PERSON: Fernanda Farinelli
This owl file represents the necessary entities of OGMS that are reused in OntONeo Ontology. This file was created using Ontofox and some intermediary entities were not imported.
The Ontology for General Medical Science (OGMS) subset applied to OntONeo ontology.
The Ontology for General Medical Science (OGMS)
editor preferred term
The concise, meaningful, and human-friendly name for a class or property preferred by the ontology developers. (US-English)
PERSON:Daniel Schober
GROUP:OBI:<http://purl.obolibrary.org/obo/obi>
editor preferred term
example
A phrase describing how a class name should be used. May also include other kinds of examples that facilitate immediate understanding of a class semantics, such as widely known prototypical subclasses or instances of the class. Although essential for high level terms, examples for low level terms (e.g., Affymetrix HU133 array) are not
PERSON:Daniel Schober
GROUP:OBI:<http://purl.obolibrary.org/obo/obi>
example of usage
has curation status
PERSON:Alan Ruttenberg
PERSON:Bill Bug
PERSON:Melanie Courtot
OBI_0000281
has curation status
definition
The official definition, explaining the meaning of a class or property. Shall be Aristotelian, formalized and normalized. Can be augmented with colloquial definitions.
PERSON:Daniel Schober
GROUP:OBI:<http://purl.obolibrary.org/obo/obi>
definition
definition
editor note
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.
PERSON:Daniel Schober
GROUP:OBI:<http://purl.obfoundry.org/obo/obi>
editor note
editor note
term editor
Name of editor entering the term in the file. The term editor is a point of contact for information regarding the term. The term editor may be, but is not always, the author of the definition, which may have been worked upon by several people
20110707, MC: label update to term editor and definition modified accordingly. See http://code.google.com/p/information-artifact-ontology/issues/detail?id=115.
PERSON:Daniel Schober
GROUP:OBI:<http://purl.obolibrary.org/obo/obi>
definition editor
term editor
alternative term
An alternative name for a class or property which means the same thing as the preferred name (semantically equivalent)
PERSON:Daniel Schober
GROUP:OBI:<http://purl.obolibrary.org/obo/obi>
alternative term
definition source
formal citation, e.g. identifier in external database to indicate / attribute source(s) for the definition. Free text indicate / attribute source(s) for the definition. EXAMPLE: Author Name, URI, MeSH Term C04, PUBMED ID, Wiki uri on 31.01.2007
PERSON:Daniel Schober
Discussion on obo-discuss mailing-list, see http://bit.ly/hgm99w
GROUP:OBI:<http://purl.obolibrary.org/obo/obi>
definition source
definition source
curator note
An administrative note of use for a curator but of no use for a user
PERSON:Alan Ruttenberg
curator note
curator note
imported from
For external terms/classes, the ontology from which the term was imported
PERSON:Alan Ruttenberg
PERSON:Melanie Courtot
GROUP:OBI:<http://purl.obolibrary.org/obo/obi>
imported from
elucidation
person:Alan Ruttenberg
Person:Barry Smith
Primitive terms in a highest-level ontology such as BFO are terms which are so basic to our understanding of reality that there is no way of defining them in a non-circular fashion. For these, therefore, we can provide only elucidations, supplemented by examples and by axioms
elucidation
has associated axiom(nl)
Person:Alan Ruttenberg
Person:Alan Ruttenberg
An axiom associated with a term expressed using natural language
has associated axiom(nl)
has associated axiom(fol)
Person:Alan Ruttenberg
Person:Alan Ruttenberg
An axiom expressed in first order logic using CLIF syntax
has associated axiom(fol)
A representation that is either the output of a clinical history taking or a physical examination or an image finding, or some combination thereof.
Albert Goldfain
http://ontology.buffalo.edu/medo/Disease_and_Diagnosis.pdf
creation date: 2010-07-19T10:18:02Z
clinical finding
A series of statements representing health-relevant qualities of a patient and of a patient's family.
Albert Goldfain
http://ontology.buffalo.edu/medo/Disease_and_Diagnosis.pdf
creation date: 2010-07-19T10:18:59Z
clinical history
A representation of an image that supports an inference to an assertion about some quality of a patient.
Albert Goldfain
http://ontology.buffalo.edu/medo/Disease_and_Diagnosis.pdf
creation date: 2009-06-23T10:21:10Z
image finding
A representation of a quality of a specimen that is the output of a laboratory test and that can support an inference to an assertion about some quality of the patient.
Albert Goldfain
http://ontology.buffalo.edu/medo/Disease_and_Diagnosis.pdf
creation date: 2009-06-23T10:21:58Z
laboratory finding
A quality of a patient that is observed by the patient or a processual entity experienced by the patient, either of which is hypothesized by the patient to be a realization of a disease.
note: defined class
http://ontology.buffalo.edu/medo/Disease_and_Diagnosis.pdf
creation date: 2010-11-18T11:02:10Z
SYMP:0000462
symptom
A quality of a patient, a material entity that is part of a patient, or a processual entity that a patient participates in, any one of which is observed in a physical examination and is deemed by the clinician to be of clinical significance.
note: defined class
Albert Goldfain
http://ontology.buffalo.edu/medo/Disease_and_Diagnosis.pdf
creation date: 2010-11-18T11:14:36Z
sign
A physical sign in which a non-zero value is standardly considered to be an indication that the organism is alive.
Albert Goldfain
http://ontology.buffalo.edu/medo/Disease_and_Diagnosis.pdf
creation date: 2009-06-23T11:19:17Z
vital sign
A disposition (i) to undergo pathological processes that (ii) exists in an organism because of one or more disorders in that organism.
Albert Goldfain
http://ontology.buffalo.edu/medo/Disease_and_Diagnosis.pdf
creation date: 2009-06-23T11:21:20Z
disease
A material entity which is clinically abnormal and part of an extended organism. Disorders are the physical basis of disease.
Albert Goldfain
http://ontology.buffalo.edu/medo/Disease_and_Diagnosis.pdf
creation date: 2009-06-23T11:39:44Z
disorder
A measurement assay that has as input a patient-derived specimen, and as output a result that represents a quality of the specimen.
Albert Goldfain
http://ontology.buffalo.edu/medo/Disease_and_Diagnosis.pdf
creation date: 2009-06-23T11:49:49Z
laboratory test
A sequence of acts of observing and measuring qualities of a patient performed by a clinician; measurements may occur with and without elicitation.
Albert Goldfain
http://ontology.buffalo.edu/medo/Disease_and_Diagnosis.pdf
creation date: 2010-07-19T11:50:18Z
physical examination
Albert Goldfain
creation date: 2009-06-23T11:53:49Z
bodily process
A bodily process that is clinically abnormal.
Albert Goldfain
http://ontology.buffalo.edu/medo/Disease_and_Diagnosis.pdf
creation date: 2009-06-23T11:54:29Z
pathological bodily process
The representation of a conclusion of a diagnostic process.
Albert Goldfain
http://ontology.buffalo.edu/medo/Disease_and_Diagnosis.pdf
creation date: 2009-06-23T12:42:23Z
diagnosis
A value for a quality reported in a lab report and asserted by the testing lab or the kit manufacturer to be normal based on a statistical treatment of values from a reference population.
Albert Goldfain
http://ontology.buffalo.edu/medo/Disease_and_Diagnosis.pdf
creation date: 2009-06-26T10:31:34Z
normal value
A clinical finding that is the output of a physical examination.
Albert Goldfain
http://code.google.com/p/ogms/issues/detail?id=26
creation date: 2009-11-24T04:51:11Z
physical examination finding
A pattern of signs and symptoms that typically co-occur.
Albert Goldfain
http://code.google.com/p/ogms/issues/detail?id=32
creation date: 2009-11-24T04:51:11Z
syndrome
A communication from a patient about something they perceive as being abnormal about their body or life.
Albert Goldfain
http://code.google.com/p/ogms/issues/detail?id=12
creation date: 2010-01-25T04:51:11Z
patient symptom report
A structurally anomalous part of an organism acquired during fetal development and present at birth (but not necessarily hereditary) which is hypothesized to be harmful for the organism.
Albert Goldfain
http://code.google.com/p/ogms/issues/detail?id=28
creation date: 2010-03-31T04:51:11Z
congenital malformation
A processual entity whose completion is hypothesized (by a healthcare provider) to alleviate the signs and symptoms associated with a disorder
Albert Goldfain
http://code.google.com/p/ogms/issues/detail?id=35
creation date: 2010-03-31T04:51:11Z
treatment
A processual entity which has as parts all the processes in which a given organism is participant.
Albert Goldfain
http://code.google.com/p/ogms/issues/detail?id=38
creation date: 2010-03-31T04:51:11Z
life course
A hypothesis about some future part of a disease course.
Albert Goldfain
http://code.google.com/p/ogms/issues/detail?id=35
creation date: 2010-03-31T12:42:23Z
prognosis
A process which is a response by an organism's tissues that is generally identified by swelling or localized pain
Albert Goldfain
http://code.google.com/p/ogms/wiki/Meeting_notes_20100513
creation date: 2010-07-19T11:57:44Z
inflammation process
A social process that has at least one human participant and that includes as parts the treatment, diagnosis, or prevention of disease or injury--or the following of instructions of another human for treatment, diagnosis, or prevention--of a participant in the process
Albert Goldfain
http://groups.google.com/group/ogms-discuss/browse_thread/thread/a2dbc2ed1dff99d6
creation date: 2011-02-21T09:57:44Z
health care process
A temporally-connected health care process that has as participants an organization or person realizing the health care provider role and a person realizing the patient role. The health care provider role and patient are realized during the health care encounter
Albert Goldfain
http://groups.google.com/group/ogms-discuss/browse_thread/thread/a2dbc2ed1dff99d6
creation date: 2011-02-21T09:57:44Z
health care encounter
TODO
Albert Goldfain
http://groups.google.com/group/ogms-discuss/browse_thread/thread/a2dbc2ed1dff99d6
creation date: 2011-02-21T09:57:44Z
hospitalization
TODO
Albert Goldfain
http://groups.google.com/group/ogms-discuss/browse_thread/thread/a2dbc2ed1dff99d6
creation date: 2011-02-21T09:57:44Z
outpatient encounter
TODO
Albert Goldfain
http://groups.google.com/group/ogms-discuss/browse_thread/thread/a2dbc2ed1dff99d6
creation date: 2011-02-21T09:57:44Z
inpatient encounter
TODO
Albert Goldfain
http://groups.google.com/group/ogms-discuss/browse_thread/thread/a2dbc2ed1dff99d6
creation date: 2011-02-21T09:57:44Z
ED encounter
A part of an organism that has undergone a change in structural integrity and has a higher chance of dysfunction or causing dysfunction in another structure..
At the scale of organism (as opposed to the cellular scale or the population scale), an injury is typically the result of a catastrophic event. Consider the implications of making 'injury' a subtype of 'disorder'.
Note: Adopted subtype of disorder, and injury can occur at the scale of organism down to cellular level.
Albert Goldfain
Sagar Jain
http://groups.google.com/group/ogms-discuss/browse_thread/thread/ca0ad373f27774c5
OGMS call adoption- 16 SEPT 2015
https://docs.google.com/document/d/1iiV1-fTS7BUUSzDw3N_Afx42698YWf54-FOTY2NkAxo/edit
creation date: 2011-09-20T09:57:44Z
edited date: 30 SEPT 2015
injury
An interpretive process that has as input a clinical picture of a given patient and as output an assertion to the effect that the patient has a disease, disorder, or syndrome of a certain type, or none of these.
Albert Goldfain
http://groups.google.com/group/ogms-discuss/browse_thread/thread/2a7008f311fac766/e7de486c94dfd82e
creation date: 2011-09-20T09:57:44Z
diagnostic process