALOHA:paula, http://orcid.org/0000-0002-6601-2165, https://github.com/obophenotype/uberon/issues/259, MGI:csmith] synonym: "abdominal fat" RELATED [BTO:0004041] synonym: "intra-abdominal adipose tissue" RELATED [] synonym: "intra-abdominal fat" RELATED [BTO:0004041] synonym: "organ fat" RELATED [BTO:0004041] synonym: "visceral adipose tissue" RELATED [BTO:0004041] synonym: "visceral fat" RELATED [BTO:0004041] xref: BTO:0004041 xref: CALOHA:TS-2405 is_a: UBERON:0007808 ! adipose tissue of abdominal region intersection_of: UBERON:0001013 ! adipose tissue intersection_of: bounding_layer_of UBERON:0002075 ! viscus intersection_of: located_in UBERON:0001179 ! peritoneal cavity intersection_of: part_of UBERON:0000916 ! abdomen relationship: bounding_layer_of UBERON:0002075 ! viscus relationship: located_in UBERON:0001179 ! peritoneal cavity property_value: UBPROP:0000001 "Adipose tissue located inside the peritoneal cavity, packed in between internal organs and torso. An excess of visceral fat is known as central obesity, or belly fat, the pot belly or beer belly effect, in which the abdomen protrudes excessively[BTO:0004041]." xsd:string {source="BTO:0004041"} [Term] id: UBERON:0014455 name: subcutaneous abdominal adipose tissue namespace: uberon def: "Subcutaneous adipose tissue that is located in the abdominal region." [CALOHA:paula, http://orcid.org/0000-0002-6601-2165, https://github.com/obophenotype/uberon/issues/259, MGI:csmith] synonym: "abdominal subcutaneous adipose tissue" EXACT [] synonym: "subcutaneous abdominal fat" EXACT [] synonym: "subcutaneous fat of abdominal region" EXACT [] xref: CALOHA:TS-2406 is_a: UBERON:0002190 ! subcutaneous adipose tissue is_a: UBERON:0007808 ! adipose tissue of abdominal region intersection_of: UBERON:0001013 ! adipose tissue intersection_of: part_of UBERON:0000916 ! abdomen intersection_of: part_of UBERON:0002072 ! hypodermis property_value: http://purl.org/dc/elements/1.1/contributor https://github.com/cindyJax property_value: http://purl.org/dc/elements/1.1/contributor https://github.com/cmungall property_value: http://purl.org/dc/elements/1.1/contributor https://github.com/paulacalipho [Term] id: UBERON:0014477 name: thoracic skeleton namespace: uberon def: "Subdivision of skeletal system that consists of all skeletal elements in the thoracic region of the trunk. In most vertebrates this is the rib cage and sternum." [http://en.wikipedia.org/wiki/Rib_cage, https://orcid.org/0000-0002-6601-2165] def: "Subdivision of skeletal system that consists of all skeletal elements in the thoracic region of the trunk. In most vertebrates this is the rib cage and sternum." [https://orcid.org/0000-0002-6601-2165, Wikipedia:Rib_cage] subset: pheno_slim synonym: "skeleton of thorax" EXACT [] synonym: "thoracic part of axial skeleton" EXACT [] synonym: "thoracic skeleton" EXACT [EHDAA2:0002013] xref: EHDAA2:0002013 xref: FMA:77169 xref: Thoracic:skeleton xref: Wikipedia:Thoracic_skeleton is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0010912 ! subdivision of skeleton relationship: part_of UBERON:0000915 ! thoracic segment of trunk relationship: part_of UBERON:0002090 ! postcranial axial skeleton [Term] id: UBERON:0014610 name: thoracic spinal cord ventral horn namespace: uberon def: "A ventral horn of spinal cord that is part of a thoracic spinal cord." [OBOL:automatic] synonym: "thoracic spinal cord anterior horn" RELATED [BIRNLEX:1410] synonym: "thoracic spinal cord ventral horn" EXACT HUMAN_PREFERRED [BIRNLEX:1410] xref: BIRNLEX:1410 xref: SCTID:367876000 xref: UMLS:C0228632 {source="BIRNLEX:1410"} xref: UMLS:C1288552 {source="BIRNLEX:1410"} is_a: UBERON:0002257 ! ventral horn of spinal cord intersection_of: UBERON:0002257 ! ventral horn of spinal cord intersection_of: part_of UBERON:0003038 ! thoracic spinal cord relationship: part_of UBERON:0003038 ! thoracic spinal cord [Term] id: UBERON:0014613 name: cervical spinal cord gray matter namespace: uberon def: "A gray matter of spinal cord that is part of a cervical spinal cord." [OBOL:automatic] synonym: "cervical spinal cord gray matter" EXACT HUMAN_PREFERRED [BIRNLEX:1521] xref: BIRNLEX:1521 xref: SCTID:362438009 xref: UMLS:C0228610 {source="BIRNLEX:1521"} is_a: UBERON:0002315 ! gray matter of spinal cord intersection_of: UBERON:0002315 ! gray matter of spinal cord intersection_of: part_of UBERON:0002726 ! cervical spinal cord relationship: part_of UBERON:0002726 ! cervical spinal cord [Term] id: UBERON:0014621 name: cervical spinal cord ventral horn namespace: uberon def: "A ventral horn of spinal cord that is part of a cervical spinal cord." [OBOL:automatic] synonym: "cervical spinal cord anterior horn" RELATED [BIRNLEX:1680] synonym: "cervical spinal cord ventral horn" EXACT HUMAN_PREFERRED [BIRNLEX:1680] xref: BIRNLEX:1680 xref: SCTID:174363005 xref: UMLS:C0228615 {source="BIRNLEX:1680"} xref: UMLS:C1278740 {source="BIRNLEX:1680"} is_a: UBERON:0002257 ! ventral horn of spinal cord intersection_of: UBERON:0002257 ! ventral horn of spinal cord intersection_of: part_of UBERON:0002726 ! cervical spinal cord relationship: part_of UBERON:0002726 ! cervical spinal cord [Term] id: UBERON:0014636 name: thoracic spinal cord gray matter namespace: uberon def: "A gray matter of spinal cord that is part of a thoracic spinal cord." [OBOL:automatic] synonym: "thoracic spinal cord gray matter" EXACT HUMAN_PREFERRED [BIRNLEX:980] xref: BIRNLEX:980 xref: SCTID:362441000 xref: UMLS:C0228627 {source="BIRNLEX:980"} is_a: UBERON:0002315 ! gray matter of spinal cord intersection_of: UBERON:0002315 ! gray matter of spinal cord intersection_of: part_of UBERON:0003038 ! thoracic spinal cord relationship: part_of UBERON:0003038 ! thoracic spinal cord [Term] id: UBERON:0014704 name: pleuroperitoneal canal lumen namespace: uberon def: "An anatomical space that is enclosed by a pleuroperitoneal canal." [OBOL:automatic] synonym: "pleuro-peritoneal canal cavity" EXACT [EMAPA:25034] xref: EHDAA2:0004736 xref: EMAPA:25034 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000464 ! anatomical space intersection_of: UBERON:0000464 ! anatomical space intersection_of: luminal_space_of UBERON:0006279 ! pleuroperitoneal canal relationship: develops_from UBERON:0002323 {source="EHDAA2"} ! coelemic cavity lumen relationship: luminal_space_of UBERON:0006279 ! pleuroperitoneal canal [Term] id: UBERON:0014776 name: midbrain neuromere namespace: uberon def: "A neuromere that is part of the presumptive midbrain" [http://orcid.org/0000-0002-6601-2165] def: "A neuromere that is part of the presumptive midbrain." [http://orcid.org/0000-0002-6601-2165] synonym: "future mesencephalon" RELATED [] synonym: "mesomere" BROAD [] synonym: "mesomere group" RELATED [EHDAA2:0004352] synonym: "mesomere of nervous system" EXACT [] synonym: "midbrain segment" BROAD [] synonym: "neuromere of mesomere group" EXACT [] synonym: "segment of midbrain" BROAD [] xref: EHDAA2:0004352 xref: FMA:61997 is_a: UBERON:0004731 ! neuromere intersection_of: UBERON:0004731 ! neuromere intersection_of: part_of UBERON:0009616 ! presumptive midbrain relationship: part_of UBERON:0009616 ! presumptive midbrain [Term] id: UBERON:0014777 name: spinal neuromere namespace: uberon def: "A neuromere that is part of the presumptive spinal cord" [http://orcid.org/0000-0002-6601-2165] def: "A neuromere that is part of the presumptive spinal cord." [http://orcid.org/0000-0002-6601-2165] synonym: "spinal cord metameric segment" EXACT [] synonym: "spinal cord segment" RELATED [TAO:0001332] synonym: "spinal neuromeres" EXACT PLURAL [TAO:0001332] xref: TAO:0001332 xref: ZFA:0001332 is_a: UBERON:0004731 ! neuromere intersection_of: UBERON:0004731 ! neuromere intersection_of: part_of UBERON:0006241 ! future spinal cord relationship: part_of UBERON:0006241 ! future spinal cord [Term] id: UBERON:0014792 name: musculature of pelvic complex namespace: uberon def: "Any collection of muscles that is part of a pelvic complex. The pelvic complex comprises the pelvic girdle and the associated limb or fin." [OBOL:automatic] synonym: "muscles of lower limb" NARROW [FMA:71297] synonym: "musculature of lower limb" NARROW [FMA:71297] synonym: "musculi membri inferioris" NARROW [FMA:TA] xref: EMAPA:37864 {source="MA:th"} xref: FMA:71297 is_a: UBERON:0001015 ! musculature intersection_of: UBERON:0001015 ! musculature intersection_of: part_of UBERON:0010709 ! pelvic complex relationship: part_of UBERON:0010709 ! pelvic complex property_value: editor_note "currently defined by location rather than attachment" xsd:string [Term] id: UBERON:0014793 name: musculature of pectoral complex namespace: uberon def: "Any collection of muscles that is part of a pectoral complex. The pectoral complex comprises the pectoral girdle and the associated limb or fin." [OBOL:automatic] synonym: "muscles of upper limb" NARROW [FMA:71296] synonym: "musculature of upper limb" NARROW [FMA:71296] synonym: "musculi membri superioris" NARROW [FMA:TA] synonym: "set of muscles of upper limb" NARROW [FMA:71296] synonym: "upper limb musculature" NARROW [FMA:71296] xref: EMAPA:37861 {source="MA:th"} xref: FMA:71296 is_a: UBERON:0001015 ! musculature intersection_of: UBERON:0001015 ! musculature intersection_of: part_of UBERON:0010708 ! pectoral complex relationship: part_of UBERON:0010708 ! pectoral complex property_value: editor_note "currently defined by location rather than attachment" xsd:string [Term] id: UBERON:0014794 name: pectoral appendage muscle namespace: uberon def: "Any muscle organ that is part of a pectoral appendage (forelimb or pectoral fin)." [OBOL:automatic] is_a: UBERON:0010891 ! pectoral complex muscle intersection_of: UBERON:0014892 ! skeletal muscle organ intersection_of: part_of UBERON:0004710 ! pectoral appendage relationship: part_of UBERON:0007269 {source="prolog"} ! pectoral appendage musculature [Term] id: UBERON:0014795 name: pelvic appendage muscle namespace: uberon def: "Any muscle organ that is part of a pelvic appendage (hindlimb or pelvic fin)." [OBOL:automatic] is_a: UBERON:0010890 ! pelvic complex muscle intersection_of: UBERON:0014892 ! skeletal muscle organ intersection_of: part_of UBERON:0004709 ! pelvic appendage relationship: part_of UBERON:0007270 {source="prolog"} ! pelvic appendage musculature [Term] id: UBERON:0014892 name: skeletal muscle organ namespace: uberon def: "A muscle organ that consists of skeletal muscle tissue ensheathed in epimysium, that develops from myotome and that is innervated by some somatic motor neuron. Skeletal muscles are typically attached (via a tendon) to a bone but there are exceptions (e.g. intrinsic tongue muscles)." [GOC:dos] synonym: "skeletal muscle" BROAD [] xref: AAO:0011099 xref: BTO:0001103 xref: CALOHA:TS-0933 xref: EFO:0000888 xref: EHDAA:5035 xref: EHDAA:5043 xref: EHDAA:5978 xref: EHDAA:5984 xref: EMAPA:35988 xref: EV:0100377 xref: GAID:141 xref: MA:0003148 xref: MAT:0000302 xref: MESH:D018482 xref: MIAA:0000302 xref: OpenCyc:Mx4rv2kf-5wpEbGdrcN5Y29ycA xref: TAO:0005277 xref: VHOG:0000319 xref: XAO:0000174 xref: ZFA:0005277 is_a: UBERON:0001630 ! muscle organ intersection_of: UBERON:0001630 ! muscle organ intersection_of: composed_primarily_of UBERON:0001134 ! skeletal muscle tissue intersection_of: develops_from UBERON:0003082 ! myotome intersection_of: surrounded_by UBERON:0011899 ! epimysium intersection_of: synapsed_by CL:0000100 ! motor neuron relationship: composed_primarily_of UBERON:0001134 ! skeletal muscle tissue relationship: develops_from UBERON:0003082 ! myotome relationship: part_of UBERON:0018254 ! skeletal musculature relationship: surrounded_by UBERON:0011899 ! epimysium relationship: synapsed_by CL:0000100 ! motor neuron [Term] id: UBERON:0014903 name: primordial vasculature namespace: uberon def: "A portion of tissue that will develop into vasculature." [ZFA:0005076, ZFA:curator] xref: EFO:0003708 xref: TAO:0005076 xref: ZFA:0005076 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0001048 ! primordium intersection_of: UBERON:0001048 ! primordium intersection_of: has_potential_to_develop_into UBERON:0002049 ! vasculature relationship: has_potential_to_develop_into UBERON:0002049 ! vasculature relationship: part_of UBERON:0011695 ! embryonic cardiovascular system [Term] id: UBERON:0014907 name: intersomitic vessel namespace: uberon def: "One of the primary blood vessel sprouts that originate from the dorsal aorta and posterior cardinal vein and align dorsoventrally at the myotomal boundaries between somites." [MGI:anna] subset: pheno_slim synonym: "intersegmental vessel" EXACT [ZFA:0001285] synonym: "intersegmental vessels" EXACT PLURAL [ZFA:0001285] synonym: "intersomitic blood vessel" EXACT [XAO:0004075] synonym: "intersomitic vessels" EXACT PLURAL [ZFA:0001285] synonym: "segmental vessel" EXACT [ZFA:0001285] xref: EFO:0003664 xref: EMAPA:37389 {source="MA:th"} xref: TAO:0001285 xref: XAO:0004075 xref: ZFA:0001285 is_a: UBERON:0001981 {source="ZFA"} ! blood vessel relationship: develops_from UBERON:0005805 {source="ZFA"} ! dorsal aorta property_value: UBPROP:0000001 "Blood vessels that connect the dorsal aorta or the posterior cardinal vein and the dorsal longitudinal anastomotic vessel. They run along the vertical myotomal boundaries. At early stages these don't have venous or arterial markers[ZFA:0001285, ZFIN:ZDB-PUB-030908-4]." xsd:string {source="ZFA:0001285, ZFIN:ZDB-PUB-030908-4"} [Term] id: UBERON:0015128 name: subepicardial layer of epicardium namespace: uberon synonym: "perimysial connective tissue of subepicardium" EXACT [FMA:83105] synonym: "subepicardial connective tissue" EXACT [FMA:83105] xref: FMA:83105 is_a: UBERON:0007188 ! mesothelium of serous pericardium relationship: part_of UBERON:0002348 {source="FMA"} ! epicardium property_value: editor_note "consider merging into myocardial compact layer" xsd:string [Term] id: UBERON:0015129 name: epicardial fat namespace: uberon def: "Visceral intrapericardial fat contiguous with the myocardial surface." [https://doi.org/10.5935/abc.20130138] def: "Visceral intrapericardial fat contiguous with the myocardial surface." [DOI:10.5935/abc.20130138] synonym: "epicardial adipose tissue" EXACT [] synonym: "pericardial adipose tissue" EXACT [] xref: FMA:9871 xref: http://www.snomedbrowser.com/Codes/Details/42267001 xref: SCTID:42267001 is_a: UBERON:0003837 ! thoracic segment connective tissue is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0035814 ! pericardial fat intersection_of: UBERON:0001013 ! adipose tissue intersection_of: adjacent_to UBERON:0002348 ! epicardium intersection_of: adjacent_to UBERON:0002425 ! visceral serous pericardium intersection_of: surrounds UBERON:0000948 ! heart relationship: adjacent_to UBERON:0002348 ! epicardium relationship: adjacent_to UBERON:0002425 ! visceral serous pericardium relationship: composed_primarily_of CL:1000309 ! epicardial adipocyte relationship: part_of UBERON:0015128 ! subepicardial layer of epicardium [Term] id: UBERON:0015152 name: gland of ocular region namespace: uberon def: "A gland that is typically found in or near the orbital region, in or around either the medial or lateral canthi, and is typically associated with secretions onto the eyeball or associated ducts. Includes the Harderian, nictitans and lacrimal glands." [http://orcid.org/0000-0002-6601-2165, https://github.com/obophenotype/uberon/issues/614] synonym: "ocular gland" EXACT [] synonym: "orbital gland" RELATED [] is_a: UBERON:0002530 ! gland intersection_of: UBERON:0002530 ! gland intersection_of: part_of UBERON:0004088 ! orbital region relationship: part_of UBERON:0035639 {source="inferred"} ! ocular adnexa property_value: http://purl.org/dc/elements/1.1/contributor https://github.com/cmungall property_value: UBPROP:0000008 "the only orbital gland found in anuran amphibians is either the Harderian or the lacrimal; if it is a lacrimal, then a progressive lateral migration of the lacrimal glands must occur through the amniotes[PMID:7559104]" xsd:string property_value: UBPROP:0000008 "the only orbital gland found in anuran amphibians is the Harderian[PMID:8843648]" xsd:string [Term] id: UBERON:0015165 name: multi-unit eye namespace: uberon def: "An eye consisting of multiple light-sensing organs" [http://orcid.org/0000-0002-6601-2165, http://www.ncbi.nlm.nih.gov/pubmed/21062451] def: "An eye consisting of multiple light-sensing organs." [http://orcid.org/0000-0002-6601-2165, PMID:21062451] def: "An eye consisting of multiple light-sensing organs." [http://orcid.org/0000-0002-6601-2165, http://www.ncbi.nlm.nih.gov/pubmed/21062451] is_a: UBERON:0000970 ! eye intersection_of: UBERON:0000970 ! eye intersection_of: composed_primarily_of UBERON:0000020 ! sense organ relationship: composed_primarily_of UBERON:0000020 ! sense organ property_value: RO:0002161 NCBITaxon:7742 property_value: RO:0002175 NCBITaxon:6340 {notes="present on tentacular crown", source="http://www.ncbi.nlm.nih.gov/pubmed/21062451"} property_value: RO:0002175 NCBITaxon:6340 {notes="present on tentacular crown", source="PMID:21062451"} property_value: RO:0002175 NCBITaxon:6544 {notes="present on mantle edge in arcacean Bivalvia", source="http://www.ncbi.nlm.nih.gov/pubmed/21062451"} property_value: RO:0002175 NCBITaxon:6544 {notes="present on mantle edge in arcacean Bivalvia", source="PMID:21062451"} property_value: RO:0002175 NCBITaxon:7588 {notes="The eyes (optic cushions) on the oral surface of Asteroida (Echinodermata), close to the base of the terminal tentacles, are also composed of a number of simple ocelli - as many as 80-200 in certain species", source="PMID:21062451"} property_value: RO:0002175 NCBITaxon:7588 {notes="The eyes (optic cushions) on the oral surface of Asteroida (Echinodermata), close to the base of the terminal tentacles, are also composed of a number of simple ocelli - as many as 80-200 in certain species", source="http://www.ncbi.nlm.nih.gov/pubmed/21062451"} [Term] id: UBERON:0015178 name: somite border namespace: uberon def: "A region of somite adjacent to presomitic mesoderm." [http://orcid.org/0000-0002-6601-2165] subset: pheno_slim synonym: "inter-somited border" RELATED [] synonym: "intersomitic boundary" RELATED [] synonym: "intersomitic fissure" RELATED [] synonym: "intersomitic junction" RELATED [XAO:0004074] synonym: "segmental border" RELATED [] synonym: "somite boundary" RELATED [ZFA:0001462] xref: TAO:0001462 xref: XAO:0004074 xref: ZFA:0001462 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0007651 ! anatomical junction intersection_of: UBERON:0007651 ! anatomical junction intersection_of: adjacent_to UBERON:0003059 ! presomitic mesoderm intersection_of: part_of UBERON:0002329 ! somite relationship: adjacent_to UBERON:0003059 ! presomitic mesoderm relationship: part_of UBERON:0002329 ! somite [Term] id: UBERON:0015179 name: somite boundary epithelium namespace: uberon def: "Epithelium located in the intersomitic region." [XAO:0004077, XAO:EJS] synonym: "intersomitic epithelium" EXACT [XAO:0004077] synonym: "intersomitic membrane" EXACT [XAO:0004077] xref: XAO:0004077 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000483 ! epithelium intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0015178 ! somite border relationship: part_of UBERON:0015178 ! somite border [Term] id: UBERON:0015212 name: lateral structure namespace: uberon def: "Any structure that is placed on one side of the left-right axis of a bilaterian." [http://orcid.org/0000-0002-6601-2165] subset: grouping_class subset: non_informative is_a: UBERON:0000061 ! anatomical structure intersection_of: UBERON:0000061 ! anatomical structure intersection_of: in_lateral_side_of UBERON:0000465 ! material anatomical entity relationship: in_lateral_side_of UBERON:0000465 ! material anatomical entity relationship: only_in_taxon NCBITaxon:33213 ! Bilateria relationship: part_of UBERON:0000465 ! material anatomical entity property_value: IAO:0000232 "This class is primarily to implement taxon constraints. It may be removed in the future." xsd:string [Term] id: UBERON:0015228 name: circulatory organ namespace: uberon def: "A hollow, muscular organ, which, by contracting rhythmically, contributes to the circulation of lymph, blood or analogs. Examples: a chambered vertebrate heart; the tubular peristaltic heart of ascidians; the dorsal vessel of an insect; the lymoh heart of a reptile." [http://orcid.org/0000-0002-6601-2165] subset: grouping_class synonym: "cardiac pump" EXACT [] synonym: "cardiac structure" RELATED [] synonym: "circulatory vessel" NARROW [] synonym: "heart" BROAD [] synonym: "heart or heart like organ" EXACT [] xref: SPD:0000130 is_a: UBERON:0003103 ! compound organ relationship: has_quality PATO:0001690 ! contractile relationship: part_of UBERON:0001009 ! circulatory system [Term] id: UBERON:0015329 name: respiratory system basement membrane namespace: uberon def: "A basement membrane of epithelium that is part of a respiratory system." [OBOL:automatic] xref: EMAPA:37570 {source="MA:th"} xref: MA:0001815 is_a: UBERON:0005769 ! basement membrane of epithelium intersection_of: UBERON:0005769 ! basement membrane of epithelium intersection_of: part_of UBERON:0001004 ! respiratory system relationship: part_of UBERON:0003570 {source="MA"} ! respiratory system connective tissue [Term] id: UBERON:0015410 name: heart plus pericardium namespace: uberon synonym: "heart/pericardium" EXACT [MA:0002449] xref: EMAPA:37597 {source="MA:th"} xref: MA:0002449 is_a: UBERON:0005178 {source="MA"} ! thoracic cavity element relationship: part_of UBERON:0004535 ! cardiovascular system [Term] id: UBERON:0015757 name: heterogeneous tissue namespace: uberon synonym: "portion of heterogeneous tissue" EXACT [FMA:62798] xref: FMA:62798 is_a: UBERON:0000479 {source="FMA"} ! tissue [Term] id: UBERON:0015783 name: smooth muscle layer in fatty layer of subcutaneous tissue namespace: uberon def: "A smooth muscle tissue that is part of a hypodermis." [OBOL:automatic] synonym: "muscle layer in fatty layer of subcutaneous tissue" EXACT [FMA:77862] synonym: "stratum musculosum panniculi adiposi telae subcutaneae" EXACT LATIN [FMA:77862, FMA:TA] xref: FMA:77862 is_a: UBERON:0001135 ! smooth muscle tissue intersection_of: UBERON:0001135 ! smooth muscle tissue intersection_of: part_of UBERON:0002072 ! hypodermis relationship: part_of UBERON:0002072 ! hypodermis [Term] id: UBERON:0015808 name: eye epithelium namespace: uberon def: "A epithelium that is part of a camera-type eye." [OBOL:automatic] def: "An epithelium that is part of a camera-type eye." [OBOL:automatic] xref: EMAPA:35957 xref: MA:0003162 is_a: UBERON:0007625 ! pigment epithelium of eye is_a: UBERON:0010371 ! ecto-epithelium intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0000019 ! camera-type eye relationship: part_of UBERON:0000019 ! camera-type eye [Term] id: UBERON:0015833 name: foregut epithelium namespace: uberon def: "A epithelium that is part of a foregut." [OBOL:automatic] def: "An epithelium that is part of a foregut." [OBOL:automatic] xref: EMAPA:32922 xref: MA:0003204 is_a: UBERON:0003929 ! digestive tract epithelium intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0001041 ! foregut relationship: part_of UBERON:0001041 ! foregut [Term] id: UBERON:0016405 name: pulmonary capillary namespace: uberon def: "A capillary that is part of a lung." [OBOL:automatic] subset: pheno_slim synonym: "capillary of lung" EXACT [FMA:14121] xref: FMA:14121 is_a: UBERON:0003512 ! lung blood vessel is_a: UBERON:0003526 ! respiratory system capillary intersection_of: UBERON:0001982 ! capillary intersection_of: part_of UBERON:0002048 ! lung [Term] id: UBERON:0016458 name: esophageal hiatus namespace: uberon def: "A hole in the diaphragm through which the esophagus passes." [HP:0002036] subset: pheno_slim synonym: "esophageal hiatus of diaphragm" EXACT [FMA:58289] synonym: "oesophageal aperture" EXACT [FMA:58289] synonym: "oesophageal hiatus" EXACT [FMA:58289] xref: FMA:58289 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000161 ! orifice intersection_of: UBERON:0000161 ! orifice intersection_of: conduit_for UBERON:0001043 ! esophagus intersection_of: part_of UBERON:0001103 ! diaphragm relationship: conduit_for UBERON:0001043 ! esophagus relationship: part_of UBERON:0001103 ! diaphragm [Term] id: UBERON:0016490 name: auditory system namespace: uberon def: "Is the sensory system for the sense of hearing." [NLXANAT:090817] xref: EMAPA:36002 xref: FMA:7192 xref: http://braininfo.rprc.washington.edu/centraldirectory.aspx?ID=2888 xref: MA:0002443 xref: NCIT:C12889 xref: NLXANAT:090817 xref: OpenCyc:Mx4rvViwtJwpEbGdrcN5Y29ycA xref: UMLS:C0587901 {source="ncithesaurus:Auditory_System"} xref: Wikipedia:Auditory_system is_a: UBERON:0007037 ! mechanosensory system intersection_of: UBERON:0001032 ! sensory system intersection_of: capable_of GO:0007605 ! sensory perception of sound relationship: capable_of GO:0007605 ! sensory perception of sound relationship: part_of UBERON:0002105 ! vestibulo-auditory system property_value: UBPROP:0000012 "Auditory system is general anatomical term in FMA" xsd:string {external_ontology="FMA"} [Term] id: UBERON:0016509 name: cavity of right ventricle namespace: uberon def: "Luminal space of the right ventricle of the heart." [http://orcid.org/0000-0002-6601-2165] synonym: "right ventricle lumen" EXACT [EMAPA:26047] synonym: "right ventricular cavity" EXACT [FMA:FMA] xref: EMAPA:26047 xref: FMA:9291 is_a: UBERON:0035763 ! cavity of cardiac chamber intersection_of: UBERON:0002553 ! anatomical cavity intersection_of: luminal_space_of UBERON:0002080 ! heart right ventricle relationship: luminal_space_of UBERON:0002080 ! heart right ventricle relationship: part_of UBERON:0002080 ! heart right ventricle [Term] id: UBERON:0016513 name: cavity of left atrium namespace: uberon def: "Luminal space of the left atrium of the heart." [http://orcid.org/0000-0002-6601-2165] synonym: "left atrial cavity" EXACT [FMA:FMA] synonym: "left atrium lumen" EXACT [EMAPA:26011] xref: EMAPA:26011 xref: FMA:9465 is_a: UBERON:0035763 ! cavity of cardiac chamber intersection_of: UBERON:0002553 ! anatomical cavity intersection_of: luminal_space_of UBERON:0002079 ! left cardiac atrium relationship: luminal_space_of UBERON:0002079 ! left cardiac atrium relationship: part_of UBERON:0002079 ! left cardiac atrium [Term] id: UBERON:0016514 name: cavity of left ventricle namespace: uberon def: "Luminal space of the left ventricle of the heart." [http://orcid.org/0000-0002-6601-2165] synonym: "left ventricular cavity" EXACT [FMA:FMA] xref: EMAPA:26038 xref: FMA:9466 is_a: UBERON:0035763 ! cavity of cardiac chamber intersection_of: UBERON:0002553 ! anatomical cavity intersection_of: luminal_space_of UBERON:0002084 ! heart left ventricle relationship: luminal_space_of UBERON:0002084 ! heart left ventricle relationship: part_of UBERON:0002084 ! heart left ventricle [Term] id: UBERON:0016522 name: cavity of right atrium namespace: uberon def: "Luminal space of the right atrium of the heart." [http://orcid.org/0000-0002-6601-2165] synonym: "right atrial cavity" EXACT [FMA:FMA] xref: EMAPA:26020 xref: FMA:11359 is_a: UBERON:0035763 ! cavity of cardiac chamber intersection_of: UBERON:0002553 ! anatomical cavity intersection_of: luminal_space_of UBERON:0002078 ! right cardiac atrium relationship: luminal_space_of UBERON:0002078 ! right cardiac atrium relationship: part_of UBERON:0002078 ! right cardiac atrium [Term] id: UBERON:0016545 name: pharyngeal ectoderm namespace: uberon alt_id: UBERON:2001379 def: "The external part of the developing pharynx that is made of ectoderm. During vertebrate development, pockets form in pharyngeal ectoderm between the pharyngeal arches." [http://orcid.org/0000-0002-6601-2165, http://www.ncbi.nlm.nih.gov/pubmed/23020903] def: "The external part of the developing pharynx that is made of ectoderm. During vertebrate development, pockets form in pharyngeal ectoderm between the pharyngeal arches." [http://orcid.org/0000-0002-6601-2165, PMID:23020903] xref: TAO:0001379 xref: ZFA:0001379 is_a: UBERON:0000490 ! unilaminar epithelium is_a: UBERON:0003351 ! pharyngeal epithelium is_a: UBERON:0005291 ! embryonic tissue intersection_of: UBERON:0000490 ! unilaminar epithelium intersection_of: part_of UBERON:0000076 ! external ectoderm intersection_of: part_of UBERON:0001042 ! chordate pharynx relationship: part_of UBERON:0000076 ! external ectoderm [Term] id: UBERON:0016548 name: central nervous system gray matter layer namespace: uberon def: "A layer of of the central nervous system that is part of gray matter." [http://orcid.org/0000-0002-6601-2165] synonym: "CNS gray matter layer" EXACT [] synonym: "CNS grey matter layer" EXACT [] synonym: "gray matter layer of neuraxis" EXACT [FMA:83142] synonym: "grey matter layer" BROAD [] synonym: "grey matter layer of neuraxis" EXACT [] xref: FMA:83142 is_a: UBERON:0022303 ! nervous system cell part layer intersection_of: UBERON:0022303 ! nervous system cell part layer intersection_of: composed_primarily_of UBERON:0002020 ! gray matter relationship: composed_primarily_of UBERON:0002020 ! gray matter [Term] id: UBERON:0016550 name: spinal cord column namespace: uberon is_a: UBERON:0011215 ! central nervous system cell part cluster relationship: part_of UBERON:0002240 ! spinal cord [Term] id: UBERON:0016570 name: lamina of gray matter of spinal cord namespace: uberon synonym: "rexed lamina" EXACT [FMA:68861] xref: FMA:68861 xref: http://neurolex.org/wiki/Category\:Rexed_spinal_cord_parcellation_scheme_region xref: Rexed:laminae xref: Wikipedia:Rexed_laminae is_a: UBERON:0011215 ! central nervous system cell part cluster is_a: UBERON:0022303 ! nervous system cell part layer intersection_of: UBERON:0022303 ! nervous system cell part layer intersection_of: part_of UBERON:0002315 ! gray matter of spinal cord relationship: part_of UBERON:0002315 ! gray matter of spinal cord [Term] id: UBERON:0016879 name: future central nervous system namespace: uberon alt_id: UBERON:3000469 def: "Primordium that develops into the central nervous system" [http://orcid.org/0000-0002-6601-2165] def: "Primordium that develops into the central nervous system." [http://orcid.org/0000-0002-6601-2165] synonym: "future CNS" EXACT [] synonym: "presumptive central nervous system" EXACT [] is_a: UBERON:0006598 ! presumptive structure intersection_of: UBERON:0006598 ! presumptive structure intersection_of: has_potential_to_develop_into UBERON:0001017 ! central nervous system relationship: develops_from UBERON:0000924 ! ectoderm relationship: develops_from UBERON:0002346 {gci_relation="part_of", gci_filler="NCBITaxon:7742"} ! neurectoderm relationship: has_potential_to_develop_into UBERON:0001017 ! central nervous system relationship: part_of UBERON:0016880 ! future nervous system [Term] id: UBERON:0016880 name: future nervous system namespace: uberon alt_id: UBERON:3000477 def: "Primordium that develops into the nervous system" [http://orcid.org/0000-0002-6601-2165] def: "Primordium that develops into the nervous system." [http://orcid.org/0000-0002-6601-2165] synonym: "presumptive nervous system" EXACT [AAO:0000477] xref: AAO:0000477 is_a: UBERON:0006598 ! presumptive structure intersection_of: UBERON:0006598 ! presumptive structure intersection_of: has_potential_to_develop_into UBERON:0001016 ! nervous system relationship: existence_starts_during_or_after UBERON:0000111 ! organogenesis stage relationship: has_potential_to_develop_into UBERON:0001016 ! nervous system [Term] id: UBERON:0016887 name: entire extraembryonic component namespace: uberon def: "The part of the conceptus that may be lost before birth or will be discarded at birth, or when the embryo becomes an independent organism." [AEO:0000195, AEO:JB] synonym: "extra-embryonic component" EXACT [] synonym: "extraembryonic component" EXACT [AEO:0000195] xref: AEO:0000195 xref: EHDAA2:0000003 xref: EMAPA:16042 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000481 {source="AEO"} ! multi-tissue structure relationship: adjacent_to UBERON:0002050 ! embryonic structure relationship: existence_starts_and_ends_during UBERON:0000068 ! embryo stage relationship: part_of UBERON:0004716 {source="AEO"} ! conceptus [Term] id: UBERON:0016888 name: transitional anatomical structure namespace: uberon def: "An embryonic anatomical entity that will turn into one or more other anatomical entities, perhaps with other anatomical entities, later in development." [AEO:0000132, AEO:JB] xref: AEO:0000132 is_a: UBERON:0005423 {source="AEO"} ! developing anatomical structure [Term] id: UBERON:0017650 name: developing mesenchymal structure namespace: uberon def: "A mesenchyme-derived anatomical entity undergoing a transtion to become another structure." [AEO:0001016, AEO:JB] xref: AEO:0001016 is_a: UBERON:0005423 ! developing anatomical structure intersection_of: UBERON:0005423 ! developing anatomical structure intersection_of: composed_primarily_of UBERON:0003104 ! mesenchyme relationship: composed_primarily_of UBERON:0003104 ! mesenchyme relationship: has_part UBERON:0003104 ! mesenchyme [Term] id: UBERON:0017672 name: abdominal viscera namespace: uberon def: "A viscus that is part of a abdomen." [OBOL:automatic] subset: pheno_slim synonym: "abdominal viscera" EXACT [FMA:32413] synonym: "abdominal viscera set" EXACT [FMA:32413] synonym: "set of abdominal viscera" EXACT [FMA:32413] xref: FMA:32413 xref: FMA:67355 is_a: UBERON:0002075 ! viscus is_a: UBERON:0005172 ! abdomen element intersection_of: UBERON:0002075 ! viscus intersection_of: part_of UBERON:0000916 ! abdomen [Term] id: UBERON:0018135 name: fibrocollagenous connective tissue namespace: uberon xref: FMA:83521 is_a: UBERON:0011824 ! fibrous connective tissue intersection_of: UBERON:0011824 ! fibrous connective tissue intersection_of: has_quality PATO:0002462 ! collagenous relationship: has_quality PATO:0002462 ! collagenous [Term] id: UBERON:0018150 name: skin of lower lip namespace: uberon def: "A zone of skin that is part of a lower lip." [OBOL:automatic] synonym: "lower lip skin" EXACT [FMA:24767] xref: FMA:24767 xref: http://www.snomedbrowser.com/Codes/Details/281630002 xref: SCTID:281630002 is_a: UBERON:0001458 ! skin of lip is_a: UBERON:0010314 ! structure with developmental contribution from neural crest intersection_of: UBERON:0000014 ! zone of skin intersection_of: part_of UBERON:0001835 ! lower lip relationship: part_of UBERON:0001835 ! lower lip [Term] id: UBERON:0018239 name: rhombomere boundary namespace: uberon def: "A boundary delimiting a rhombomere." [GO:0021654] synonym: "rhombomere junction" EXACT [] is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0007651 ! anatomical junction intersection_of: UBERON:0007651 ! anatomical junction intersection_of: connects UBERON:0001892 ! rhombomere relationship: connects UBERON:0001892 ! rhombomere relationship: part_of UBERON:0007277 ! presumptive hindbrain [Term] id: UBERON:0018254 name: skeletal musculature namespace: uberon subset: grouping_class xref: EHDAA2:0001842 xref: EMAPA:35578 xref: MA:0000165 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000061 ! anatomical structure relationship: composed_primarily_of UBERON:0014892 ! skeletal muscle organ relationship: part_of UBERON:0000383 {source="MA"} ! musculature of body property_value: editor_note "Added for consistency with MA EMAPA and EHDAA2. See https://github.com/obophenotype/mouse-anatomy-ontology/issues/104" xsd:string [Term] id: UBERON:0018257 name: submucosa of digestive tract namespace: uberon def: "Any portion of submucosa that lines the digestive tract." [http://orcid.org/0000-0002-6601-2165] is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000009 ! submucosa intersection_of: UBERON:0000009 ! submucosa intersection_of: part_of UBERON:0001555 ! digestive tract relationship: part_of UBERON:0001555 ! digestive tract [Term] id: UBERON:0018260 name: layer of muscle tissue namespace: uberon def: "Any organ component layer that consists of muscle tissue." [http://orcid.org/0000-0002-6601-2165] xref: FMA:45634 xref: http://linkedlifedata.com/resource/umls/id/C0225358 xref: NCIT:C75444 xref: UMLS:C0225358 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0004923 ! organ component layer intersection_of: UBERON:0004923 ! organ component layer intersection_of: composed_primarily_of UBERON:0002385 ! muscle tissue relationship: composed_primarily_of UBERON:0002385 ! muscle tissue relationship: has_part UBERON:0002385 ! muscle tissue property_value: UBPROP:0000012 "NCITA class may refer to smooth muscle only" xsd:string {external_ontology="NCIT"} [Term] id: UBERON:0018544 name: trigeminal nerve muscle namespace: uberon def: "Muscle innervated by the trigeminal nerve (Cranial Nerve V)." [MFMO:0000072] synonym: "muscle innervated by the trigeminal nerve" EXACT [] synonym: "muscles innervated by the trigeminal nerve" EXACT PLURAL [MFMO:0000072] xref: MFMO:0000072 is_a: UBERON:0001630 ! muscle organ is_a: UBERON:0010314 ! structure with developmental contribution from neural crest intersection_of: UBERON:0001630 ! muscle organ intersection_of: innervated_by UBERON:0001645 ! trigeminal nerve relationship: develops_from UBERON:0004362 ! pharyngeal arch 1 relationship: innervated_by UBERON:0001645 ! trigeminal nerve [Term] id: UBERON:0018649 name: cardiac muscle tissue of ventricle namespace: uberon synonym: "ventricular cardiac muscle tissue" EXACT [http://orcid.org/0000-0002-6601-2165] synonym: "ventricular heart muscle" EXACT [http://orcid.org/0000-0002-6601-2165] synonym: "ventricular muscle" RELATED [http://orcid.org/0000-0002-6601-2165] xref: FMA:83450 is_a: UBERON:0004493 ! cardiac muscle tissue of myocardium intersection_of: UBERON:0001133 ! cardiac muscle tissue intersection_of: part_of UBERON:0002082 ! cardiac ventricle relationship: part_of UBERON:0001083 ! myocardium of ventricle [Term] id: UBERON:0018674 name: heart vasculature namespace: uberon def: "An interconnected tubular multi-tissue structure that contains fluid that is actively transported around the heart." [ZFA:0005811, ZFA:CVS] synonym: "cardiac vasculature" EXACT [FMA:73747] xref: FMA:73747 xref: ZFA:0005811 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0002201 ! vasculature of trunk is_a: UBERON:0006876 ! vasculature of organ intersection_of: UBERON:0002049 ! vasculature intersection_of: part_of UBERON:0000948 ! heart relationship: part_of UBERON:0000948 ! heart [Term] id: UBERON:0019042 name: reproductive system mucosa namespace: uberon synonym: "genital mucosa" EXACT [BTO:0002439] xref: BTO:0002439 is_a: UBERON:0000344 ! mucosa is_a: UBERON:0005156 ! reproductive structure intersection_of: UBERON:0000344 ! mucosa intersection_of: part_of UBERON:0000990 ! reproductive system [Term] id: UBERON:0019143 name: intramuscular adipose tissue namespace: uberon def: "Adipose tissue which is located throughout skeletal muscle and is responsible for the marbling seen in certain cuts of beef. In humans, excess accumulation of intramuscular fat is associated with insulin resistance and type 2 diabetes." [BTO:0004043] synonym: "intramuscular fat" RELATED [BTO:0004043] xref: BTO:0004043 is_a: UBERON:0001013 ! adipose tissue intersection_of: UBERON:0001013 ! adipose tissue intersection_of: part_of UBERON:0014892 ! skeletal muscle organ relationship: part_of UBERON:0014892 ! skeletal muscle organ [Term] id: UBERON:0019189 name: carotid artery endothelium namespace: uberon synonym: "carotid endothelium" RELATED [BTO:0004626] synonym: "carotid epithelium" RELATED [] xref: BTO:0004626 is_a: UBERON:0001917 ! endothelium of artery intersection_of: UBERON:0001986 ! endothelium intersection_of: part_of UBERON:0005396 ! carotid artery segment relationship: part_of UBERON:0005396 ! carotid artery segment [Term] id: UBERON:0019204 name: skin epithelium namespace: uberon def: "Any region of epithelium that is part of a skin region." [http://orcid.org/0000-0002-6601-2165] xref: BTO:0004382 is_a: UBERON:0010371 ! ecto-epithelium intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0000014 ! zone of skin relationship: part_of UBERON:0000014 ! zone of skin [Term] id: UBERON:0019207 name: chorioretinal region namespace: uberon def: "The part of the eye that consists of both the retina and the optic choroid" [http://orcid.org/0000-0002-6601-2165, UBERON:drseb] def: "The part of the eye that consists of both the retina and the optic choroid." [http://orcid.org/0000-0002-6601-2165, UBERON:drseb] subset: pheno_slim synonym: "chorioretina" EXACT [] synonym: "choroid and retina" EXACT [] synonym: "retinachoroid" EXACT [] synonym: "retinachoroidal region" EXACT [] xref: http://www.snomedbrowser.com/Codes/Details/110701000 xref: SCTID:110701000 is_a: UBERON:0000481 ! multi-tissue structure is_a: UBERON:0004121 ! ectoderm-derived structure is_a: UBERON:0010314 ! structure with developmental contribution from neural crest relationship: has_part UBERON:0000966 ! retina relationship: has_part UBERON:0001776 ! optic choroid relationship: part_of UBERON:0010230 ! eyeball of camera-type eye [Term] id: UBERON:0019263 name: gray matter of hindbrain namespace: uberon synonym: "gray matter of the hindbrain" EXACT [DHBA:HGM] xref: DHBA:10654 xref: FMA:268630 is_a: UBERON:0003528 ! brain gray matter intersection_of: UBERON:0002020 ! gray matter intersection_of: part_of UBERON:0002028 ! hindbrain relationship: part_of UBERON:0002028 ! hindbrain [Term] id: UBERON:0019267 name: gray matter of midbrain namespace: uberon xref: DHBA:10649 xref: FMA:83913 is_a: UBERON:0003528 ! brain gray matter intersection_of: UBERON:0002020 ! gray matter intersection_of: part_of UBERON:0001891 ! midbrain relationship: part_of UBERON:0001891 ! midbrain [Term] id: UBERON:0019304 name: sensory organ epithelium namespace: uberon xref: EMAPA:35952 xref: MA:0003174 is_a: UBERON:0000483 ! epithelium intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0000020 ! sense organ relationship: part_of UBERON:0000020 ! sense organ [Term] id: UBERON:0019319 name: exocrine gland of integumental system namespace: uberon def: "An exocrine gland that is part of a integumental system." [GOC:dos, http://orcid.org/0000-0002-6601-2165] synonym: "integumental exocrine gland" EXACT [http://orcid.org/0000-0002-6601-2165] synonym: "integumental system exocrine gland" EXACT [http://orcid.org/0000-0002-6601-2165] is_a: UBERON:0002365 ! exocrine gland is_a: UBERON:0003297 ! gland of integumental system intersection_of: UBERON:0002365 ! exocrine gland intersection_of: part_of UBERON:0002416 ! integumental system [Term] id: UBERON:0022288 name: surface of eyeball namespace: uberon synonym: "surface of region of wall of eyeball" RELATED [FMA:58315] xref: FMA:58315 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0036215 ! anatomical surface region intersection_of: UBERON:0036215 ! anatomical surface region intersection_of: bounding_layer_of UBERON:0010230 ! eyeball of camera-type eye relationship: bounding_layer_of UBERON:0010230 ! eyeball of camera-type eye relationship: part_of UBERON:0010230 ! eyeball of camera-type eye [Term] id: UBERON:0022293 name: reproductive gland secretion namespace: uberon def: "A portion of organism substance that is secreted by a reproductive gland." [UBERON:cjm] synonym: "genital fluid" RELATED [] synonym: "genital secretion" RELATED [] synonym: "reproductive system fluid" RELATED [] synonym: "reproductive system fluid/secretion" RELATED [] synonym: "reproductive system secretion" RELATED [] is_a: UBERON:0000463 ! organism substance intersection_of: UBERON:0000463 ! organism substance intersection_of: produced_by UBERON:0003937 ! reproductive gland relationship: produced_by UBERON:0003937 ! reproductive gland [Term] id: UBERON:0022303 name: nervous system cell part layer namespace: uberon def: "Single layer of a laminar structure, identified by different density, arrangement or size of cells and processes arranged in flattened layers or lamina[CUMBO]." [NLX:149357] subset: cumbo synonym: "lamina" BROAD [CUMBO:CUMBO] synonym: "layer" BROAD [CUMBO:CUMBO] xref: NLX:149357 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0005162 ! multi cell part structure intersection_of: UBERON:0005162 ! multi cell part structure intersection_of: has_quality PATO:0002124 ! laminar intersection_of: part_of UBERON:0001016 ! nervous system relationship: has_quality PATO:0002124 ! laminar relationship: part_of UBERON:0001016 ! nervous system property_value: editor_note "this is currently used to group some cellular layers that may not strictly conform to the CARO definition of cell-part layer. Consider genericisizing and introducing subtypes for cellular layer, fibrous layer and cell soma layer" xsd:string [Term] id: UBERON:0022350 name: visceral serous membrane namespace: uberon def: "Serous membrane layer that is adjacent to and lines an organ." [http://orcid.org/0000-0002-6601-2165] synonym: "visceral wall of serous membrane" EXACT [FMA:15860] xref: FMA:15860 is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0004923 ! organ component layer intersection_of: UBERON:0004923 ! organ component layer intersection_of: adjacent_to UBERON:0000062 ! organ intersection_of: part_of UBERON:0000042 ! serous membrane relationship: adjacent_to UBERON:0000062 ! organ relationship: part_of UBERON:0000042 ! serous membrane [Term] id: UBERON:0022351 name: parietal serous membrane namespace: uberon def: "Serous membrane layer that lines to a body cavity." [http://orcid.org/0000-0002-6601-2165] synonym: "cavity lining" BROAD [MA:0002448] synonym: "parietal wall of serous membrane" EXACT [FMA:15859] xref: FMA:15859 xref: MA:0002448 is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0004923 ! organ component layer intersection_of: UBERON:0004923 ! organ component layer intersection_of: adjacent_to UBERON:0002553 ! anatomical cavity intersection_of: part_of UBERON:0000042 ! serous membrane relationship: adjacent_to UBERON:0002553 ! anatomical cavity relationship: part_of UBERON:0000042 ! serous membrane [Term] id: UBERON:0022361 name: lung field namespace: uberon def: "A specific region of the foregut into the area in which the lung will develop." [GOC:dph, GOC:mtg_lung] synonym: "lung field" EXACT [] xref: http://www.snomedbrowser.com/Codes/Details/34922002 xref: SCTID:34922002 is_a: UBERON:0004119 ! endoderm-derived structure is_a: UBERON:0007688 ! anlage intersection_of: UBERON:0007688 ! anlage intersection_of: has_potential_to_develop_into UBERON:0002048 ! lung relationship: has_potential_to_develop_into UBERON:0002048 ! lung relationship: part_of UBERON:0003258 ! endoderm of foregut [Term] id: UBERON:0034705 name: developing neuroepithelium namespace: uberon def: "An embryonic or larval epithelium that is committed to form part of the nervous system." [AEO:0001008, AEO:JB] synonym: "embryonic neuroepithelium" EXACT [http://orcid.org/0000-0002-6601-2165] synonym: "neurepithelium" BROAD [BTO:0000314] synonym: "neuroepithelium" EXACT [AEO:0001008] xref: AEO:0001008 xref: BTO:0000314 xref: EHDAA2_RETIRED:0004654 xref: FMA:64807 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000483 ! epithelium relationship: part_of UBERON:0001016 ! nervous system [Term] id: UBERON:0034706 name: proliferating neuroepithelium namespace: uberon def: "An epithelium that is undergoing proliferation to provide large numbers of neuronal cells." [AEO:0001009] xref: AEO:0001009 is_a: UBERON:0034705 {source="AEO"} ! developing neuroepithelium [Term] id: UBERON:0034707 name: differentiating neuroepithelium namespace: uberon def: "A neuroepithelium some of whose cells are undergoing terminal differentiation to become neuronal cells." [AEO:0001010] xref: AEO:0001010 is_a: UBERON:0034705 {source="AEO"} ! developing neuroepithelium relationship: has_part CL:0000031 ! neuroblast (sensu Vertebrata) [Term] id: UBERON:0034709 name: hindbrain marginal layer namespace: uberon synonym: "marginal zone of hindbrain" EXACT [DHBA:12694] synonym: "MZH" RELATED ABBREVIATION [DHBA:12694] xref: DHBA:12694 xref: EMAPA:32916 is_a: UBERON:0004062 ! neural tube marginal layer is_a: UBERON:0011215 ! central nervous system cell part cluster intersection_of: UBERON:0004062 ! neural tube marginal layer intersection_of: part_of UBERON:0002028 ! hindbrain relationship: part_of UBERON:0002028 ! hindbrain [Term] id: UBERON:0034710 name: spinal cord ventricular layer namespace: uberon synonym: "spinal cord lateral wall ventricular layer" EXACT [EHDAA2:0001267] xref: EHDAA2:0001267 xref: EMAPA:17585 is_a: UBERON:0004060 ! neural tube ventricular layer intersection_of: UBERON:0004060 ! neural tube ventricular layer intersection_of: part_of UBERON:0006241 ! future spinal cord relationship: part_of UBERON:0005496 {source="EHDAA2"} ! neural tube lateral wall relationship: part_of UBERON:0006241 ! future spinal cord [Term] id: UBERON:0034713 name: cranial neuron projection bundle namespace: uberon def: "Any of the cranial nerves, or their central nervous system analogs (the optic tract, the epiphyseal tract). These analogs are not true nerves, and are instead evaginated sensory afferents emanating from the brain." [http://orcid.org/0000-0002-6601-2165, ISBN:0471888893] synonym: "cranial nerve fiber bundle" RELATED [http://orcid.org/0000-0002-6601-2165] synonym: "cranial nerve fiber tract" RELATED [http://orcid.org/0000-0002-6601-2165] synonym: "cranial nerve or tract" RELATED [http://orcid.org/0000-0002-6601-2165] synonym: "neuron projection bundle from brain" RELATED [http://orcid.org/0000-0002-6601-2165] is_a: UBERON:0000122 ! neuron projection bundle relationship: extends_fibers_into UBERON:0000955 ! brain relationship: in_lateral_side_of UBERON:0000033 ! head relationship: only_in_taxon NCBITaxon:89593 ! Craniata [Term] id: UBERON:0034728 name: autonomic nerve namespace: uberon def: "The autonomic nerve is a small nerve which carries postganglionic sympathetic and parasympathetic neurons from the zygomaticotemporal nerve; a branch of the maxillary nerve, to the lacrimal nerve; a branch of the ophthalmic nerve. These neurons derive from the superior cervical ganglion and the pterygopalatine ganglion respectively. They will travel to the lacrimal gland via the lacrimal nerve. Parasympathetic will induce lacrimation and vice versa." [Wikipedia:Autonomic_nerve] synonym: "nervus visceralis" EXACT [FMA:5866] synonym: "visceral nerve" EXACT [FMA:5866] xref: EMAPA:37957 {source="MA:th"} xref: FMA:5866 xref: MESH:D017776 xref: SCTID:276145003 xref: Wikipedia:Autonomic_nerve is_a: UBERON:0011779 ! nerve of head region relationship: branching_part_of UBERON:0036264 ! zygomaticotemporal nerve relationship: extends_fibers_into UBERON:0001805 ! autonomic ganglion relationship: part_of UBERON:0002410 ! autonomic nervous system [Term] id: UBERON:0034729 name: sympathetic nerve namespace: uberon xref: EMAPA:37958 {source="MA:th"} xref: SCTID:181098007 is_a: UBERON:0001021 ! nerve intersection_of: UBERON:0001021 ! nerve intersection_of: part_of UBERON:0000013 ! sympathetic nervous system relationship: extends_fibers_into UBERON:0001806 ! sympathetic ganglion relationship: part_of UBERON:0000013 ! sympathetic nervous system [Term] id: UBERON:0034769 name: lymphomyeloid tissue namespace: uberon xref: FMA:79770 xref: NCIT:C41168 is_a: UBERON:0015757 {source="FMA"} ! heterogeneous tissue [Term] id: UBERON:0034873 name: bodily gas namespace: uberon def: "Any substance in the body or expelled from the body that is in a gaseous state." [http://orcid.org/0000-0002-6601-2165] synonym: "gas in anatomical space" EXACT [] synonym: "portion of gas in anatomical space" EXACT [FMA:84580] xref: FMA:84580 is_a: UBERON:0000463 ! organism substance intersection_of: UBERON:0000463 ! organism substance intersection_of: has_quality PATO:0001547 ! quality of a gas relationship: has_quality PATO:0001547 ! quality of a gas [Term] id: UBERON:0034874 name: air in respiratory system namespace: uberon def: "Any portion of gas located in a part of the respiratory system that is composed primarily of air." [http://orcid.org/0000-0002-6601-2165] synonym: "respiratory air" EXACT [FMA:84581] synonym: "respiratory system air" EXACT [] xref: FMA:84581 is_a: UBERON:0034947 ! gas in respiratory system intersection_of: UBERON:0034873 ! bodily gas intersection_of: composed_primarily_of CHEBI:25805 ! oxygen atom intersection_of: located_in UBERON:0001004 ! respiratory system relationship: composed_primarily_of CHEBI:25805 ! oxygen atom [Term] id: UBERON:0034878 name: prechordal mesoderm namespace: uberon def: "the area of axial mesoderm that develops into the prechordal plate" [MGI:anna] def: "The area of axial mesoderm that develops into the prechordal plate." [MGI:anna] synonym: "prechordal mesenchyme" EXACT [] is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0002050 ! embryonic structure intersection_of: UBERON:0005423 ! developing anatomical structure intersection_of: has_potential_to_develop_into UBERON:0003063 ! prechordal plate intersection_of: part_of UBERON:0003068 ! axial mesoderm relationship: has_potential_to_develop_into UBERON:0003063 ! prechordal plate relationship: part_of UBERON:0003068 ! axial mesoderm [Term] id: UBERON:0034903 name: left atrium endocardium namespace: uberon def: "Endocardium that is part of the left atrium." [http://orcid.org/0000-0002-6601-2165] synonym: "endocardium of left atrium" EXACT [FMA:7286] synonym: "left atrial endocardium" EXACT [] synonym: "left atrium endocardial tissue" RELATED [VHOG:0001226] xref: FMA:7286 xref: http://www.snomedbrowser.com/Codes/Details/190064008 xref: SCTID:190064008 xref: VHOG:0001226 is_a: UBERON:0002166 ! endocardium of atrium intersection_of: UBERON:0002165 ! endocardium intersection_of: part_of UBERON:0002079 ! left cardiac atrium relationship: part_of UBERON:0002079 ! left cardiac atrium property_value: UBPROP:0000001 "Endocardium of atrium which is continuous with the tunica intima of the trunk of pulmonary vein." xsd:string {source="FMA:7286"} [Term] id: UBERON:0034905 name: gland lumen namespace: uberon synonym: "lumen of gland" EXACT [] is_a: UBERON:0000464 ! anatomical space intersection_of: UBERON:0000464 ! anatomical space intersection_of: luminal_space_of UBERON:0002530 ! gland relationship: luminal_space_of UBERON:0002530 ! gland relationship: part_of UBERON:0002530 ! gland [Term] id: UBERON:0034921 name: multi organ part structure namespace: uberon def: "An multicellular anatomical structure that has subparts of multiple organs as a part." [CARO:0020001] synonym: "anatomical cluster" RELATED [CARO:0020001] xref: CARO:0020001 is_a: UBERON:0010000 {source="CARO"} ! multicellular anatomical structure relationship: composed_primarily_of UBERON:0000064 ! organ part relationship: has_part UBERON:0000064 ! organ part [Term] id: UBERON:0034922 name: cell cluster namespace: uberon def: "A cluster of cells, largely surrounded by a morphological boundary." [CARO:0020002] xref: CARO:0020002 xref: FMA:62807 is_a: UBERON:0010000 {source="CARO"} ! multicellular anatomical structure relationship: surrounded_by UBERON:0000015 ! non-material anatomical boundary [Term] id: UBERON:0034925 name: anatomical collection namespace: uberon def: "A collection of anatomical structures that are alike in terms of their morphology or developmental origin." [http://orcid.org/0000-0002-6601-2165] is_a: UBERON:0000465 ! material anatomical entity relationship: has_member UBERON:0000061 ! anatomical structure relationship: has_part UBERON:0000061 ! anatomical structure property_value: editor_note "resolve if this should be a subclass of disconnected anatomical group. Some collections (e.g. the skeleton or skull) are arguably connected" xsd:string [Term] id: UBERON:0034929 name: external soft tissue zone namespace: uberon def: "A region or zone on the surface of an organism that encompasses skin and any adnexa, down through muscles and bounded by underlying skeletal support structures." [http://orcid.org/0000-0002-6601-2165] is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0010000 ! multicellular anatomical structure relationship: has_part UBERON:0000014 ! zone of skin relationship: has_part UBERON:0001015 ! musculature relationship: has_part UBERON:0001021 ! nerve relationship: has_part UBERON:0002049 ! vasculature relationship: part_of UBERON:0000475 ! organism subdivision [Term] id: UBERON:0034933 name: layer of smooth muscle tissue namespace: uberon def: "Any organ component layer that consists of smooth muscle tissue." [http://orcid.org/0000-0002-6601-2165] is_a: UBERON:0018260 ! layer of muscle tissue intersection_of: UBERON:0004923 ! organ component layer intersection_of: composed_primarily_of UBERON:0001135 ! smooth muscle tissue relationship: composed_primarily_of UBERON:0001135 ! smooth muscle tissue [Term] id: UBERON:0034944 name: zone of organ namespace: uberon synonym: "organ region with floating fiat boundary" RELATED [FMA:55268] synonym: "organ sector" EXACT [FMA:55268] synonym: "organ zonal region" EXACT [] synonym: "organ zone" EXACT [FMA:55268] xref: FMA:55268 is_a: UBERON:0000064 ! organ part [Term] id: UBERON:0034947 name: gas in respiratory system namespace: uberon def: "Any portion of gas located in a part of the respiratory system." [http://orcid.org/0000-0002-6601-2165] synonym: "respiratory gas" EXACT [] synonym: "respiratory system gas" EXACT [] is_a: UBERON:0034873 ! bodily gas intersection_of: UBERON:0034873 ! bodily gas intersection_of: located_in UBERON:0001004 ! respiratory system relationship: located_in UBERON:0001004 ! respiratory system [Term] id: UBERON:0034969 name: epithelial layer of duct namespace: uberon synonym: "duct epithelium" RELATED [] synonym: "ductal epithelium" RELATED [] xref: http://linkedlifedata.com/resource/umls/id/C1512086 xref: NCIT:C25787 xref: UMLS:C1512086 is_a: UBERON:0003914 ! epithelial tube intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0000058 ! duct relationship: part_of UBERON:0000058 ! duct [Term] id: UBERON:0034995 name: jaw mesenchyme namespace: uberon def: "Mesenchyme that is part of a developing jaw [Automatically generated definition]." [OBOL:automatic] xref: EMAPA:32907 xref: EMAPA:35454 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0005253 ! head mesenchyme intersection_of: UBERON:0003104 ! mesenchyme intersection_of: part_of UBERON:0011595 ! jaw region relationship: part_of UBERON:0011595 ! jaw region [Term] id: UBERON:0035037 name: jaw epithelium namespace: uberon xref: EMAPA:32904 xref: MA:0003220 is_a: UBERON:0003929 ! digestive tract epithelium intersection_of: UBERON:0000483 ! epithelium intersection_of: part_of UBERON:0011595 ! jaw region relationship: part_of UBERON:0011595 ! jaw region [Term] id: UBERON:0035118 name: material entity in digestive tract namespace: uberon def: "Any material entity that is located in the digestive tract. This includes undigested food and liquid as well as unexcreted waste products. It also includes other entities such as ingested stones used to aid digestion. Any microbial cells or cell populations are also included." [https://github.com/EnvironmentOntology/envo/issues/110] synonym: "digestive tract contents" EXACT PLURAL [] synonym: "ingested material entity" RELATED [] is_a: UBERON:0000061 ! anatomical structure intersection_of: UBERON:0000061 ! anatomical structure intersection_of: located_in UBERON:0006909 ! lumen of digestive tract relationship: located_in UBERON:0006909 ! lumen of digestive tract property_value: editor_note "Note that we treat any material entity that is ingested as an anatomical structure by defintion, although this may be expanding the CARO usage somewhat" xsd:string [Term] id: UBERON:0035159 name: entire surface of organism namespace: uberon def: "Anatomical surface, which is the external surface of the whole body. Examples: There is only one body surface." [FMA:61695] synonym: "surface of body" EXACT [FMA:61695] xref: FMA:61695 xref: http://linkedlifedata.com/resource/umls/id/C0489451 xref: http://www.snomedbrowser.com/Codes/Details/261060002 xref: NCIT:C29667 xref: SCTID:261060002 xref: UMLS:C0489451 is_a: UBERON:0006984 ! anatomical surface intersection_of: UBERON:0006984 ! anatomical surface intersection_of: surrounds UBERON:0000468 ! multicellular organism relationship: surrounds UBERON:0000468 ! multicellular organism [Term] id: UBERON:0035398 name: branch of external carotid artery namespace: uberon synonym: "external carotid arterial subdivision" EXACT [FMA:70505] synonym: "subdivision of external carotid artery" EXACT [FMA:70505] xref: FMA:70505 xref: http://linkedlifedata.com/resource/umls/id/C0447038 xref: http://www.snomedbrowser.com/Codes/Details/244216003 xref: NCIT:C32552 xref: SCTID:244216003 xref: UMLS:C0447038 is_a: UBERON:0004573 ! systemic artery is_a: UBERON:0010314 ! structure with developmental contribution from neural crest intersection_of: UBERON:0001637 ! artery intersection_of: branching_part_of UBERON:0001070 ! external carotid artery relationship: branching_part_of UBERON:0001070 ! external carotid artery relationship: part_of UBERON:0001070 ! external carotid artery [Term] id: UBERON:0035539 name: esophageal artery namespace: uberon def: "Any of several arteries that arise from the aorta and supply blood to the esophagus." [ncithesaurus:Esophageal_Artery] synonym: "aortic esophageal artery" EXACT [FMA:4149] synonym: "oesophageal artery" EXACT [FMA:4149] xref: FMA:4149 xref: http://linkedlifedata.com/resource/umls/id/C0226294 xref: http://www.snomedbrowser.com/Codes/Details/56548006 xref: NCIT:C32535 xref: SCTID:56548006 xref: UMLS:C0226294 is_a: UBERON:0003834 ! thoracic segment blood vessel is_a: UBERON:0004573 {source="FMA"} ! systemic artery intersection_of: UBERON:0001637 ! artery intersection_of: supplies UBERON:0001043 ! esophagus relationship: branching_part_of UBERON:0001515 {source="FMA"} ! thoracic aorta relationship: connected_to UBERON:0002345 {subset="human_reference_atlas"} ! descending thoracic aorta relationship: part_of UBERON:0001515 ! thoracic aorta relationship: supplies UBERON:0001043 ! esophagus [Term] id: UBERON:0035546 name: uveal vein namespace: uberon synonym: "ciliary vein" EXACT [FMA:51797] xref: FMA:51797 xref: http://www.snomedbrowser.com/Codes/Details/149683007 xref: SCTID:149683007 is_a: UBERON:0001638 ! vein intersection_of: UBERON:0001638 ! vein intersection_of: drains UBERON:0001768 ! uvea relationship: drains UBERON:0001768 ! uvea relationship: part_of RO:0002577 ! system [Term] id: UBERON:0035549 name: vasculature of integument namespace: uberon def: "The part of the circulatory system that lies within the subcutaneous tissue layers close to the surface of the skin." [http://orcid.org/0000-0002-6601-2165] synonym: "dermis vasculature" NARROW [] synonym: "hypodermis vasculature" NARROW [] synonym: "skin vasculature" RELATED [] synonym: "subcutaneous vasculature" RELATED [] synonym: "superficial part of circulatory system" EXACT [] synonym: "superficial vasculature" EXACT [] synonym: "vasculature of skin" RELATED [FMA:225275] xref: FMA:225275 is_a: UBERON:0002049 ! vasculature intersection_of: UBERON:0002049 ! vasculature intersection_of: located_in UBERON:0002199 ! integument relationship: capable_of_part_of GO:0001659 ! temperature homeostasis relationship: located_in UBERON:0002199 ! integument [Term] id: UBERON:0035550 name: superficial vein namespace: uberon def: "Any of the veins carrying deoxygenated blood from the subcutaneous tissue layers." [ncithesaurus:Superficial_Vein] synonym: "superfical vein" RELATED [http://en.wikipedia.org/wiki/Superficial_vein] synonym: "superfical vein" RELATED [Wikipedia:Superficial_vein] synonym: "superficial veins" RELATED [http://en.wikipedia.org/wiki/Superficial_vein] synonym: "superficial veins" RELATED [Wikipedia:Superficial_vein] synonym: "superficial vessels" RELATED [http://en.wikipedia.org/wiki/Superficial_vein] synonym: "superficial vessels" RELATED [Wikipedia:Superficial_vein] xref: FMA:76719 xref: http://linkedlifedata.com/resource/umls/id/C0226513 xref: http://www.snomedbrowser.com/Codes/Details/341382008 xref: NCIT:C33666 xref: SCTID:341382008 xref: Superficial:vein xref: UMLS:C0226513 xref: Wikipedia:Superficial_vein is_a: UBERON:0001638 ! vein intersection_of: UBERON:0001638 ! vein intersection_of: part_of UBERON:0035549 ! vasculature of integument relationship: part_of UBERON:0035549 ! vasculature of integument [Term] id: UBERON:0035551 name: deep vasculature namespace: uberon def: "The part of the circulatory system that lies deep beneath the subcutaneous tissue layers away from the surface of the skin." [http://orcid.org/0000-0002-6601-2165] synonym: "deep part of circulatory system" EXACT [] is_a: UBERON:0002049 ! vasculature intersection_of: UBERON:0002049 ! vasculature intersection_of: deep_to UBERON:0002199 ! integument relationship: deep_to UBERON:0002199 ! integument [Term] id: UBERON:0035552 name: deep vein namespace: uberon def: "A blood vessel carrying deoxygenated blood far beneath the skin usually accompanying an artery." [ncithesaurus:Deep_Vein] synonym: "deep veins" RELATED [http://en.wikipedia.org/wiki/Deep_vein] synonym: "deep veins" RELATED [Wikipedia:Deep_vein] synonym: "deep vessels" RELATED [http://en.wikipedia.org/wiki/Deep_vein] synonym: "deep vessels" RELATED [Wikipedia:Deep_vein] xref: Deep:vein xref: FMA:76718 xref: http://linkedlifedata.com/resource/umls/id/C0226514 xref: http://www.snomedbrowser.com/Codes/Details/341484008 xref: NCIT:C32444 xref: SCTID:341484008 xref: UMLS:C0226514 xref: Wikipedia:Deep_vein is_a: UBERON:0001638 ! vein intersection_of: UBERON:0001638 ! vein intersection_of: part_of UBERON:0035551 ! deep vasculature relationship: part_of UBERON:0035551 ! deep vasculature [Term] id: UBERON:0035553 name: left cardiac chamber namespace: uberon def: "Any chamber of the left side of the heart." [http://orcid.org/0000-0002-6601-2165] xref: FMA:7166 xref: http://www.snomedbrowser.com/Codes/Details/362008007 xref: SCTID:362008007 is_a: UBERON:0004151 ! cardiac chamber is_a: UBERON:0015212 ! lateral structure intersection_of: UBERON:0004151 ! cardiac chamber intersection_of: in_left_side_of UBERON:0000948 ! heart relationship: in_left_side_of UBERON:0000948 ! heart [Term] id: UBERON:0035554 name: right cardiac chamber namespace: uberon def: "Any chamber of the right side of the heart." [http://orcid.org/0000-0002-6601-2165] xref: FMA:7165 xref: http://www.snomedbrowser.com/Codes/Details/362007002 xref: SCTID:362007002 is_a: UBERON:0004151 ! cardiac chamber is_a: UBERON:0015212 ! lateral structure intersection_of: UBERON:0004151 ! cardiac chamber intersection_of: in_right_side_of UBERON:0000948 ! heart relationship: in_right_side_of UBERON:0000948 ! heart [Term] id: UBERON:0035639 name: ocular adnexa namespace: uberon def: "The parts of the orbital region that are outside of the the eyeball, including the lacrimal apparatus, the extraocular muscles and the eyelids, eyelashes, eyebrows and the conjunctiva" [HPO:pr, http://medical-dictionary.thefreedictionary.com/ocular+adnexa, https://github.com/obophenotype/uberon/issues/1132, UBERON:cjm] def: "The parts of the orbital region that are outside of the the eyeball, including the lacrimal apparatus, the extraocular muscles and the eyelids, eyelashes, eyebrows and the conjunctiva." [HPO:pr, http://medical-dictionary.thefreedictionary.com/ocular+adnexa, https://github.com/obophenotype/uberon/issues/1132, UBERON:cjm] synonym: "accessory parts of orbital region" RELATED [] synonym: "accessory visual structures" RELATED [http://en.wikipedia.org/wiki/Accessory_visual_structures] synonym: "accessory visual structures" RELATED [Wikipedia:Accessory_visual_structures] synonym: "accessory visual structures" RELATED [FMA:76554] synonym: "accessory visual structures set" RELATED [FMA:76554] synonym: "adnexa oculi" EXACT LATIN [http://medical-dictionary.thefreedictionary.com/ocular+adnexa] synonym: "adnexal parts of orbital region" RELATED [] synonym: "appendage of eye" RELATED [http://medical-dictionary.thefreedictionary.com/ocular+adnexa] synonym: "appendages of the eye" RELATED PLURAL [http://medical-dictionary.thefreedictionary.com/ocular+adnexa] synonym: "eye adnexa" RELATED [] synonym: "set of accessory visual structures" RELATED [FMA:76554] synonym: "structurae oculi accessoriae" RELATED LATIN [http://en.wikipedia.org/wiki/Accessory_visual_structures] synonym: "structurae oculi accessoriae" RELATED LATIN [Wikipedia:Accessory_visual_structures] xref: FMA:76554 xref: http://en.wikipedia.org/wiki/Accessory_visual_structures xref: http://linkedlifedata.com/resource/umls/id/C0229243 xref: http://www.snomedbrowser.com/Codes/Details/120612006 xref: NCIT:C32574 xref: SCTID:120612006 xref: UMLS:C0229243 xref: Wikipedia:Accessory_visual_structures is_a: UBERON:0000477 ! anatomical cluster relationship: part_of UBERON:0004088 ! orbital region [Term] id: UBERON:0035763 name: cavity of cardiac chamber namespace: uberon synonym: "cardiac chamber cavity" EXACT [FMA:9464] synonym: "heart cavity" EXACT [FMA:9464] synonym: "heart lumen" EXACT [EHDAA2:0004181] xref: EHDAA2:0004181 xref: FMA:9464 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0002553 ! anatomical cavity intersection_of: UBERON:0002553 ! anatomical cavity intersection_of: luminal_space_of UBERON:0004151 ! cardiac chamber relationship: luminal_space_of UBERON:0004151 ! cardiac chamber relationship: part_of UBERON:0004151 ! cardiac chamber relationship: surrounded_by UBERON:0002165 {source="FMA"} ! endocardium [Term] id: UBERON:0035804 name: future mouth namespace: uberon def: "The primordial mouth region of the developing head." [MP:0003119] synonym: "primitive mouth" EXACT [FMA:293105] synonym: "primordial mouth" EXACT [] xref: FMA:293105 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0013522 ! subdivision of tube relationship: has_part UBERON:0000925 ! endoderm relationship: has_part UBERON:0000930 ! stomodeum relationship: part_of UBERON:0007026 ! presumptive gut [Term] id: UBERON:0035809 name: serous cavity namespace: uberon xref: FMA:12241 xref: http://www.snomedbrowser.com/Codes/Details/304404008 xref: SCTID:304404008 is_a: UBERON:0002553 ! anatomical cavity intersection_of: UBERON:0002553 ! anatomical cavity intersection_of: luminal_space_of UBERON:0005906 ! serous sac relationship: luminal_space_of UBERON:0005906 ! serous sac relationship: part_of UBERON:0005906 ! serous sac [Term] id: UBERON:0035814 name: pericardial fat namespace: uberon def: "The sum of epicardial and paracardial fat deposits." [DOI:10.5935/abc.20130138] def: "The sum of epicardial and paracardial fat deposits." [https://doi.org/10.5935/abc.20130138] xref: http://www.snomedbrowser.com/Codes/Details/42267001 xref: SCTID:42267001 xref: ZFA:0005765 is_a: UBERON:0035818 ! visceral fat intersection_of: UBERON:0001013 ! adipose tissue intersection_of: surrounds UBERON:0000948 ! heart relationship: surrounds UBERON:0000948 ! heart [Term] id: UBERON:0035815 name: paracardial fat namespace: uberon def: "Fat deposits in the mediastinum outside the parietal pericardium ." [https://doi.org/10.5935/abc.20130138] def: "Fat deposits in the mediastinum outside the parietal pericardium ." [DOI:10.5935/abc.20130138] synonym: "intrathoracic fat" EXACT [https://doi.org/10.5935/abc.20130138] synonym: "intrathoracic fat" EXACT [DOI:10.5935/abc.20130138] is_a: UBERON:0035814 ! pericardial fat intersection_of: UBERON:0001013 ! adipose tissue intersection_of: adjacent_to UBERON:0002408 ! parietal serous pericardium intersection_of: surrounds UBERON:0000948 ! heart relationship: adjacent_to UBERON:0002408 ! parietal serous pericardium [Term] id: UBERON:0035818 name: visceral fat namespace: uberon def: "Any fat deposit surrounding a visceral organ." [UBERON:cjm] is_a: UBERON:0001013 ! adipose tissue intersection_of: UBERON:0001013 ! adipose tissue intersection_of: surrounds UBERON:0000062 ! organ relationship: surrounds UBERON:0000062 ! organ [Term] id: UBERON:0035819 name: abdominopelvic cavity namespace: uberon def: "The part of the ventral body cavity that is within the abdominal segment of the trunk, which encompasses the abdomen proper plus pelvic cavity." [UBERON:cjm] synonym: "cavitas abdominis et pelvis" EXACT LATIN [FMA:TA] xref: Abdominopelvic:cavity xref: FMA:12267 xref: Wikipedia:Abdominopelvic_cavity is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0000464 ! anatomical space intersection_of: UBERON:0000464 ! anatomical space intersection_of: luminal_space_of UBERON:0002417 ! abdominal segment of trunk intersection_of: part_of UBERON:0002323 ! coelemic cavity lumen relationship: luminal_space_of UBERON:0002417 ! abdominal segment of trunk relationship: part_of UBERON:0002323 ! coelemic cavity lumen relationship: part_of UBERON:0002417 ! abdominal segment of trunk [Term] id: UBERON:0035820 name: peritoneal sac namespace: uberon def: "A serous sac that is the aggregate of the peritoneum and the peritoneal cavity, located in the abdominal cavity." [https://github.com/obophenotype/uberon/issues/86] synonym: "peritoneal component" RELATED [EMAPA:16137] xref: EMAPA:16137 xref: FMA:9908 xref: MA:0000054 is_a: UBERON:0002075 ! viscus is_a: UBERON:0005906 ! serous sac relationship: has_part UBERON:0001179 ! peritoneal cavity relationship: has_part UBERON:0002358 ! peritoneum relationship: located_in UBERON:0003684 ! abdominal cavity [Term] id: UBERON:0035965 name: wall of blood vessel namespace: uberon synonym: "blood vessel wall" EXACT [FMA:67473] synonym: "vascular wall" RELATED [BTO:0004378] xref: BTO:0004378 xref: EMAPA:37987 {source="MA:th"} xref: FMA:67473 is_a: UBERON:0000060 ! anatomical wall is_a: UBERON:0004120 ! mesoderm-derived structure intersection_of: UBERON:0000060 ! anatomical wall intersection_of: part_of UBERON:0001981 ! blood vessel relationship: composed_primarily_of UBERON:0004797 ! blood vessel layer relationship: has_part UBERON:0004797 ! blood vessel layer relationship: part_of UBERON:0001981 ! blood vessel [Term] id: UBERON:0036072 name: respiratory primordium epithelium namespace: uberon xref: EHDAA2:0004070 is_a: UBERON:0004185 ! endodermal part of digestive tract is_a: UBERON:0005911 ! endo-epithelium is_a: UBERON:0007499 ! epithelial sac is_a: UBERON:0009854 ! digestive tract diverticulum is_a: UBERON:0015833 ! foregut epithelium intersection_of: UBERON:0007499 ! epithelial sac intersection_of: part_of UBERON:0008947 ! respiratory primordium relationship: develops_from UBERON:0007690 {source="EHDAA2"} ! early pharyngeal endoderm relationship: part_of UBERON:0008947 ! respiratory primordium [Term] id: UBERON:0036073 name: respiratory primordium mesenchyme namespace: uberon synonym: "respiratory primordium associated mesenchyme" EXACT [EHDAA2:0004071] xref: EHDAA2:0004071 is_a: UBERON:0000077 ! mixed endoderm/mesoderm-derived structure is_a: UBERON:0003104 ! mesenchyme intersection_of: UBERON:0003104 ! mesenchyme intersection_of: part_of UBERON:0008947 ! respiratory primordium relationship: develops_from UBERON:0004873 {source="EHDAA2"} ! splanchnopleure relationship: part_of UBERON:0008947 ! respiratory primordium [Term] id: UBERON:0036146 name: cardiopharyngeal field namespace: uberon def: "An region of the mesoderm that includes anterior lateral mesoderm of the first heart field plus contiguous pharyngeal mesoderm that gives rise to second-heart-field-derived regions of the heart and branchiomeric muscles." [BGEE:ann, http://www.nature.com/nature/journal/v520/n7548/full/nature14435.html#bx1] is_a: UBERON:0002050 ! embryonic structure is_a: UBERON:0004120 ! mesoderm-derived structure is_a: UBERON:0005291 ! embryonic tissue is_a: UBERON:0007688 ! anlage [Term] id: UBERON:0036186 name: fibroelastic connective tissue namespace: uberon xref: FMA:83520 is_a: UBERON:0002521 ! elastic tissue is_a: UBERON:0011824 ! fibrous connective tissue intersection_of: UBERON:0011824 ! fibrous connective tissue intersection_of: composed_primarily_of GO:0071953 ! elastic fiber [Term] id: UBERON:0036215 name: anatomical surface region namespace: uberon def: "Material anatomical entity that forms the outermost boundary of an anatomical structure." [https://github.com/obophenotype/uberon/issues/1324] xref: AAO:0010270 xref: AEO:0000154 xref: ZFA:0005594 is_a: UBERON:0000465 ! material anatomical entity relationship: bounding_layer_of UBERON:0000061 ! anatomical structure relationship: part_of UBERON:0000061 ! anatomical structure [Term] id: UBERON:0036217 name: coelomic fluid namespace: uberon def: "A bodily fluid that is located in the coelom." [https://github.com/obophenotype/uberon/issues/1326, PMID:10874572] def: "A bodily fluid that is located in the coelom." [http://www.ncbi.nlm.nih.gov/pubmed/10874572, https://github.com/obophenotype/uberon/issues/1326] xref: BTO:0001708 is_a: UBERON:0006314 ! bodily fluid intersection_of: UBERON:0006314 ! bodily fluid intersection_of: located_in UBERON:0011997 ! coelom relationship: located_in UBERON:0011997 ! coelom property_value: UBPROP:0000009 "he coelomic fluid serves several functions; it acts as a hydroskeleton, it allows free movement and growth of internal organs, it serves for transport of gases, nutrients and waste products between different parts of the body, it allows storage of sperm and eggs during maturation and it acts as a reservoir for waste [Wikipedia:Coelom#Coelomic_fluid]" xsd:string [Term] id: UBERON:0036225 name: respiratory system gland namespace: uberon def: "Any gland that is part os the respiratory system." [UBERON:cjm] is_a: UBERON:0002530 ! gland intersection_of: UBERON:0002530 ! gland intersection_of: part_of UBERON:0001004 ! respiratory system relationship: part_of UBERON:0001004 ! respiratory system [Term] id: UBERON:0036242 name: post-embryonic notochord namespace: uberon def: "A notochord that has persisted beyond the embryonic stage." [UBERON:cjm] is_a: UBERON:0002328 ! notochord intersection_of: UBERON:0002328 ! notochord intersection_of: part_of UBERON:0009953 ! post-embryonic organism relationship: part_of UBERON:0009953 ! post-embryonic organism property_value: RO:0002161 NCBITaxon:32524 property_value: RO:0002175 NCBITaxon:118072 property_value: RO:0002175 NCBITaxon:7737 property_value: RO:0002175 NCBITaxon:7746 property_value: RO:0002175 NCBITaxon:7878 property_value: RO:0002175 NCBITaxon:8292 [Term] id: UBERON:0036244 name: secretion of serous membrane namespace: uberon def: "A transudate found in the serous sac." [FMA:20932] synonym: "serous fluid" BROAD [FMA:20932] synonym: "serous sac fluid" EXACT [] xref: FMA:20932 is_a: UBERON:0007779 ! transudate intersection_of: UBERON:0007779 ! transudate intersection_of: filtered_through UBERON:0000042 ! serous membrane relationship: filtered_through UBERON:0000042 ! serous membrane relationship: located_in UBERON:0005906 ! serous sac [Term] id: UBERON:0036253 name: orifice of skull namespace: uberon synonym: "cranial orifice" EXACT [FMA:53133] synonym: "skull orifice" EXACT [FMA:53133] xref: FMA:53133 is_a: UBERON:0000161 ! orifice intersection_of: UBERON:0000161 ! orifice intersection_of: part_of UBERON:0003129 ! skull relationship: part_of UBERON:0003129 ! skull [Term] id: UBERON:0036264 name: zygomaticotemporal nerve namespace: uberon def: "The zygomaticotemporal nerve or zygomaticotemporal branch (temporal branch) is derived from the maxillary branch of the trigeminal nerve (Cranial nerve V). It runs along the lateral wall of the orbit in a groove in the zygomatic bone, receives a branch of communication from the lacrimal, and passes through zygomaticotemporal foramen in the zygomatic bone to enter the temporal fossa. It ascends between the bone, and substance of the Temporalis muscle, pierces the temporal fascia about 2.5 cm. above the zygomatic arch, and is distributed to the skin of the side of the forehead, and communicates with the facial nerve and with the auriculotemporal branch of the mandibular nerve. As it pierces the temporal fascia, it gives off a slender twig, which runs between the two layers of the fascia to the lateral angle of the orbit." [Wikipedia:Zygomaticotemporal_nerve] synonym: "ramus zygomaticotemporalis (Nervus zygomaticus)" EXACT [FMA:52972] synonym: "ramus zygomaticotemporalis nervus zygomatici" EXACT LATIN [FMA:TA] synonym: "zygomaticotemporal" RELATED [Wikipedia:Zygomaticotemporal_nerve] synonym: "zygomaticotemporal branch" RELATED [Wikipedia:Zygomaticotemporal_nerve] synonym: "zygomaticotemporal branch of zygomatic nerve" EXACT [FMA:52972] xref: FMA:52972 xref: SCTID:280243001 xref: Wikipedia:Zygomaticotemporal_nerve is_a: UBERON:0011779 ! nerve of head region relationship: branching_part_of UBERON:0000377 ! maxillary nerve [Term] id: UBERON:0036268 name: pelvic vein namespace: uberon xref: http://www.snomedbrowser.com/Codes/Details/13152008 is_a: UBERON:0001638 ! vein intersection_of: UBERON:0001638 ! vein intersection_of: drains UBERON:0002355 ! pelvic region of trunk relationship: drains UBERON:0002355 ! pelvic region of trunk relationship: part_of RO:0002577 ! system [Term] id: UBERON:0036285 name: wall of left ventricle namespace: uberon def: "Wall of ventricle which is continuous with the wall of aorta." [FMA:9556] synonym: "left ventricular wall" EXACT [FMA:9556] xref: FMA:9556 is_a: UBERON:0004784 {source="FMA"} ! heart ventricle wall intersection_of: UBERON:0004784 ! heart ventricle wall intersection_of: part_of UBERON:0002084 ! heart left ventricle relationship: part_of UBERON:0002084 {source="FMA"} ! heart left ventricle [Term] id: UBERON:0036286 name: wall of right ventricle namespace: uberon def: "Wall of ventricle which is continuous with the wall of pulmonary trunk." [FMA:9533] synonym: "right ventricular wall" EXACT [FMA:9533] xref: FMA:9533 is_a: UBERON:0004784 {source="FMA"} ! heart ventricle wall intersection_of: UBERON:0004784 ! heart ventricle wall intersection_of: part_of UBERON:0002080 ! heart right ventricle relationship: part_of UBERON:0002080 {source="FMA"} ! heart right ventricle [Term] id: UBERON:0036288 name: anterior wall of left ventricle namespace: uberon xref: FMA:9560 is_a: UBERON:0036285 ! wall of left ventricle intersection_of: UBERON:0004784 ! heart ventricle wall intersection_of: in_anterior_side_of UBERON:0002084 ! heart left ventricle relationship: in_anterior_side_of UBERON:0002084 ! heart left ventricle relationship: part_of UBERON:0036285 {source="FMA"} ! wall of left ventricle [Term] id: UBERON:0036289 name: anterior wall of right ventricle namespace: uberon def: "Region of wall of right ventricle which is continuous with the lateral and septal walls of right ventricle." [FMA:9553] xref: FMA:9553 is_a: UBERON:0036286 ! wall of right ventricle intersection_of: UBERON:0004784 ! heart ventricle wall intersection_of: in_anterior_side_of UBERON:0002080 ! heart right ventricle relationship: in_anterior_side_of UBERON:0002080 ! heart right ventricle [Term] id: UBERON:0036290 name: myocardium of anterior wall of left ventricle namespace: uberon xref: FMA:87177 is_a: UBERON:0006566 ! left ventricle myocardium intersection_of: UBERON:0002349 ! myocardium intersection_of: part_of UBERON:0036288 ! anterior wall of left ventricle relationship: part_of UBERON:0036288 ! anterior wall of left ventricle [Term] id: UBERON:0036291 name: myocardium of anterior wall of right ventricle namespace: uberon xref: FMA:260877 is_a: UBERON:0006567 ! right ventricle myocardium intersection_of: UBERON:0002349 ! myocardium intersection_of: part_of UBERON:0036289 ! anterior wall of right ventricle relationship: part_of UBERON:0036289 ! anterior wall of right ventricle [Term] id: UBERON:0036294 name: mucosa of lip namespace: uberon def: "A mucosa that is part of a lip region [Automatically generated definition]." [OBOL:automatic] synonym: "labial mucosa" EXACT [UBERON:cjm] xref: NCIT:C12226 is_a: UBERON:0003729 ! mouth mucosa is_a: UBERON:0013754 ! integumentary system layer intersection_of: UBERON:0000344 ! mucosa intersection_of: part_of UBERON:0001833 ! lip relationship: part_of UBERON:0001833 ! lip [Term] id: UBERON:0036302 name: vasculature of central nervous system plus retina namespace: uberon is_a: UBERON:0002049 ! vasculature union_of: UBERON:0004864 ! vasculature of retina union_of: UBERON:0036303 ! vasculature of central nervous system [Term] id: UBERON:0036303 name: vasculature of central nervous system namespace: uberon xref: FMA:259905 is_a: CARO:0000000 ! anatomical entity is_a: UBERON:0036302 ! vasculature of central nervous system plus retina intersection_of: UBERON:0002049 ! vasculature intersection_of: part_of UBERON:0001017 ! central nervous system relationship: part_of UBERON:0001017 ! central nervous system [Term] id: UBERON:0036351 name: wall of brachiocephalic artery namespace: uberon synonym: "brachiocephalic arterial wall" EXACT [FMA:15089] xref: FMA:15089 is_a: UBERON:0000415 {source="FMA"} ! artery wall intersection_of: UBERON:0000060 ! anatomical wall intersection_of: part_of UBERON:0001529 ! brachiocephalic artery relationship: part_of UBERON:0001529 {source="FMA"} ! brachiocephalic artery [Term] id: UBERON:0036352 name: wall of subclavian artery namespace: uberon synonym: "subclavian arterial wall" EXACT [FMA:15090] xref: FMA:15090 is_a: UBERON:0000415 {source="FMA"} ! artery wall intersection_of: UBERON:0000060 ! anatomical wall intersection_of: part_of UBERON:0001533 ! subclavian artery relationship: part_of UBERON:0001533 {source="FMA"} ! subclavian artery [Term] id: UBERON:0036422 name: wall of pulmonary artery namespace: uberon synonym: "pulmonary arterial wall" EXACT [FMA:18211] xref: FMA:18211 is_a: UBERON:0000415 {source="FMA"} ! artery wall is_a: UBERON:0010314 ! structure with developmental contribution from neural crest intersection_of: UBERON:0000060 ! anatomical wall intersection_of: part_of UBERON:0002012 ! pulmonary artery relationship: part_of UBERON:0002012 {source="FMA"} ! pulmonary artery [Term] id: UBERON:0036553 name: wall of synovial tendon sheath namespace: uberon xref: FMA:231590 is_a: UBERON:0000042 {source="FMA"} ! serous membrane is_a: UBERON:0000060 ! anatomical wall intersection_of: UBERON:0000060 ! anatomical wall intersection_of: part_of UBERON:0000304 ! tendon sheath relationship: part_of UBERON:0000304 {source="FMA"} ! tendon sheath [Term] id: UBERON:0036925 name: wall of eyeball namespace: uberon synonym: "eyeball wall" EXACT [FMA:58098] xref: FMA:58098 is_a: UBERON:0000060 {source="FMA"} ! anatomical wall is_a: UBERON:0004121 ! ectoderm-derived structure intersection_of: UBERON:0000060 ! anatomical wall intersection_of: part_of UBERON:0010230 ! eyeball of camera-type eye relationship: part_of UBERON:0010230 {source="FMA"} ! eyeball of camera-type eye [Term] id: UBERON:0037094 name: wall of common carotid artery namespace: uberon synonym: "common carotid arterial wall" EXACT [FMA:66284] xref: FMA:66284 is_a: UBERON:0000415 {source="FMA"} ! artery wall is_a: UBERON:0010314 ! structure with developmental contribution from neural crest intersection_of: UBERON:0000060 ! anatomical wall intersection_of: part_of UBERON:0001530 ! common carotid artery plus branches relationship: part_of UBERON:0001530 {source="FMA"} ! common carotid artery plus branches [Term] id: UBERON:0037144 name: wall of heart namespace: uberon def: "Wall of organ which has as its parts the endocardium, myocardium , epicardium, and the cardiac septum, surrounded by the pericardial sac proper and is continuous with the walls of the systemic and pulmonary arterial and venous trees." [FMA:7274] def: "wall of organ which has as its parts the endocardium, myocardium , epicardium, and the cardiac septum, surrounded by the pericardial sac proper and is continuous with the walls of the systemic and pulmonary arterial and venous trees." [FMA:7274] synonym: "cardiac wall" EXACT [FMA:7274] xref: FMA:7274 is_a: CARO:0000003 ! connected anatomical structure is_a: UBERON:0000060 {source="FMA"} ! anatomical wall is_a: UBERON:0004120 ! mesoderm-derived structure intersection_of: UBERON:0000060 ! anatomical wall intersection_of: part_of UBERON:0000948 ! heart relationship: attaches_to UBERON:0002406 {source="FMA"} ! pericardial sac relationship: attaches_to UBERON:0004292 {source="FMA"} ! cardiac skeleton relationship: connects UBERON:0002406 ! pericardial sac relationship: connects UBERON:0004292 ! cardiac skeleton relationship: part_of RO:0002577 ! system relationship: part_of UBERON:0000948 {source="FMA"} ! heart [Term] id: UBERON:1000021 name: skin of face namespace: uberon def: "A zone of skin that is part of the face." [https://github.com/obophenotype/uberon/issues/34, UBERON:EJS] subset: pheno_slim subset: phenotype_rcn synonym: "face skin" EXACT [EMAPA:36657, FMA:24758] synonym: "facial skin" RELATED [] xref: EMAPA:36657 xref: FMA:24758 xref: http://linkedlifedata.com/resource/umls/id/C0222084 xref: http://www.snomedbrowser.com/Codes/Details/361703006 xref: NCIT:C33561 xref: SCTID:361703006 xref: UMLS:C0222084 {source="ncithesaurus:Skin_of_the_Face"} is_a: UBERON:0001084 ! skin of head intersection_of: UBERON:0000014 ! zone of skin intersection_of: part_of UBERON:0001456 ! face relationship: part_of UBERON:0001456 ! face property_value: http://purl.org/dc/elements/1.1/contributor https://github.com/cmungall property_value: http://purl.org/dc/elements/1.1/contributor https://github.com/seger property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0002-9611-1279 created_by: eriks creation_date: 2012-02-05T05:23:01Z [Term] id: UBERON:1100000 name: digestive tract junction namespace: uberon def: "An anatomical junction between two parts of the digestive tract." [https://orcid.org/0000-0002-7073-9172] is_a: UBERON:0007651 ! anatomical junction intersection_of: UBERON:0007651 ! anatomical junction intersection_of: connects UBERON:0004921 ! subdivision of digestive tract relationship: connects UBERON:0004921 ! subdivision of digestive tract relationship: dc-creator http://orcid.org/0000-0002-7073-9172 property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0002-7073-9172 creation_date: 2021-02-05T11:19:31Z [Term] id: UBERON:2001457 name: postcranial axial cartilage namespace: uberon def: "Cartilage which is part of the axial skeleton." [ZFIN:curator] xref: ZFA:0001457 is_a: UBERON:0007844 ! cartilage element intersection_of: UBERON:0007844 ! cartilage element intersection_of: part_of UBERON:0002090 ! postcranial axial skeleton relationship: part_of UBERON:0002090 ! postcranial axial skeleton property_value: UBPROP:0000004 "This class was sourced from an external ontology (teleost_anatomy). Its definitions, naming conventions and relationships may need to be checked for compatibility with uberon" xsd:string {source="http://purl.obolibrary.org/obo/tao.owl"} created_by: teleost_anatomy_curators [Term] id: UBERON:2005260 name: fenestrated capillary namespace: uberon def: "Capillary that has pores in the endothelial cells (60-80 nm in diameter) that are spanned by a diaphragm of radially oriented fibrils and allow small molecules and limited amounts of protein to diffuse." [Wikipedia:Capillary#Types, Wikipedia:Fenestra_(histology)] def: "Capillary that has pores in the endothelial cells (60-80 nm in diameter) that are spanned by a diaphragm of radially oriented fibrils and allow small molecules and limited amounts of protein to diffuse." [http://en.wikipedia.org/wiki/Capillary#Types, http://en.wikipedia.org/wiki/Fenestra_(histology)] synonym: "fenestrated blood vessel endothelium" BROAD [ZFA:0005260] synonym: "fenestrated capillary vessel" EXACT [FMA:63196] xref: FMA:63196 xref: http://linkedlifedata.com/resource/umls/id/C1179615 xref: NCIT:C32595 xref: TAO:0005260 xref: Types xref: UMLS:C1179615 {source="ncithesaurus:Fenestrated_Capillary"} xref: Wikipedia:Capillary#Types xref: ZFA:0005260 is_a: UBERON:0001982 {source="FMA"} ! capillary is_a: UBERON:0004638 {source="ZFA"} ! blood vessel endothelium property_value: editor_note "the ZFA class from which this was derived is not explicitly classified as a capillary - need to verify for taxon histology differences" xsd:string property_value: UBPROP:0000001 "Blood vessel endothelium that has pores that allow passage small molecules and proteins[ZFA]." xsd:string [Term] id: UBERON:2007013 name: preplacodal ectoderm namespace: uberon def: "Non neural ectoderm that surrounds the presumptive neural plate and gives rise to neurogenic placodes." [ZFIN:curator] xref: ZFA:0007013 is_a: UBERON:0005497 ! non-neural ectoderm property_value: UBPROP:0000004 "This class was sourced from an external ontology (teleost_anatomy). Its definitions, naming conventions and relationships may need to be checked for compatibility with uberon" xsd:string created_by: teleost_anatomy_curators [Term] id: UBERON:3000961 name: external integument structure namespace: uberon namespace: uberon/phenoscape-anatomy def: "Structures of the dermis, epidermis, glands and pigment cells recognizable on the external surfaces of the integument." [AAO:EJS] comment: Not clear how this differs from parent class. See https://github.com/obophenotype/uberon/issues/1305 is_a: UBERON:0003102 ! surface structure intersection_of: UBERON:0003102 ! surface structure intersection_of: part_of UBERON:0002199 ! integument relationship: part_of UBERON:0002199 ! integument property_value: provenance_notes "This class was sourced from an external ontology (amphibian_anatomy). Its definitions, naming conventions and relationships may need to be checked for compatibility with uberon" xsd:string property_value: UBPROP:0000004 "This class was sourced from an external ontology (amphibian_anatomy). Its definitions, naming conventions and relationships may need to be checked for compatibility with uberon" xsd:string {source="http://purl.obolibrary.org/obo/aao.owl"} created_by: amphibian_anatomy_curators [Term] id: UBERON:3000972 name: head external integument structure namespace: uberon namespace: uberon/phenoscape-anatomy def: "Dermal, epidermal, glandular and pigment structures of the external head integument." [AAO:EJS] is_a: UBERON:3000961 ! external integument structure intersection_of: UBERON:3000961 ! external integument structure intersection_of: part_of UBERON:0000033 ! head relationship: part_of UBERON:0000033 ! head property_value: provenance_notes "This class was sourced from an external ontology (amphibian_anatomy). Its definitions, naming conventions and relationships may need to be checked for compatibility with uberon" xsd:string property_value: UBPROP:0000004 "This class was sourced from an external ontology (amphibian_anatomy). Its definitions, naming conventions and relationships may need to be checked for compatibility with uberon" xsd:string {source="http://purl.obolibrary.org/obo/aao.owl"} created_by: amphibian_anatomy_curators [Term] id: UBERON:3000977 name: body external integument structure namespace: uberon namespace: uberon/phenoscape-anatomy def: "Dermal, epidermal, glandular and pigment structures of the body integument." [AAO:EJS] is_a: UBERON:3000961 ! external integument structure intersection_of: UBERON:3000961 ! external integument structure intersection_of: part_of UBERON:0002100 ! trunk relationship: part_of UBERON:0002100 ! trunk property_value: provenance_notes "This class was sourced from an external ontology (amphibian_anatomy). Its definitions, naming conventions and relationships may need to be checked for compatibility with uberon" xsd:string property_value: UBPROP:0000004 "This class was sourced from an external ontology (amphibian_anatomy). Its definitions, naming conventions and relationships may need to be checked for compatibility with uberon" xsd:string {source="http://purl.obolibrary.org/obo/aao.owl"} created_by: amphibian_anatomy_curators [Term] id: UBERON:3010200 name: vasculature of respiratory integument namespace: uberon namespace: uberon/phenoscape-anatomy def: "Blood vessels in respiratory skin." [AAO:EJS] is_a: UBERON:0003504 ! respiratory system blood vessel intersection_of: UBERON:0001981 ! blood vessel intersection_of: part_of UBERON:0001004 ! respiratory system intersection_of: part_of UBERON:0002199 ! integument relationship: part_of UBERON:0002199 ! integument property_value: editor_note "Modified from the original AAO source" xsd:string property_value: UBPROP:0000004 "This class was sourced from an external ontology (amphibian_anatomy). Its definitions, naming conventions and relationships may need to be checked for compatibility with uberon" xsd:string {source="http://purl.obolibrary.org/obo/aao.owl"} created_by: amphibian_anatomy_curators [Term] id: UBERON:4200230 name: surface of bone namespace: uberon def: "An anatomical surface that is part of a bone." [PHENOSCAPE] synonym: "bone surface" EXACT [] is_a: UBERON:0006984 ! anatomical surface intersection_of: UBERON:0006984 ! anatomical surface intersection_of: part_of UBERON:0001474 ! bone element relationship: part_of UBERON:0001474 ! bone element [Term] id: UBERON:6000004 name: panarthropod head namespace: uberon xref: FBbt:00000004 is_a: UBERON:0000033 ! head intersection_of: UBERON:0000033 ! head intersection_of: part_of NCBITaxon:88770 ! Panarthropoda relationship: part_of NCBITaxon:88770 ! Panarthropoda [Term] id: UBERON:8000006 name: left side of back namespace: uberon def: "Left part of the organism dorsal to a horizontal plane and bounded on one side by the same transverse plane." [https://microbiomedb.org/] is_a: UBERON:0001137 ! dorsum is_a: UBERON:0015212 ! lateral structure intersection_of: UBERON:0001137 ! dorsum intersection_of: in_left_side_of UBERON:0000468 ! multicellular organism relationship: in_left_side_of UBERON:0000468 ! multicellular organism property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0001-5208-3432 created_by: http://orcid.org/0000-0001-5208-3432 [Term] id: UBERON:8000007 name: right side of back namespace: uberon def: "Right part of the organism dorsal to a horizontal plane and bounded on one side by the same transverse plane." [https://microbiomedb.org/] is_a: UBERON:0001137 ! dorsum is_a: UBERON:0015212 ! lateral structure intersection_of: UBERON:0001137 ! dorsum intersection_of: in_right_side_of UBERON:0000468 ! multicellular organism relationship: in_right_side_of UBERON:0000468 ! multicellular organism property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0001-5208-3432 created_by: http://orcid.org/0000-0001-5208-3432 [Term] id: UBERON:8000009 name: Purkinje fiber network namespace: uberon def: "A collection of Purkinje fibers that receives signals from the right and left bundle branches and innervates the ventricular cardiac muscle. The Purkinje fiber network creates synchronized contractions of the heart ventricles." [PMID:26786210] synonym: "Purkinje fibre network" EXACT [PMID:26786210] is_a: UBERON:0010131 {source="https://github.com/obophenotype/uberon/issues/1785", source="https://orcid.org/0000-0001-5208-3432", source="https://orcid.org/0000-0002-9791-0064"} ! conducting tissue of heart is_a: UBERON:0018649 ! cardiac muscle tissue of ventricle relationship: has_part UBERON:0002354 {source="https://github.com/obophenotype/uberon/issues/1785", source="https://orcid.org/0000-0001-5208-3432", source="https://orcid.org/0000-0002-9791-0064"} ! cardiac Purkinje fiber relationship: part_of UBERON:0004146 {source="https://github.com/obophenotype/uberon/issues/1785", source="https://orcid.org/0000-0001-5208-3432", source="https://orcid.org/0000-0002-9791-0064"} ! His-Purkinje system created_by: http://orcid.org/0000-0001-5208-3432 [Term] id: ecocore:00000082 name: omnivore def: "A heterotroph that consumes plant and animal matter either in whole or in part via ingestion through a type of \"mouth\". Animal and plant matter is broken down through an internal digestion process" [] is_a: ECOCORE:00000010 ! heterotroph property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string [Term] id: ecocore:00000133 name: territory def: "An environmental zone which an animal consistently defends against conspecifics or, occasionally, animals of other species" [] is_a: ENVO:01000408 ! environmental zone property_value: IAO:0000117 http://orcid.org/0000-0002-2908-3327 xsd:string [Typedef] id: BFO:0000054 name: realized in comment: Paraphrase of elucidation: a relation between a realizable entity and a process, where there is some material entity that is bearer of the realizable entity and participates in the process, and the realizable entity comes to be realized in the course of the process property_value: example_of_usage "this disease is realized in this disease course" xsd:string property_value: example_of_usage "this fragility is realized in this shattering" xsd:string property_value: example_of_usage "this investigator role is realized in this investigation" xsd:string property_value: IAO:0000111 "realized in" xsd:string property_value: IAO:0000118 "is realized by" xsd:string property_value: IAO:0000118 "realized_in" xsd:string property_value: IAO:0000600 "[copied from inverse property 'realizes'] to say that b realizes c at t is to assert that there is some material entity d & b is a process which has participant d at t & c is a disposition or role of which d is bearer_of at t& the type instantiated by b is correlated with the type instantiated by c. (axiom label in BFO2 Reference: [059-003])" xsd:string property_value: isDefinedBy http://purl.obolibrary.org/obo/bfo.owl domain: BFO:0000017 ! realizable entity range: BFO:0000015 ! process inverse_of: BFO:0000055 ! realizes [Typedef] id: BFO:0000055 name: realizes comment: Paraphrase of elucidation: a relation between a process and a realizable entity, where there is some material entity that is bearer of the realizable entity and participates in the process, and the realizable entity comes to be realized in the course of the process property_value: example_of_usage "this disease course realizes this disease" xsd:string property_value: example_of_usage "this investigation realizes this investigator role" xsd:string property_value: example_of_usage "this shattering realizes this fragility" xsd:string property_value: IAO:0000111 "realizes" xsd:string property_value: IAO:0000600 "to say that b realizes c at t is to assert that there is some material entity d & b is a process which has participant d at t & c is a disposition or role of which d is bearer_of at t& the type instantiated by b is correlated with the type instantiated by c. (axiom label in BFO2 Reference: [059-003])" xsd:string property_value: isDefinedBy http://purl.obolibrary.org/obo/iao.owl domain: BFO:0000015 ! process range: BFO:0000017 ! realizable entity [Typedef] id: IAO:0000136 name: is about def: "A (currently) primitive relation that relates an information artifact to an entity." [] property_value: editor_note "7/6/2009 Alan Ruttenberg. Following discussion with Jonathan Rees, and introduction of \"mentions\" relation. Weaken the is_about relationship to be primitive. \n\nWe will try to build it back up by elaborating the various subproperties that are more precisely defined.\n\nSome currently missing phenomena that should be considered \"about\" are predications - \"The only person who knows the answer is sitting beside me\" , Allegory, Satire, and other literary forms that can be topical without explicitly mentioning the topic." xsd:string property_value: example_of_usage "This document is about information artifacts and their representations" xsd:string property_value: IAO:0000114 IAO:0000125 property_value: IAO:0000117 "person:Alan Ruttenberg" xsd:string property_value: IAO:0000119 "Smith, Ceusters, Ruttenberg, 2000 years of philosophy" xsd:string domain: IAO:0000030 ! information content entity [Typedef] id: RO:0000052 name: characteristic of name: inheres in def: "a relation between a specifically dependent continuant (the characteristic) and any other entity (the bearer), in which the characteristic depends on the bearer for its existence." [] def: "a relation between a specifically dependent continuant (the dependent) and an independent continuant (the bearer), in which the dependent specifically depends on the bearer for its existence" [] comment: Note that this relation was previously called "inheres in", but was changed to be called "characteristic of" because BFO2 uses "inheres in" in a more restricted fashion. This relation differs from BFO2:inheres_in in two respects: (1) it does not impose a range constraint, and thus it allows qualities of processes, as well as of information entities, whereas BFO2 restricts inheres_in to only apply to independent continuants (2) it is declared functional, i.e. something can only be a characteristic of one thing. property_value: editor_note "A dependent inheres in its bearer at all times for which the dependent exists." xsd:string property_value: example_of_usage "this fragility inheres in this vase" xsd:string property_value: example_of_usage "this fragility is a characteristic of this vase" xsd:string property_value: example_of_usage "this red color inheres in this apple" xsd:string property_value: example_of_usage "this red color is a characteristic of this apple" xsd:string property_value: IAO:0000111 "inheres in" xsd:string property_value: IAO:0000118 "inheres_in" xsd:string property_value: RO:0001900 RO:0001901 is_functional: true is_a: RO:0002314 ! characteristic of part of inverse_of: bearer_of ! bearer of [Typedef] id: RO:0000079 name: function of def: "a relation between a function and an independent continuant (the bearer), in which the function specifically depends on the bearer for its existence" [] comment: This relation is modeled after the BFO relation of the same name which was in BFO2, but is used in a more restricted sense - specifically, we model this relation as functional (inherited from characteristic-of). Note that this relation is now removed from BFO2020. property_value: editor_note "A function inheres in its bearer at all times for which the function exists, however the function need not be realized at all the times that the function exists." xsd:string property_value: example_of_usage "this catalysis function is a function of this enzyme" xsd:string property_value: IAO:0000118 "function_of" xsd:string property_value: IAO:0000118 "is function of" xsd:string domain: BFO:0000034 ! function is_a: RO:0000052 ! inheres in inverse_of: RO:0000085 ! has function [Typedef] id: RO:0000080 name: quality of def: "a relation between a quality and an independent continuant (the bearer), in which the quality specifically depends on the bearer for its existence" [] comment: This relation is modeled after the BFO relation of the same name which was in BFO2, but is used in a more restricted sense - specifically, we model this relation as functional (inherited from characteristic-of). Note that this relation is now removed from BFO2020. property_value: editor_note "A quality inheres in its bearer at all times for which the quality exists." xsd:string property_value: example_of_usage "this red color is a quality of this apple" xsd:string property_value: IAO:0000118 "is quality of" xsd:string property_value: IAO:0000118 "quality_of" xsd:string is_a: RO:0000052 ! inheres in inverse_of: has_quality ! has quality [Typedef] id: RO:0000081 name: role of def: "a relation between a role and an independent continuant (the bearer), in which the role specifically depends on the bearer for its existence" [] comment: This relation is modeled after the BFO relation of the same name which was in BFO2, but is used in a more restricted sense - specifically, we model this relation as functional (inherited from characteristic-of). Note that this relation is now removed from BFO2020. property_value: editor_note "A role inheres in its bearer at all times for which the role exists, however the role need not be realized at all the times that the role exists." xsd:string property_value: example_of_usage "this investigator role is a role of this person" xsd:string property_value: IAO:0000118 "is role of" xsd:string property_value: IAO:0000118 "role_of" xsd:string is_a: RO:0000052 ! inheres in inverse_of: has_role ! has role [Typedef] id: RO:0000085 name: has function def: "a relation between an independent continuant (the bearer) and a function, in which the function specifically depends on the bearer for its existence" [] property_value: editor_note "A bearer can have many functions, and its functions can exist for different periods of time, but none of its functions can exist when the bearer does not exist. A function need not be realized at all the times that the function exists." xsd:string property_value: example_of_usage "this enzyme has function this catalysis function (more colloquially: this enzyme has this catalysis function)" xsd:string property_value: IAO:0000118 "has_function" xsd:string domain: BFO:0000004 ! independent continuant range: BFO:0000034 ! function is_a: bearer_of ! bearer of [Typedef] id: RO:0000091 name: has disposition def: "a relation between an independent continuant (the bearer) and a disposition, in which the disposition specifically depends on the bearer for its existence" [] domain: BFO:0000004 ! independent continuant range: BFO:0000016 ! disposition is_a: bearer_of ! bearer of inverse_of: RO:0000092 ! disposition of [Typedef] id: RO:0000092 name: disposition of def: "inverse of has disposition" [] comment: This relation is modeled after the BFO relation of the same name which was in BFO2, but is used in a more restricted sense - specifically, we model this relation as functional (inherited from characteristic-of). Note that this relation is now removed from BFO2020. subset: RO:0002259 is_a: RO:0000052 ! inheres in [Typedef] id: RO:0001018 name: contained in subset: ro-eco property_value: editor_note "Containment is location not involving parthood, and arises only where some immaterial continuant is involved." xsd:string property_value: editor_note "Containment obtains in each case between material and immaterial continuants, for instance: lung contained_in thoracic cavity; bladder contained_in pelvic cavity. Hence containment is not a transitive relation. If c part_of c1 at t then we have also, by our definition and by the axioms of mereology applied to spatial regions, c located_in c1 at t. Thus, many examples of instance-level location relations for continuants are in fact cases of instance-level parthood. For material continuants location and parthood coincide. Containment is location not involving parthood, and arises only where some immaterial continuant is involved. To understand this relation, we first define overlap for continuants as follows: c1 overlap c2 at t =def for some c, c part_of c1 at t and c part_of c2 at t. The containment relation on the instance level can then be defined (see definition):" xsd:string property_value: editor_note "Intended meaning:\ndomain: material entity\nrange: spatial region or site (immaterial continuant)\n " xsd:string property_value: IAO:0000111 "contained in" xsd:string property_value: IAO:0000118 "contained_in" xsd:string property_value: RO:0001900 RO:0001901 domain: BFO:0000040 ! material entity range: BFO:0000004 ! independent continuant holds_over_chain: located_in part_of inverse_of: contains ! contains [Typedef] id: RO:0002011 name: regulates transport of def: "A relationship that holds between a process that regulates a transport process and the entity transported by that process." [] subset: ro-eco property_value: IAO:0000117 "David Osumi-Sutherland" xsd:string holds_over_chain: regulates transports_or_maintains_localization_of [Typedef] id: RO:0002015 name: has positive regulatory component activity def: "A relationship that holds between a GO molecular function and a component of that molecular function that positively regulates the activity of the whole. More formally, A 'has regulatory component activity' B iff :A and B are GO molecular functions (GO_0003674), A has_component B and A is positively regulated by B." [] comment: By convention GO molecular functions are classified by their effector function and internal regulatory functions are treated as components. So, for example calmodulin has a protein binding activity that has positive regulatory component activity calcium binding activity. Receptor tyrosine kinase activity is a tyrosine kinase activity that has positive regulatory component 'ligand binding'. is_a: has_regulatory_component_activity ! has regulatory component activity is_a: positively_regulated_by ! positively regulated by created_by: dos creation_date: 2017-05-24T09:31:17Z [Typedef] id: RO:0002017 name: has component activity comment: A 'has component activity' B if A is A and B are molecular functions (GO_0003674) and A has_component B. is_a: RO:0002018 ! has component process created_by: dos creation_date: 2017-05-24T09:44:33Z [Typedef] id: RO:0002018 name: has component process def: "w 'has process component' p if p and w are processes, w 'has part' p and w is such that it can be directly disassembled into into n parts p, p2, p3, ..., pn, where these parts are of similar type." [] domain: BFO:0000015 ! process range: BFO:0000015 ! process is_a: has_component ! has component created_by: dos creation_date: 2017-05-24T09:49:21Z [Typedef] id: RO:0002022 name: directly regulated by comment: Process(P2) is directly regulated by process(P1) iff: P1 regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding regulates the kinase activity (P2) of protein B then P1 directly regulates P2. {xref="GOC:dos"} property_value: isDefinedBy http://purl.obolibrary.org/obo/ro.owl is_a: regulated_by ! regulated by inverse_of: RO:0002578 ! directly regulates created_by: dos creation_date: 2017-09-17T13:52:24Z [Typedef] id: RO:0002023 name: directly negatively regulated by def: "Process(P2) is directly negatively regulated by process(P1) iff: P1 negatively regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding negatively regulates the kinase activity (P2) of protein B then P2 directly negatively regulated by P1." [GOC:dos] is_a: RO:0002022 ! directly regulated by inverse_of: RO:0002630 ! directly negatively regulates created_by: dos creation_date: 2017-09-17T13:52:38Z [Typedef] id: RO:0002024 name: directly positively regulated by def: "Process(P2) is directly postively regulated by process(P1) iff: P1 positively regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding positively regulates the kinase activity (P2) of protein B then P2 is directly postively regulated by P1." [GOC:dos] is_a: RO:0002022 ! directly regulated by inverse_of: RO:0002629 ! directly positively regulates created_by: dos creation_date: 2017-09-17T13:52:47Z [Typedef] id: RO:0002025 name: has effector activity def: "A 'has effector activity' B if A and B are GO molecular functions (GO_0003674), A 'has component activity' B and B is the effector (output function) of B. Each compound function has only one effector activity." [GOC:dos] comment: This relation is designed for constructing compound molecular functions, typically in combination with one or more regulatory component activity relations. is_functional: true is_a: regulates ! regulates is_a: RO:0002017 ! has component activity created_by: dos creation_date: 2017-09-22T14:14:36Z [Typedef] id: RO:0002081 name: before or simultaneous with comment: Primitive instance level timing relation between events subset: ro-eco property_value: IAO:0000117 "David Osumi-Sutherland" xsd:string property_value: IAO:0000118 "<=" xsd:string is_a: temporally_related_to ! temporally related to [Typedef] id: RO:0002100 name: has soma location def: "Relation between a neuron and an anatomical structure that its soma is part of." [] property_value: IAO:0000114 IAO:0000125 property_value: IAO:0000117 "David Osumi-Sutherland" xsd:string property_value: RO:0001900 RO:0001901 domain: CL:0000540 ! neuron is_a: overlaps ! overlaps transitive_over: part_of ! part_of expand_expression_to: "BFO_0000051 some (\n GO_0043025 and BFO_0000050 some ?Y)" [] [Typedef] id: RO:0002104 name: has plasma membrane part def: "Holds between a cell c and a protein complex or protein p if and only if that cell has as part a plasma_membrane[GO:0005886], and that plasma membrane has p as part." [] property_value: example_of_usage "Every B cell[CL_0000236] has plasma membrane part some immunoglobulin complex[GO_0019814]" xsd:string property_value: IAO:0000114 IAO:0000125 property_value: IAO:0000117 "Alexander Diehl" xsd:string property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000117 "Lindsay Cowell" xsd:string property_value: IAO:0000119 http://www.ncbi.nlm.nih.gov/pubmed/19243617 property_value: RO:0001900 RO:0001901 is_a: has_part ! has_part expand_expression_to: "BFO_0000051 some (GO_0005886 and BFO_0000051 some ?Y)" [] [Typedef] id: RO:0002163 name: spatially disjoint from def: "A is spatially_disjoint_from B if and only if they have no parts in common" [] subset: ro-eco property_value: editor_note "There are two ways to encode this as a shortcut relation. The other possibility to use an annotation assertion between two classes, and expand this to a disjointness axiom. " xsd:string property_value: http://xmlns.com/foaf/0.1/page https://github.com/obophenotype/uberon/wiki/Part-disjointness-Design-Pattern xsd:anyURI property_value: IAO:0000114 IAO:0000125 property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000119 http://www.ncbi.nlm.nih.gov/pubmed/22293552 property_value: IAO:0000232 "Note that it would be possible to use the relation to label the relationship between a near infinite number of structures - between the rings of saturn and my left earlobe. The intent is that this is used for parsiomoniously for disambiguation purposes - for example, between siblings in a jointly exhaustive pairwise disjointness hierarchy" xsd:string property_value: RO:0001900 RO:0001901 property_value: seeAlso https://github.com/obophenotype/uberon/wiki/Part-disjointness-Design-Pattern xsd:anyURI is_a: mereotopologically_related_to ! mereotopologically related to expand_expression_to: "BFO_0000051 exactly 0 (BFO_0000050 some ?Y)" [] [Typedef] id: RO:0002210 name: directly develops into def: "inverse of directly develops from" [] subset: RO:0002259 property_value: IAO:0000114 IAO:0000125 property_value: IAO:0000118 "developmental precursor of" xsd:string is_a: develops_into ! develops_into [Typedef] id: RO:0002218 name: obsolete has active participant def: "OBSOLETE x has participant y if and only if x realizes some active role that inheres in y" [] property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000118 "has agent" xsd:string is_obsolete: true replaced_by: RO:0002500 [Typedef] id: RO:0002257 name: developmentally induces def: "Inverse of developmentally induced by" [] property_value: IAO:0000114 IAO:0000125 property_value: IAO:0000117 "Chris Mungall" xsd:string is_a: developmentally_succeeded_by ! developmentally succeeded by is_a: RO:0002386 ! has potential to developmentally induce [Typedef] id: RO:0002263 name: acts upstream of def: "c acts upstream of p if and only if c enables some f that is involved in p' and p' occurs chronologically before p, is not part of p, and affects the execution of p. c is a material entity and f, p, p' are processes." [] subset: http://purl.obolibrary.org/obo/valid_for_go_gp2term property_value: example_of_usage "A faulty traffic light (material entity) whose malfunctioning (a process) is causally upstream of a traffic collision (a process): the traffic light acts upstream of the collision." xsd:string property_value: isDefinedBy http://purl.obolibrary.org/obo/ro.owl property_value: seeAlso http://wiki.geneontology.org/index.php/Acts_upstream_of holds_over_chain: RO:0002327 causally_upstream_of is_a: RO:0002264 ! acts upstream of or within [Typedef] id: RO:0002264 name: acts upstream of or within def: "c acts upstream of or within p if c is enables f, and f is causally upstream of or within p. c is a material entity and p is an process." [] subset: http://purl.obolibrary.org/obo/valid_for_go_gp2term synonym: "affects" RELATED [] property_value: example_of_usage "A gene product that has some activity, where that activity may be a part of a pathway or upstream of the pathway." xsd:string property_value: isDefinedBy http://purl.obolibrary.org/obo/ro.owl property_value: seeAlso http://wiki.geneontology.org/index.php/Acts_upstream_of_or_within holds_over_chain: RO:0002327 causally_upstream_of_or_within is_a: causal_agent_in_process ! causal agent in process [Typedef] id: RO:0002287 name: part of developmental precursor of property_value: example_of_usage "'hypopharyngeal eminence' SubClassOf 'part of precursor of' some tongue" xsd:string property_value: IAO:0000114 IAO:0000125 property_value: IAO:0000117 "Chris Mungall" xsd:string holds_over_chain: part_of RO:0002210 is_a: developmentally_succeeded_by ! developmentally succeeded by [Typedef] id: RO:0002303 name: has habitat def: "x 'has habitat' y if and only if: x is an organism, y is a habitat, and y can sustain and allow the growth of a population of xs." [] comment: A population of xs will possess adaptations (either evolved naturally or via artifical selection) which permit it to exist and grow in y. subset: ro-eco property_value: example_of_usage "Hydrozoa (NCBITaxon_6074) SubClassOf 'has habitat' some 'Hydrozoa habitat'\nwhere\n'Hydrozoa habitat' SubClassOf overlaps some ('marine environment' (ENVO_00000569) and 'freshwater environment' (ENVO_01000306) and 'wetland' (ENVO_00000043)) and 'has part' some (freshwater (ENVO_00002011) or 'sea water' (ENVO_00002149)) -- http://eol.org/pages/1795/overview" xsd:string property_value: IAO:0000114 IAO:0000428 property_value: IAO:0000117 "Pier Buttigieg" xsd:string property_value: IAO:0000118 "adapted for living in" xsd:string is_a: RO:0002321 ! ecologically related to [Typedef] id: RO:0002314 name: characteristic of part of def: "q characteristic of part of w if and only if there exists some p such that q inheres in p and p part of w." [] property_value: editor_note "Because part_of is transitive, inheres in is a sub-relation of characteristic of part of" xsd:string property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000118 "inheres in part of" xsd:string property_value: IAO:0000119 http://www.ncbi.nlm.nih.gov/pubmed/20064205 property_value: RO:0001900 RO:0001901 property_value: seeAlso http://purl.obolibrary.org/obo/ro/docs/reflexivity/ holds_over_chain: RO:0000052 part_of {http://purl.obolibrary.org/obo/RO_0002582="true"} is_a: RO:0002502 ! depends on transitive_over: part_of ! part_of [Typedef] id: RO:0002320 name: evolutionarily related to def: "A relationship that holds via some environmental process" [] property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000232 "Do not use this relation directly. It is ended as a grouping for a diverse set of relations, all involving the process of evolution." xsd:string [Typedef] id: RO:0002321 name: ecologically related to def: "A relationship that is mediated in some way by the environment or environmental feature (ENVO:00002297)" [] subset: ro-eco property_value: editor_note "Awaiting class for domain/range constraint, see: https://github.com/OBOFoundry/Experimental-OBO-Core/issues/6" xsd:string property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000232 "Do not use this relation directly. It is intended as a grouping for a diverse set of relations, all involving ecological interactions" xsd:string [Typedef] id: RO:0002327 name: enables subset: http://purl.obolibrary.org/obo/valid_for_go_gp2term property_value: example_of_usage "a particular instances of akt-2 enables some instance of protein kinase activity" xsd:string property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000118 "catalyzes" xsd:string property_value: IAO:0000118 "executes" xsd:string property_value: IAO:0000118 "has" xsd:string property_value: IAO:0000118 "is catalyzing" xsd:string property_value: IAO:0000118 "is executing" xsd:string property_value: IAO:0000232 "This relation differs from the parent relation 'capable of' in that the parent is weaker and only expresses a capability that may not be actually realized, whereas this relation is always realized." xsd:string property_value: IAO:0000232 "This relation is currently used experimentally by the Gene Ontology Consortium. It may not be stable and may be obsoleted at some future time." xsd:string property_value: isDefinedBy http://purl.obolibrary.org/obo/ro.owl is_a: capable_of ! capable of inverse_of: RO:0002333 ! enabled by transitive_over: has_part ! has_part transitive_over: RO:0002017 ! has component activity [Typedef] id: RO:0002331 name: involved in def: "c involved_in p if and only if c enables some process p', and p' is part of p" [] property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000118 "actively involved in" xsd:string property_value: IAO:0000118 "enables part of" xsd:string property_value: seeAlso Involved:in holds_over_chain: RO:0002327 part_of is_a: participates_in ! participates in is_a: RO:0002431 ! involved in or involved in regulation of transitive_over: part_of ! part_of [Typedef] id: RO:0002333 name: enabled by def: "inverse of enables" [] subset: http://purl.obolibrary.org/obo/valid_for_gocam property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: isDefinedBy http://purl.obolibrary.org/obo/ro.owl is_a: functionally_related_to ! functionally related to is_a: has_participant ! has participant [Typedef] id: RO:0002337 name: related via localization to def: "A relationship that holds via some process of localization" [] property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000232 "Do not use this relation directly. It is a grouping relation." xsd:string domain: BFO:0000015 ! process range: BFO:0000002 ! continuant [Typedef] id: RO:0002354 name: formed as result of property_value: IAO:0000117 "Chris Mungall" xsd:string is_a: output_of ! output of [Typedef] id: RO:0002375 name: in branching relationship with def: "A relationship that holds between two material entities in a system of connected structures, where the branching relationship holds based on properties of the connecting network." [] property_value: IAO:0000114 IAO:0000428 property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000232 "Do not use this relation directly. It is ended as a grouping for a diverse set of relations, all involving branching relationships" xsd:string property_value: IAO:0000232 "This relation can be used for geographic features (e.g. rivers) as well as anatomical structures (plant branches and roots, leaf veins, animal veins, arteries, nerves)" xsd:string property_value: RO:0004036 BFO:0000050 property_value: seeAlso http://purl.obolibrary.org/obo/ro/docs/branching_part_of.png property_value: seeAlso https://github.com/obophenotype/uberon/issues/170 xsd:anyURI domain: BFO:0000040 ! material entity range: BFO:0000040 ! material entity is_a: mereotopologically_related_to ! mereotopologically related to is_a: part_of ! part_of [Typedef] id: RO:0002379 name: spatially coextensive with def: "x spatially_coextensive_with y if and inly if x and y have the same location" [] property_value: example_of_usage "A lump of clay and a statue" xsd:string property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000232 "This relation is added for formal completeness. It is unlikely to be used in many practical scenarios" xsd:string is_a: overlaps ! overlaps [Typedef] id: RO:0002386 name: has potential to developmentally induce def: "x has potential to developmentally induce y iff x developmentally induces y or x is capable of developmentally inducing y" [] property_value: IAO:0000114 IAO:0000428 property_value: IAO:0000117 "Chris Mungall" xsd:string is_a: has_developmental_potential_involving ! has developmental potential involving [Typedef] id: RO:0002428 name: involved in regulation of def: "c involved in regulation of p if c is involved in some p' and p' regulates some p" [] property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: isDefinedBy http://purl.obolibrary.org/obo/ro.owl holds_over_chain: RO:0002327 regulates holds_over_chain: RO:0002331 regulates is_a: RO:0002263 ! acts upstream of is_a: RO:0002431 ! involved in or involved in regulation of [Typedef] id: RO:0002429 name: involved in positive regulation of def: "c involved in regulation of p if c is involved in some p' and p' positively regulates some p" [] property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: isDefinedBy http://purl.obolibrary.org/obo/ro.owl property_value: RO:0004049 RO:0002428 holds_over_chain: RO:0002327 positively_regulates holds_over_chain: RO:0002331 positively_regulates is_a: RO:0002428 ! involved in regulation of [Typedef] id: RO:0002430 name: involved in negative regulation of def: "c involved in regulation of p if c is involved in some p' and p' negatively regulates some p" [] property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: isDefinedBy http://purl.obolibrary.org/obo/ro.owl property_value: RO:0004050 RO:0002428 holds_over_chain: RO:0002327 negatively_regulates holds_over_chain: RO:0002331 negatively_regulates is_a: RO:0002428 ! involved in regulation of [Typedef] id: RO:0002431 name: involved in or involved in regulation of def: "c involved in or regulates p if and only if either (i) c is involved in p or (ii) c is involved in regulation of p" [] property_value: editor_note "OWL does not allow defining object properties via a Union" xsd:string property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000118 "involved in or reguates" xsd:string property_value: isDefinedBy http://purl.obolibrary.org/obo/ro.owl is_a: causal_agent_in_process ! causal agent in process is_a: functionally_related_to ! functionally related to is_a: RO:0002264 ! acts upstream of or within [Typedef] id: RO:0002432 name: is active in def: "c executes activity in d if and only if c enables p and p occurs_in d. Assuming no action at a distance by gene products, if a gene product enables (is capable of) a process that occurs in some structure, it must have at least some part in that structure." [GOC:cjm, GOC:dos] synonym: "enables activity in" EXACT [] property_value: example_of_usage "A protein that enables activity in a cytosol." xsd:string property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000118 "executes activity in" xsd:string holds_over_chain: RO:0002327 occurs_in {http://purl.obolibrary.org/obo/RO_0002581="true"} is_a: functionally_related_to ! functionally related to is_a: overlaps ! overlaps [Typedef] id: RO:0002434 name: interacts with def: "A relationship that holds between two entities in which the processes executed by the two entities are causally connected." [] subset: ro-eco synonym: "in pairwise interaction with" EXACT [] property_value: closeMatch http://purl.obolibrary.org/obo/MI_0914 xsd:anyURI property_value: editor_note "Considering relabeling as 'pairwise interacts with'" xsd:anyURI property_value: editor_note "This relation and all sub-relations can be applied to either (1) pairs of entities that are interacting at any moment of time (2) populations or species of entity whose members have the disposition to interact (3) classes whose members have the disposition to interact." xsd:string property_value: http://xmlns.com/foaf/0.1/page https://github.com/oborel/obo-relations/wiki/InteractionRelations xsd:anyURI property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000232 "Note that this relationship type, and sub-relationship types may be redundant with process terms from other ontologies. For example, the symbiotic relationship hierarchy parallels GO. The relations are provided as a convenient shortcut. Consider using the more expressive processual form to capture your data. In the future, these relations will be linked to their cognate processes through rules." xsd:string property_value: isDefinedBy http://purl.obolibrary.org/obo/ro.owl property_value: seeAlso http://purl.obolibrary.org/obo/MI_0914 xsd:anyURI property_value: seeAlso http://purl.obolibrary.org/obo/ro/docs/interaction-relations/ xsd:anyURI domain: BFO:0000040 ! material entity range: BFO:0000040 ! material entity is_symmetric: true [Typedef] id: RO:0002436 name: molecularly interacts with def: "An interaction relationship in which the two partners are molecular entities that directly physically interact with each other for example via a stable binding interaction or a brief interaction during which one modifies the other." [] property_value: closeMatch http://purl.obolibrary.org/obo/MI_0915 xsd:anyURI property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000118 "binds" xsd:string property_value: IAO:0000118 "molecularly binds with" xsd:string property_value: isDefinedBy http://purl.obolibrary.org/obo/ro.owl property_value: seeAlso ECO:0000353 property_value: seeAlso http://purl.obolibrary.org/obo/MI_0915 xsd:anyURI is_symmetric: true is_a: RO:0002434 ! interacts with [Typedef] id: RO:0002437 name: biotically interacts with def: "An interaction relationship in which at least one of the partners is an organism and the other is either an organism or an abiotic entity with which the organism interacts." [] subset: ro-eco property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000118 "interacts with on organism level" xsd:string property_value: seeAlso http://dx.doi.org/10.1016/j.ecoinf.2014.08.005 property_value: seeAlso http://eol.org/schema/terms/interactsWith xsd:string domain: BFO:0000040 ! material entity range: BFO:0000040 ! material entity is_symmetric: true is_a: RO:0002321 ! ecologically related to is_a: RO:0002434 ! interacts with [Typedef] id: RO:0002438 name: trophically interacts with def: "An interaction relationship in which the partners are related via a feeding relationship." [] subset: ro-eco property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: seeAlso http://dx.doi.org/10.1016/j.ecoinf.2014.08.005 is_a: RO:0002574 ! participates in a biotic-biotic interaction with [Typedef] id: RO:0002439 name: preys on def: "An interaction relationship involving a predation process, where the subject kills the target in order to eat it or to feed to siblings, offspring or group members" [] subset: ro-eco property_value: example_of_usage "A wasp killing a Monarch larva in order to feed to offspring [http://www.inaturalist.org/observations/2942824]" xsd:string property_value: example_of_usage "Baleen whale preys on krill" xsd:string property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000117 "Jorrit Poelen" xsd:string property_value: IAO:0000117 "Katja Shulz" xsd:string property_value: IAO:0000118 "is subject of predation interaction with" xsd:string property_value: IAO:0000118 "preys upon" xsd:string property_value: seeAlso http://eol.org/schema/terms/preysUpon xsd:string property_value: seeAlso http://www.inaturalist.org/observations/2942824 xsd:string is_a: RO:0002438 ! trophically interacts with inverse_of: RO:0002458 ! preyed upon by [Typedef] id: RO:0002440 name: symbiotically interacts with def: "A biotic interaction in which the two organisms live together in more or less intimate association." [] subset: ro-eco property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000119 http://www.ncbi.nlm.nih.gov/pubmed/19278549 xsd:anyURI property_value: IAO:0000232 "We follow GO and PAMGO in using 'symbiosis' as the broad term encompassing mutualism through parasitism" xsd:string is_symmetric: true is_a: RO:0002574 ! participates in a biotic-biotic interaction with [Typedef] id: RO:0002443 name: interacts with via parasite-host interaction def: "An interaction relationship between two organisms living together in more or less intimate association in a relationship in which association is disadvantageous or destructive to one of the organisms (GO)." [] subset: ro-eco property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000119 http://www.ncbi.nlm.nih.gov/pubmed/19278549 xsd:anyURI property_value: IAO:0000232 "This relation groups a pair of inverse relations, parasite of and parasitized by" xsd:string is_a: RO:0002440 ! symbiotically interacts with [Typedef] id: RO:0002444 name: parasite of subset: ro-eco synonym: "direct parasite of" EXACT [] property_value: example_of_usage "Pediculus humanus capitis parasite of human" xsd:string property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000118 "parasitizes" xsd:string property_value: seeAlso http://eol.org/schema/terms/parasitizes xsd:string is_a: RO:0002443 ! interacts with via parasite-host interaction is_a: RO:0002454 ! has host inverse_of: RO:0002445 ! parasitized by [Typedef] id: RO:0002445 name: parasitized by subset: ro-eco synonym: "directly parasitized by" EXACT [] property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000118 "has parasite" xsd:string property_value: IAO:0000118 "parasitised by" xsd:string property_value: seeAlso http://eol.org/schema/terms/hasParasite xsd:string is_a: RO:0002443 ! interacts with via parasite-host interaction is_a: RO:0002453 ! host of [Typedef] id: RO:0002446 name: participates in a abiotic-biotic interaction with def: "A biotic interaction relationship in which one partner is an organism and the other partner is inorganic. For example, the relationship between a sponge and the substrate to which is it anchored." [] subset: ro-eco synonym: "semibiotically interacts with" RELATED [] property_value: example_of_usage "Porifiera attaches to substrate" xsd:string property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: seeAlso http://dx.doi.org/10.1016/j.ecoinf.2014.08.005 is_a: RO:0002437 ! biotically interacts with [Typedef] id: RO:0002447 name: phosphorylates property_value: editor_note "Axiomatization to GO to be added later" xsd:string property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000118 "An interaction relation between x and y in which x catalyzes a reaction in which a phosphate group is added to y." xsd:string property_value: isDefinedBy http://purl.obolibrary.org/obo/ro.owl is_a: RO:0002436 ! molecularly interacts with [Typedef] id: RO:0002448 name: directly regulates activity of def: "The entity A, immediately upstream of the entity B, has an activity that regulates an activity performed by B. For example, A and B may be gene products and binding of B by A regulates the kinase activity of B.\n\nA and B can be physically interacting but not necessarily. Immediately upstream means there are no intermediate entity between A and B." [] synonym: "molecularly controls" EXACT [] property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000117 "Vasundra Touré" xsd:string property_value: isDefinedBy http://purl.obolibrary.org/obo/ro.owl domain: BFO:0000040 ! material entity range: BFO:0000040 ! material entity is_a: RO:0002436 ! molecularly interacts with is_a: RO:0011002 ! regulates activity of [Typedef] id: RO:0002449 name: directly negatively regulates activity of def: "The entity A, immediately upstream of the entity B, has an activity that negatively regulates an activity performed by B. \nFor example, A and B may be gene products and binding of B by A negatively regulates the kinase activity of B." [] synonym: "molecularly decreases activity of" EXACT [] property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000117 "Vasundra Touré" xsd:string property_value: IAO:0000118 "directly inhibits" xsd:string domain: BFO:0000040 ! material entity range: BFO:0000040 ! material entity is_a: RO:0002448 ! directly regulates activity of [Typedef] id: RO:0002450 name: directly positively regulates activity of def: "The entity A, immediately upstream of the entity B, has an activity that positively regulates an activity performed by B. \nFor example, A and B may be gene products and binding of B by A positively regulates the kinase activity of B." [] synonym: "molecularly increases activity of" EXACT [] property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000117 "Vasundra Touré" xsd:string property_value: IAO:0000118 "directly activates" xsd:string domain: BFO:0000040 ! material entity range: BFO:0000040 ! material entity is_a: RO:0002448 ! directly regulates activity of [Typedef] id: RO:0002453 name: host of subset: ro-eco property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000232 "The term host is usually used for the larger (macro) of the two members of a symbiosis (GO)" xsd:string is_a: RO:0002440 ! symbiotically interacts with [Typedef] id: RO:0002454 name: has host def: "X 'has host' y if and only if: x is an organism, y is an organism, and x can live on the surface of or within the body of y" [] subset: ro-eco property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: seeAlso http://eol.org/schema/terms/hasHost xsd:string is_a: RO:0002440 ! symbiotically interacts with [Typedef] id: RO:0002457 name: acquires nutrients from subset: ro-eco property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000232 "Intended to be used when the target of the relation is not itself consumed, and does not have integral parts consumed, but provided nutrients in some other fashion." xsd:string is_a: RO:0002438 ! trophically interacts with inverse_of: RO:0002469 ! provides nutrients for [Typedef] id: RO:0002458 name: preyed upon by def: "inverse of preys on" [] subset: ro-eco subset: RO:0002259 property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000118 "has predator" xsd:string property_value: IAO:0000118 "is target of predation interaction with" xsd:string property_value: seeAlso http://eol.org/schema/terms/HasPredator xsd:string property_value: seeAlso http://polytraits.lifewatchgreece.eu/terms/PRED xsd:string is_a: RO:0002438 ! trophically interacts with [Typedef] id: RO:0002464 name: helper property (not for use in curation) property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000232 "This property or its subproperties is not to be used directly. These properties exist as helper properties that are used to support OWL reasoning." xsd:string property_value: isDefinedBy http://purl.obolibrary.org/obo/ro.owl [Typedef] id: RO:0002469 name: provides nutrients for subset: ro-eco property_value: IAO:0000117 "Chris Mungall" xsd:string is_a: RO:0002438 ! trophically interacts with [Typedef] id: RO:0002470 name: eats subset: ro-eco property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000118 "is subject of eating interaction with" xsd:string is_a: RO:0002438 ! trophically interacts with [Typedef] id: RO:0002471 name: is eaten by subset: ro-eco property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000118 "eaten by" xsd:string property_value: IAO:0000118 "is target of eating interaction with" xsd:string is_a: RO:0002438 ! trophically interacts with [Typedef] id: RO:0002479 name: has part that occurs in def: "p has part that occurs in c if and only if there exists some p1, such that p has_part p1, and p1 occurs in c." [] subset: ro-eco property_value: IAO:0000117 "Chris Mungall" xsd:string domain: BFO:0000003 ! occurrent range: BFO:0000004 ! independent continuant holds_over_chain: has_part occurs_in {http://purl.obolibrary.org/obo/RO_0002581="true"} [Typedef] id: RO:0002481 name: is kinase activity property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: isDefinedBy http://purl.obolibrary.org/obo/ro.owl is_a: RO:0002564 ! molecular interaction relation helper property [Typedef] id: RO:0002487 name: relation between physical entity and a process or stage property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000232 "Do not use this relation directly. It is ended as a grouping for a diverse set of relations, typically connecting an anatomical entity to a biological process or developmental stage." xsd:string domain: BFO:0000004 ! independent continuant range: BFO:0000003 ! occurrent [Typedef] id: RO:0002490 name: existence overlaps def: "x existence overlaps y if and only if either (a) the start of x is part of y or (b) the end of x is part of y. Formally: x existence starts and ends during y iff (α(x) >= α(y) & α(x) <= ω(y)) OR (ω(x) <= ω(y) & ω(x) >= α(y))" [] comment: The relations here were created based on work originally by Fabian Neuhaus and David Osumi-Sutherland. The work has not yet been vetted and errors in definitions may have occurred during transcription. property_value: IAO:0000117 "Chris Mungall" xsd:string is_a: RO:0002487 ! relation between physical entity and a process or stage [Typedef] id: RO:0002502 name: depends on property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: seeAlso BFO:0000169 [Typedef] id: RO:0002506 name: causal relation between entities property_value: editor_note "The intent is that the process branch of the causal property hierarchy is primary (causal relations hold between occurrents/processes), and that the material branch is defined in terms of the process branch" xsd:string property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000119 http://purl.obolibrary.org/obo/ro/docs/causal-relations property_value: IAO:0000232 "Do not use this relation directly. It is intended as a grouping for a diverse set of relations, all involving cause and effect." xsd:string property_value: isDefinedBy http://purl.obolibrary.org/obo/ro.owl domain: BFO:0000002 ! continuant range: BFO:0000002 ! continuant is_a: causally_related_to ! causally related to [Typedef] id: RO:0002507 name: determined by def: "s determined by f if and only if s is a type of system, and f is a material entity that is part of s, such that f exerts a strong causal influence on the functioning of s, and the removal of f would cause the collapse of s." [] subset: ro-eco property_value: editor_note "The label for this relation is probably too general for its restricted use, where the domain is a system. It may be relabeled in future" xsd:string property_value: example_of_usage "A coral reef environment is determined by a particular coral reef" xsd:string property_value: http://purl.org/dc/terms/creator "Chris Mungall" xsd:string property_value: http://purl.org/dc/terms/creator "Pier Buttigieg" xsd:string property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000119 http://www.ncbi.nlm.nih.gov/pubmed/24330602 property_value: IAO:0000589 "determined by (system to material entity)" xsd:string domain: RO:0002577 ! system range: BFO:0000040 ! material entity is_a: part_of ! part_of is_a: RO:0002509 ! determined by part of is_a: RO:0002559 ! causally influenced by inverse_of: RO:0002508 ! determines [Typedef] id: RO:0002508 name: determines def: "inverse of determined by" [] subset: ro-eco subset: RO:0002259 property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000589 "determines (material entity to system)" xsd:string is_a: RO:0002566 ! causally influences [Typedef] id: RO:0002509 name: determined by part of def: "s 'determined by part of' w if and only if there exists some f such that (1) s 'determined by' f and (2) f part_of w, or f=w." [] subset: ro-eco property_value: IAO:0000117 "Chris Mungall" xsd:string domain: RO:0002577 ! system range: BFO:0000040 ! material entity holds_over_chain: RO:0002507 part_of {http://purl.obolibrary.org/obo/RO_0002582="true"} is_a: overlaps ! overlaps is_a: RO:0002506 ! causal relation between entities [Typedef] id: RO:0002552 name: results in ending of def: "p results in the end of s if p results in a change of state in s whereby s either ceases to exist, or s becomes functionally impaired or s has its fate committed such that it is put on a path to be degraded." [] property_value: IAO:0000117 "Chris Mungall" xsd:string is_a: results_in_developmental_progression_of ! results in developmental progression of is_a: RO:0040036 ! results in changes to anatomical or cellular structure [Typedef] id: RO:0002553 name: hyperparasite of def: "x is a hyperparasite of y iff x is a parasite of a parasite of the target organism y" [] subset: ro-eco synonym: "epiparasite of" RELATED [] synonym: "hyperparasitoid of" NARROW [] property_value: editor_note "Note that parasite-of is a diret relationship, so hyperparasite-of is not considered a sub-relation, even though hyperparasitism can be considered a form of parasitism" xsd:string property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000119 http://eol.org/schema/terms/hyperparasitoidOf xsd:string property_value: IAO:0000119 https://en.wikipedia.org/wiki/Hyperparasite xsd:string holds_over_chain: RO:0002444 RO:0002444 is_a: RO:0002454 ! has host inverse_of: RO:0002554 ! hyperparasitized by [Typedef] id: RO:0002554 name: hyperparasitized by def: "inverse of hyperparasite of" [] subset: ro-eco subset: RO:0002259 synonym: "has epiparasite" RELATED [] synonym: "has hyperparasite" RELATED [] synonym: "hyperparasitoidized by" RELATED [] property_value: IAO:0000117 "Chris Mungall" xsd:string holds_over_chain: RO:0002445 RO:0002445 is_a: RO:0002453 ! host of [Typedef] id: RO:0002559 name: causally influenced by property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000119 http://purl.obolibrary.org/obo/ro/docs/causal-relations property_value: IAO:0000589 "causally influenced by (entity-centric)" xsd:string property_value: isDefinedBy http://purl.obolibrary.org/obo/ro.owl is_a: RO:0002506 ! causal relation between entities inverse_of: RO:0002566 ! causally influences [Typedef] id: RO:0002563 name: interaction relation helper property property_value: http://xmlns.com/foaf/0.1/page https://github.com/oborel/obo-relations/wiki/InteractionRelations xsd:anyURI property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: isDefinedBy http://purl.obolibrary.org/obo/ro.owl property_value: seeAlso http://ontologydesignpatterns.org/wiki/Submissions:N-Ary_Relation_Pattern_%28OWL_2%29 property_value: seeAlso http://purl.obolibrary.org/obo/ro/docs/interaction-relations/ xsd:anyURI is_a: RO:0002464 ! helper property (not for use in curation) [Typedef] id: RO:0002564 name: molecular interaction relation helper property property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: isDefinedBy http://purl.obolibrary.org/obo/ro.owl is_a: RO:0002563 ! interaction relation helper property [Typedef] id: RO:0002566 name: causally influences def: "The entity or characteristic A is causally upstream of the entity or characteristic B, A having an effect on B. An entity corresponds to any biological type of entity as long as a mass is measurable. A characteristic corresponds to a particular specificity of an entity (e.g., phenotype, shape, size)." [] property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000117 "Vasundra Touré" xsd:string property_value: IAO:0000119 http://purl.obolibrary.org/obo/ro/docs/causal-relations property_value: IAO:0000589 "causally influences (entity-centric)" xsd:string property_value: isDefinedBy http://purl.obolibrary.org/obo/ro.owl domain: BFO:0000002 ! continuant range: BFO:0000002 ! continuant is_a: RO:0002506 ! causal relation between entities [Typedef] id: RO:0002567 name: biomechanically related to def: "A relation that holds between elements of a musculoskeletal system or its analogs." [] property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000232 "Do not use this relation directly. It is ended as a grouping for a diverse set of relations, all involving the biomechanical processes." xsd:string domain: CARO:0000003 ! connected anatomical structure range: CARO:0000003 ! connected anatomical structure is_a: functionally_related_to ! functionally related to [Typedef] id: RO:0002574 name: participates in a biotic-biotic interaction with subset: ro-eco property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: seeAlso http://dx.doi.org/10.1016/j.ecoinf.2014.08.005 domain: CARO:0001010 ! organism or virus or viroid range: CARO:0001010 ! organism or virus or viroid is_a: RO:0002437 ! biotically interacts with [Typedef] id: RO:0002578 name: directly regulates def: "Process(P1) directly regulates process(P2) iff: P1 regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding regulates the kinase activity (P2) of protein B then P1 directly regulates P2." [] subset: http://purl.obolibrary.org/obo/valid_for_go_annotation_extension subset: http://purl.obolibrary.org/obo/valid_for_go_ontology subset: http://purl.obolibrary.org/obo/valid_for_gocam property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000119 http://purl.obolibrary.org/obo/ro/docs/causal-relations property_value: IAO:0000589 "directly regulates (processual)" xsd:string property_value: isDefinedBy http://purl.obolibrary.org/obo/ro.owl property_value: RO:0002575 RO:0002211 is_a: immediately_causally_upstream_of ! immediately causally upstream of is_a: regulates ! regulates [Typedef] id: RO:0002584 name: has part structure that is capable of def: "s 'has part structure that is capable of' p if and only if there exists some part x such that s 'has part' x and x 'capable of' p" [] property_value: example_of_usage "gland SubClassOf 'has part structure that is capable of' some 'secretion by cell'" xsd:string property_value: IAO:0000117 "Chris Mungall" xsd:string holds_over_chain: has_part capable_of is_a: causal_relation_between_material_entity_and_a_process ! causal relation between material entity and a process is_a: functionally_related_to ! functionally related to [Typedef] id: RO:0002586 name: results in breakdown of def: "p results in breakdown of c if and only if the execution of p leads to c no longer being present at the end of p" [] is_a: has_input ! has input [Typedef] id: RO:0002596 name: capable of regulating def: "Holds between c and p if and only if c is capable of some activity a, and a regulates p." [] property_value: example_of_usage "pyrethroid -> growth" xsd:string property_value: IAO:0000119 http://purl.obolibrary.org/obo/ro/docs/causal-relations property_value: isDefinedBy http://purl.obolibrary.org/obo/ro.owl holds_over_chain: capable_of regulates is_a: causal_agent_in_process ! causal agent in process [Typedef] id: RO:0002597 name: capable of negatively regulating def: "Holds between c and p if and only if c is capable of some activity a, and a negatively regulates p." [] property_value: IAO:0000119 http://purl.obolibrary.org/obo/ro/docs/causal-relations property_value: isDefinedBy http://purl.obolibrary.org/obo/ro.owl holds_over_chain: capable_of negatively_regulates is_a: RO:0002596 ! capable of regulating [Typedef] id: RO:0002598 name: capable of positively regulating def: "Holds between c and p if and only if c is capable of some activity a, and a positively regulates p." [] property_value: example_of_usage "renin -> arteriolar smooth muscle contraction" xsd:string property_value: IAO:0000119 http://purl.obolibrary.org/obo/ro/docs/causal-relations property_value: isDefinedBy http://purl.obolibrary.org/obo/ro.owl holds_over_chain: capable_of positively_regulates is_a: RO:0002596 ! capable of regulating [Typedef] id: RO:0002629 name: directly positively regulates def: "Process(P1) directly postively regulates process(P2) iff: P1 positively regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding positively regulates the kinase activity (P2) of protein B then P1 directly positively regulates P2." [] subset: http://purl.obolibrary.org/obo/valid_for_go_annotation_extension subset: http://purl.obolibrary.org/obo/valid_for_go_ontology subset: http://purl.obolibrary.org/obo/valid_for_gocam property_value: IAO:0000119 http://purl.obolibrary.org/obo/ro/docs/causal-relations property_value: IAO:0000589 "directly positively regulates (process to process)" xsd:string property_value: RO:0004049 RO:0002578 is_a: positively_regulates ! positively regulates is_a: RO:0002578 ! directly regulates [Typedef] id: RO:0002630 name: directly negatively regulates def: "Process(P1) directly negatively regulates process(P2) iff: P1 negatively regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding negatively regulates the kinase activity (P2) of protein B then P1 directly negatively regulates P2." [] subset: http://purl.obolibrary.org/obo/valid_for_go_annotation_extension subset: http://purl.obolibrary.org/obo/valid_for_go_ontology subset: http://purl.obolibrary.org/obo/valid_for_gocam property_value: IAO:0000119 http://purl.obolibrary.org/obo/ro/docs/causal-relations property_value: IAO:0000589 "directly negatively regulates (process to process)" xsd:string property_value: RO:0004050 RO:0002578 is_a: negatively_regulates ! negatively regulates is_a: RO:0002578 ! directly regulates [Typedef] id: RO:0002634 name: endoparasite of synonym: "lives inside of" RELATED [] property_value: IAO:0000119 "A sub-relation of parasite-of in which the parasite lives inside the host, beneath the integumental system" xsd:string property_value: IAO:0000119 "Types" is_a: RO:0002444 ! parasite of inverse_of: RO:0002635 ! has endoparasite [Typedef] id: RO:0002635 name: has endoparasite is_a: RO:0002445 ! parasitized by [Typedef] id: RO:0004028 name: realized in response to stimulus def: "A relationship between a realizable entity R (e.g. function or disposition) and a material entity M where R is realized in response to a process that has an input stimulus of M." [] domain: BFO:0000017 ! realizable entity range: BFO:0000040 ! material entity holds_over_chain: RO:0009501 has_input is_a: causally_related_to ! causally related to created_by: cjm creation_date: 2017-12-26T19:45:49Z [Typedef] id: RO:0004031 name: enables subfunction def: "Holds between an entity and an process P where the entity enables some larger compound process, and that larger process has-part P." [] holds_over_chain: RO:0002327 has_part is_a: functionally_related_to ! functionally related to created_by: cjm creation_date: 2018-01-25T23:20:13Z [Typedef] id: RO:0004032 name: acts upstream of or within, positive effect subset: http://purl.obolibrary.org/obo/valid_for_go_gp2term property_value: isDefinedBy http://purl.obolibrary.org/obo/ro.owl property_value: RO:0004049 RO:0002264 property_value: seeAlso http://wiki.geneontology.org/index.php/Acts_upstream_of_or_within,_positive_effect holds_over_chain: RO:0002327 RO:0004047 is_a: RO:0002264 ! acts upstream of or within created_by: cjm creation_date: 2018-01-26T23:49:30Z [Typedef] id: RO:0004033 name: acts upstream of or within, negative effect subset: http://purl.obolibrary.org/obo/valid_for_go_gp2term property_value: isDefinedBy http://purl.obolibrary.org/obo/ro.owl property_value: RO:0004050 RO:0002264 holds_over_chain: RO:0002327 RO:0004046 is_a: RO:0002264 ! acts upstream of or within created_by: cjm creation_date: 2018-01-26T23:49:51Z [Typedef] id: RO:0004034 name: acts upstream of, positive effect def: "c 'acts upstream of, positive effect' p if c is enables f, and f is causally upstream of p, and the direction of f is positive" [] subset: http://purl.obolibrary.org/obo/valid_for_go_gp2term property_value: isDefinedBy http://purl.obolibrary.org/obo/ro.owl property_value: RO:0004049 RO:0002263 property_value: seeAlso http://wiki.geneontology.org/index.php/Acts_upstream_of,_positive_effect holds_over_chain: RO:0002327 causally_upstream_of,_positive_effect is_a: RO:0002263 ! acts upstream of is_a: RO:0004032 ! acts upstream of or within, positive effect created_by: cjm creation_date: 2018-01-26T23:53:14Z [Typedef] id: RO:0004035 name: acts upstream of, negative effect def: "c 'acts upstream of, negative effect' p if c is enables f, and f is causally upstream of p, and the direction of f is negative" [] subset: http://purl.obolibrary.org/obo/valid_for_go_gp2term property_value: isDefinedBy http://purl.obolibrary.org/obo/ro.owl property_value: RO:0004050 RO:0002263 property_value: seeAlso http://wiki.geneontology.org/index.php/Acts_upstream_of,_negative_effect holds_over_chain: RO:0002327 causally_upstream_of,_negative_effect is_a: RO:0002263 ! acts upstream of is_a: RO:0004033 ! acts upstream of or within, negative effect created_by: cjm creation_date: 2018-01-26T23:53:22Z [Typedef] id: RO:0004046 name: causally upstream of or within, negative effect property_value: isDefinedBy http://purl.obolibrary.org/obo/ro.owl property_value: RO:0004050 RO:0002418 is_a: causally_upstream_of_or_within ! causally upstream of or within created_by: cjm creation_date: 2018-03-13T23:55:05Z [Typedef] id: RO:0004047 name: causally upstream of or within, positive effect property_value: isDefinedBy http://purl.obolibrary.org/obo/ro.owl property_value: RO:0004049 RO:0002418 is_a: causally_upstream_of_or_within ! causally upstream of or within created_by: cjm creation_date: 2018-03-13T23:55:19Z [Typedef] id: RO:0009501 name: realized in response to def: "r 'realized in response to' s iff, r is a realizable (e.g. a plant trait such as responsivity to drought), s is an environmental stimulus (a process), and s directly causes the realization of r." [] synonym: "triggered by process" EXACT [RO:cjm] property_value: example_of_usage "A drought sensitivity trait that inheres in a whole plant is realized in a systemic response process in response to exposure to drought conditions." xsd:string property_value: example_of_usage "An inflammatory disease that is realized in response to an inflammatory process occurring in the gut (which is itself the realization of a process realized in response to harmful stimuli in the mucosal lining of th gut)" xsd:string property_value: example_of_usage "Environmental polymorphism in butterflies: These butterflies have a 'responsivity to day length trait' that is realized in response to the duration of the day, and is realized in developmental processes that lead to increased or decreased pigmentation in the adult morph." xsd:string property_value: http://purl.org/dc/terms/contributor "Austin Meier" xsd:string property_value: http://purl.org/dc/terms/contributor "Chris Mungall" xsd:string property_value: http://purl.org/dc/terms/contributor "David Osumi-Sutherland" xsd:string property_value: http://purl.org/dc/terms/contributor "Marie Angelique Laporte" xsd:string property_value: seeAlso https://docs.google.com/document/d/1KWhZxVBhIPkV6_daHta0h6UyHbjY2eIrnON1WIRGgdY/edit xsd:anyURI domain: BFO:0000017 ! realizable entity range: BFO:0000015 ! process holds_over_chain: BFO:0000054 causally_downstream_of is_a: causally_related_to ! causally related to [Typedef] id: RO:0011002 name: regulates activity of def: "The entity A has an activity that regulates an activity of the entity B. For example, A and B are gene products where the catalytic activity of A regulates the kinase activity of B." [] property_value: IAO:0000117 "Vasundra Touré" xsd:string property_value: isDefinedBy http://purl.obolibrary.org/obo/ro.owl domain: BFO:0000040 ! material entity range: BFO:0000040 ! material entity is_a: RO:0002566 ! causally influences [Typedef] id: RO:0015006 name: different in magnitude relative to def: "q1 different_in_magnitude_relative_to q2 if and only if magnitude(q1) NOT =~ magnitude(q2). Here, magnitude(q) is a function that maps a quality to a unit-invariant scale." [https://orcid.org/0000-0002-6601-2165] domain: PATO:0000001 ! quality range: PATO:0000001 ! quality [Typedef] id: RO:0015007 name: increased in magnitude relative to def: "q1 increased_in_magnitude_relative_to q2 if and only if magnitude(q1) > magnitude(q2). Here, magnitude(q) is a function that maps a quality to a unit-invariant scale." [https://orcid.org/0000-0002-6601-2165] comment: This relation is used to determine the 'directionality' of relative qualities such as 'increased strength', relative to the parent type, 'strength'. domain: PATO:0000001 ! quality range: PATO:0000001 ! quality is_a: RO:0015006 ! different in magnitude relative to [Typedef] id: RO:0015011 name: has cross section def: "s3 has_cross_section s3 if and only if : there exists some 2d plane that intersects the bearer of s3, and the impression of s3 upon that plane has shape quality s2." [https://orcid.org/0000-0002-6601-2165] comment: Example: a spherical object has the quality of being spherical, and the spherical quality has_cross_section round. [Typedef] id: RO:0017001 name: utilizes def: "X utilizes Y means X and Y are material entities, and X is capable of some process P that has input Y." [] property_value: example_of_usage "A diagnostic testing device utilizes a specimen." xsd:string property_value: IAO:0000117 "Asiyah Lin" xsd:string property_value: IAO:0000117 "https://orcid.org/0000-0001-9625-1899 Bill Duncan" xsd:string property_value: IAO:0000232 "A diagnostic testing device utilizes a specimen means that the diagnostic testing device is capable of an assay, and this assay a specimen as its input." xsd:string property_value: IAO:0000232 "See github ticket https://github.com/oborel/obo-relations/issues/497" xsd:string holds_over_chain: capable_of has_input creation_date: 2021-11-08 [Typedef] id: RO:0019000 name: regulates characteristic def: "A relationship that holds between a process and a characteristic in which process (P) regulates characteristic (C) iff: P results in the existence of C OR affects the intensity or magnitude of C." [] property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0002-8688-6599 domain: BFO:0000015 ! process range: PATO:0000001 ! quality holds_over_chain: regulates RO:0019000 is_a: causally_related_to ! causally related to [Typedef] id: RO:0019001 name: positively regulates characteristic def: "A relationship that holds between a process and a characteristic in which process (P) positively regulates characteristic (C) iff: P results in an increase in the intensity or magnitude of C." [] property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0002-8688-6599 holds_over_chain: positively_regulates RO:0019001 is_a: RO:0019000 ! regulates characteristic [Typedef] id: RO:0019002 name: negatively regulates characteristic def: "A relationship that holds between a process and a characteristic in which process (P) negatively regulates characteristic (C) iff: P results in a decrease in the intensity or magnitude of C." [] property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0002-8688-6599 holds_over_chain: negatively_regulates RO:0019001 holds_over_chain: positively_regulates RO:0019002 is_a: RO:0019000 ! regulates characteristic [Typedef] id: RO:0040036 name: results in changes to anatomical or cellular structure def: "p has anatomical participant c iff p has participant c, and c is an anatomical entity" [] is_a: has_participant ! has participant created_by: cjm creation_date: 2018-09-26T01:08:58Z [Typedef] id: acts_on_population_of name: acts on population of namespace: external def: "p acts on population of c iff c' is a collection, has members of type c, and p has participant c" [] subset: http://purl.obolibrary.org/obo/valid_for_go_annotation_extension subset: http://purl.obolibrary.org/obo/valid_for_go_ontology subset: http://purl.obolibrary.org/obo/valid_for_gocam xref: RO:0012003 is_a: has_participant ! has participant created_by: pg creation_date: 2020-06-08T17:21:33Z [Typedef] id: adjacent_to name: adjacent to name: adjacent_to namespace: external namespace: uberon def: "x adjacent to y if and only if x and y share a boundary." [] def: "x adjacent_to y iff: x and y share a boundary" [] def: "x adjacent_to y iff: x and y share a boundary." [] subset: http://purl.obolibrary.org/obo/valid_for_go_annotation_extension subset: http://purl.obolibrary.org/obo/valid_for_go_ontology subset: http://purl.obolibrary.org/obo/valid_for_gocam xref: RO:0002220 property_value: editor_note "This relation acts as a join point with BSPO" xsd:string property_value: example_of_usage "A caterpillar walking on the surface of a leaf is adjacent_to the leaf, if one of the caterpillar appendages is touching the leaf. In contrast, a butterfly flying close to a flower is not considered adjacent, unless there are any touching parts." xsd:string {http://www.w3.org/2000/01/rdf-schema#seeAlso="issuecomment-218584934"} property_value: example_of_usage "The epidermis layer of a vertebrate is adjacent to the dermis." xsd:string property_value: example_of_usage "The plasma membrane of a cell is adjacent to the cytoplasm, and also to the cell lumen which the cytoplasm occupies." xsd:string property_value: example_of_usage "The skin of the forelimb is adjacent to the skin of the torso if these are considered anatomical subdivisions with a defined border. Otherwise a relation such as continuous_with would be used." xsd:string property_value: IAO:0000114 IAO:0000125 property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: RO:0001900 RO:0001901 domain: BFO:0000004 ! independent continuant range: BFO:0000004 ! independent continuant is_symmetric: true is_a: RO:0002163 ! spatially disjoint from [Typedef] id: anterior_to name: anterior to name: anterior_to namespace: uberon def: "x anterior to y iff x is further along the antero-posterior axis than y, towards the head. An antero-posterior axis is an axis that extends through an organism from head end to opposite end of body or tail." [BSPO:cjm] def: "x anterior_to y iff x is further along the antero-posterior axis than y, towards the head. An antero-posterior axis is an axis that bisects an organism from head end to opposite end of body or tail: bearer" [http://orcid.org/0000-0002-6601-2165] def: "x anterior_to y iff x is further along the antero-posterior axis than y, towards the head. An antero-posterior axis is an axis that bisects an organism from head end to opposite end of body or tail: bearer." [http://orcid.org/0000-0002-6601-2165] xref: BSPO:0000096 property_value: http://purl.org/dc/terms/contributor https://orcid.org/0000-0002-6601-2165 is_transitive: true inverse_of: posterior_to ! posterior to created_by: cjm creation_date: 2009-07-31T02:15:46Z [Typedef] id: anteriorly_connected_to name: anteriorly connected to namespace: uberon def: "x anteriorly_connected_to y iff the anterior part of x is connected to y. i.e. x connected_to y and x posterior_to y." [http://purl.obolibrary.org/obo/uberon/docs/Connectivity-Design-Pattern] xref: anteriorly_connected_to is_a: connected_to ! connected to is_a: posterior_to ! posterior to is_a: transitively_anteriorly_connected_to ! transitively anteriorly connected to [Typedef] id: attaches_to name: attached to name: attaches_to namespace: uberon def: "a is attached to b if and only if a and b are discrete objects or object parts, and there are physical connections between a and b such that a force pulling a will move b, or a force pulling b will move a" [] subset: ro-eco xref: RO:0002371 property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000589 "attached to (anatomical structure to anatomical structure)" xsd:string property_value: seeAlso FMA:85990 is_symmetric: true is_a: attaches_to_part_of ! attached to part of is_a: connected_to ! connected to is_a: connects ! connects [Typedef] id: attaches_to_part_of name: attached to part of name: attaches_to_part_of namespace: uberon def: "a is attached to part of b if a is attached to b, or a is attached to some p, where p is part of b." [] xref: RO:0002177 property_value: IAO:0000589 "attached to part of (anatomical structure to anatomical structure)" xsd:string domain: CARO:0000003 ! connected anatomical structure range: CARO:0000003 ! connected anatomical structure holds_over_chain: attaches_to part_of {http://purl.obolibrary.org/obo/RO_0002582="true"} is_a: mereotopologically_related_to ! mereotopologically related to is_a: RO:0002567 ! biomechanically related to equivalent_to_chain: attaches_to part_of ! part_of [Typedef] id: bearer_of name: bearer of name: has characteristic namespace: external namespace: uberon def: "a relation between an independent continuant (the bearer) and a specifically dependent continuant (the dependent), in which the dependent specifically depends on the bearer for its existence" [] def: "Inverse of characteristic_of" [] xref: RO:0000053 property_value: editor_note "A bearer can have many dependents, and its dependents can exist for different periods of time, but none of its dependents can exist when the bearer does not exist." xsd:string property_value: example_of_usage "this apple is bearer of this red color" xsd:string property_value: example_of_usage "this vase is bearer of this fragility" xsd:string property_value: IAO:0000111 "bearer of" xsd:string property_value: IAO:0000118 "bearer_of" xsd:string property_value: IAO:0000118 "is bearer of" xsd:string property_value: RO:0001900 RO:0001901 range: BFO:0000020 ! specifically dependent continuant is_inverse_functional: true [Typedef] id: boundary_of name: 2D boundary of name: boundary of namespace: uberon def: "a relation between a 2D immaterial entity (the boundary) and a material entity, in which the boundary delimits the material entity" [] xref: RO:0002000 property_value: editor_note "A 2D boundary may have holes and gaps, but it must be a single connected entity, not an aggregate of several disconnected parts." xsd:string property_value: editor_note "Although the boundary is two-dimensional, it exists in three-dimensional space and thus has a 3D shape." xsd:string property_value: example_of_usage "the surface of my skin is a 2D boundary of my body" xsd:string property_value: IAO:0000118 "2D_boundary_of" xsd:string property_value: IAO:0000118 "boundary of" xsd:string property_value: IAO:0000118 "is 2D boundary of" xsd:string property_value: IAO:0000118 "is boundary of" xsd:string property_value: RO:0001900 RO:0001901 is_a: mereotopologically_related_to ! mereotopologically related to inverse_of: has_boundary ! has 2D boundary [Typedef] id: bounding_layer_of name: bounding layer of namespace: external namespace: uberon def: "X outer_layer_of Y iff:\n. X :continuant that bearer_of some PATO:laminar\n. X part_of Y\n. exists Z :surface\n. X has_boundary Z\n. Z boundary_of Y\n\nhas_boundary: http://purl.obolibrary.org/obo/RO_0002002\nboundary_of: http://purl.obolibrary.org/obo/RO_0002000" [] comment: A relationship that applies between a continuant and its outer, bounding layer. Examples include the relationship between a multicellular organism and its integument, between an animal cell and its plasma membrane, and between a membrane bound organelle and its outer/bounding membrane. comment: A relationship that applies between a continuant and its outer, bounding layer. Examples include the relationship between a multicellular organism and its integument, between an animal cell and its plasma membrane, and between a membrane bound organelle and its outer/bounding membrane. subset: ro-eco xref: RO:0002007 property_value: IAO:0000117 "David Osumi-Sutherland" xsd:string range: BFO:0000040 ! material entity is_a: part_of ! part_of [Typedef] id: branching_part_of name: branching part of name: branching_part_of namespace: uberon def: "x is a branching part of y if and only if x is part of y and x is connected directly or indirectly to the main stem of y" [] subset: ro-eco xref: RO:0002380 property_value: editor_note "we need to check if FMA branch_of implies part_of. the relation we intend to use here should - for example, see vestibulocochlear nerve" xsd:string property_value: example_of_usage "In the tree T depicted in https://oborel.github.io/obo-relations/branching_part_of.png, B1 is a (direct) branching part of T. B1-1, B1-2, and B1-3 are also branching parts of T, but these are considered indirect branching parts as they do not directly connect to the main stem S" xsd:string property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: seeAlso FMA:85994 xsd:string property_value: seeAlso FMA:85994 property_value: seeAlso https://github.com/obophenotype/uberon/issues/2212 is_a: part_of ! part_of is_a: RO:0002375 ! in branching relationship with inverse_of: has_branching_part ! has branching part [Typedef] id: capable_of name: capable of namespace: external namespace: protein namespace: uberon def: "A relation between a material entity (such as a cell) and a process, in which the material entity has the ability to carry out the process. " [] subset: ro-eco xref: RO:0002215 property_value: example_of_usage "mechanosensory neuron capable of detection of mechanical stimulus involved in sensory perception (GO:0050974)" xsd:string property_value: example_of_usage "osteoclast SubClassOf 'capable of' some 'bone resorption'" xsd:string property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000118 "has function realized in" xsd:string property_value: IAO:0000119 http://www.ncbi.nlm.nih.gov/pubmed/20123131 property_value: IAO:0000119 http://www.ncbi.nlm.nih.gov/pubmed/21208450 property_value: IAO:0000232 "For compatibility with BFO, this relation has a shortcut definition in which the expression \"capable of some P\" expands to \"bearer_of (some realized_by only P)\"." xsd:string property_value: isDefinedBy http://purl.obolibrary.org/obo/ro.owl domain: BFO:0000004 ! independent continuant range: BFO:0000015 ! process is_transitive: false is_a: capable_of_part_of ! capable of part of is_a: functionally_related_to ! functionally related to expand_expression_to: "RO_0000053 some (RO_0000054 only ?Y)" [] [Typedef] id: capable_of_part_of name: capable of part of namespace: external namespace: uberon def: "c stands in this relationship to p if and only if there exists some p' such that c is capable_of p', and p' is part_of p." [] xref: RO:0002216 property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000118 "has function in" xsd:string property_value: isDefinedBy http://purl.obolibrary.org/obo/ro.owl property_value: seeAlso "defining-property-chains-involving-reflexivity" property_value: seeAlso http://purl.obolibrary.org/obo/ro/docs/reflexivity/ holds_over_chain: capable_of part_of {http://purl.obolibrary.org/obo/RO_0002582="true"} is_a: causal_agent_in_process ! causal agent in process is_a: functionally_related_to ! functionally related to expand_expression_to: "RO_0000053 some (RO_0000054 only (BFO_0000050 some ?Y))" [] [Typedef] id: causal_agent_in_process name: causal agent in process def: "A relationship between a material entity and a process where the material entity has some causal role that influences the process" [] xref: RO:0002500 property_value: IAO:0000119 http://purl.obolibrary.org/obo/ro/docs/causal-relations property_value: isDefinedBy http://purl.obolibrary.org/obo/ro.owl is_a: causal_relation_between_material_entity_and_a_process ! causal relation between material entity and a process inverse_of: process_has_causal_agent ! process has causal agent [Typedef] id: causal_relation_between_material_entity_and_a_process name: causal relation between material entity and a process def: "A relationship that holds between a material entity and a process in which causality is involved, with either the material entity or some part of the material entity exerting some influence over the process, or the process influencing some aspect of the material entity." [] xref: RO:0002595 property_value: editor_note "Do not use this relation directly. It is intended as a grouping for a diverse set of relations, all involving cause and effect." xsd:string property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000119 http://purl.obolibrary.org/obo/ro/docs/causal-relations property_value: isDefinedBy http://purl.obolibrary.org/obo/ro.owl domain: BFO:0000040 ! material entity range: BFO:0000015 ! process is_a: causally_related_to ! causally related to [Typedef] id: causal_relation_between_processes name: causal relation between processes def: "p is causally related to q if and only if p or any part of p and q or any part of q are linked by a chain of events where each event pair is one of direct activation or direct inhibition. p may be upstream, downstream, part of or a container of q." [] xref: RO:0002501 property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000119 http://purl.obolibrary.org/obo/ro/docs/causal-relations property_value: IAO:0000232 "Do not use this relation directly. It is intended as a grouping for a diverse set of relations, all involving cause and effect." xsd:string property_value: isDefinedBy http://purl.obolibrary.org/obo/ro.owl domain: BFO:0000003 ! occurrent range: BFO:0000003 ! occurrent is_a: causally_related_to ! causally related to [Typedef] id: causally_downstream_of name: causally downstream of namespace: external def: "inverse of upstream of" [] xref: RO:0002404 property_value: IAO:0000114 IAO:0000428 property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: isDefinedBy http://purl.obolibrary.org/obo/ro.owl is_a: causally_downstream_of_or_within ! causally downstream of or within is_a: preceded_by ! preceded_by inverse_of: causally_upstream_of ! causally upstream of [Typedef] id: causally_downstream_of_or_within name: causally downstream of or within namespace: external def: "inverse of causally upstream of or within" [] subset: RO:0002259 xref: RO:0002427 property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000119 http://purl.obolibrary.org/obo/ro/docs/causal-relations property_value: isDefinedBy http://purl.obolibrary.org/obo/ro.owl is_transitive: true is_a: causal_relation_between_processes ! causal relation between processes [Typedef] id: causally_related_to name: causally related to def: "This relation groups causal relations between material entities and causal relations between processes" [] xref: RO:0002410 property_value: editor_note "This branch of the ontology deals with causal relations between entities. It is divided into two branches: causal relations between occurrents/processes, and causal relations between material entities. We take an 'activity flow-centric approach', with the former as primary, and define causal relations between material entities in terms of causal relations between occurrents.\n\nTo define causal relations in an activity-flow type network, we make use of 3 primitives:\n\n * Temporal: how do the intervals of the two occurrents relate? \n * Is the causal relation regulatory?\n * Is the influence positive or negative\n\nThe first of these can be formalized in terms of the Allen Interval Algebra. Informally, the 3 bins we care about are 'direct', 'indirect' or overlapping. Note that all causal relations should be classified under a RO temporal relation (see the branch under 'temporally related to'). Note that all causal relations are temporal, but not all temporal relations are causal. Two occurrents can be related in time without being causally connected. We take causal influence to be primitive, elucidated as being such that has the upstream changed, some qualities of the donwstream would necessarily be modified.\n\nFor the second, we consider a relationship to be regulatory if the system in which the activities occur is capable of altering the relationship to achieve some objective. This could include changing the rate of production of a molecule.\n\nFor the third, we consider the effect of the upstream process on the output(s) of the downstream process. If the level of output is increased, or the rate of production of the output is increased, then the direction is increased. Direction can be positive, negative or neutral or capable of either direction. Two positives in succession yield a positive, two negatives in succession yield a positive, otherwise the default assumption is that the net effect is canceled and the influence is neutral.\n\nEach of these 3 primitives can be composed to yield a cross-product of different relation types." xsd:string property_value: IAO:0000114 IAO:0000428 property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000232 "Do not use this relation directly. It is intended as a grouping for a diverse set of relations, all involving cause and effect." xsd:string property_value: isDefinedBy http://purl.obolibrary.org/obo/ro.owl [Typedef] id: causally_upstream_of name: causally upstream of namespace: external def: "p is causally upstream of q if and only if p precedes q and p and q are linked in a causal chain" [] subset: http://purl.obolibrary.org/obo/valid_for_go_annotation_extension subset: http://purl.obolibrary.org/obo/valid_for_gocam xref: RO:0002411 property_value: IAO:0000114 IAO:0000428 property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: isDefinedBy http://purl.obolibrary.org/obo/ro.owl is_transitive: true is_a: causally_upstream_of_or_within ! causally upstream of or within is_a: precedes ! precedes [Typedef] id: causally_upstream_of,_negative_effect name: causally upstream of, negative effect namespace: external comment: holds between x and y if and only if x is causally upstream of y and the progression of x decreases the frequency, rate or extent of y xref: RO:0002305 property_value: http://purl.org/dc/terms/creator "cjm" xsd:string property_value: isDefinedBy http://purl.obolibrary.org/obo/ro.owl property_value: RO:0004050 RO:0002411 is_a: causally_upstream_of ! causally upstream of is_a: RO:0004046 ! causally upstream of or within, negative effect [Typedef] id: causally_upstream_of,_positive_effect name: causally upstream of, positive effect namespace: external comment: holds between x and y if and only if x is causally upstream of y and the progression of x increases the frequency, rate or extent of y subset: http://purl.obolibrary.org/obo/valid_for_go_annotation_extension subset: http://purl.obolibrary.org/obo/valid_for_gocam xref: RO:0002304 property_value: http://purl.org/dc/terms/creator "cjm" xsd:string property_value: isDefinedBy http://purl.obolibrary.org/obo/ro.owl property_value: RO:0004049 RO:0002411 is_a: causally_upstream_of ! causally upstream of is_a: RO:0004047 ! causally upstream of or within, positive effect [Typedef] id: causally_upstream_of_or_within name: causally upstream of or within namespace: external def: "p 'causally upstream or within' q iff (1) the end of p is before the end of q and (2) the execution of p exerts some causal influence over the outputs of q; i.e. if p was abolished or the outputs of p were to be modified, this would necessarily affect q." [] synonym: "affects" RELATED [] xref: RO:0002418 property_value: editor_note "We would like to make this disjoint with 'preceded by', but this is prohibited in OWL2" xsd:string property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000118 "influences (processual)" xsd:string property_value: isDefinedBy http://purl.obolibrary.org/obo/ro.owl is_transitive: true is_a: causal_relation_between_processes ! causal relation between processes inverse_of: causally_downstream_of_or_within ! causally downstream of or within [Typedef] id: channel_for name: channel for namespace: uberon synonym: "carries" BROAD [] xref: channel_for domain: UBERON:0004111 ! anatomical conduit range: UBERON:0000463 ! organism substance [Typedef] id: channels_from name: channels_from namespace: uberon xref: channels_from is_transitive: true [Typedef] id: channels_into name: channels_into namespace: uberon xref: channels_into is_transitive: true [Typedef] id: composed_primarily_of name: composed primarily of namespace: uberon def: "x composed_primarily_of y if and only if more than half of the mass of x is made from y or units of the same type as y." [] def: "x composed_primarily_of y iff: more than half of the mass of x is made from parts of y" [] def: "x composed_primarily_of y iff: more than half of the mass of x is made from parts of y." [] subset: ro-eco xref: RO:0002473 property_value: example_of_usage "'otolith organ' SubClassOf 'composed primarily of' some 'calcium carbonate'" xsd:string property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000119 http://www.ncbi.nlm.nih.gov/pubmed/22293552 property_value: RO:0001900 RO:0001901 domain: BFO:0000040 ! material entity range: BFO:0000040 ! material entity is_a: has_part ! has_part [Typedef] id: conduit_for name: conduit for namespace: uberon def: "x is a conduit for y iff y passes through the lumen of x." [] xref: conduit_for [Typedef] id: connected_to name: connected to namespace: uberon def: "a is connected to b if and only if a and b are discrete structure, and there exists some connecting structure c, such that c connects a and b" [] def: "Binary relationship: x connected_to y if and only if there exists some z such that z connects x and y in a ternary connected_to(x,y,z) relationship." [http://purl.obolibrary.org/obo/uberon/docs/Connectivity-Design-Pattern] comment: Connection does not imply overlaps. xref: RO:0002170 property_value: example_of_usage "a 'toe distal phalanx bone' that is connected to a 'toe medial phalanx bone' (an interphalangeal joint *connects* these two bones)." xsd:string property_value: IAO:0000119 http://www.ncbi.nlm.nih.gov/pubmed/22293552 property_value: seeAlso https://github.com/obophenotype/uberon/wiki/Connectivity-Design-Pattern xsd:anyURI property_value: seeAlso https://github.com/obophenotype/uberon/wiki/Modeling-articulations-Design-Pattern xsd:anyURI property_value: seeAlso SIO:000652 is_a: mereotopologically_related_to ! mereotopologically related to is_a: transitively_connected_to ! transitively_connected to [Typedef] id: connects name: connects namespace: uberon def: "Binary relationship: z connects x if and only if there exists some y such that z connects x and y in a ternary connected_to(x,y,z) relationship." [http://purl.obolibrary.org/obo/uberon/docs/Connectivity-Design-Pattern] def: "c connects a if and only if there exist some b such that a and b are similar parts of the same system, and c connects b, specifically, c connects a with b. When one structure connects two others it unites some aspect of the function or role they play within the system." [] xref: RO:0002176 property_value: editor_note "this is currently used for both structural relationships (such as between a valve and the chamber it connects) and abstract relationships (anatomical lines and the entities they connect)" xsd:string property_value: example_of_usage "a 'toe distal phalanx bone' that is connected to a 'toe medial phalanx bone' (an interphalangeal joint *connects* these two bones)." xsd:string property_value: example_of_usage "The M8 connects Glasgow and Edinburgh" xsd:string property_value: http://xmlns.com/foaf/0.1/page https://github.com/obophenotype/uberon/wiki/Connectivity-Design-Pattern xsd:anyURI property_value: http://xmlns.com/foaf/0.1/page https://github.com/obophenotype/uberon/wiki/Modeling-articulations-Design-Pattern xsd:anyURI property_value: IAO:0000119 http://www.ncbi.nlm.nih.gov/pubmed/22293552 property_value: seeAlso https://github.com/obophenotype/uberon/wiki/Connectivity-Design-Pattern xsd:anyURI property_value: seeAlso https://github.com/obophenotype/uberon/wiki/Modeling-articulations-Design-Pattern xsd:anyURI domain: BFO:0000004 ! independent continuant is_a: mereotopologically_related_to ! mereotopologically related to [Typedef] id: contains name: contains namespace: uberon subset: ro-eco xref: RO:0001019 property_value: IAO:0000111 "contains" xsd:string property_value: RO:0001900 RO:0001901 [Typedef] id: contains_process name: contains process namespace: uberon def: "[copied from inverse property 'occurs in'] b occurs_in c =def b is a process and c is a material entity or immaterial entity& there exists a spatiotemporal region r and b occupies_spatiotemporal_region r.& forall(t) if b exists_at t then c exists_at t & there exist spatial regions s and s’ where & b spatially_projects_onto s at t& c is occupies_spatial_region s’ at t& s is a proper_continuant_part_of s’ at t" [] comment: Paraphrase of definition: a relation between an independent continuant and a process, in which the process takes place entirely within the independent continuant xref: BFO:0000067 property_value: IAO:0000111 "site of" xsd:string property_value: isDefinedBy http://purl.obolibrary.org/obo/bfo.owl [Typedef] id: continuous_with name: continuous with name: continuous_with namespace: uberon def: "X continuous_with Y if and only if X and Y share a fiat boundary." [] xref: RO:0002150 property_value: IAO:0000114 IAO:0000125 property_value: IAO:0000117 "David Osumi-Sutherland" xsd:string property_value: IAO:0000118 "connected to" xsd:string property_value: IAO:0000232 "The label for this relation was previously connected to. I relabeled this to \"continuous with\". The standard notion of connectedness does not imply shared boundaries - e.g. Glasgow connected_to Edinburgh via M8; my patella connected_to my femur (via patellar-femoral joint)" xsd:string property_value: RO:0001900 RO:0001901 property_value: seeAlso FMA:85972 xsd:string domain: BFO:0000004 ! independent continuant range: BFO:0000004 ! independent continuant is_symmetric: true is_a: mereotopologically_related_to ! mereotopologically related to [Typedef] id: contributes_to_morphology_of name: contributes to morphology of namespace: uberon def: "p contributes to morphology of w if and only if a change in the morphology of p entails a change in the morphology of w. Examples: every skull contributes to morphology of the head which it is a part of. Counter-example: nuclei do not generally contribute to the morphology of the cell they are part of, as they are buffered by cytoplasm." [] xref: RO:0002433 property_value: IAO:0000117 "Chris Mungall" xsd:string is_a: overlaps ! overlaps [Typedef] id: dc-creator name: creator namespace: uberon xref: http://purl.org/dc/elements/1.1/creator is_metadata_tag: true [Typedef] id: dcterms-license name: license namespace: uberon xref: http://purl.org/dc/terms/license is_metadata_tag: true [Typedef] id: deep_to name: deep to name: deep_to namespace: uberon def: "Further away from the surface of the organism. Thus, the muscular layer is deep to the skin, but superficial to the intestines." [BSPO:cjm] def: "Further away from the surface of the organism. Thus, the muscular layer is deep to the skin, but superficial to the intestines." [http://orcid.org/0000-0002-6601-2165] xref: BSPO:0000107 is_transitive: true inverse_of: superficial_to ! superficial_to [Typedef] id: developmentally_contributes_to name: developmentally contributes to name: developmentally_contributes_to namespace: uberon def: "inverse of has developmental contribution from" [] subset: RO:0002259 xref: RO:0002255 property_value: IAO:0000114 IAO:0000125 property_value: IAO:0000117 "Chris Mungall" xsd:string holds_over_chain: develops_into part_of is_a: developmentally_succeeded_by ! developmentally succeeded by is_a: has_potential_to_developmentally_contribute_to ! has potential to developmentally contribute to [Typedef] id: developmentally_induced_by name: developmentally induced by name: developmentally_induced_by namespace: uberon def: "t1 developmentally_induced_by t2 if there is a process of organ induction (GO:0001759) with t1 and t2 as interacting participants. t2 causes t1 to change its fate from a precursor tissue type T to T', where T' develops_from T." [GO:0001759] def: "t1 induced_by t2 if there is a process of developmental induction (GO:0031128) with t1 and t2 as interacting participants. t2 causes t1 to change its fate from a precursor anatomical structure type T to T', where T' develops_from T" [] comment: sources for developmentally_induced_by relationships in Uberon: Developmental Biology, Gilbert, 8th edition, figure 6.5(F) xref: RO:0002256 property_value: IAO:0000114 IAO:0000125 property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000117 "David Osumi-Sutherland" xsd:string property_value: IAO:0000117 "Melissa Haendel" xsd:string property_value: IAO:0000118 "induced by" xsd:string property_value: IAO:0000119 " Developmental Biology, Gilbert, 8th edition, figure 6.5(F)" xsd:string property_value: IAO:0000119 GO:0001759 xsd:string property_value: IAO:0000119 http://www.ncbi.nlm.nih.gov/pubmed/20064205 property_value: IAO:0000232 "We place this under 'developmentally preceded by'. This placement should be examined in the context of reciprocal inductions[cjm]" xsd:string domain: CARO:0000003 ! connected anatomical structure range: CARO:0000003 ! connected anatomical structure is_a: developmentally_preceded_by ! developmentally preceded by inverse_of: RO:0002257 ! developmentally induces [Typedef] id: developmentally_preceded_by name: developmentally preceded by name: developmentally_preceded_by namespace: plant_ontology namespace: uberon def: "Candidate definition: x developmentally related to y if and only if there exists some developmental process (GO:0032502) p such that x and y both participates in p, and x is the output of p and y is the input of p" [] def: "X developmentally related to y if and only if there exists some developmental process (GO:0032502) p such that x and y both participates in p, and x is the output of p and y is the input of p." [RO:0002258] comment: This relation groups together various other developmental relations. It is fairly generic, encompassing induction, developmental contribution and direct and transitive develops from xref: RO:0002258 property_value: editor_note "false" xsd:boolean property_value: IAO:0000114 IAO:0000125 property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000232 "In general you should not use this relation to make assertions - use one of the more specific relations below this one" xsd:string domain: BFO:0000002 ! continuant range: BFO:0000002 ! continuant is_a: developmentally_related_to ! developmentally related to inverse_of: developmentally_succeeded_by ! developmentally succeeded by created_by: Laurel_Cooper creation_date: 2013-06-27T13:16:56Z [Typedef] id: developmentally_related_to name: developmentally related to def: "A relationship that holds between entities participating in some developmental process (GO:0032502)" [] xref: RO:0002324 property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000232 "Do not use this relation directly. It is ended as a grouping for a diverse set of relations, all involving organismal development" xsd:string [Typedef] id: developmentally_replaces name: developmentally replaces name: developmentally_replaces namespace: uberon def: "x developmentally replaces y if and only if there is some developmental process that causes x to move or to cease to exist, and for the site that was occupied by x to become occupied by y, where y either comes into existence in this site or moves to this site from somewhere else" [] xref: RO:0002285 property_value: editor_note "This relation is intended for cases such as when we have a bone element replacing its cartilage element precursor. Currently most AOs represent this using 'develops from'. We need to decide whether 'develops from' will be generic and encompass replacement, or whether we need a new name for a generic relation that encompasses replacement and development-via-cell-lineage" xsd:string property_value: IAO:0000114 IAO:0000125 property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000118 "replaces" xsd:string is_a: developmentally_preceded_by ! developmentally preceded by [Typedef] id: developmentally_succeeded_by name: developmentally succeeded by def: "Inverse of developmentally preceded by" [] xref: RO:0002286 property_value: IAO:0000114 IAO:0000125 property_value: IAO:0000117 "Chris Mungall" xsd:string is_a: has_developmental_potential_involving ! has developmental potential involving [Typedef] id: develops_from name: develops from name: develops_from namespace: plant_ontology namespace: uberon def: "x develops from y if and only if either (a) x directly develops from y or (b) there exists some z such that x directly develops from z and z develops from y" [] comment: This is the transitive form of the develops from relation xref: RO:0002202 property_value: IAO:0000114 IAO:0000125 property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000117 "David Osumi-Sutherland" xsd:string property_value: IAO:0000117 "David Osumi-Sutherland" xsd:string property_value: IAO:0000117 "Melissa Haendel" xsd:string property_value: IAO:0000117 "Terry Meehan" xsd:string property_value: IAO:0000117 "Terry Meehan" xsd:string domain: BFO:0000004 ! independent continuant range: BFO:0000004 ! independent continuant holds_over_chain: part_of develops_from is_transitive: true is_a: developmentally_preceded_by ! developmentally preceded by is_a: has_developmental_contribution_from ! has developmental contribution from inverse_of: develops_into ! develops_into transitive_over: part_of ! part_of [Typedef] id: develops_from_part_of name: develops from part of name: develops_from_part_of namespace: uberon def: "x develops from part of y if and only if there exists some z such that x develops from z and z is part of y" [] xref: RO:0002225 property_value: IAO:0000114 IAO:0000125 property_value: IAO:0000117 "Chris Mungall" xsd:string holds_over_chain: directly_develops_from part_of is_a: develops_from ! develops from [Typedef] id: develops_in name: develops in name: develops_in namespace: uberon def: "x develops_in y if x is located in y whilst x is developing" [] comment: This relation take from EHDAA2 - precise semantics yet to be defined xref: RO:0002226 property_value: IAO:0000114 IAO:0000125 property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000119 "EHDAA2" xsd:string property_value: IAO:0000119 "Jonathan Bard, EHDAA2" xsd:string domain: CARO:0000000 ! anatomical entity holds_over_chain: directly_develops_from located_in is_a: developmentally_preceded_by ! developmentally preceded by [Typedef] id: develops_into name: develops into name: develops_into namespace: uberon def: "inverse of develops from" [] subset: RO:0002259 xref: RO:0002203 property_value: IAO:0000114 IAO:0000125 property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000117 "David Osumi-Sutherland" xsd:string property_value: IAO:0000117 "Terry Meehan" xsd:string is_transitive: true is_a: developmentally_succeeded_by ! developmentally succeeded by is_a: has_potential_to_develop_into ! has potential to develop into is_a: has_potential_to_directly_develop_into ! has potential to directly develop into [Typedef] id: directly_develops_from name: directly develops from name: directly_develops_from namespace: uberon def: "Candidate definition: x directly_develops from y if and only if there exists some developmental process (GO:0032502) p such that x and y both participate in p, and x is the output of p and y is the input of p, and a substantial portion of the matter of x comes from y, and the start of x is coincident with or after the end of y." [] comment: TODO - add child relations from DOS xref: RO:0002207 property_value: IAO:0000114 IAO:0000125 property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000117 "David Osumi-Sutherland" xsd:string property_value: IAO:0000117 "has developmental precursor" xsd:string property_value: IAO:0000119 "FBbt" xsd:string property_value: RO:0002575 RO:0002202 is_a: develops_from ! develops from inverse_of: RO:0002210 ! directly develops into [Typedef] id: distal_to name: distal to name: distal_to namespace: uberon def: "x distal to y iff x is further along the proximo-distal axis than y, towards the appendage tip. A proximo-distal axis extends from tip of an appendage (distal) to where it joins the body (proximal)." [BSPO:cjm] def: "x distal_to y iff x is further along the proximo-distal axis than y, towards the appendage tip. A proximo-distal axis extends from tip of an appendage (distal) to where it joins the body (proximal)." [http://orcid.org/0000-0002-6601-2165] xref: BSPO:0000097 is_transitive: true inverse_of: proximal_to ! proximal_to [Typedef] id: distally_connected_to name: distally connected to namespace: uberon def: "x distally_connected_to y iff the distal part of x is connected to y. i.e. x connected_to y and x proximal_to y." [http://purl.obolibrary.org/obo/uberon/docs/Connectivity-Design-Pattern] xref: distally_connected_to is_a: connected_to ! connected to is_a: proximal_to ! proximal_to is_a: transitively_distally_connected_to ! transitively distally connected to inverse_of: proximally_connected_to ! proximally connected to [Typedef] id: dorsal_to name: dorsal to name: dorsal_to namespace: uberon def: "x dorsal to y iff x is further along the dorso-ventral axis than y, towards the back. A dorso-ventral axis is an axis that extends through an organism from back (e.g. spinal column) to front (e.g. belly)." [BSPO:cjm] def: "x dorsal_to y iff x is further along the dorso-ventral axis than y, towards the back. A dorso-ventral axis is an axis that bisects an organism from back (e.g. spinal column) to front (e.g. belly)." [http://orcid.org/0000-0002-6601-2165] xref: BSPO:0000098 is_transitive: true inverse_of: ventral_to ! ventral_to [Typedef] id: drains name: drains namespace: uberon def: "Relation between an collecting structure and another structure, where the collecting structure acts as a conduit channeling fluid, substance or energy away from the other structure." [] comment: source: Wikipedia synonym: "drains blood from" EXACT [] synonym: "drains from" EXACT [] xref: RO:0002179 property_value: editor_note "Individual ontologies should provide their own constraints on this abstract relation. For example, in the realm of anatomy this should hold between a vein and an anatomical structure" xsd:string property_value: IAO:0000119 http://www.ncbi.nlm.nih.gov/pubmed/20064205 domain: UBERON:0001638 ! vein is_a: connected_to ! connected to [Typedef] id: editor_note name: editor note namespace: uberon def: "An administrative note intended for its editor. It may not be included in the publication version of the ontology, so it should contain nothing necessary for end users to understand the ontology." [] xref: IAO:0000116 property_value: IAO:0000111 "editor note" xsd:string property_value: IAO:0000114 IAO:0000122 property_value: IAO:0000117 "PERSON:Daniel Schober" xsd:string property_value: IAO:0000119 GROUP:OBI: xsd:string property_value: IAO:0000119 GROUP:OBI: xsd:string property_value: isDefinedBy http://purl.obolibrary.org/obo/iao.owl is_metadata_tag: true [Typedef] id: ends name: ends namespace: uberon def: "inverse of ends with" [] def: "Relation between occurrents, shares an end boundary with." [Allen:starts, https://orcid.org/0000-0002-6601-2165, ZFS:finishes] subset: ro-eco synonym: "finishes" EXACT [] xref: RO:0002229 property_value: IAO:0000114 IAO:0000125 property_value: IAO:0000117 "Chris Mungall" xsd:string is_a: part_of ! part_of is_a: temporally_related_to ! temporally related to inverse_of: ends_with ! ends with [Typedef] id: ends_after name: ends after comment: X ends_after Y iff: end(Y) before_or_simultaneous_with end(X) subset: ro-eco xref: RO:0002086 property_value: IAO:0000117 "David Osumi-Sutherland" xsd:string property_value: isDefinedBy http://purl.obolibrary.org/obo/ro.owl is_transitive: true is_a: temporally_related_to ! temporally related to [Typedef] id: ends_with name: ends with namespace: external namespace: uberon def: "x ends with y if and only if x has part y and the time point at which x ends is equivalent to the time point at which y ends. Formally: α(y) > α(x) ∧ ω(y) = ω(x), where α is a function that maps a process to a start point, and ω is a function that maps a process to an end point." [] subset: ro-eco xref: RO:0002230 property_value: IAO:0000114 IAO:0000125 property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000118 "finished by" xsd:string is_transitive: true is_a: has_part ! has_part is_a: temporally_related_to ! temporally related to [Typedef] id: example_of_usage name: example of usage namespace: uberon def: "A phrase describing how a term should be used and/or a citation to a work which uses it. May also include other kinds of examples that facilitate immediate understanding, such as widely know prototypes or instances of a class, or cases where a relation is said to hold." [] xref: IAO:0000112 property_value: IAO:0000111 "example" xsd:string property_value: IAO:0000111 "example of usage" xsd:string property_value: IAO:0000114 IAO:0000122 property_value: IAO:0000117 "PERSON:Daniel Schober" xsd:string property_value: IAO:0000119 GROUP:OBI: xsd:string property_value: isDefinedBy http://purl.obolibrary.org/obo/iao.owl is_metadata_tag: true [Typedef] id: existence_ends_during name: existence ends during namespace: uberon def: "Relation between continuant c and occurrent s, such that every instance of c ceases to exist during some s, if it does not die prematurely." [https://orcid.org/0000-0002-6601-2165] def: "x existence ends during y if and only if the time point at which x ends is before or equivalent to the time point at which y ends and after or equivalent to the point at which y starts. Formally: x existence ends during y iff ω(x) <= ω(y) and ω(x) >= α(y)." [] comment: The relations here were created based on work originally by Fabian Neuhaus and David Osumi-Sutherland. The work has not yet been vetted and errors in definitions may have occurred during transcription. synonym: "ceases_to_exist_during" EXACT [] xref: RO:0002492 property_value: IAO:0000117 "Chris Mungall" xsd:string is_a: existence_ends_during_or_before ! existence ends during or before is_a: RO:0002490 ! existence overlaps transitive_over: part_of ! part_of [Typedef] id: existence_ends_during_or_before name: existence ends during or before namespace: uberon def: "x existence ends during or before y if and only if the time point at which x ends is before or equivalent to the time point at which y ends." [] comment: The relations here were created based on work originally by Fabian Neuhaus and David Osumi-Sutherland. The work has not yet been vetted and errors in definitions may have occurred during transcription. xref: RO:0002497 property_value: IAO:0000117 "Chris Mungall" xsd:string holds_over_chain: developmentally_succeeded_by existence_ends_during_or_before holds_over_chain: part_of existence_ends_during_or_before is_a: RO:0002487 ! relation between physical entity and a process or stage transitive_over: part_of ! part_of transitive_over: precedes ! precedes transitive_over: simultaneous_with ! simultaneous with [Typedef] id: existence_ends_with name: existence ends with namespace: uberon def: "Relation between continuant and occurrent, such that c ceases to exist at the end of p." [https://orcid.org/0000-0002-6601-2165] def: "x existence ends with y if and only if the time point at which x ends is equivalent to the time point at which y ends. Formally: x existence ends with y iff ω(x) = ω(y)." [] comment: The relations here were created based on work originally by Fabian Neuhaus and David Osumi-Sutherland. The work has not yet been vetted and errors in definitions may have occurred during transcription. xref: RO:0002493 property_value: IAO:0000117 "Chris Mungall" xsd:string is_a: existence_ends_during ! existence ends during [Typedef] id: existence_starts_and_ends_during name: existence starts and ends during namespace: uberon def: "x exists during y if and only if: 1) the time point at which x begins to exist is after or equal to the time point at which y begins and 2) the time point at which x ceases to exist is before or equal to the point at which y ends. Formally: x existence starts and ends during y iff α(x) >= α(y) & α(x) <= ω(y) & ω(x) <= ω(y) & ω(x) >= α(y)" [] comment: The relations here were created based on work originally by Fabian Neuhaus and David Osumi-Sutherland. The work has not yet been vetted and errors in definitions may have occurred during transcription. synonym: "exists during" EXACT [] xref: RO:0002491 property_value: IAO:0000117 "Chris Mungall" xsd:string is_a: existence_ends_during ! existence ends during is_a: existence_starts_during ! existence starts during [Typedef] id: existence_starts_during name: existence starts during namespace: uberon def: "Relation between continuant c and occurrent s, such that every instance of c comes into existing during some s." [https://orcid.org/0000-0002-6601-2165] def: "x existence starts during y if and only if the time point at which x starts is after or equivalent to the time point at which y starts and before or equivalent to the time point at which y ends. Formally: x existence starts during y iff α(x) >= α(y) & α(x) <= ω(y)." [] synonym: "begins_to_exist_during" EXACT [] xref: RO:0002488 property_value: IAO:0000117 "Chris Mungall" xsd:string is_a: existence_starts_during_or_after ! existence starts during or after is_a: RO:0002490 ! existence overlaps transitive_over: part_of ! part_of [Typedef] id: existence_starts_during_or_after name: existence starts during or after namespace: uberon def: "x existence starts during or after y if and only if the time point at which x starts is after or equivalent to the time point at which y starts. Formally: x existence starts during or after y iff α (x) >= α (y)." [] comment: The relations here were created based on work originally by Fabian Neuhaus and David Osumi-Sutherland. The work has not yet been vetted and errors in definitions may have occurred during transcription. xref: RO:0002496 property_value: IAO:0000117 "Chris Mungall" xsd:string holds_over_chain: developmentally_preceded_by existence_starts_during_or_after holds_over_chain: part_of existence_starts_during_or_after is_a: RO:0002487 ! relation between physical entity and a process or stage transitive_over: part_of ! part_of transitive_over: preceded_by ! preceded_by transitive_over: simultaneous_with ! simultaneous with [Typedef] id: existence_starts_with name: existence starts with namespace: uberon def: "Relation between continuant and occurrent, such that c comes into existence at the start of p." [https://orcid.org/0000-0002-6601-2165] def: "x starts ends with y if and only if the time point at which x starts is equivalent to the time point at which y starts. Formally: x existence starts with y iff α(x) = α(y)." [] xref: RO:0002489 property_value: IAO:0000117 "Chris Mungall" xsd:string is_a: existence_starts_during ! existence starts during [Typedef] id: extends_fibers_into name: extends_fibers_into namespace: uberon is_symmetric: true is_a: connected_to ! connected to [Typedef] id: filtered_through name: filtered through namespace: uberon def: "Relationship between a fluid and a material entity, where the fluid is the output of a realization of a filtration role that inheres in the material entity." [] comment: Relationship between a fluid and a filtration barrier, where the portion of fluid arises as a transformation of another portion of fluid on the other side of the barrier, with larger particles removed xref: filtered_through [Typedef] id: functionally_related_to name: functionally related to namespace: uberon def: "A grouping relationship for any relationship directly involving a function, or that holds because of a function of one of the related entities." [] xref: RO:0002328 property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000232 "This is a grouping relation that collects relations used for the purpose of connecting structure and function" xsd:string property_value: isDefinedBy http://purl.obolibrary.org/obo/ro.owl [Typedef] id: has_boundary name: has 2D boundary name: has boundary namespace: uberon def: "a relation between a material entity and a 2D immaterial entity (the boundary), in which the boundary delimits the material entity" [] xref: RO:0002002 property_value: editor_note "A 2D boundary may have holes and gaps, but it must be a single connected entity, not an aggregate of several disconnected parts." xsd:string property_value: editor_note "Although the boundary is two-dimensional, it exists in three-dimensional space and thus has a 3D shape." xsd:string property_value: example_of_usage "my body has 2D boundary the surface of my skin" xsd:string property_value: IAO:0000117 "David Osumi-Sutherland" xsd:string property_value: IAO:0000118 "has boundary" xsd:string property_value: IAO:0000118 "has_2D_boundary" xsd:string property_value: RO:0001900 RO:0001901 domain: BFO:0000040 ! material entity range: BFO:0000141 ! immaterial entity is_a: mereotopologically_related_to ! mereotopologically related to [Typedef] id: has_branching_part name: has branching part namespace: uberon def: "inverse of branching part of" [] subset: ro-eco subset: RO:0002259 xref: RO:0002569 property_value: IAO:0000117 "Chris Mungall" xsd:string is_transitive: true is_a: has_part ! has_part is_a: RO:0002375 ! in branching relationship with [Typedef] id: has_component name: has component namespace: external namespace: protein namespace: uberon def: "w 'has component' p if w 'has part' p and w is such that it can be directly disassembled into into n parts p, p2, p3, ..., pn, where these parts are of similar type." [] subset: ro-eco xref: RO:0002180 property_value: editor_note "The definition of 'has component' is still under discussion. The challenge is in providing a definition that does not imply transitivity." xsd:string property_value: IAO:0000114 IAO:0000125 property_value: IAO:0000232 "For use in recording has_part with a cardinality constraint, because OWL does not permit cardinality constraints to be used in combination with transitive object properties. In situations where you would want to say something like 'has part exactly 5 digit, you would instead use has_component exactly 5 digit." xsd:string property_value: RO:0001900 RO:0001901 property_value: seeAlso http://ontologydesignpatterns.org/wiki/Submissions:Componency is_transitive: false is_a: has_part ! has_part [Typedef] id: has_developmental_contribution_from name: has developmental contribution from namespace: uberon def: "x has developmental contribution from y iff x has some part z such that z develops from y" [] xref: RO:0002254 property_value: example_of_usage "Mammalian thymus has developmental contribution from some pharyngeal pouch 3; Mammalian thymus has developmental contribution from some pharyngeal pouch 4 [Kardong]" xsd:string property_value: IAO:0000114 IAO:0000125 property_value: IAO:0000117 "Chris Mungall" xsd:string domain: CARO:0000000 ! anatomical entity range: CARO:0000000 ! anatomical entity holds_over_chain: has_part develops_from is_transitive: true is_a: developmentally_preceded_by ! developmentally preceded by inverse_of: developmentally_contributes_to ! developmentally contributes to [Typedef] id: has_developmental_potential_involving name: has developmental potential involving def: "x has developmental potential involving y iff x is capable of a developmental process with output y. y may be the successor of x, or may be a different structure in the vicinity (as for example in the case of developmental induction)." [] xref: RO:0002384 property_value: IAO:0000114 IAO:0000428 property_value: IAO:0000117 "Chris Mungall" xsd:string domain: CARO:0000000 ! anatomical entity range: CARO:0000000 ! anatomical entity is_a: developmentally_related_to ! developmentally related to [Typedef] id: has_end_location name: has end location namespace: external def: "x 'has end location' y if and only if there exists some process z such that x 'ends with' z and z 'occurs in' y" [] subset: ro-eco xref: RO:0002232 property_value: IAO:0000114 IAO:0000125 property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000118 "ends with process that occurs in" xsd:string domain: BFO:0000015 ! process range: BFO:0000004 ! independent continuant holds_over_chain: ends_with occurs_in is_a: RO:0002479 ! has part that occurs in [Typedef] id: has_functional_parent name: has functional parent namespace: chebi_ontology is_cyclic: false is_transitive: false [Typedef] id: has_gene_template name: has_gene_template namespace: protein is_transitive: false [Typedef] id: has_input name: has input namespace: external def: "p has input c iff: p is a process, c is a material entity, c is a participant in p, c is present at the start of p, and the state of c is modified during p." [] subset: http://purl.obolibrary.org/obo/valid_for_go_annotation_extension subset: http://purl.obolibrary.org/obo/valid_for_go_ontology subset: http://purl.obolibrary.org/obo/valid_for_gocam subset: ro-eco xref: RO:0002233 property_value: IAO:0000114 IAO:0000125 property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000118 "consumes" xsd:string property_value: isDefinedBy http://purl.obolibrary.org/obo/ro.owl domain: BFO:0000015 ! process range: BFO:0000040 ! material entity holds_over_chain: starts_with has_input is_a: has_participant ! has participant inverse_of: input_of ! input of [Typedef] id: has_member name: has member namespace: uberon def: "has member is a mereological relation between a collection and an item." [] xref: RO:0002351 property_value: IAO:0000119 "SIO" xsd:string property_value: RO:0001900 RO:0001901 is_a: has_part ! has_part [Typedef] id: has_muscle_insertion name: has muscle insertion name: has_muscle_insertion namespace: uberon def: "m has_muscle_insertion s iff m is attaches_to s, and it is the case that when m contracts, s moves. Insertions are usually connections of muscle via tendon to bone." [] def: "m has_muscle_insertion s iff m is attaches_to s, and it is the case that when m contracts, s moves. Insertions are usually connections of muscle via tendon to bone." [http://en.wikipedia.org/wiki/Insertion_(anatomy)] def: "m has_muscle_insertion s iff m is attaches_to s, and it is the case that when m contracts, s moves. Insertions are usually connections of muscle via tendon to bone." [Wikipedia:Insertion_(anatomy)] comment: The insertion is the point of attachment of a muscle that moves the most when the muscle shortens, or the most distal end of limb muscles xref: RO:0002373 property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000119 Wikipedia:Insertion_(anatomy) xsd:string property_value: seeAlso dbpprop:insertion property_value: seeAlso http://dbpedia.org/property/insertion domain: CARO:0000003 {http://purl.obolibrary.org/obo/IAO_0000116="We need to import uberon muscle into RO to use as a stricter domain constraint"} ! connected anatomical structure is_a: attaches_to ! attaches_to is_a: RO:0002567 ! biomechanically related to [Typedef] id: has_negative_regulatory_component_activity name: has negative regulatory component activity namespace: external def: "A relationship that holds between a GO molecular function and a component of that molecular function that negatively regulates the activity of the whole. More formally, A 'has regulatory component activity' B iff :A and B are GO molecular functions (GO_0003674), A has_component B and A is negatively regulated by B." [] comment: By convention GO molecular functions are classified by their effector function. Internal regulatory functions are treated as components. For example, NMDA glutmate receptor activity is a cation channel activity with positive regulatory component 'glutamate binding' and negative regulatory components including 'zinc binding' and 'magnesium binding'. xref: RO:0002014 is_a: has_regulatory_component_activity ! has regulatory component activity is_a: negatively_regulated_by ! negatively regulated by created_by: dos creation_date: 2017-05-24T09:31:01Z [Typedef] id: has_output name: has output namespace: external def: "p has output c iff c is a participant in p, c is present at the end of p, and c is not present at the beginning of p." [] def: "p has output c iff c is a participant in p, c is present at the end of p, and c is not present in the same state at the beginning of p." [] subset: http://purl.obolibrary.org/obo/valid_for_go_annotation_extension subset: http://purl.obolibrary.org/obo/valid_for_go_ontology subset: http://purl.obolibrary.org/obo/valid_for_gocam subset: ro-eco xref: RO:0002234 property_value: IAO:0000114 IAO:0000125 property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000118 "produces" xsd:string holds_over_chain: ends_with has_output is_a: has_participant ! has participant inverse_of: output_of ! output of [Typedef] id: has_part name: has part name: has_part namespace: chebi_ontology namespace: external namespace: plant_ontology namespace: protein namespace: quality namespace: uberon def: "a core relation that holds between a whole and its part" [] def: "Q1 has_part Q2 if and only if: every instance of Q1 is a quality_of an entity that has_quality some Q2." [PATOC:CJM] comment: We use the has_part relation to relate complex qualities to more primitive ones. A complex quality is a collection of qualities. The complex quality cannot exist without the sub-qualities. For example, the quality 'swollen' necessarily comes with the qualities of 'protruding' and 'increased size'. subset: http://purl.obolibrary.org/obo/valid_for_go_annotation_extension subset: http://purl.obolibrary.org/obo/valid_for_go_ontology subset: http://purl.obolibrary.org/obo/valid_for_gocam xref: BFO:0000051 property_value: editor_note "Everything has itself as a part. Any part of any part of a thing is itself part of that thing. Two distinct things cannot have each other as a part." xsd:string property_value: editor_note "Everything has itself as a part. Any part of any part of a thing is itself part of that thing. Two distinct things cannot have each other as a part." xsd:string property_value: editor_note "Occurrents are not subject to change and so parthood between occurrents holds for all the times that the part exists. Many continuants are subject to change, so parthood between continuants will only hold at certain times, but this is difficult to specify in OWL. See http://purl.obolibrary.org/obo/ro/docs/temporal-semantics/" xsd:string property_value: editor_note "Occurrents are not subject to change and so parthood between occurrents holds for all the times that the part exists. Many continuants are subject to change, so parthood between continuants will only hold at certain times, but this is difficult to specify in OWL. See http://purl.obolibrary.org/obo/ro/docs/temporal-semantics/" xsd:string property_value: editor_note "Occurrents are not subject to change and so parthood between occurrents holds for all the times that the part exists. Many continuants are subject to change, so parthood between continuants will only hold at certain times, but this is difficult to specify in OWL. See https://code.google.com/p/obo-relations/wiki/ROAndTime" xsd:string property_value: editor_note "Occurrents are not subject to change and so parthood between occurrents holds for all the times that the part exists. Many continuants are subject to change, so parthood between continuants will only hold at certain times, but this is difficult to specify in OWL. See https://code.google.com/p/obo-relations/wiki/ROAndTime" xsd:string property_value: editor_note "Parthood requires the part and the whole to have compatible classes: only an occurrent have an occurrent as part; only a process can have a process as part; only a continuant can have a continuant as part; only an independent continuant can have an independent continuant as part; only a specifically dependent continuant can have a specifically dependent continuant as part; only a generically dependent continuant can have a generically dependent continuant as part. (This list is not exhaustive.)\n\nA continuant cannot have an occurrent as part: use 'participates in'. An occurrent cannot have a continuant as part: use 'has participant'. An immaterial entity cannot have a material entity as part: use 'location of'. An independent continuant cannot have a specifically dependent continuant as part: use 'bearer of'. A specifically dependent continuant cannot have an independent continuant as part: use 'inheres in'." xsd:string property_value: editor_note "Parthood requires the part and the whole to have compatible classes: only an occurrent have an occurrent as part; only a process can have a process as part; only a continuant can have a continuant as part; only an independent continuant can have an independent continuant as part; only a specifically dependent continuant can have a specifically dependent continuant as part; only a generically dependent continuant can have a generically dependent continuant as part. (This list is not exhaustive.)\n\nA continuant cannot have an occurrent as part: use 'participates in'. An occurrent cannot have a continuant as part: use 'has participant'. An immaterial entity cannot have a material entity as part: use 'location of'. An independent continuant cannot have a specifically dependent continuant as part: use 'bearer of'. A specifically dependent continuant cannot have an independent continuant as part: use 'inheres in'." xsd:string property_value: example_of_usage "my body has part my brain (continuant parthood, two material entities)" xsd:string property_value: example_of_usage "my body has part my brain (continuant parthood, two material entities)" xsd:string property_value: example_of_usage "my stomach has part my stomach cavity (continuant parthood, material entity has part immaterial entity)" xsd:string property_value: example_of_usage "my stomach has part my stomach cavity (continuant parthood, material entity has part immaterial entity)" xsd:string property_value: example_of_usage "this year has part this day (occurrent parthood)" xsd:string property_value: example_of_usage "this year has part this day (occurrent parthood)" xsd:string property_value: IAO:0000111 "has part" xsd:string property_value: IAO:0000111 "has part" xsd:string property_value: IAO:0000118 "has_part" xsd:string property_value: IAO:0000118 "has_part" xsd:string property_value: RO:0001900 RO:0001901 is_cyclic: false is_transitive: true is_a: overlaps ! overlaps [Typedef] id: has_participant name: has participant name: has_participant namespace: external namespace: plant_ontology def: "a relation between a process and a continuant, in which the continuant is somehow involved in the process" [] xref: RO:0000057 property_value: editor_note "Has_participant is a primitive instance-level relation between a process, a continuant, and a time at which the continuant participates in some way in the process. The relation obtains, for example, when this particular process of oxygen exchange across this particular alveolar membrane has_participant this particular sample of hemoglobin at this particular time." xsd:string property_value: example_of_usage "this blood coagulation has participant this blood clot" xsd:string property_value: example_of_usage "this investigation has participant this investigator" xsd:string property_value: example_of_usage "this process has participant this input material (or this output material)" xsd:string property_value: http://purl.org/dc/elements/1.1/source http://www.obofoundry.org/ro/#OBO_REL:has_participant xsd:string property_value: IAO:0000111 "has participant" xsd:string property_value: IAO:0000118 "has_participant" xsd:string property_value: isDefinedBy http://purl.obolibrary.org/obo/ro.owl domain: BFO:0000003 ! occurrent range: BFO:0000002 ! continuant holds_over_chain: has_part has_participant [Typedef] id: has_potential_to_develop_into name: has potential to develop into namespace: uberon def: "x has the potential to develop into y iff x develops into y or if x is capable of developing into y" [] def: "x has the potential to develop into y iff x develops into y or if x is capable of developing into y." [] xref: RO:0002387 property_value: IAO:0000114 IAO:0000428 property_value: IAO:0000117 "Chris Mungall" xsd:string is_a: has_developmental_potential_involving ! has developmental potential involving [Typedef] id: has_potential_to_developmentally_contribute_to name: has potential to developmentally contribute to namespace: uberon def: "x has potential to developmentrally contribute to y iff x developmentally contributes to y or x is capable of developmentally contributing to y" [] def: "x has potential to developmentrally contribute to y iff x developmentally contributes to y or x is capable of developmentally contributing to y." [] xref: RO:0002385 property_value: IAO:0000114 IAO:0000428 property_value: IAO:0000117 "Chris Mungall" xsd:string is_a: has_developmental_potential_involving ! has developmental potential involving [Typedef] id: has_potential_to_directly_develop_into name: has potential to directly develop into namespace: uberon def: "x has potential to directly develop into y iff x directly develops into y or x is capable of directly developing into y" [] def: "x has potential to directly develop into y iff x directly develops into y or x is capable of directly developing into y." [] xref: RO:0002388 property_value: IAO:0000114 IAO:0000428 property_value: IAO:0000117 "Chris Mungall" xsd:string is_a: has_potential_to_develop_into ! has potential to develop into [Typedef] id: has_primary_input_or_output name: has primary input or output namespace: external def: "p 'has primary input ot output' c iff either (a) p 'has primary input' c or (b) p 'has primary output' c." [] subset: http://purl.obolibrary.org/obo/valid_for_go_ontology xref: RO:0004007 is_a: has_participant ! has participant created_by: cjm creation_date: 2018-12-13T11:26:17Z [Typedef] id: has_primary_output name: has primary output namespace: external def: "p has primary output c if (a) p has output c and (b) the goal of process is to modify, produce, or transform c." [GOC:cjm, GOC:dph, GOC:kva, GOC:pt] {comment="PMID:27812932"} subset: http://purl.obolibrary.org/obo/valid_for_go_ontology xref: RO:0004008 is_a: has_output ! has output is_a: has_primary_input_or_output ! has primary input or output created_by: cjm creation_date: 2018-12-13T11:26:32Z [Typedef] id: has_quality name: has quality namespace: protein namespace: uberon def: "a relation between an independent continuant (the bearer) and a quality, in which the quality specifically depends on the bearer for its existence" [] xref: RO:0000086 property_value: editor_note "A bearer can have many qualities, and its qualities can exist for different periods of time, but none of its qualities can exist when the bearer does not exist." xsd:string property_value: example_of_usage "this apple has quality this red color" xsd:string property_value: IAO:0000118 "has_quality" xsd:string range: BFO:0000019 ! quality is_transitive: false is_a: bearer_of ! bearer of [Typedef] id: has_regulatory_component_activity name: has regulatory component activity namespace: external def: "A 'has regulatory component activity' B if A and B are GO molecular functions (GO_0003674), A has_component B and A is regulated by B." [] xref: RO:0002013 is_a: regulated_by ! regulated by is_a: RO:0002017 ! has component activity created_by: dos creation_date: 2017-05-24T09:30:46Z [Typedef] id: has_role name: has role namespace: chebi_ontology def: "a relation between an independent continuant (the bearer) and a role, in which the role specifically depends on the bearer for its existence" [] xref: RO:0000087 property_value: editor_note "A bearer can have many roles, and its roles can exist for different periods of time, but none of its roles can exist when the bearer does not exist. A role need not be realized at all the times that the role exists." xsd:string property_value: example_of_usage "this person has role this investigator role (more colloquially: this person has this role of investigator)" xsd:string property_value: IAO:0000118 "has_role" xsd:string domain: BFO:0000004 ! independent continuant range: BFO:0000023 ! role is_cyclic: false is_transitive: false is_a: bearer_of ! bearer of [Typedef] id: has_skeleton name: has skeleton namespace: uberon def: "A relation between a segment or subdivision of an organism and the maximal subdivision of material entities that provides structural support for that segment or subdivision." [] def: "A relation between a subdivision of an organism and the single subdivision of skeleton that provides structural support for that subdivision." [http://orcid.org/0000-0002-6601-2165] synonym: "has sekeletal support" RELATED [] synonym: "has supporting framework" RELATED [] xref: RO:0002551 property_value: example_of_usage "Forelimb SubClassOf has_skeleton some 'Forelimb skeleton'" xsd:string property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000118 "has supporting framework" xsd:string property_value: IAO:0000232 "The skeleton of a structure may be a true skeleton (for example, the bony skeleton of a hand) or any kind of support framework (the hydrostatic skeleton of a sea star, the exoskeleton of an insect, the cytoskeleton of a cell)." xsd:string domain: CARO:0000003 ! connected anatomical structure domain: UBERON:0000475 ! organism subdivision range: CARO:0000006 {http://purl.obolibrary.org/obo/IAO_0000116="This should be to a more restricted class, but not the Uberon class may be too restricted since it is a composition-based definition of skeleton rather than functional."} ! material anatomical entity range: UBERON:0010912 ! subdivision of skeleton is_a: has_part ! has_part inverse_of: skeleton_of ! skeleton of is_asymmetric: true [Typedef] id: has_start_location name: has start location namespace: external def: "x 'has starts location' y if and only if there exists some process z such that x 'starts with' z and z 'occurs in' y" [] subset: ro-eco xref: RO:0002231 property_value: IAO:0000114 IAO:0000125 property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000118 "starts with process that occurs in" xsd:string domain: BFO:0000015 ! process range: BFO:0000004 ! independent continuant holds_over_chain: starts_with occurs_in is_a: RO:0002479 ! has part that occurs in [Typedef] id: has_target_end_location name: has target end location namespace: external def: "This relationship holds between p and l when p is a transport or localization process in which the outcome is to move some cargo c from a an initial location to some destination l." [] subset: http://purl.obolibrary.org/obo/valid_for_go_annotation_extension subset: http://purl.obolibrary.org/obo/valid_for_go_ontology subset: http://purl.obolibrary.org/obo/valid_for_gocam xref: RO:0002339 property_value: IAO:0000117 "Chris Mungall" xsd:string is_a: results_in_transport_to_from_or_in ! results in transport to from or in transitive_over: part_of ! part_of [Typedef] id: has_target_start_location name: has target start location namespace: external def: "This relationship holds between p and l when p is a transport or localization process in which the outcome is to move some cargo c from some initial location l to some destination." [] subset: http://purl.obolibrary.org/obo/valid_for_go_annotation_extension subset: http://purl.obolibrary.org/obo/valid_for_go_ontology subset: http://purl.obolibrary.org/obo/valid_for_gocam xref: RO:0002338 property_value: IAO:0000117 "Chris Mungall" xsd:string is_a: results_in_transport_to_from_or_in ! results in transport to from or in transitive_over: part_of ! part_of [Typedef] id: immediate_transformation_of name: immediate transformation of namespace: uberon def: "x immediate transformation of y iff x immediately succeeds y temporally at a time boundary t, and all of the matter present in x at t is present in y at t, and all the matter in y at t is present in x at t" [] synonym: "direct_transformation_of" EXACT [https://orcid.org/0000-0002-6601-2165] synonym: "immediately transforms from" EXACT [SIO:000658] xref: RO:0002495 property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: RO:0002575 RO:0002494 property_value: seeAlso SIO:000658 is_a: directly_develops_from ! directly_develops_from is_a: transformation_of ! transformation of [Typedef] id: immediately_causally_downstream_of name: immediately causally downstream of namespace: external xref: RO:0002405 property_value: IAO:0000114 IAO:0000428 property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: isDefinedBy http://purl.obolibrary.org/obo/ro.owl is_a: causally_downstream_of ! causally downstream of is_a: immediately_preceded_by ! immediately preceded by inverse_of: immediately_causally_upstream_of ! immediately causally upstream of [Typedef] id: immediately_causally_upstream_of name: immediately causally upstream of namespace: external def: "p is immediately causally upstream of q iff both (a) p immediately precedes q and (b) p is causally upstream of q. In addition, the output of p must be an input of q." [] xref: RO:0002412 property_value: IAO:0000114 IAO:0000428 property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: isDefinedBy http://purl.obolibrary.org/obo/ro.owl property_value: RO:0002575 RO:0002411 is_a: causally_upstream_of ! causally upstream of is_a: immediately_precedes ! immediately_precedes [Typedef] id: immediately_deep_to name: immediately deep to name: immediately_deep_to namespace: uberon def: "This relation holds when both the deep_to and ajdacent_to relationship similarly hold." [http://orcid.org/0000-0002-6601-2165] def: "x immediately deep to y iff x deep_to y and x is contiguous with y." [BSPO:curators] xref: BSPO:0001107 is_a: adjacent_to ! adjacent_to is_a: deep_to ! deep to inverse_of: immediately_superficial_to ! immediately superficial to [Typedef] id: immediately_preceded_by name: immediately preceded by name: immediately_preceded_by namespace: external namespace: uberon def: "X immediately_preceded_by Y iff: end(X) simultaneous_with start(Y)" [] def: "X immediately_preceded_by Y iff: end(X) simultaneous_with start(Y)." [] comment: X immediately_preceded_by Y iff: end(X) simultaneous_with start(Y) synonym: "directly preceded by" EXACT [] synonym: "is directly preceded by" EXACT [] synonym: "is immediately preceded by" EXACT [SIO:000251] synonym: "starts_at_end_of" EXACT [] xref: RO:0002087 property_value: IAO:0000117 "David Osumi-Sutherland" xsd:string property_value: IAO:0000118 "starts_at_end_of" xsd:string property_value: isDefinedBy http://purl.obolibrary.org/obo/ro.owl property_value: seeAlso SIO:000251 property_value: UBPROP:0000001 "A non-transitive temporal relation in which one process immediately precedes another process, such that there is no interval of time between the two processes[SIO:000251]." xsd:string {source="SIO:000251"} holds_over_chain: starts_with ends_with is_a: preceded_by ! preceded_by inverse_of: immediately_precedes ! immediately_precedes [Typedef] id: immediately_precedes name: immediately precedes name: immediately_precedes namespace: external comment: X immediately_precedes_Y iff: end(X) simultaneous_with start(Y) subset: ro-eco xref: RO:0002090 property_value: IAO:0000117 "David Osumi-Sutherland" xsd:string property_value: IAO:0000118 "ends_at_start_of" xsd:string property_value: IAO:0000118 "meets" xsd:string property_value: isDefinedBy http://purl.obolibrary.org/obo/ro.owl property_value: RO:0002575 BFO:0000063 holds_over_chain: ends_with starts_with is_a: precedes ! precedes [Typedef] id: immediately_superficial_to name: immediately superficial to name: immediately_superficial_to namespace: uberon def: "x immediately superficial to y iff x superficial to y and x is contiguous with y." [BSPO:curators] xref: BSPO:0015014 is_a: adjacent_to ! adjacent_to is_a: superficial_to ! superficial_to [Typedef] id: in_anterior_side_of name: in anterior side of name: in_anterior_side_of namespace: uberon def: "X anterior side of Y <=> if Y is subdivided into two anterior and posterior portions, X is part of the anterior portion." [BSPO:PATO_mtg_2009] def: "X anterior_side_of Y <=> if Y is subdivided into two anterior and posterior portions, X is part_of the anterior portion." [BSPO:PATO_mtg_2009] xref: BSPO:0000123 is_a: part_of ! part_of [Typedef] id: in_distal_side_of name: in distal side of name: in_distal_side_of namespace: uberon def: "X distal_side_of Y <=> if Y is subdivided into distal and proximal portions, X is part_of the distal portion." [BSPO:PATO_mtg_2009] def: "x in distal side of y <=> if y is subdivided into two proximal and distal portions, y is part of the distal portion." [BSPO:PATO_mtg_2009] xref: BSPO:0000125 is_a: part_of ! part_of [Typedef] id: in_lateral_side_of name: in lateral side of name: in_lateral_side_of namespace: uberon def: "X in lateral side of Y <=> if X is in left side of Y or X is in right side of Y. X is often, but not always a paired structure" [UBERON:cjm] def: "X in_lateral_side_of Y <=> if X is in_left_side_of Y or X is in_right_side_of Y. X is often, but not always a paired structure" [https://orcid.org/0000-0002-6601-2165] def: "X in_lateral_side_of Y <=> if X is in_left_side_of Y or X is in_right_side_of Y. X is often, but not always a paired structure." [https://orcid.org/0000-0002-6601-2165] xref: BSPO:0000126 property_value: seeAlso https://github.com/obophenotype/uberon/wiki/Modeling-paired-structures-Design-Pattern xsd:anyURI is_a: part_of ! part_of [Typedef] id: in_left_side_of name: in left side of name: in_left_side_of namespace: uberon def: "X in left side of Y <=> if Y is subdivided into two left and right portions, X is part of the left portion." [BSPO:PATO_mtg_2009] def: "X in_left_side_of Y <=> if Y is subdivided into left and right portions, X is part_of the left portion." [BSPO:PATO_mtg_2009] xref: BSPO:0000120 property_value: seeAlso https://github.com/obophenotype/uberon/wiki/Modeling-paired-structures-Design-Pattern xsd:anyURI is_a: in_lateral_side_of ! in lateral side of disjoint_from: in_right_side_of ! in_right_side_of [Typedef] id: in_posterior_side_of name: in posterior side of name: in_posterior_side_of namespace: uberon def: "X posterior side of Y <=> if Y is subdivided into two anterior and posterior portions, X is part of the posterior portion." [BSPO:PATO_mtg_2009] def: "X posterior_side_of Y <=> if Y is subdivided into two anterior and posterior portions, X is part_of the posterior portion." [BSPO:PATO_mtg_2009] xref: BSPO:0000122 is_a: part_of ! part_of [Typedef] id: in_proximal_side_of name: in proximal side of name: in_proximal_side_of namespace: uberon def: "x in proximal side of y <=> if y is subdivided into two proximal and distal portions, y is part of the proximal portion." [BSPO:PATO_mtg_2009] def: "X proximal_side_of Y <=> if Y is subdivided into distal and proximal portions, X is part_of the proximal portion." [BSPO:PATO_mtg_2009] xref: BSPO:0000124 is_a: part_of ! part_of inverse_of: in_distal_side_of ! in distal side of [Typedef] id: in_right_side_of name: in right side of name: in_right_side_of namespace: uberon def: "X in right side of Y <=> if Y is subdivided into two left and right portions, X is part of the right portion." [BSPO:PATO_mtg_2009] def: "X in_right_side_of Y <=> if Y is subdivided into left and right portions, X is part_of the right portion." [BSPO:PATO_mtg_2009] xref: BSPO:0000121 property_value: seeAlso https://github.com/obophenotype/uberon/wiki/Modeling-paired-structures-Design-Pattern xsd:anyURI is_a: in_lateral_side_of ! in lateral side of [Typedef] id: in_taxon name: in taxon namespace: uberon def: "x is in taxon y if an only if y is an organism, and the relationship between x and y is one of: part of (reflexive), developmentally preceded by, derives from, secreted by, expressed." [] comment: Connects a biological entity to its taxon of origin. subset: ro-eco xref: RO:0002162 property_value: IAO:0000114 IAO:0000125 property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000117 "Jennifer Deegan" xsd:string property_value: IAO:0000119 http://www.ncbi.nlm.nih.gov/pubmed/17921072 property_value: IAO:0000119 http://www.ncbi.nlm.nih.gov/pubmed/20973947 property_value: seeAlso https://github.com/obophenotype/uberon/wiki/Taxon-constraints range: CARO:0001010 ! organism or virus or viroid holds_over_chain: attaches_to in_taxon holds_over_chain: capable_of in_taxon holds_over_chain: connected_to in_taxon holds_over_chain: connects in_taxon holds_over_chain: continuous_with in_taxon holds_over_chain: developmentally_induced_by in_taxon holds_over_chain: develops_from in_taxon holds_over_chain: develops_from_part_of in_taxon holds_over_chain: existence_ends_during in_taxon holds_over_chain: existence_starts_during in_taxon holds_over_chain: extends_fibers_into in_taxon holds_over_chain: has_developmental_contribution_from in_taxon holds_over_chain: has_part in_taxon holds_over_chain: has_potential_to_develop_into in_taxon holds_over_chain: innervated_by in_taxon holds_over_chain: overlaps in_taxon holds_over_chain: part_of in_taxon holds_over_chain: produced_by in_taxon holds_over_chain: produces in_taxon holds_over_chain: results_in_developmental_progression_of in_taxon holds_over_chain: supplies in_taxon is_a: RO:0002320 ! evolutionarily related to [Typedef] id: indirectly_supplies name: indirectly_supplies namespace: uberon def: "a indirectly_supplies s iff a has a branch and the branch supplies or indirectly supplies s." [] property_value: editor_note "add to RO" xsd:string holds_over_chain: has_branching_part indirectly_supplies holds_over_chain: has_branching_part supplies is_transitive: true [Typedef] id: innervated_by name: innervated_by namespace: uberon comment: http://code.google.com/p/obo-relations/issues/detail?id=6 synonym: "nerve supply" EXACT [FMA:85999] xref: RO:0002005 property_value: http://purl.org/spar/cito/citesAsAuthority http://www.ncbi.nlm.nih.gov/pubmed/22402613 xsd:anyURI property_value: IAO:0000117 "David Osumi-Sutherland" xsd:string property_value: seeAlso dbprop:nerve property_value: seeAlso FMA:85999 inverse_of: innervates ! innervates transitive_over: branching_part_of ! branching_part_of [Typedef] id: innervates name: innervates namespace: uberon def: "Relation between a 'neuron projection bundle' and a region in which one or more of its component neuron projections either synapses to targets or receives synaptic input.\nT innervates some R\nExpands_to: T has_fasciculating_neuron_projection that synapse_in some R." [] comment: http://code.google.com/p/obo-relations/issues/detail?id=6 xref: RO:0002134 property_value: http://purl.org/spar/cito/citesAsAuthority http://www.ncbi.nlm.nih.gov/pubmed/22402613 property_value: IAO:0000114 IAO:0000125 property_value: IAO:0000117 "David Osumi-Sutherland" xsd:string property_value: RO:0001900 RO:0001901 transitive_over: part_of ! part_of expand_expression_to: "RO_0002132 some (GO_0043005 that (RO_0002131 some (GO_0045202 that BFO_0000050 some Y?)))" [] [Typedef] id: input_of name: input of namespace: uberon def: "inverse of has input" [] subset: ro-eco subset: RO:0002259 xref: RO:0002352 property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: isDefinedBy http://purl.obolibrary.org/obo/ro.owl is_a: functionally_related_to ! functionally related to is_a: participates_in ! participates in [Typedef] id: is_conjugate_acid_of name: is conjugate acid of namespace: chebi_ontology is_cyclic: true is_transitive: false inverse_of: is_conjugate_base_of ! is conjugate base of [Typedef] id: is_conjugate_base_of name: is conjugate base of namespace: chebi_ontology is_cyclic: true is_transitive: false [Typedef] id: is_substituent_group_from name: is substituent group from namespace: chebi_ontology is_cyclic: false is_transitive: false [Typedef] id: lacks_part name: lacks_part expand_expression_to: "http://purl.obolibrary.org/obo/BFO_0000051 exactly 0 ?Y" [] [Typedef] id: lacks_plasma_membrane_part name: lacks_plasma_membrane_part expand_expression_to: "http://purl.obolibrary.org/obo/BFO_0000051 exactly 0 (http://purl.obolibrary.org/obo/GO_0005886 and http://purl.obolibrary.org/obo/BFO_0000051 some ?Y)" [] [Typedef] id: located_in name: located in name: located_in namespace: uberon def: "a relation between two independent continuants, the target and the location, in which the target is entirely within the location" [] subset: http://purl.obolibrary.org/obo/valid_for_go_gp2term xref: RO:0001025 property_value: editor_note "Location as a relation between instances: The primitive instance-level relation c located_in r at t reflects the fact that each continuant is at any given time associated with exactly one spatial region, namely its exact location. Following we can use this relation to define a further instance-level location relation - not between a continuant and the region which it exactly occupies, but rather between one continuant and another. c is located in c1, in this sense, whenever the spatial region occupied by c is part_of the spatial region occupied by c1. Note that this relation comprehends both the relation of exact location between one continuant and another which obtains when r and r1 are identical (for example, when a portion of fluid exactly fills a cavity), as well as those sorts of inexact location relations which obtain, for example, between brain and head or between ovum and uterus" xsd:string property_value: editor_note "Most location relations will only hold at certain times, but this is difficult to specify in OWL. See http://purl.obolibrary.org/obo/ro/docs/temporal-semantics/" xsd:string property_value: example_of_usage "my brain is located in my head" xsd:string property_value: example_of_usage "this rat is located in this cage" xsd:string property_value: http://purl.org/dc/elements/1.1/source http://www.obofoundry.org/ro/#OBO_REL:located_in xsd:string property_value: IAO:0000111 "located in" xsd:string property_value: IAO:0000118 "located_in" xsd:string property_value: RO:0001900 RO:0001901 domain: BFO:0000004 {http://purl.obolibrary.org/obo/IAO_0000116="This is redundant with the more specific 'independent and not spatial region' constraint. We leave in the redundant axiom for use with reasoners that do not use negation."} ! independent continuant range: BFO:0000004 {http://purl.obolibrary.org/obo/IAO_0000116="This is redundant with the more specific 'independent and not spatial region' constraint. We leave in the redundant axiom for use with reasoners that do not use negation."} ! independent continuant is_transitive: true transitive_over: part_of ! part_of [Typedef] id: location_of name: location of name: location_of namespace: uberon def: "a relation between two independent continuants, the location and the target, in which the target is entirely within the location" [] xref: RO:0001015 property_value: editor_note "Most location relations will only hold at certain times, but this is difficult to specify in OWL. See http://purl.obolibrary.org/obo/ro/docs/temporal-semantics/" xsd:string property_value: example_of_usage "my head is the location of my brain" xsd:string property_value: example_of_usage "this cage is the location of this rat" xsd:string property_value: IAO:0000111 "is location of" xsd:string property_value: IAO:0000118 "location_of" xsd:string property_value: RO:0001900 RO:0001901 is_transitive: true inverse_of: located_in ! located in [Typedef] id: lumen_of name: lumen of namespace: uberon def: "x lumen_of y iff x is the space or substance that is part of y and does not cross any of the inner membranes or boundaries of y that is maximal with respect to the volume of the convex hull." [] subset: ro-eco xref: RO:0002571 property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000119 GOC:cjm xsd:string range: BFO:0000040 ! material entity is_a: part_of ! part_of [Typedef] id: luminal_space_of name: luminal space of namespace: uberon def: "s is luminal space of x iff s is lumen_of x and s is an immaterial entity" [] subset: ro-eco xref: RO:0002572 property_value: IAO:0000117 "Chris Mungall" xsd:string domain: BFO:0000141 ! immaterial entity is_a: lumen_of ! lumen of is_a: part_of ! part_of [Typedef] id: member_of name: member of namespace: uberon def: "is member of is a mereological relation between a item and a collection." [] xref: RO:0002350 property_value: example_of_usage "An organism that is a member of a population of organisms" xsd:string property_value: IAO:0000118 "is member of" xsd:string property_value: IAO:0000118 "member part of" xsd:string property_value: IAO:0000119 "SIO" xsd:string property_value: RO:0001900 RO:0001901 is_a: part_of ! part_of inverse_of: has_member ! has member [Typedef] id: mereotopologically_related_to name: mereotopologically related to def: "A mereological relationship or a topological relationship" [] xref: RO:0002323 property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000232 "Do not use this relation directly. It is ended as a grouping for a diverse set of relations, all involving parthood or connectivity relationships" xsd:string property_value: isDefinedBy http://purl.obolibrary.org/obo/ro.owl property_value: RO:0001900 RO:0001901 [Typedef] id: negatively_regulated_by name: negatively regulated by namespace: external def: "inverse of negatively regulates" [] subset: RO:0002259 xref: RO:0002335 property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: isDefinedBy http://purl.obolibrary.org/obo/ro.owl is_a: regulated_by ! regulated by [Typedef] id: negatively_regulates name: negatively regulates namespace: external def: "Process(P1) negatively regulates process(P2) iff: P1 terminates P2, or P1 descreases the the frequency of initiation of P2 or the magnitude or rate of output of P2." [] subset: http://purl.obolibrary.org/obo/valid_for_go_annotation_extension subset: http://purl.obolibrary.org/obo/valid_for_go_gp2term subset: http://purl.obolibrary.org/obo/valid_for_go_ontology subset: http://purl.obolibrary.org/obo/valid_for_gocam xref: RO:0002212 property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000119 http://purl.obolibrary.org/obo/ro/docs/causal-relations property_value: IAO:0000589 "negatively regulates (process to process)" xsd:string property_value: isDefinedBy http://purl.obolibrary.org/obo/ro.owl property_value: RO:0004050 RO:0002211 holds_over_chain: ends_with negatively_regulates is_a: causally_upstream_of,_negative_effect ! causally upstream of, negative effect is_a: regulates ! regulates inverse_of: negatively_regulated_by ! negatively regulated by [Typedef] id: occurs_in name: occurs in namespace: external def: "b occurs_in c =def b is a process and c is a material entity or immaterial entity& there exists a spatiotemporal region r and b occupies_spatiotemporal_region r.& forall(t) if b exists_at t then c exists_at t & there exist spatial regions s and s’ where & b spatially_projects_onto s at t& c is occupies_spatial_region s’ at t& s is a proper_continuant_part_of s’ at t" [] comment: Paraphrase of definition: a relation between a process and an independent continuant, in which the process takes place entirely within the independent continuant subset: http://purl.obolibrary.org/obo/valid_for_go_annotation_extension subset: http://purl.obolibrary.org/obo/valid_for_go_ontology subset: http://purl.obolibrary.org/obo/valid_for_gocam xref: BFO:0000066 property_value: IAO:0000111 "occurs in" xsd:string property_value: IAO:0000118 "occurs_in" xsd:string property_value: IAO:0000118 "unfolds in" xsd:string property_value: IAO:0000118 "unfolds_in" xsd:string property_value: isDefinedBy http://purl.obolibrary.org/obo/bfo.owl domain: BFO:0000003 ! occurrent range: BFO:0000004 ! independent continuant holds_over_chain: part_of occurs_in inverse_of: contains_process ! contains process transitive_over: part_of ! part_of [Typedef] id: only_in_taxon name: only in taxon name: only_in_taxon namespace: plant_ontology namespace: protein namespace: uberon def: "S only_in_taxon T iff: S SubClassOf in_taxon only T." [http://www.ncbi.nlm.nih.gov/pubmed/20973947] def: "S only_in_taxon T iff: S SubClassOf in_taxon only T." [PMID:20973947] def: "U only_in_taxon T: U is a feature found in only in organisms of species of taxon T. The feature cannot be found in an organism of any species outside of (not subsumed by) that taxon. Down-propagates in U hierarchy, up-propagates in T hierarchy (species taxonomy). Implies applicable_to_taxon." [ROC:Waclaw] def: "x only in taxon y if and only if x is in taxon y, and there is no other organism z such that y!=z a and x is in taxon z." [] comment: Down-propagates. The original name for this in the paper is 'specific_to'. Applicable to genes because some genes are lost in sub-species (strains) of a species. synonym: "never_outside_taxon" EXACT [] synonym: "specific_to" EXACT [] synonym: "specific_to_taxon" EXACT [] xref: RO:0002160 property_value: editor_note "The original intent was to treat this as a macro that expands to 'in taxon' only ?Y - however, this is not necessary if we instead have supplemental axioms that state that each pair of sibling tax have a disjointness axiom using the 'in taxon' property - e.g.\n\n 'in taxon' some Eukaryota DisjointWith 'in taxon' some Eubacteria" xsd:string property_value: example_of_usage "lactation SubClassOf 'only in taxon' some 'Mammalia'" xsd:string property_value: IAO:0000114 IAO:0000125 property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000119 http://www.ncbi.nlm.nih.gov/pubmed/17921072 property_value: IAO:0000119 http://www.ncbi.nlm.nih.gov/pubmed/20973947 property_value: seeAlso https://github.com/obophenotype/uberon/wiki/Taxon-constraints is_transitive: false is_a: in_taxon ! in taxon [Typedef] id: output_of name: output of namespace: external namespace: protein namespace: uberon def: "inverse of has output" [] subset: ro-eco subset: RO:0002259 xref: RO:0002353 property_value: IAO:0000117 "Chris Mungall" xsd:string is_transitive: false is_a: functionally_related_to ! functionally related to is_a: participates_in ! participates in [Typedef] id: overlaps name: overlaps namespace: external namespace: uberon def: "x overlaps y if and only if there exists some z such that x has part z and z part of y" [] subset: http://purl.obolibrary.org/obo/valid_for_go_annotation_extension subset: http://purl.obolibrary.org/obo/valid_for_gocam subset: ro-eco xref: RO:0002131 property_value: IAO:0000114 IAO:0000125 property_value: isDefinedBy http://purl.obolibrary.org/obo/ro.owl property_value: RO:0001900 RO:0001901 holds_over_chain: has_part overlaps holds_over_chain: has_part part_of {http://purl.obolibrary.org/obo/RO_0002582="true"} holds_over_chain: part_of part_of is_a: mereotopologically_related_to ! mereotopologically related to transitive_over: part_of ! part_of expand_expression_to: "BFO_0000051 some (BFO_0000050 some ?Y)" [] expand_expression_to: "http://purl.obolibrary.org/obo/BFO_0000051 some (http://purl.obolibrary.org/obo/BFO_0000050 some ?Y)" [] [Typedef] id: part_of name: part of name: part_of namespace: external namespace: plant_ontology namespace: protein namespace: quality namespace: uberon def: "a core relation that holds between a part and its whole" [] subset: http://purl.obolibrary.org/obo/valid_for_go_annotation_extension subset: http://purl.obolibrary.org/obo/valid_for_go_gp2term subset: http://purl.obolibrary.org/obo/valid_for_go_ontology subset: http://purl.obolibrary.org/obo/valid_for_gocam xref: BFO:0000050 property_value: editor_note "Everything is part of itself. Any part of any part of a thing is itself part of that thing. Two distinct things cannot be part of each other." xsd:string property_value: editor_note "Everything is part of itself. Any part of any part of a thing is itself part of that thing. Two distinct things cannot be part of each other." xsd:string property_value: editor_note "Occurrents are not subject to change and so parthood between occurrents holds for all the times that the part exists. Many continuants are subject to change, so parthood between continuants will only hold at certain times, but this is difficult to specify in OWL. See http://purl.obolibrary.org/obo/ro/docs/temporal-semantics/" xsd:string property_value: editor_note "Occurrents are not subject to change and so parthood between occurrents holds for all the times that the part exists. Many continuants are subject to change, so parthood between continuants will only hold at certain times, but this is difficult to specify in OWL. See http://purl.obolibrary.org/obo/ro/docs/temporal-semantics/" xsd:string property_value: editor_note "Occurrents are not subject to change and so parthood between occurrents holds for all the times that the part exists. Many continuants are subject to change, so parthood between continuants will only hold at certain times, but this is difficult to specify in OWL. See https://code.google.com/p/obo-relations/wiki/ROAndTime" xsd:string property_value: editor_note "Occurrents are not subject to change and so parthood between occurrents holds for all the times that the part exists. Many continuants are subject to change, so parthood between continuants will only hold at certain times, but this is difficult to specify in OWL. See https://code.google.com/p/obo-relations/wiki/ROAndTime" xsd:string property_value: editor_note "Parthood requires the part and the whole to have compatible classes: only an occurrent can be part of an occurrent; only a process can be part of a process; only a continuant can be part of a continuant; only an independent continuant can be part of an independent continuant; only an immaterial entity can be part of an immaterial entity; only a specifically dependent continuant can be part of a specifically dependent continuant; only a generically dependent continuant can be part of a generically dependent continuant. (This list is not exhaustive.)\n\nA continuant cannot be part of an occurrent: use 'participates in'. An occurrent cannot be part of a continuant: use 'has participant'. A material entity cannot be part of an immaterial entity: use 'has location'. A specifically dependent continuant cannot be part of an independent continuant: use 'inheres in'. An independent continuant cannot be part of a specifically dependent continuant: use 'bearer of'." xsd:string property_value: editor_note "Parthood requires the part and the whole to have compatible classes: only an occurrent can be part of an occurrent; only a process can be part of a process; only a continuant can be part of a continuant; only an independent continuant can be part of an independent continuant; only an immaterial entity can be part of an immaterial entity; only a specifically dependent continuant can be part of a specifically dependent continuant; only a generically dependent continuant can be part of a generically dependent continuant. (This list is not exhaustive.)\n\nA continuant cannot be part of an occurrent: use 'participates in'. An occurrent cannot be part of a continuant: use 'has participant'. A material entity cannot be part of an immaterial entity: use 'has location'. A specifically dependent continuant cannot be part of an independent continuant: use 'inheres in'. An independent continuant cannot be part of a specifically dependent continuant: use 'bearer of'." xsd:string property_value: example_of_usage "my brain is part of my body (continuant parthood, two material entities)" xsd:string property_value: example_of_usage "my brain is part of my body (continuant parthood, two material entities)" xsd:string property_value: example_of_usage "my stomach cavity is part of my stomach (continuant parthood, immaterial entity is part of material entity)" xsd:string property_value: example_of_usage "my stomach cavity is part of my stomach (continuant parthood, immaterial entity is part of material entity)" xsd:string property_value: example_of_usage "this day is part of this year (occurrent parthood)" xsd:string property_value: example_of_usage "this day is part of this year (occurrent parthood)" xsd:string property_value: IAO:0000111 "is part of" xsd:string property_value: IAO:0000111 "is part of" xsd:string property_value: IAO:0000118 "part_of" xsd:string property_value: IAO:0000118 "part_of" xsd:string property_value: RO:0001900 RO:0001901 property_value: RO:0040042 BFO:0000002 property_value: RO:0040042 BFO:0000003 property_value: RO:0040042 BFO:0000004 property_value: RO:0040042 BFO:0000017 property_value: RO:0040042 BFO:0000019 property_value: RO:0040042 BFO:0000020 property_value: RO:0040042 BFO:0000031 property_value: seeAlso http://ontologydesignpatterns.org/wiki/Community:Parts_and_Collections property_value: seeAlso http://ontologydesignpatterns.org/wiki/Submissions:PartOf property_value: seeAlso http://www.obofoundry.org/ro/#OBO_REL:part_of xsd:string is_transitive: true is_a: overlaps ! overlaps inverse_of: has_part ! has_part [Typedef] id: part_of_structure_that_is_capable_of name: part of structure that is capable of namespace: uberon def: "this relation holds between c and p when c is part of some c', and c' is capable of p." [] xref: RO:0002329 property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000118 "false" xsd:boolean holds_over_chain: part_of capable_of {http://purl.obolibrary.org/obo/RO_0002581="true"} is_a: functionally_related_to ! functionally related to [Typedef] id: participates_in name: participates in name: participates_in namespace: external namespace: plant_ontology namespace: uberon def: "a relation between a continuant and a process, in which the continuant is somehow involved in the process" [] xref: RO:0000056 property_value: example_of_usage "this blood clot participates in this blood coagulation" xsd:string property_value: example_of_usage "this input material (or this output material) participates in this process" xsd:string property_value: example_of_usage "this investigator participates in this investigation" xsd:string property_value: IAO:0000111 "participates in" xsd:string property_value: IAO:0000118 "participates_in" xsd:string property_value: isDefinedBy http://purl.obolibrary.org/obo/ro.owl domain: BFO:0000002 ! continuant range: BFO:0000003 ! occurrent inverse_of: has_participant ! has participant [Typedef] id: positively_regulated_by name: positively regulated by namespace: external def: "inverse of positively regulates" [] subset: RO:0002259 xref: RO:0002336 property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: isDefinedBy http://purl.obolibrary.org/obo/ro.owl is_a: regulated_by ! regulated by [Typedef] id: positively_regulates name: positively regulates namespace: external def: "Process(P1) postively regulates process(P2) iff: P1 initiates P2, or P1 increases the the frequency of initiation of P2 or the magnitude or rate of output of P2." [] subset: http://purl.obolibrary.org/obo/valid_for_go_annotation_extension subset: http://purl.obolibrary.org/obo/valid_for_go_gp2term subset: http://purl.obolibrary.org/obo/valid_for_go_ontology subset: http://purl.obolibrary.org/obo/valid_for_gocam xref: RO:0002213 property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000119 http://purl.obolibrary.org/obo/ro/docs/causal-relations property_value: IAO:0000589 "positively regulates (process to process)" xsd:string property_value: isDefinedBy http://purl.obolibrary.org/obo/ro.owl property_value: RO:0004049 RO:0002211 holds_over_chain: ends_with positively_regulates holds_over_chain: negatively_regulates negatively_regulates is_transitive: true is_a: causally_upstream_of,_positive_effect ! causally upstream of, positive effect is_a: regulates ! regulates inverse_of: positively_regulated_by ! positively regulated by [Typedef] id: posterior_to name: posterior to name: posterior_to namespace: uberon def: "x posterior to y iff x is further along the antero-posterior axis than y, towards the body/tail. An antero-posterior axis is an axis that extends through an organism from head end to opposite end of body or tail." [BSPO:cjm] def: "x posterior_to y iff x is further along the antero-posterior axis than y, towards the body/tail. An antero-posterior axis is an axis that bisects an organism from head end to opposite end of body or tail." [http://orcid.org/0000-0002-6601-2165] synonym: "caudal_to" NARROW [] xref: BSPO:0000099 is_transitive: true [Typedef] id: posteriorly_connected_to name: posteriorly connected to namespace: uberon def: "x posteriorly_connected_to y iff the posterior part of x is connected to y. i.e. x connected_to y and x anterior_to y." [http://purl.obolibrary.org/obo/uberon/docs/Connectivity-Design-Pattern] xref: posteriorly_connected_to is_a: anterior_to ! anterior_to is_a: connected_to ! connected to [Typedef] id: preceded_by name: preceded by name: preceded_by namespace: external namespace: plant_ontology namespace: uberon def: "The assertion P preceded_by P1 tells us something about Ps in general: that is, it tells us something about what happened earlier, given what we know about what happened later. Thus it does not provide information pointing in the opposite direction, concerning instances of P1 in general; that is, that each is such as to be succeeded by some instance of P." [POC:Laurel_Cooper] def: "x is preceded by y if and only if the time point at which y ends is before or equivalent to the time point at which x starts. Formally: x preceded by y iff ω(y) <= α(x), where α is a function that maps a process to a start point, and ω is a function that maps a process to an end point." [] def: "X preceded_by Y iff: end(Y) before_or_simultaneous_with start(X)" [] def: "X preceded_by Y iff: end(Y) before_or_simultaneous_with start(X)." [] comment: Note that an assertion to the effect that P preceded_by P1 is rather weak; it tells us little about the relations between the underlying instances in virtue of which the preceded_by relation obtains. Typically we will be interested in stronger relations, for example in the relation immediately_preceded_by, or in relations which combine preceded_by with a condition to the effect that the corresponding instances of P and P1 share participants, or that their participants are connected by relations of derivation, or (as a first step along the road to a treatment of causality) that the one process in some way affects (for example, initiates or regulates) the other. subset: ro-eco synonym: "is preceded by" EXACT [SIO:000249] synonym: "takes place after" EXACT [Allen:precedes] xref: BFO:0000062 property_value: editor_note "An example is: translation preceded_by transcription; aging preceded_by development (not however death preceded_by aging). Where derives_from links classes of continuants, preceded_by links classes of processes. Clearly, however, these two relations are not independent of each other. Thus if cells of type C1 derive_from cells of type C, then any cell division involving an instance of C1 in a given lineage is preceded_by cellular processes involving an instance of C. The assertion P preceded_by P1 tells us something about Ps in general: that is, it tells us something about what happened earlier, given what we know about what happened later. Thus it does not provide information pointing in the opposite direction, concerning instances of P1 in general; that is, that each is such as to be succeeded by some instance of P. Note that an assertion to the effect that P preceded_by P1 is rather weak; it tells us little about the relations between the underlying instances in virtue of which the preceded_by relation obtains. Typically we will be interested in stronger relations, for example in the relation immediately_preceded_by, or in relations which combine preceded_by with a condition to the effect that the corresponding instances of P and P1 share participants, or that their participants are connected by relations of derivation, or (as a first step along the road to a treatment of causality) that the one process in some way affects (for example, initiates or regulates) the other." xsd:string property_value: http://purl.org/dc/elements/1.1/source http://www.obofoundry.org/ro/#OBO_REL:preceded_by xsd:string property_value: IAO:0000111 "preceded by" xsd:string property_value: IAO:0000118 "is preceded by" xsd:string property_value: IAO:0000118 "preceded_by" xsd:string property_value: isDefinedBy http://purl.obolibrary.org/obo/bfo.owl domain: BFO:0000003 ! occurrent range: BFO:0000003 ! occurrent holds_over_chain: part_of preceded_by is_transitive: true is_a: ends_after ! ends after inverse_of: precedes ! precedes created_by: Laurel_Cooper creation_date: 2013-07-09T14:29:15Z [Typedef] id: precedes name: precedes namespace: external namespace: plant_ontology namespace: uberon def: "x precedes y if and only if the time point at which x ends is before or equivalent to the time point at which y starts. Formally: x precedes y iff ω(x) <= α(y), where α is a function that maps a process to a start point, and ω is a function that maps a process to an end point." [] subset: ro-eco xref: BFO:0000063 property_value: IAO:0000111 "precedes" xsd:string property_value: isDefinedBy http://purl.obolibrary.org/obo/bfo.owl domain: BFO:0000003 ! occurrent range: BFO:0000003 ! occurrent holds_over_chain: part_of precedes is_transitive: true is_a: temporally_related_to ! temporally related to created_by: Laurel_Cooper creation_date: 2015-06-04T17:18:40Z [Typedef] id: process_has_causal_agent name: process has causal agent namespace: external def: "Inverse of 'causal agent in process'" [] xref: RO:0002608 property_value: IAO:0000119 http://purl.obolibrary.org/obo/ro/docs/causal-relations property_value: isDefinedBy http://purl.obolibrary.org/obo/ro.owl is_a: causally_related_to ! causally related to [Typedef] id: produced_by name: produced by name: produced_by namespace: external namespace: uberon def: "a produced_by b iff some process that occurs_in b has_output a." [] subset: ro-eco xref: RO:0003001 property_value: IAO:0000114 IAO:0000125 property_value: IAO:0000117 "Melissa Haendel" xsd:string domain: BFO:0000040 ! material entity range: BFO:0000040 ! material entity [Typedef] id: produces name: produces namespace: external namespace: uberon def: "a produces b if some process that occurs_in a has_output b, where a and b are material entities. Examples: hybridoma cell line produces monoclonal antibody reagent; chondroblast produces avascular GAG-rich matrix." [] comment: Note that this definition doesn't quite distinguish the output of a transformation process from a production process, which is related to the identity/granularity issue. subset: ro-eco xref: RO:0003000 property_value: IAO:0000114 IAO:0000125 property_value: IAO:0000117 "Melissa Haendel" xsd:string domain: BFO:0000040 ! material entity range: BFO:0000040 ! material entity inverse_of: produced_by ! produced_by [Typedef] id: protects name: protects namespace: uberon xref: protects [Typedef] id: proximal_to name: proximal to name: proximal_to namespace: uberon def: "x proximal to y iff x is closer to the point of attachment with the body than y." [BSPO:cjm] def: "x proximal_to y iff x is closer to the point of attachment with the body than y." [http://orcid.org/0000-0002-6601-2165] xref: BSPO:0000100 is_transitive: true [Typedef] id: proximally_connected_to name: proximally connected to namespace: uberon def: "x proximally_connected_to y iff the proximal part of x is connected to y. i.e. x connected_to y and x distal_to y." [http://purl.obolibrary.org/obo/uberon/docs/Connectivity-Design-Pattern] xref: proximally_connected_to is_a: connected_to ! connected to is_a: distal_to ! distal_to is_a: transitively_proximally_connected_to ! transitively proximally connected to [Typedef] id: proximalmost_part_of name: proximalmost part of name: proximalmost_part_of namespace: uberon def: "X proximalmost part of Y <=> X is in proximal side of Y and X is adjacent to the proximal boundary of Y" [https://orcid.org/0000-0002-6601-2165] def: "X proximalmost_part_of Y <=> X is part_of Y and X is adjacent_to the proximal boundary of Y" [https://orcid.org/0000-0002-6601-2165] def: "X proximalmost_part_of Y <=> X is part_of Y and X is adjacent_to the proximal boundary of Y." [https://orcid.org/0000-0002-6601-2165] xref: BSPO:0001106 is_a: in_proximal_side_of ! in_proximal_side_of [Typedef] id: regulated_by name: regulated by namespace: external def: "inverse of regulates" [] subset: RO:0002259 xref: RO:0002334 property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000589 "regulated by (processual)" xsd:string property_value: isDefinedBy http://purl.obolibrary.org/obo/ro.owl domain: BFO:0000015 ! process range: BFO:0000015 ! process is_transitive: true is_a: causally_downstream_of_or_within ! causally downstream of or within [Typedef] id: regulates name: regulates namespace: external def: "process(P1) regulates process(P2) iff: P1 results in the initiation or termination of P2 OR affects the frequency of its initiation or termination OR affects the magnitude or rate of output of P2." [] def: "process(P1) regulates process(P2) iff: P1 results in the initiation or termination of P2 OR affects the frequency of its initiation or termination OR affects the magnitude or rate of output of P2." [] subset: http://purl.obolibrary.org/obo/valid_for_go_annotation_extension subset: http://purl.obolibrary.org/obo/valid_for_go_gp2term subset: http://purl.obolibrary.org/obo/valid_for_go_ontology subset: http://purl.obolibrary.org/obo/valid_for_gocam xref: RO:0002211 property_value: editor_note "We use 'regulates' here to specifically imply control. However, many colloquial usages of the term correctly correspond to the weaker relation of 'causally upstream of or within' (aka influences). Consider relabeling to make things more explicit" xsd:string property_value: IAO:0000114 IAO:0000125 property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000117 "David Hill" xsd:string property_value: IAO:0000117 "Tanya Berardini" xsd:string property_value: IAO:0000119 "GO" xsd:string property_value: IAO:0000119 http://purl.obolibrary.org/obo/ro/docs/causal-relations property_value: IAO:0000232 "Regulation precludes parthood; the regulatory process may not be within the regulated process." xsd:string property_value: IAO:0000589 "regulates (processual)" xsd:string property_value: IAO:0000600 "false" xsd:boolean property_value: isDefinedBy http://purl.obolibrary.org/obo/ro.owl domain: BFO:0000015 ! process range: BFO:0000015 ! process holds_over_chain: ends_with regulates holds_over_chain: RO:0002578 RO:0002578 is_transitive: true is_a: causally_upstream_of ! causally upstream of inverse_of: regulated_by ! regulated by transitive_over: RO:0002025 ! has effector activity [Typedef] id: results_in_acquisition_of_features_of name: results in acquisition of features of namespace: external def: "The relationship that links a specified entity with the process that results in an unspecified entity acquiring the features and characteristics of the specified entity" [] subset: http://purl.obolibrary.org/obo/valid_for_go_annotation_extension subset: http://purl.obolibrary.org/obo/valid_for_go_ontology subset: http://purl.obolibrary.org/obo/valid_for_gocam xref: RO:0002315 property_value: example_of_usage "an annotation of gene X to cell differentiation with results_in_maturation_of CL:0000057 (fibroblast) means that at the end of the process the input cell that did not have features of a fibroblast, now has the features of a fibroblast." xsd:string property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000119 GOC:mtg_berkeley_2013 xsd:string is_a: results_in_developmental_progression_of ! results in developmental progression of is_a: RO:0040036 ! results in changes to anatomical or cellular structure [Typedef] id: results_in_assembly_of name: results in assembly of name: results_in_assembly_of namespace: external subset: http://purl.obolibrary.org/obo/valid_for_go_annotation_extension subset: http://purl.obolibrary.org/obo/valid_for_go_ontology subset: http://purl.obolibrary.org/obo/valid_for_gocam xref: RO:0002588 is_a: results_in_formation_of ! results in formation of is_a: results_in_organization_of ! results in organization of [Typedef] id: results_in_development_of name: results in development of namespace: external def: "p 'results in development of' c if and only if p is a developmental process and p results in the state of c changing from its initial state as a primordium or anlage through its mature state and to its final state." [] subset: http://purl.obolibrary.org/obo/valid_for_go_annotation_extension subset: http://purl.obolibrary.org/obo/valid_for_go_ontology subset: http://purl.obolibrary.org/obo/valid_for_gocam xref: RO:0002296 property_value: example_of_usage "every flower development (GO:0009908) results in development of some flower (PO:0009046)" xsd:string property_value: IAO:0000114 IAO:0000125 property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000119 http://www.geneontology.org/GO.doc.development.shtml xsd:anyURI is_a: results_in_developmental_progression_of ! results in developmental progression of is_a: RO:0040036 ! results in changes to anatomical or cellular structure [Typedef] id: results_in_developmental_progression_of name: results in developmental progression of namespace: external def: "p results in the developmental progression of s iff p is a developmental process and s is an anatomical structure and p causes s to undergo a change in state at some point along its natural developmental cycle (this cycle starts with its formation, through the mature structure, and ends with its loss)." [] xref: RO:0002295 property_value: editor_note "This property and its subproperties are being used primarily for the definition of GO developmental processes. The property hierarchy mirrors the core GO hierarchy. In future we may be able to make do with a more minimal set of properties, but due to the way GO is currently structured we require highly specific relations to avoid incorrect entailments. To avoid this, the corresponding genus terms in GO should be declared mutually disjoint." xsd:string property_value: IAO:0000114 IAO:0000125 property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: seeAlso Ontology:extensions domain: GO:0008150 ! biological_process range: CARO:0000003 ! connected anatomical structure is_a: developmentally_related_to ! developmentally related to [Typedef] id: results_in_disassembly_of name: results in disassembly of name: results_in_disassembly_of namespace: external xref: RO:0002590 is_a: results_in_organization_of ! results in organization of is_a: RO:0002586 ! results in breakdown of [Typedef] id: results_in_distribution_of name: results_in_distribution_of namespace: external xref: GOREL:0002003 [Typedef] id: results_in_fission_of name: results_in_fission_of namespace: external xref: GOREL:0002004 is_a: has_participant ! has participant [Typedef] id: results_in_formation_of name: results in formation of namespace: external subset: http://purl.obolibrary.org/obo/valid_for_go_annotation_extension subset: http://purl.obolibrary.org/obo/valid_for_go_ontology subset: http://purl.obolibrary.org/obo/valid_for_gocam xref: RO:0002297 property_value: example_of_usage "an annotation of gene X to anatomical structure formation with results_in_formation_of UBERON:0000007 (pituitary gland) means that at the beginning of the process a pituitary gland does not exist and at the end of the process a pituitary gland exists." xsd:string property_value: example_of_usage "every \"endocardial cushion formation\" (GO:0003272) results_in_formation_of some \"endocardial cushion\" (UBERON:0002062)" xsd:string property_value: IAO:0000114 IAO:0000125 property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000119 GOC:mtg_berkeley_2013 xsd:string is_a: has_output ! has output is_a: results_in_developmental_progression_of ! results in developmental progression of inverse_of: RO:0002354 ! formed as result of [Typedef] id: results_in_fusion_of name: results in fusion of namespace: external subset: http://purl.obolibrary.org/obo/valid_for_go_annotation_extension subset: http://purl.obolibrary.org/obo/valid_for_go_ontology subset: http://purl.obolibrary.org/obo/valid_for_gocam xref: RO:0012008 is_a: results_in_organization_of ! results in organization of created_by: pg creation_date: 2021-02-26T07:28:29Z [Typedef] id: results_in_growth_of name: results in growth of namespace: external xref: RO:0002343 property_value: example_of_usage "'pollen tube growth' results_in growth_of some 'pollen tube'" xsd:string property_value: IAO:0000117 "Chris Mungall" xsd:string is_a: results_in_developmental_progression_of ! results in developmental progression of is_a: RO:0040036 ! results in changes to anatomical or cellular structure [Typedef] id: results_in_maturation_of name: results in maturation of namespace: external def: "The relationship that links an entity with a process that results in the progression of the entity over time that is independent of changes in it's shape and results in an end point state of that entity." [] subset: http://purl.obolibrary.org/obo/valid_for_go_annotation_extension subset: http://purl.obolibrary.org/obo/valid_for_go_ontology subset: http://purl.obolibrary.org/obo/valid_for_gocam xref: RO:0002299 property_value: example_of_usage " an annotation of gene X to cell maturation with results_in_maturation_of CL:0000057 (fibroblast) means that the fibroblast is mature at the end of the process" xsd:string property_value: example_of_usage "bone maturation (GO:0070977) results_in_maturation_of bone (UBERON:0001474)" xsd:string property_value: IAO:0000114 IAO:0000125 property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000119 GOC:mtg_berkeley_2013 xsd:string is_a: results_in_developmental_progression_of ! results in developmental progression of is_a: RO:0040036 ! results in changes to anatomical or cellular structure [Typedef] id: results_in_morphogenesis_of name: results in morphogenesis of namespace: external def: "The relationship that links an entity with the process that results in the formation and shaping of that entity over time from an immature to a mature state." [] subset: http://purl.obolibrary.org/obo/valid_for_go_annotation_extension subset: http://purl.obolibrary.org/obo/valid_for_go_ontology subset: http://purl.obolibrary.org/obo/valid_for_gocam xref: RO:0002298 property_value: example_of_usage "an annotation of gene X to cell morphogenesis with results_in_morphogenesis_of CL:0000540 (neuron) means that at the end of the process an input neuron has attained its shape." xsd:string property_value: example_of_usage "tongue morphogenesis (GO:0043587) results in morphogenesis of tongue (UBERON:0001723)" xsd:string property_value: IAO:0000114 IAO:0000125 property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000119 GOC:mtg_berkeley_2013 xsd:string is_a: results_in_developmental_progression_of ! results in developmental progression of is_a: RO:0040036 ! results in changes to anatomical or cellular structure [Typedef] id: results_in_organization_of name: results in organization of namespace: external def: "p results in organization of c iff p results in the assembly, arrangement of constituent parts, or disassembly of c" [] xref: RO:0002592 is_a: has_participant ! has participant is_a: RO:0040036 ! results in changes to anatomical or cellular structure [Typedef] id: results_in_transport_along name: results in transport along namespace: external def: "Holds between p and l when p is a transportation or localization process and the outcome of this process is to move c from one location to another, and the route taken by c follows a path that is aligned_with l " [] xref: RO:0002341 property_value: IAO:0000117 "Chris Mungall" xsd:string is_a: RO:0002337 ! related via localization to [Typedef] id: results_in_transport_to_from_or_in name: results in transport to from or in namespace: external xref: RO:0002344 property_value: example_of_usage "'mitochondrial transport' results_in_transport_to_from_or_in some mitochondrion (GO:0005739)" xsd:string property_value: IAO:0000117 "Chris Mungall" xsd:string is_a: RO:0002337 ! related via localization to [Typedef] id: simultaneous_with name: simultaneous with name: simultaneous_with namespace: uberon def: "Relation between occurrents, shares start and end boundaries." [Allen:is_equal_to, https://orcid.org/0000-0002-6601-2165] comment: t1 simultaneous_with t2 iff:= t1 before_or_simultaneous_with t2 and not (t1 before t2) subset: ro-eco synonym: "coincides_with" EXACT [] synonym: "is_equal_to" EXACT [] xref: RO:0002082 property_value: IAO:0000117 "David Osumi-Sutherland" xsd:string is_transitive: true is_a: ends ! ends is_a: RO:0002081 ! before or simultaneous with is_a: starts ! starts [Typedef] id: site_of name: site_of namespace: uberon def: "c site_of p if c is the bearer of a disposition that is realized by a process that has p as part." [] synonym: "capable_of_has_part" RELATED [] [Typedef] id: skeleton_of name: skeleton of namespace: uberon def: "inverse of has skeleton" [] subset: RO:0002259 xref: RO:0002576 property_value: IAO:0000117 "Chris Mungall" xsd:string domain: CARO:0000003 ! connected anatomical structure range: CARO:0000003 ! connected anatomical structure is_a: part_of ! part_of [Typedef] id: starts name: starts namespace: uberon def: "inverse of starts with" [] def: "Relation between occurrents, shares a start boundary with." [Allen:starts, https://orcid.org/0000-0002-6601-2165] subset: ro-eco xref: RO:0002223 property_value: IAO:0000114 IAO:0000125 property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000119 "Allen" xsd:string is_a: part_of ! part_of is_a: temporally_related_to ! temporally related to inverse_of: starts_with ! starts with [Typedef] id: starts_with name: starts with namespace: external namespace: uberon def: "x starts with y if and only if x has part y and the time point at which x starts is equivalent to the time point at which y starts. Formally: α(y) = α(x) ∧ ω(y) < ω(x), where α is a function that maps a process to a start point, and ω is a function that maps a process to an end point." [] subset: ro-eco xref: RO:0002224 property_value: example_of_usage "Every insulin receptor signaling pathway starts with the binding of a ligand to the insulin receptor" xsd:string property_value: IAO:0000114 IAO:0000125 property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000118 "started by" xsd:string is_transitive: true is_a: has_part ! has_part is_a: temporally_related_to ! temporally related to [Typedef] id: subdivision_of name: subdivision of namespace: uberon comment: placeholder relation. X = 'subdivision of A' and subdivision_of some B means that X is the mereological sum of A and B xref: subdivision_of [Typedef] id: superficial_to name: superficial to name: superficial_to namespace: uberon def: "Near the outer surface of the organism. Thus, skin is superficial to the muscle layer." [http://orcid.org/0000-0002-6601-2165] def: "Near the outer surface of the organism. Thus, skin is superficial to the muscle layer." [BSPO:cjm] xref: BSPO:0000108 is_transitive: true [Typedef] id: supplies name: supplies namespace: uberon def: "Relation between an arterial structure and another structure, where the arterial structure acts as a conduit channeling fluid, substance or energy." [] def: "relation between an artery and the structure is supplies with blood." [] comment: source: FMA synonym: "arterial supply of" EXACT [FMA:86003] xref: RO:0002178 property_value: editor_note "Individual ontologies should provide their own constraints on this abstract relation. For example, in the realm of anatomy this should hold between an artery and an anatomical structure" xsd:string property_value: IAO:0000119 http://www.ncbi.nlm.nih.gov/pubmed/20064205 property_value: seeAlso FMA:86003 domain: UBERON:0001637 ! artery is_a: connected_to ! connected to [Typedef] id: surrounded_by name: surrounded by name: surrounded_by namespace: uberon def: "x surrounded_by y if and only if (1) x is adjacent to y and for every region r that is adjacent to x, r overlaps y (2) the shared boundary between x and y occupies the majority of the outermost boundary of x" [] def: "x surrounded_by y iff: x is adjacent to y and for every region r adjacent to x, r overlaps y" [https://orcid.org/0000-0002-6601-2165] def: "x surrounded_by y iff: x is adjacent to y and for every region r adjacent to x, r overlaps y." [https://orcid.org/0000-0002-6601-2165] xref: RO:0002219 property_value: IAO:0000114 IAO:0000125 property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: RO:0001900 RO:0001901 is_a: adjacent_to ! adjacent_to inverse_of: surrounds ! surrounds [Typedef] id: surrounds name: surrounds namespace: uberon def: "inverse of surrounded by" [] def: "inverse of surrounded_by" [https://orcid.org/0000-0002-6601-2165] def: "inverse of surrounded_by." [https://orcid.org/0000-0002-6601-2165] subset: RO:0002259 xref: RO:0002221 property_value: IAO:0000114 IAO:0000125 property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: RO:0001900 RO:0001901 is_a: adjacent_to ! adjacent_to [Typedef] id: synapsed_by name: synapsed by namespace: uberon def: "Relation between an anatomical structure (including cells) and a neuron that chemically synapses to it." [] [Typedef] id: temporally_related_to name: temporally related to comment: A relation that holds between two occurrents. This is a grouping relation that collects together all the Allen relations. subset: ro-eco xref: RO:0002222 property_value: http://purl.org/dc/terms/source https://docs.google.com/document/d/1kBv1ep_9g3sTR-SD3jqzFqhuwo9TPNF-l-9fUDbO6rM/edit?pli=1 xsd:anyURI property_value: IAO:0000114 IAO:0000125 property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000119 https://en.wikipedia.org/wiki/Allen%27s_interval_algebra property_value: IAO:0000232 "Do not use this relation directly. It is ended as a grouping for relations between occurrents involving the relative timing of their starts and ends." xsd:string property_value: isDefinedBy http://purl.obolibrary.org/obo/ro.owl domain: BFO:0000003 ! occurrent range: BFO:0000003 ! occurrent [Typedef] id: transformation_of name: transformation of namespace: uberon def: "x transformation of y if x is the immediate transformation of y, or is linked to y through a chain of transformation relationships" [] synonym: "transforms from" EXACT [SIO:000657] xref: RO:0002494 property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: seeAlso SIO:000657 is_transitive: true is_a: develops_from ! develops from [Typedef] id: transitively_anteriorly_connected_to name: transitively anteriorly connected to namespace: uberon def: "." [http://purl.obolibrary.org/obo/uberon/docs/Connectivity-Design-Pattern] xref: transitively_anteriorly_connected_to is_transitive: true [Typedef] id: transitively_connected_to name: transitively_connected to namespace: uberon xref: transitively_connected_to is_transitive: true [Typedef] id: transitively_distally_connected_to name: transitively distally connected to namespace: uberon def: "." [http://purl.obolibrary.org/obo/uberon/docs/Connectivity-Design-Pattern] xref: transitively_distally_connected_to is_transitive: true [Typedef] id: transitively_proximally_connected_to name: transitively proximally connected to namespace: uberon def: "." [http://purl.obolibrary.org/obo/uberon/docs/Connectivity-Design-Pattern] xref: transitively_proximally_connected_to is_transitive: true [Typedef] id: transports_or_maintains_localization_of name: transports or maintains localization of namespace: external def: "Holds between p and c when p is a localization process (localization covers maintenance of localization as well as its establishment) and the outcome of this process is to regulate the localization of c." [] subset: http://purl.obolibrary.org/obo/valid_for_go_annotation_extension subset: http://purl.obolibrary.org/obo/valid_for_go_ontology subset: http://purl.obolibrary.org/obo/valid_for_gocam xref: RO:0002313 property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000118 "regulates localization of" xsd:string is_a: RO:0002337 ! related via localization to is_a: RO:0040036 ! results in changes to anatomical or cellular structure [Typedef] id: tributary_of name: tributary of name: tributary_of namespace: uberon def: "x tributary_of y if and only if x a channel for the flow of a substance into y, where y is larger than x. If x and y are hydrographic features, then y is the main stem of a river, or a lake or bay, but not the sea or ocean. If x and y are anatomical, then y is a vein." [] subset: ro-eco synonym: "drains into" RELATED [dbpowl:drainsTo] xref: RO:0002376 property_value: example_of_usage "Deschutes River tributary_of Columbia River" xsd:string property_value: example_of_usage "inferior epigastric vein tributary_of external iliac vein" xsd:string property_value: IAO:0000114 IAO:0000428 property_value: IAO:0000117 "Chris Mungall" xsd:string property_value: IAO:0000118 "drains into" xsd:string property_value: IAO:0000118 "drains to" xsd:string property_value: IAO:0000118 "tributary channel of" xsd:string property_value: IAO:0000119 http://en.wikipedia.org/wiki/Tributary xsd:string property_value: IAO:0000119 http://www.medindia.net/glossary/venous_tributary.htm xsd:string property_value: IAO:0000232 "This relation can be used for geographic features (e.g. rivers) as well as anatomical structures (veins, arteries)" xsd:anyURI property_value: seeAlso http://dbpedia.org/ontology/drainsTo property_value: seeAlso http://en.wikipedia.org/wiki/Tributary xsd:anyURI is_a: connected_to ! connected to is_a: RO:0002375 ! in branching relationship with [Typedef] id: ventral_to name: ventral to name: ventral_to namespace: uberon def: "x ventral to y iff x is further along the dorso-ventral axis than y, towards the front. A dorso-ventral axis is an axis that extends through an organism from back (e.g. spinal column) to front (e.g. belly)." [BSPO:cjm] def: "x ventral_to y iff x is further along the dorso-ventral axis than y, towards the front. A dorso-ventral axis is an axis that bisects an organism from back (e.g. spinal column) to front (e.g. belly)." [http://orcid.org/0000-0002-6601-2165] xref: BSPO:0000102 is_transitive: true