Becky Steck
Christopher Park
John F. O’Toole
Matthias Kretzler
Sean Mooney
Anthony Huffman
Asiyah Yu Lin
Fred Dowd
Hong Yu
Hong Yu
Jennifer Schaub
Jie Zheng
Long Tran
Qingliang Leon Li
Suyuan Peng
Yongqun "Oliver" He (YH)
3-15-2024
OPMI is a biomedical ontology in the area of precision medicine and its related investigations. It is community-driven and developed by following the OBO Foundry ontology development principles.
OWL-DL
OPMI subject: Precision medicine and related investigations
OPMI: Ontology of Precision Medicine and Investigation
http://creativecommons.org/licenses/by/4.0/
Vision Release: 1.0.166
BFO OWL specification label
Relates an entity in the ontology to the name of the variable that is used to represent it in the code that generates the BFO OWL file from the lispy specification.
Really of interest to developers only
BFO OWL specification label
BFO OWL specification label
BFO CLIF specification label
Relates an entity in the ontology to the term that is used to represent it in the the CLIF specification of BFO2
Person:Alan Ruttenberg
Really of interest to developers only
BFO CLIF specification label
BFO CLIF specification label
editor preferred label
editor preferred label
editor preferred term
editor preferred term
editor preferred term~editor preferred label
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 label
editor preferred label
editor preferred term
editor preferred term
editor preferred term~editor preferred label
example
example of usage
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
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.
PERSON:Daniel Schober
GROUP:OBI:<http://purl.obolibrary.org/obo/obi>
example of usage
example of usage
has curation status
PERSON:Alan Ruttenberg
PERSON:Bill Bug
PERSON:Melanie Courtot
OBI_0000281
has curation status
has curation status
definition
definition
textual definition
English language definitions of what NCI means by the concept. These are limited to 1024 characters. They may also include information about the definition's source and attribution in a form that can easily be interpreted by software.
The official OBI definition, explaining the meaning of a class or property. Shall be Aristotelian, formalized and normalized. Can be augmented with colloquial definitions.
The official definition, explaining the meaning of a class or property. Shall be Aristotelian, formalized and normalized. Can be augmented with colloquial definitions.
2012-04-05:
Barry Smith
The official OBI definition, explaining the meaning of a class or property: 'Shall be Aristotelian, formalized and normalized. Can be augmented with colloquial definitions' is terrible.
Can you fix to something like:
A statement of necessary and sufficient conditions explaining the meaning of an expression referring to a class or property.
Alan Ruttenberg
Your proposed definition is a reasonable candidate, except that it is very common that necessary and sufficient conditions are not given. Mostly they are necessary, occasionally they are necessary and sufficient or just sufficient. Often they use terms that are not themselves defined and so they effectively can't be evaluated by those criteria.
On the specifics of the proposed definition:
We don't have definitions of 'meaning' or 'expression' or 'property'. For 'reference' in the intended sense I think we use the term 'denotation'. For 'expression', I think we you mean symbol, or identifier. For 'meaning' it differs for class and property. For class we want documentation that let's the intended reader determine whether an entity is instance of the class, or not. For property we want documentation that let's the intended reader determine, given a pair of potential relata, whether the assertion that the relation holds is true. The 'intended reader' part suggests that we also specify who, we expect, would be able to understand the definition, and also generalizes over human and computer reader to include textual and logical definition.
Personally, I am more comfortable weakening definition to documentation, with instructions as to what is desirable.
We also have the outstanding issue of how to aim different definitions to different audiences. A clinical audience reading chebi wants a different sort of definition documentation/definition from a chemistry trained audience, and similarly there is a need for a definition that is adequate for an ontologist to work with.
PERSON:Daniel Schober
GROUP:OBI:<http://purl.obolibrary.org/obo/obi>
DEFINITION
definition
definition
textual 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>
GROUP:OBI:<http://purl.obofoundry.org/obo/obi>
IAO:0000116
uberon
editor_note
1
editor_note
editor note
editor note
definition editor
term editor
Name of editor entering the definition in the file. The definition editor is a point of contact for information regarding the term. The definition editor may be, but is not always, the author of the definition, which may have been worked upon by several people
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.
20110707, MC: label update to term editor and definition modified accordingly. See https://github.com/information-artifact-ontology/IAO/issues/115.
PERSON:Daniel Schober
GROUP:OBI:<http://purl.obolibrary.org/obo/obi>
definition editor
definition editor
term 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
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
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
Discussion on obo-discuss mailing-list, see http://bit.ly/hgm99w
GROUP:OBI:<http://purl.obolibrary.org/obo/obi>
definition source
definition source
has obsolescence reason
Relates an annotation property to an obsolescence reason. The values of obsolescence reasons come from a list of predefined terms, instances of the class obsolescence reason specification.
PERSON:Alan Ruttenberg
PERSON:Melanie Courtot
has obsolescence reason
curator note
An administrative note of use for a curator but of no use for a user
PERSON:Alan Ruttenberg
IAO:0000232
uberon
curator_notes
1
curator_notes
curator note
curator note
curator notes
term tracker item
term tracker item
the URI for an OBI Terms ticket at sourceforge, such as https://sourceforge.net/p/obi/obi-terms/772/
the URI for an OBI Terms ticket at sourceforge, such as https://sourceforge.net/p/obi/obi-terms/772/
An IRI or similar locator for a request or discussion of an ontology term.
An IRI or similar locator for a request or discussion of an ontology term.
Person: Jie Zheng, Chris Stoeckert, Alan Ruttenberg
Person: Jie Zheng, Chris Stoeckert, Alan Ruttenberg
Person: Jie Zheng, Chris Stoeckert, Alan Ruttenberg
Person: Jie Zheng, Chris Stoeckert, Alan Ruttenberg
The 'tracker item' can associate a tracker with a specific ontology term.
The 'tracker item' can associate a tracker with a specific ontology term.
term tracker item
ontology term requester
The name of the person, project, or organization that motivated inclusion of an ontology term by requesting its addition.
Person: Jie Zheng, Chris Stoeckert, Alan Ruttenberg
Person: Jie Zheng, Chris Stoeckert, Alan Ruttenberg
The 'term requester' can credit the person, organization or project who request the ontology term.
ontology term requester
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
imported from
expand expression to
expand expression to
expand assertion to
OBO foundry unique label
An alternative name for a class or property which is unique across the OBO Foundry.
The intended usage of that property is as follow: OBO foundry unique labels are automatically generated based on regular expressions provided by each ontology, so that SO could specify unique label = 'sequence ' + [label], etc. , MA could specify 'mouse + [label]' etc. Upon importing terms, ontology developers can choose to use the 'OBO foundry unique label' for an imported term or not. The same applies to tools .
PERSON:Alan Ruttenberg
PERSON:Bjoern Peters
PERSON:Chris Mungall
PERSON:Melanie Courtot
GROUP:OBO Foundry <http://obofoundry.org/>
OBO foundry unique label
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
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(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)
has associated axiom(fol)
C3829466
NCIT_C106180
term_mapping_to_UMLS
term_mapping_to_NCIT
A property created to allow the source NICHD to assign a parent to each concept with the intent of creating a hierarchy that includes only terms in which they are the contributing source.
A11
Conceptual Entity
Has_NICHD_Parent
Has_NICHD_Parent
Has_NICHD_Parent
true
NHC0
code
code
code
The semantic type describes the sort of thing or category to which a concept belongs in the context of the UMLS semantic network.
P106
Conceptual Entity
Semantic Type
Semantic_Type
In general, applying semantic types aids in allowing users (or computer programs) to draw conclusions about concepts by virtue of the categories to which they have been assigned. We use a set of semantic types developed for the UMLS Metathesaurus. There are currently 134 semantic types in the UMLS.
Semantic_Type
Semantic_Type
Provides an alternative Preferred Name for use in some NCI systems.
P107
Conceptual Entity
Display Name
Display_Name
Display Name
Display_Name
Display_Name
The word or phrase that NCI uses by preference to refer to the concept.
P108
Conceptual Entity
Preferred Name
Preferred_Name
Preferred Name
Preferred Term
Preferred_Name
Preferred_Name
Concept Unique Identifiers, or CUIs, are concept numbers assigned by the National Library of Medicine (NLM). If a concept in any NCI-maintained knowledgebase exists in the NLM Unified Medical Language System (UMLS), NCI includes the NLM CUI among the information we provide about the concept.
P207
Conceptual Entity
UMLS CUI
UMLS_CUI
UMLS_CUI
UMLS_CUI
Contains a Concept Unique Identifier for those concepts that appear in NCI Metathesaurus but not in the NLM UMLS.
P208
Conceptual Entity
NCI Metathesaurus CUI
NCI_META_CUI
NCI_META_CUI
NCI_META_CUI
An NCI Thesaurus property used to indicate the standing of a concept in relation to currently accepted classifications and concepts. In NCI Thesaurus concept status subtype indicates concepts with unusual and problematic characteristics that should be evaluated by people and/or programs before those concept are used.
P310
Conceptual Entity
Concept Status
Concept_Status
Concept_Status
Concept_Status
This property is used to indicate when a non-EVS entity has contributed to, and has a stake in, a concept. This is used where such entities, within or outside NCI, have indicated the need to be able to track their own concepts. A single concept can have multiple instances of this property if multiple entities have such a defined stake.
P322
Conceptual Entity
Contributing Source
Contributing_Source
Contributing_Source
Contributing_Source
English language definitions of what a source other than NCI means by the concept. These are limited to 1024 characters. They include information about the definition's source in a form that can easily be interpreted by software.
P325
Conceptual Entity
[source] Definition
ALT_DEFINITION
ALT_DEFINITION
ALT_DEFINITION
true
A retired unique concept identifier created and stored as Concept Name by legacy EVS software. Use of these values was long discouraged, but continued as late as 2009 when creation of new values ceased and Concept Name was retired. Legacy values are intended solely to help resolve and update earlier coding.
P366
Conceptual Entity
Legacy Concept Name
Legacy Concept Name
Legacy_Concept_Name
P371
Conceptual Entity
NICHD_Hierarchy_Term
NICHD
NICHD_Hierarchy_Term
NICHD_Hierarchy_Term
Design notes are notations made by NCI vocabulary curators. They are intended to provide supplemental, unstructured information to the user or additional insight about the concept.
P98
Conceptual Entity
DesignNote
DesignNote
DesignNote
DesignNote
has_MedDRA_id
ISA alternative term
An alternative term used by the ISA tools project (http://isa-tools.org).
Requested by Alejandra Gonzalez-Beltran
https://sourceforge.net/tracker/?func=detail&aid=3603413&group_id=177891&atid=886178
Person: Alejandra Gonzalez-Beltran
Person: Philippe Rocca-Serra
ISA tools project (http://isa-tools.org)
ISA alternative term
NIAID GSCID-BRC alternative term
An alternative term used by the National Institute of Allergy and Infectious Diseases (NIAID) Genomic Sequencing Centers for Infectious Diseases (GSCID) and Bioinformatics Resource Centers (BRC).
PERSON: Chris Stoeckert, Jie Zheng
NIAID GSCID-BRC metadata working group
NIAID GSCID-BRC alternative term
IEDB alternative term
An alternative term used by the IEDB.
PERSON:Randi Vita, Jason Greenbaum, Bjoern Peters
IEDB
IEDB alternative term
A subproperty of seeAlso that represents a NCIT identifier mapped to the specified term
Oliver He
term mapping to NCIT ID
A subproperty of seeAlso that represents a UMLS CUI identifier mapped to the specified term
Oliver He
term mapping to UMLS CUI
An annotation property that refers to a code defined by NCIT
NCIT code
alternative term in Chinese
An assertion that holds between an OWL Object Property and a temporal interpretation that elucidates how OWL Class Axioms that use this property are to be interpreted in a temporal context.
temporal interpretation
temporal interpretation
https://oborel.github.io/obo-relations/temporal-semantics/
https://code.google.com/p/obo-relations/wiki/ROAndTime
https://github.com/oborel/obo-relations/wiki/ROAndTime
tooth SubClassOf 'never in taxon' value 'Aves'
x never in taxon T if and only if T is a class, and x does not instantiate the class expression "in taxon some T". Note that this is a shortcut relation, and should be used as a hasValue restriction in OWL.
Chris Mungall
?X DisjointWith RO_0002162 some ?Y
never in taxon
An assertion that holds between an ontology class and an organism taxon class, which is intepreted to yield some relationship between instances of the ontology class and the taxon.
taxonomic class assertion
S dubious_for_taxon T if it is probably the case that no instances of S can be found in any instance of T.
RO:0002174
uberon
dubious_for_taxon
1
1
dubious_for_taxon
this relation lacks a strong logical interpretation, but can be used in place of never_in_taxon where it is desirable to state that the definition of the class is too strict for the taxon under consideration, but placing a never_in_taxon link would result in a chain of inconsistencies that will take time to resolve. Example: metencephalon in teleost
dubious_for_taxon
S present_in_taxon T if some instance of T has some S. This does not means that all instances of T have an S - it may only be certain life stages or sexes that have S
RO:0002175
applicable for taxon
uberon
present_in_taxon
1
1
present_in_taxon
present_in_taxon
An assertion that involves at least one OWL object that is intended to be expanded into one or more logical axioms. The logical expansion can yield axioms expressed using any formal logical system, including, but not limited to OWL2-DL.
logical macro assertion
https://github.com/oborel/obo-relations/wiki/ShortcutRelations
A logical macro assertion whose domain is an IRI for a class
The domain for this class can be considered to be owl:Class, but we cannot assert this in OWL2-DL
logical macro assertion on a class
A logical macro assertion whose domain is an IRI for a property
logical macro assertion on a property
logical macro assertion on an object property
logical macro assertion on an annotation property
relation p is the direct form of relation q iff p is a subPropertyOf q, p does not have the Transitive characteristic, q does have the Transitive characteristic, and for all x, y: x q y -> exists z1, z2, ..., zn such that x p z1 ... z2n y
If we have the annotation P is-direct-form-of Q, and we have inverses P' and Q', then it follows that P' is-direct-form-of Q'
Chris Mungall
is direct form of
An alternate textual definition for a class taken unmodified from an external source. This definition may have been used to derive a generalized definition for the new class.
UBPROP:0000001
uberon
external_definition
1
external_definition
This annotation property may be replaced with an annotation property from an external ontology such as IAO
external_definition
A textual description of an axiom loss in this ontology compared to an external ontology.
UBPROP:0000002
uberon
axiom_lost_from_external_ontology
1
axiom_lost_from_external_ontology
This annotation property may be replaced with an annotation property from an external ontology such as IAO
axiom_lost_from_external_ontology
Notes on the homology status of this class.
UBPROP:0000003
uberon
homology_notes
1
homology_notes
This annotation property may be replaced with an annotation property from an external ontology such as IAO
homology_notes
Used to connect a class to an adjectival form of its label. For example, a class with label 'intestine' may have a relational adjective 'intestinal'.
UBPROP:0000007
uberon
has_relational_adjective
1
has_relational_adjective
has_relational_adjective
Notes on the how instances of this class vary across species.
UBPROP:0000008
uberon
taxon_notes
1
taxon_notes
taxon_notes
Notes on the structure, composition or histology of instances of this class.
This annotation property may be replaced with an annotation property from an external ontology such as IAO
UBPROP:0000010
uberon
structure_notes
1
structure_notes
structure_notes
Notes on the ontogenic development of instances of this class.
This annotation property may be replaced with an annotation property from an external ontology such as IAO
UBPROP:0000011
uberon
development_notes
1
development_notes
development_notes
Notes on how similar or equivalent classes are represented in other ontologies.
This annotation property may be replaced with an annotation property from an external ontology such as IAO
UBPROP:0000012
uberon
external_ontology_notes
1
external_ontology_notes
external_ontology_notes
Notes on how lexical conventions regarding this class, in particular any issues that may arise due to homonyny or synonymy.
This annotation property may be replaced with an annotation property from an external ontology such as IAO
UBPROP:0000013
uberon
terminology_notes
1
terminology_notes
terminology_notes
A metadata relation between a class and its taxonomic rank (eg species, family)
ncbi_taxonomy
has_rank
Examples of a Contributor include a person, an
organisation, or a service. Typically, the name of a
Contributor should be used to indicate the entity.
uberon
dc-contributor
1
dc-contributor
An entity responsible for making contributions to the
content of the resource.
Contributor
Contributor
contributor
Examples of a Creator include a person, an organisation,
or a service. Typically, the name of a Creator should
be used to indicate the entity.
An entity primarily responsible for making the content
of the resource.
Creator
Creator
Typically, Date will be associated with the creation or
availability of the resource. Recommended best practice
for encoding the date value is defined in a profile of
ISO 8601 [W3CDTF] and follows the YYYY-MM-DD format.
A date associated with an event in the life cycle of the
resource.
Date
Date
Description may include but is not limited to: an abstract,
table of contents, reference to a graphical representation
of content or a free-text account of the content.
An account of the content of the resource.
Description
Description
Typically, Format may include the media-type or dimensions of
the resource. Format may be used to determine the software,
hardware or other equipment needed to display or operate the
resource. Examples of dimensions include size and duration.
Recommended best practice is to select a value from a
controlled vocabulary (for example, the list of Internet Media
Types [MIME] defining computer media formats).
The physical or digital manifestation of the resource.
Format
Format
The present resource may be derived from the Source resource
in whole or in part. Recommended best practice is to reference
the resource by means of a string or number conforming to a
formal identification system.
A reference to a resource from which the present resource
is derived.
Source
Source
Typically, a Subject will be expressed as keywords,
key phrases or classification codes that describe a topic
of the resource. Recommended best practice is to select
a value from a controlled vocabulary or formal
classification scheme.
The topic of the content of the resource.
Subject and Keywords
Subject and Keywords
Mark Miller
2018-05-11T13:47:29Z
has_alternative_id
has_broad_synonym
database_cross_reference
Fully qualified synonym, contains the string, term type, source, and an optional source code if appropriate. Each subfield is deliniated to facilitate interpretation by software.
FULL_SYN
Synonym with Source Data
has exact synonym
has_exact_synonym
has_narrow_synonym
has_obo_namespace
has_related_synonym
Used to associate the concept defining a particular terminology subset with concepts that belong to this subset.
Concept_In_Subset
in subset
in_subset
shorthand
label
label
label
uberon
foaf-depicted_by
1
foaf-depicted_by
depicted_by
is part of
my brain is part of my body (continuant parthood, two material entities)
my stomach cavity is part of my stomach (continuant parthood, immaterial entity is part of material entity)
this day is part of this year (occurrent parthood)
a core relation that holds between a part and its whole
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.
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/
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
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.)
A 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'.
part_of
BFO:0000050
uberon
part_of
part_of
part of
part of
http://www.obofoundry.org/ro/#OBO_REL:part_of
has part
my body has part my brain (continuant parthood, two material entities)
my stomach has part my stomach cavity (continuant parthood, material entity has part immaterial entity)
this year has part this day (occurrent parthood)
a core relation that holds between a whole and its part
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.
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/
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
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.)
A 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'.
has_part
BFO:0000051
uberon
has_part
has_part
has part
has part
bearer of
bearer_of
http://purl.obolibrary.org/obo/omrse.owl
is bearer of
is_bearer_of
realized in
this disease is realized in this disease course
this fragility is realized in this shattering
this investigator role is realized in this investigation
is realized by
realized_in
http://purl.obolibrary.org/obo/ro.owl
[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])
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
realized in
realizes
this disease course realizes this disease
this investigation realizes this investigator role
this shattering realizes this fragility
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])
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
realizes
preceded by
X preceded_by Y iff: end(Y) before_or_simultaneous_with start(X)
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.
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.
is preceded by
preceded_by
http://www.obofoundry.org/ro/#OBO_REL:preceded_by
BFO:0000062
is preceded by
takes place after
uberon
preceded_by
preceded_by
preceded by
preceded_by
precedes
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.
BFO:0000063
uberon
precedes
precedes
precedes
precedes
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
occurs_in
unfolds in
unfolds_in
Paraphrase of definition: a relation between a process and an independent continuant, in which the process takes place entirely within the independent continuant
occurs in
site of
[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
Paraphrase of definition: a relation between an independent continuant and a process, in which the process takes place entirely within the independent continuant
contains process
span-of
spanOf
[copied from inverse property 'occupies temporal region'] p occupies_temporal_region t. This is a primitive relation between an occurrent p and the temporal region t upon which the spatiotemporal region p occupies_spatiotemporal_region projects. (axiom label in BFO2 Reference: [132-001])
has temporal occupant
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
cjm
2009-07-31T02:15:46Z
BSPO:0000096
uberon
anterior_to
anterior_to
anterior_to
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).
BSPO:0000098
uberon
dorsal_to
dorsal_to
dorsal_to
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).
BSPO:0000102
uberon
ventral_to
ventral_to
ventral_to
Further away from the surface of the organism. Thus, the muscular layer is deep to the skin, but superficial to the intestines.
BSPO:0000107
uberon
deep_to
deep_to
deep_to
Near the outer surface of the organism. Thus, skin is superficial to the muscle layer.
BSPO:0000108
uberon
superficial_to
superficial_to
superficial_to
X proximal_side_of Y <=> if Y is subdivided into distal and proximal portions, X is part_of the proximal portion.
BSPO:0000124
uberon
in_proximal_side_of
in_proximal_side_of
in_proximal_side_of
X distal_side_of Y <=> if Y is subdivided into distal and proximal portions, X is part_of the distal portion.
BSPO:0000125
uberon
in_distal_side_of
in_distal_side_of
in_distal_side_of
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
BSPO:0000126
uberon
in_lateral_side_of
in_lateral_side_of
in_lateral_side_of
https://github.com/obophenotype/uberon/wiki/Modeling-paired-structures-Design-Pattern
X proximalmost_part_of Y <=> X is part_of Y and X is adjacent_to the proximal boundary of Y
BSPO:0001106
uberon
proximalmost_part_of
proximalmost_part_of
proximalmost_part_of
has measurement unit label
This document is about information artifacts and their representations
A (currently) primitive relation that relates an information artifact to an entity.
is_about is a (currently) primitive relation that relates an information artifact to an entity.
7/6/2009 Alan Ruttenberg. Following discussion with Jonathan Rees, and introduction of "mentions" relation. Weaken the is_about relationship to be primitive.
We will try to build it back up by elaborating the various subproperties that are more precisely defined.
Some 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.
person:Alan Ruttenberg
Smith, Ceusters, Ruttenberg, 2000 years of philosophy
is about
A person's name denotes the person. A variable name in a computer program denotes some piece of memory. Lexically equivalent strings can denote different things, for instance "Alan" can denote different people. In each case of use, there is a case of the denotation relation obtaining, between "Alan" and the person that is being named.
A primitive, instance-level, relation obtaining between an information content entity and some portion of reality. Denotation is what happens when someone creates an information content entity E in order to specifically refer to something. The only relation between E and the thing is that E can be used to 'pick out' the thing. This relation connects those two together. Freedictionary.com sense 3: To signify directly; refer to specifically
denotes is a primitive, instance-level, relation obtaining between an information content entity and some portion of reality. Denotation is what happens when someone creates an information content entity E in order to specifically refer to something. The only relation between E and the thing is that E can be used to 'pick out' the thing. This relation connects those two together. Freedictionary.com sense 3: To signify directly; refer to specifically
2009-11-10 Alan Ruttenberg. Old definition said the following to emphasize the generic nature of this relation. We no longer have 'specifically denotes', which would have been primitive, so make this relation primitive.
g denotes r =def
r is a portion of reality
there is some c that is a concretization of g
every c that is a concretization of g specifically denotes r
person:Alan Ruttenberg
Conversations with Barry Smith, Werner Ceusters, Bjoern Peters, Michel Dumontier, Melanie Courtot, James Malone, Bill Hogan
denotes
inverse of the relation 'denotes'
Person: Jie Zheng, Chris Stoeckert, Mike Conlon
denoted by
relates a process to a time-measurement-datum that represents the duration of the process
Person:Alan Ruttenberg
is duration of
An adverse event has a participant quality, such as a hyperkalemia AE has a participatn quality blood potassium increased.
an object property that represents a relation between a process and a quality, in which the process has a participant that has the quality.
This is a shortcut relation of the following full version:
'has participant' some (participant 'has quality' )
in: process 'has participant' some (participant 'has quality' some quality)
Yongqun He
has participant quality
a 'occurs in' relation that is applied at the adverse event setting and indicates where an adverse event occurs in.
Yongqun He
adverse event occurs in
AE occurs in
a specific 'preceded by' object property that has a domain of an adverse event.
Yongqun He
adverse event preceded by
provides_service_consumer_with
The provides_service_consumer_with relation links the service to its primary process it provides for the consumer (as opposed to secondary processual parts of a service process such as payment or documentation). For example, a 'DNA sequencing service' provides_service_consumer_with 'DNA sequencing' as the essential process performed by the provider for the client.
A relation between a service and the primary processual part of the service that is performed by the provider for the consumer.
provides_service_consumer_with
is_supported_by_data
The relation between the conclusion "Gene tpbA is involved in EPS production" and the data items produced using two sets of organisms, one being a tpbA knockout, the other being tpbA wildtype tested in polysacharide production assays and analyzed using an ANOVA.
The relation between a data item and a conclusion where the conclusion is the output of a data interpreting process and the data item is used as an input to that process
OBI
OBI
Philly 2011 workshop
is_supported_by_data
has_specified_input
has_specified_input
see is_input_of example_of_usage
A relation between a planned process and a continuant participating in that process that is not created during the process. The presence of the continuant during the process is explicitly specified in the plan specification which the process realizes the concretization of.
The inverse property of is_specified_input_of
8/17/09: specified inputs of one process are not necessarily specified inputs of a larger process that it is part of. This is in contrast to how 'has participant' works.
PERSON: Alan Ruttenberg
PERSON: Bjoern Peters
PERSON: Larry Hunter
PERSON: Melanie Coutot
has_specified_input
is_specified_input_of
some Autologous EBV(Epstein-Barr virus)-transformed B-LCL (B lymphocyte cell line) is_input_for instance of Chromum Release Assay described at https://wiki.cbil.upenn.edu/obiwiki/index.php/Chromium_Release_assay
A relation between a planned process and a continuant participating in that process that is not created during the process. The presence of the continuant during the process is explicitly specified in the plan specification which the process realizes the concretization of.
Alan Ruttenberg
PERSON:Bjoern Peters
is_specified_input_of
has_specified_output
has_specified_output
A relation between a planned process and a continuant participating in that process. The presence of the continuant at the end of the process is explicitly specified in the objective specification which the process realizes the concretization of.
The inverse property of is_specified_output_of
PERSON: Alan Ruttenberg
PERSON: Bjoern Peters
PERSON: Larry Hunter
PERSON: Melanie Courtot
has_specified_output
is_specified_output_of
is_specified_output_of
A relation between a planned process and a continuant participating in that process. The presence of the continuant at the end of the process is explicitly specified in the objective specification which the process realizes the concretization of.
Alan Ruttenberg
PERSON:Bjoern Peters
is_specified_output_of
is_specified_output_of
achieves_planned_objective
A cell sorting process achieves the objective specification 'material separation objective'
This relation obtains between a planned process and a objective specification when the criteria specified in the objective specification are met at the end of the planned process.
BP, AR, PPPB branch
PPPB branch derived
modified according to email thread from 1/23/09 in accordince with DT and PPPB branch
achieves_planned_objective
has grain
the relation of the cells in the finger of the skin to the finger, in which an indeterminate number of grains are parts of the whole by virtue of being grains in a collective that is part of the whole, and in which removing one granular part does not nec- essarily damage or diminish the whole. Ontological Whether there is a fixed, or nearly fixed number of parts - e.g. fingers of the hand, chambers of the heart, or wheels of a car - such that there can be a notion of a single one being missing, or whether, by contrast, the number of parts is indeterminate - e.g., cells in the skin of the hand, red cells in blood, or rubber molecules in the tread of the tire of the wheel of the car.
Discussion in Karslruhe with, among others, Alan Rector, Stefan Schulz, Marijke Keet, Melanie Courtot, and Alan Ruttenberg. Definition take from the definition of granular parthood in the cited paper. Needs work to put into standard form
PERSON: Alan Ruttenberg
PAPER: Granularity, scale and collectivity: When size does and does not matter, Alan Rector, Jeremy Rogers, Thomas Bittner, Journal of Biomedical Informatics 39 (2006) 333-349
has grain
objective_achieved_by
This relation obtains between an objective specification and a planned process when the criteria specified in the objective specification are met at the end of the planned process.
OBI
OBI
objective_achieved_by
has organization member
has value specification
A relation between an information content entity and a value specification that specifies its value.
PERSON: James A. Overton
OBI
has value specification
BFO relation takes precedence.
We anticipate BFO 2.0 including and defining this relation. When it does, we will obsolete this property and declare it equivalent to the BFO 2.0 relation.
is-aggregate-of
true
A kidney biopsy protocol is executed in a kidney biopsy process.
A shortcut relation that is concretized and realized in some process.
Jie Zheng, Oliver He
executed in
A 'has part' object property that has the range of a textual question
Oliver He
has question
form generated by
An object property that indicates a relation between a question and an answer
has answer to question
has answer
An object property that represents a relation between a form and a question where the question sets up an exclusion criterion. Specifically, when the answer to the question is Yes, the candidate becomes ineligible for the participation of a study.
Fred Dowd, Oliver He
has exclusion question
An object property that represents a relation between a form and a question where the question sets up an inclusion criterion. Specifically, when the answer to the question is Yes, then the candidate fulfills a criterion for being eligible for participating in a study. Note that there might be other criteria that the candidate also need to meet in order to be fully eligible. Meanwhile, if the answer is No, the candidate may still be eligible depending on the other restriction.
Fred Dowd, Oliver He
has inclusion question
has process quality
An object property that represents a relation between a person with a biological sex and a process where the person has a specific susceptbility to a process
Anthony Huffman, Oliver He
has sex-specific susceptibility to
An object property that represents a relation between a person with a biological sex and a process where the person has an increased susceptbility to a process compared to corresponding male population
Anthony Huffman, Oliver He
has increased susceptibility compared to male to
Male has increased susceptibility to death due to COVID-19 infection compared to female. Note that in this case, the male can mean one single male individual. however, the female here means the whole female population. It is reported that the ratio of deaths in COVID-19 infected males to females is 1·21:1 in high-income countries, but 2·8:1 in low-income countries (Reference: https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8023692/).
An object property that represents a relation between a person with a biological sex and a process where the person has an increased susceptbility to a process compared to corresponding female population
Anthony Huffman, Oliver He
has increased susceptibility compared to female to
An object property that represents a relation between a person with a biological sex and a process where the person has an increased susceptbility to a process compared to the whole population with all sexes included
Anthony Huffman, Oliver He
has increased sex-specific susceptibility compared to sex baseline to
A care_site has a care_site_id (OMOP: http://ohdsi.github.io/CommonDataModel/cdm54.html#CARE_SITE)
An object property that represents a relation between an entity and its corresponding identifier that is owned by the entity.
Oliver He, Long Tran
has identifier
A patient was admitted to the hospital from home or a long-term care facility.
An object property that represents a relation between a patient and a site from which the patient was admitted.
Long Tran, Oliver He
http://ohdsi.github.io/CommonDataModel/cdm54.html#VISIT_OCCURRENCE
admitted from
After a visit, a person was discharged to home or a long-term care site. Typically this applies only to visits that have a length of stay of a day or more.
An object property that represents a relation between a patient and a site to which the patient was discharged after a visit.
http://ohdsi.github.io/CommonDataModel/cdm54.html#VISIT_OCCURRENCE
discharged to
An admission diagnosis status has the content of adimission diagnosis (as an information content entity).
An object property that represents a relation between a status and an information content entity where the status has its content information defined by the information content entity.
Oliver He, Long Tran
has status content
inheres in
this fragility inheres in this vase
this fragility is a characteristic of this vase
this red color inheres in this apple
this red color is a characteristic of this apple
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.
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
A dependent inheres in its bearer at all times for which the dependent exists.
'inheres in at all times'
inheres_in
http://purl.obolibrary.org/obo/ro.owl
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.
characteristic of
inheres in
bearer of
this apple is bearer of this red color
this vase is bearer of this fragility
Inverse of characteristic_of
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
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.
bearer of
bearer_of
is bearer of
bearer of
bearer_of
has characteristic
is bearer of
participates in
this blood clot participates in this blood coagulation
this input material (or this output material) participates in this process
this investigator participates in this investigation
a relation between a continuant and a process, in which the continuant is somehow involved in the process
participates_in
participates in
has participant
this blood coagulation has participant this blood clot
this investigation has participant this investigator
this process has participant this input material (or this output material)
a relation between a process and a continuant, in which the continuant is somehow involved in the process
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.
has_participant
http://purl.obolibrary.org/obo/ro.owl
http://www.obofoundry.org/ro/#OBO_REL:has_participant
has participant
has_participant
concretizes
A journal article is an information artifact that inheres in some number of printed journals. For each copy of the printed journal there is some quality that carries the journal article, such as a pattern of ink. The quality (a specifically dependent continuant) concretizes the journal article (a generically dependent continuant), and both depend on that copy of the printed journal (an independent continuant).
An investigator reads a protocol and forms a plan to carry out an assay. The plan is a realizable entity (a specifically dependent continuant) that concretizes the protocol (a generically dependent continuant), and both depend on the investigator (an independent continuant). The plan is then realized by the assay (a process).
A relationship between a specifically dependent continuant and a generically dependent continuant, in which the generically dependent continuant depends on some independent continuant in virtue of the fact that the specifically dependent continuant also depends on that same independent continuant. Multiple specifically dependent continuants can concretize the same generically dependent continuant.
http://purl.obolibrary.org/obo/obi.owl
It is recommended to not use this if possible in OMRSE. According to OntoBee this relation has been obsoleted and replaced with 'concretization of at all times'. As of Dec. 2, 2013 iao-main still uses this relation.
concretizes
this catalysis function is a function of this enzyme
a relation between a function and an independent continuant (the bearer), in which the function specifically depends on the bearer for its existence
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.
function_of
is function of
function of
this investigator role is a role of this person
a relation between a role and an independent continuant (the bearer), in which the role specifically depends on the bearer for its existence
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.
is role of
role_of
role of
this enzyme has function this catalysis function (more colloquially: this enzyme has this catalysis function)
a relation between an independent continuant (the bearer) and a function, in which the function specifically depends on the bearer for its existence
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.
has_function
has function
this apple has quality this red color
a relation between an independent continuant (the bearer) and a quality, in which the quality specifically depends on the bearer for its existence
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.
has_quality
has quality
this person has role this investigator role (more colloquially: this person has this role of investigator)
a relation between an independent continuant (the bearer) and a role, in which the role specifically depends on the bearer for its existence
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.
has_role
has role
derives from
this cell derives from this parent cell (cell division)
this nucleus derives from this parent nucleus (nuclear division)
a relation between two distinct material entities, the new entity and the old entity, in which the new entity begins to exist when the old entity ceases to exist, and the new entity inherits the significant portion of the matter of the old entity
This is a very general relation. More specific relations are preferred when applicable, such as 'directly develops from'.
derives_from
derives from
this parent cell derives into this cell (cell division)
this parent nucleus derives into this nucleus (nuclear division)
a relation between two distinct material entities, the old entity and the new entity, in which the new entity begins to exist when the old entity ceases to exist, and the new entity inherits the significant portion of the matter of the old entity
This is a very general relation. More specific relations are preferred when applicable, such as 'directly develops into'. To avoid making statements about a future that may not come to pass, it is often better to use the backward-looking 'derives from' rather than the forward-looking 'derives into'.
derives_into
derives into
is location of
my head is the location of my brain
this cage is the location of this rat
a relation between two independent continuants, the location and the target, in which the target is entirely within the location
Most location relations will only hold at certain times, but this is difficult to specify in OWL. See https://code.google.com/p/obo-relations/wiki/ROAndTime
location_of
RO:0001015
uberon
location_of
location_of
location of
location_of
located in
my brain is located in my head
this rat is located in this cage
a relation between two independent continuants, the target and the location, in which the target is entirely within the location
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
Most location relations will only hold at certain times, but this is difficult to specify in OWL. See https://code.google.com/p/obo-relations/wiki/ROAndTime
located_in
http://www.obofoundry.org/ro/#OBO_REL:located_in
RO:0001025
file:/Users/michaelashburner/Desktop/gaz/gaz.oboInOwl
uberon
located_in
located_in
located in
located_in
located_in (type level)
RO:0002002
uberon
has_boundary
has_boundary
has boundary
RO:0002007
uberon
bounding_layer_of
bounding_layer_of
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.
bounding layer of
David Osumi-Sutherland
<=
Primitive instance level timing relation between events
before or simultaneous with
Relation between occurrents, shares start and end boundaries.
David Osumi-Sutherland
RO:0002082
coincides_with
is_equal_to
uberon
simultaneous_with
simultaneous_with
t1 simultaneous_with t2 iff:= t1 before_or_simultaneous_with t2 and not (t1 before t2)
simultaneous with
simultaneous_with
David Osumi-Sutherland
X ends_after Y iff: end(Y) before_or_simultaneous_with end(X)
ends after
X immediately_preceded_by Y iff: end(X) simultaneous_with start(Y)
David Osumi-Sutherland
starts_at_end_of
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].
RO:0002087
directly preceded by
is directly preceded by
is immediately preceded by
starts_at_end_of
uberon
immediately_preceded_by
immediately_preceded_by
X immediately_preceded_by Y iff: end(X) simultaneous_with start(Y)
immediately preceded by
immediately_preceded_by
David Osumi-Sutherland
ends_at_start_of
meets
X immediately_precedes_Y iff: end(X) simultaneous_with start(Y)
immediately precedes
David Osumi-Sutherland
io
X starts_during Y iff: (start(Y) before_or_simultaneous_with start(X)) AND (start(X) before_or_simultaneous_with end(Y))
starts during
David Osumi-Sutherland
d
during
X happens_during Y iff: (start(Y) before_or_simultaneous_with start(X)) AND (end(X) before_or_simultaneous_with end(Y))
happens during
David Osumi-Sutherland
o
overlaps
X ends_during Y iff: ((start(Y) before_or_simultaneous_with end(X)) AND end(X) before_or_simultaneous_with end(Y).
ends during
x overlaps y if and only if there exists some z such that x has part z and z part of y
http://purl.obolibrary.org/obo/BFO_0000051 some (http://purl.obolibrary.org/obo/BFO_0000050 some ?Y)
overlaps
A is spatially_disjoint_from B if and only if they have no parts in common
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.
Chris Mungall
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
BFO_0000051 exactly 0 (BFO_0000050 some ?Y)
spatially disjoint from
https://github.com/obophenotype/uberon/wiki/Part-disjointness-Design-Pattern
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.
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)
RO:0002176
uberon
connects
connects
connects
RO:0002202
uberon
develops_from
develops_from
develops_from
RO:0002203
uberon
develops_into
develops_into
develops_into
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.
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
Chris Mungall
David Hill
Tanya Berardini
GO
Regulation precludes parthood; the regulatory process may not be within the regulated process.
regulates (processual)
false
regulates
regulates (processual)
mechanosensory neuron capable of detection of mechanical stimulus involved in sensory perception (GO:0050974)
osteoclast SubClassOf 'capable of' some 'bone resorption'
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.
Chris Mungall
has function realized in
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)".
RO_0000053 some (RO_0000054 only ?Y)
capable of
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.
Chris Mungall
has function in
RO_0000053 some (RO_0000054 only (BFO_0000050 some ?Y))
capable of part of
'heart development' has active participant some Shh protein
x has participant y if and only if x realizes some active role that inheres in y
This may be obsoleted and replaced by the original 'has agent' relation
Chris Mungall
has agent
has active participant
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
x surrounded_by y iff: x is adjacent to y and for every region r adjacent to x, r overlaps y
Chris Mungall
RO:0002219
uberon
surrounded_by
surrounded_by
surrounded by
surrounded by
surrounded_by
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.
The epidermis layer of a vertebrate is adjacent to the dermis.
The plasma membrane of a cell is adjacent to the cytoplasm, and also to the cell lumen which the cytoplasm occupies.
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.
x adjacent to y if and only if x and y share a boundary.
x adjacent_to y iff: x and y share a boundary
This relation acts as a join point with BSPO
Chris Mungall
RO:0002220
uberon
adjacent_to
adjacent_to
adjacent to
adjacent_to
inverse of surrounded by
inverse of surrounded_by
Chris Mungall
RO:0002221
uberon
surrounds
surrounds
surrounds
surrounds
Chris Mungall
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.
https://docs.google.com/document/d/1kBv1ep_9g3sTR-SD3jqzFqhuwo9TPNF-l-9fUDbO6rM/edit?pli=1
A relation that holds between two occurrents. This is a grouping relation that collects together all the Allen relations.
temporally related to
Relation between occurrents, shares a start boundary with.
RO:0002223
uberon
starts
starts
starts
Every insulin receptor signaling pathway starts with the binding of a ligand to the insulin receptor
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.
Chris Mungall
started by
RO:0002224
uberon
starts_with
starts_with
starts with
starts with
Relation between occurrents, shares an end boundary with.
RO:0002229
finishes
uberon
ends
ends
ends
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.
Chris Mungall
finished by
RO:0002230
uberon
ends_with
ends_with
ends with
ends with
p has direct input c iff c is a participant in p, c is present at the start of p, and the state of c is modified during p.
Chris Mungall
consumes
has input
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.
Chris Mungall
produces
has output
RO:0002254
uberon
has_developmental_contribution_from
has_developmental_contribution_from
has developmental contribution from
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.
RO:0002256
uberon
developmentally_induced_by
developmentally_induced_by
sources for developmentally_induced_by relationships in Uberon: Developmental Biology, Gilbert, 8th edition, figure 6.5(F)
developmentally_induced_by
RO:0002258
uberon
developmentally_preceded_by
developmentally_preceded_by
developmentally preceded by
RO:0002285
uberon
developmentally_replaces
developmentally_replaces
developmentally_replaces
q inheres in part of w if and only if there exists some p such that q inheres in p and p part of w.
Because part_of is transitive, inheres in is a sub-relation of inheres in part of
Chris Mungall
inheres in part of
A mereological relationship or a topological relationship
Chris Mungall
Do not use this relation directly. It is ended as a grouping for a diverse set of relations, all involving parthood or connectivity relationships
mereotopologically related to
a particular instances of akt-2 enables some instance of protein kinase activity
Chris Mungall
catalyzes
executes
has
is catalyzing
is executing
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.
This relation is currently used experimentally by the Gene Ontology Consortium. It may not be stable and may be obsoleted at some future time.
enables
Chris Mungall
This is a grouping relation that collects relations used for the purpose of connecting structure and function
functionally related to
inverse of enables
Chris Mungall
enabled by
inverse of regulates
Chris Mungall
regulated by (processual)
regulated by
An organism that is a member of a population of organisms
is member of is a mereological relation between a item and a collection.
is member of
member part of
SIO
member of
has member is a mereological relation between a collection and an item.
SIO
RO:0002351
uberon
has_member
has_member
has member
has member
inverse of has input
Chris Mungall
input of
inverse of has output
Chris Mungall
output of
Chris Mungall
formed as result of
x has the potential to develop into y iff x develops into y or if x is capable of developing into y
RO:0002387
uberon
has_potential_to_develop_into
has_potential_to_develop_into
has potential to develop into
This relation groups causal relations between material entities and causal relations between processes
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.
To define causal relations in an activity-flow type network, we make use of 3 primitives:
* Temporal: how do the intervals of the two occurrents relate?
* Is the causal relation regulatory?
* Is the influence positive or negative
The 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.
For 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.
For 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.
Each of these 3 primitives can be composed to yield a cross-product of different relation types.
Chris Mungall
Do not use this relation directly. It is intended as a grouping for a diverse set of relations, all involving cause and effect.
causally related to
p is causally upstream of q if and only if p precedes q and p and q are linked in a causal chain
Chris Mungall
causally upstream of
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.
Chris Mungall
immediately causally upstream of
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.
We would like to make this disjoint with 'preceded by', but this is prohibited in OWL2
Chris Mungall
influences (processual)
affects
causally upstream of or within
inverse of causally upstream of or within
Chris Mungall
causally downstream of or within
RO:0002433
uberon
contributes_to_morphology_of
contributes_to_morphology_of
contributes to morphology of
'otolith organ' SubClassOf 'composed primarily of' some 'calcium carbonate'
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.
x composed_primarily_of y iff: more than half of the mass of x is made from parts of y
Chris Mungall
UBREL:0000002
RO:0002473
uberon
composed_primarily_of
composed_primarily_of
composed primarily of
Relation between continuant c and occurrent s, such that every instance of c comes into existing during some s.
BFO:0000068
RO:0002488
begins_to_exist_during
uberon
existence_starts_during
existence_starts_during
existence starts during
Relation between continuant and occurrent, such that c comes into existence at the start of p.
RO:0002489
uberon
existence_starts_with
existence_starts_with
existence starts with
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.
BFO:0000069
RO:0002492
ceases_to_exist_during
uberon
existence_ends_during
existence_ends_during
existence ends during
Relation between continuant and occurrent, such that c ceases to exist at the end of p.
RO:0002493
uberon
existence_ends_with
existence_ends_with
existence ends with
RO:0002494
transforms from
uberon
transformation_of
transformation_of
transformation of
RO:0002495
direct_transformation_of
immediately transforms from
uberon
immediate_transformation_of
immediate_transformation_of
immediate transformation of
RO:0002496
uberon
existence_starts_during_or_after
existence_starts_during_or_after
existence starts during or after
RO:0002497
uberon
existence_ends_during_or_before
existence_ends_during_or_before
existence ends during or before
A relationship between a material entity and a process where the material entity has some causal role that influences the process
causal agent in
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.
Chris Mungall
Do not use this relation directly. It is intended as a grouping for a diverse set of relations, all involving cause and effect.
causal relation between processes
Chris Mungall
depends on
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
Chris Mungall
Do not use this relation directly. It is intended as a grouping for a diverse set of relations, all involving cause and effect.
causal relation between material entities
A coral reef environment is determined by a particular coral reef
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.
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
Chris Mungall
determined by (system to material entity)
Chris Mungall
Pier Buttigieg
RO:0002507
uberon
has_material_contribution_from
has_material_contribution_from
determined by
has material contribution from
inverse of determined by
Chris Mungall
determines (material entity to system)
determines
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.
Chris Mungall
determined by part of
A relation between a subdivision of an organism and the single subdivision of skeleton that provides structural support for that subdivision.
RO:0002551
uberon
has sekeletal support
has supporting framework
has_skeleton
has_skeleton
has skeleton
Chris Mungall
causally influenced by (material entity to material entity)
causally influenced by
Holds between materal entities a and b if the activity of a is causally upstream of the activity of b, or causally upstream of a an activity that modifies b
Chris Mungall
causally influences (material entity to material entity)
causally influences
RO:0002572
uberon
luminal_space_of
luminal_space_of
luminal space of
RO:0002576
uberon
skeleton_of
skeleton_of
skeleton of
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.
Chris Mungall
directly regulates (processual)
directly regulates
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.
Do not use this relation directly. It is intended as a grouping for a diverse set of relations, all involving cause and effect.
Chris Mungall
causal relation between material entity and a process
Inverse of 'causal agent in'
has causal agent
A relationship that holds between two entities, where the relationship holds based on the presence or absence of statistical dependence relationship. The entities may be statistical variables, or they may be other kinds of entities such as diseases, chemical entities or processes.
Do not use this relation directly. It is intended as a grouping for a diverse set of relations, all involving cause and effect.
related via dependence to
RO:0003000
uberon
produces
produces
produces
RO:0003001
uberon
produced_by
produced_by
produced_by
carries
uberon
channel_for
channel for
x is a conduit for y iff y passes through the lumen of x.
uberon
conduit_for
conduit for
uberon
existence_starts_and_ends_during
existence starts and ends during
X in_central_side Y <=> if Y is subdivided into left and right portions around some median divisor, all parts of X are closer to the median divisor than the outermost lateral sides.
uberon
in_central_side_of
in_central_side_of
https://github.com/obophenotype/uberon/wiki/Modeling-paired-structures-Design-Pattern
uberon
subdivision_of
placeholder relation. X = 'subdivision of A' and subdivision_of some B means that X is the mereological sum of A and B
subdivision of
http://purl.org/obo/owl/relationship
OBO_REL:0000007
relationship
has_proper_part
has_proper_part
has measurement value
The data type "last 4 digits of social security number" has digit number of 4.
A data property that represents a relation between a data type and a number of integer digits that the data type has.
Oliver He
has digit number
quality measured by year
entity
Entity
entity
Julius Caesar
Verdi’s Requiem
the Second World War
your body mass index
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
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
An entity is anything that exists or has existed or will exist. (axiom label in BFO2 Reference: [001-001])
entity
continuant
Continuant
continuant
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.
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
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
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])
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])
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])
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])
(forall (x y) (if (and (Continuant x) (exists (t) (continuantPartOfAt y x t))) (Continuant y))) // axiom label in BFO2 CLIF: [009-002]
(forall (x y) (if (and (Continuant x) (exists (t) (hasContinuantPartOfAt y x t))) (Continuant y))) // axiom label in BFO2 CLIF: [126-001]
(forall (x) (if (Continuant x) (Entity x))) // axiom label in BFO2 CLIF: [008-002]
(forall (x) (if (Material Entity x) (exists (t) (and (TemporalRegion t) (existsAt x t))))) // axiom label in BFO2 CLIF: [011-002]
continuant
occurrent
Occurrent
occurrent
An entity that has temporal parts and that happens, unfolds or develops through time.
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
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.
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.
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.
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])
Every occurrent occupies_spatiotemporal_region some spatiotemporal region. (axiom label in BFO2 Reference: [108-001])
b is an occurrent entity iff b is an entity that has temporal parts. (axiom label in BFO2 Reference: [079-001])
(forall (x) (if (Occurrent x) (exists (r) (and (SpatioTemporalRegion r) (occupiesSpatioTemporalRegion x r))))) // axiom label in BFO2 CLIF: [108-001]
(forall (x) (iff (Occurrent x) (and (Entity x) (exists (y) (temporalPartOf y x))))) // axiom label in BFO2 CLIF: [079-001]
occurrent
ic
IndependentContinuant
a chair
a heart
a leg
a molecule
a spatial region
an atom
an orchestra.
an organism
the bottom right portion of a human torso
the interior of your mouth
A continuant that is a bearer of quality and realizable entity entities, in which other entities inhere and which itself cannot inhere in anything.
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])
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])
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])
(forall (x t) (if (IndependentContinuant x) (exists (r) (and (SpatialRegion r) (locatedInAt x r t))))) // axiom label in BFO2 CLIF: [134-001]
(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]
(iff (IndependentContinuant a) (and (Continuant a) (not (exists (b t) (specificallyDependsOnAt a b t))))) // axiom label in BFO2 CLIF: [017-002]
independent continuant
t-region
TemporalRegion
Temporal region doesn't have a closure axiom because the subclasses don't exhaust all possibilites. An example would be the mereological sum of a temporal instant and a temporal interval that doesn't overlap the instant. In this case the resultant temporal region is neither 0-dimensional nor 1-dimensional
A temporal region is an occurrent entity that is part of time as defined relative to some reference frame. (axiom label in BFO2 Reference: [100-001])
All parts of temporal regions are temporal regions. (axiom label in BFO2 Reference: [101-001])
Every temporal region t is such that t occupies_temporal_region t. (axiom label in BFO2 Reference: [119-002])
(forall (r) (if (TemporalRegion r) (occupiesTemporalRegion r r))) // axiom label in BFO2 CLIF: [119-002]
(forall (x y) (if (and (TemporalRegion x) (occurrentPartOf y x)) (TemporalRegion y))) // axiom label in BFO2 CLIF: [101-001]
(forall (x) (if (TemporalRegion x) (Occurrent x))) // axiom label in BFO2 CLIF: [100-001]
temporal region
process
Process
process
a process of cell-division, \ a beating of the heart
a process of meiosis
a process of sleeping
the course of a disease
the flight of a bird
the life of an organism
your process of aging.
An occurrent that has temporal proper parts and for some time t, p s-depends_on some material entity at t.
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])
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)
(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]
process
disposition
Disposition
an atom of element X has the disposition to decay to an atom of element Y
certain people have a predisposition to colon cancer
children are innately disposed to categorize objects in certain ways.
the cell wall is disposed to filter chemicals in endocytosis and exocytosis
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.
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])
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])
(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]
(forall (x) (if (Disposition x) (and (RealizableEntity x) (exists (y) (and (MaterialEntity y) (bearerOfAt x y t)))))) // axiom label in BFO2 CLIF: [062-002]
disposition
realizable
RealizableEntity
the disposition of this piece of metal to conduct electricity.
the disposition of your blood to coagulate
the function of your reproductive organs
the role of being a doctor
the role of this boundary to delineate where Utah and Colorado meet
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.
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])
All realizable dependent continuants have independent continuants that are not spatial regions as their bearers. (axiom label in BFO2 Reference: [060-002])
(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]
(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]
realizable entity
quality
Quality
quality
the ambient temperature of this portion of air
the color of a tomato
the length of the circumference of your waist
the mass of this piece of gold.
the shape of your nose
the shape of your nostril
a quality is a specifically dependent continuant that, in contrast to roles and dispositions, does not require any further process in order to be realized. (axiom label in BFO2 Reference: [055-001])
If an entity is a quality at any time that it exists, then it is a quality at every time that it exists. (axiom label in BFO2 Reference: [105-001])
(forall (x) (if (Quality x) (SpecificallyDependentContinuant x))) // axiom label in BFO2 CLIF: [055-001]
(forall (x) (if (exists (t) (and (existsAt x t) (Quality x))) (forall (t_1) (if (existsAt x t_1) (Quality x))))) // axiom label in BFO2 CLIF: [105-001]
quality
sdc
SpecificallyDependentContinuant
specifically dependent continuant
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
of one-sided specifically dependent continuants: the mass of this tomato
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.
the disposition of this fish to decay
the function of this heart: to pump blood
the mutual dependence of proton donors and acceptors in chemical reactions [79
the mutual dependence of the role predator and the role prey as played by two organisms in a given interaction
the pink color of a medium rare piece of grilled filet mignon at its center
the role of being a doctor
the shape of this hole.
the smell of this portion of mozzarella
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.
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])
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])
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.
(iff (RelationalSpecificallyDependentContinuant a) (and (SpecificallyDependentContinuant a) (forall (t) (exists (b c) (and (not (SpatialRegion b)) (not (SpatialRegion c)) (not (= b c)) (not (exists (d) (and (continuantPartOfAt d b t) (continuantPartOfAt d c t)))) (specificallyDependsOnAt a b t) (specificallyDependsOnAt a c t)))))) // axiom label in BFO2 CLIF: [131-004]
(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]
specifically dependent continuant
role
Role
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.
the priest role
the role of a boundary to demarcate two neighboring administrative territories
the role of a building in serving as a military target
the role of a stone in marking a property boundary
the role of subject in a clinical trial
the student role
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.
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.
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])
(forall (x) (if (Role x) (RealizableEntity x))) // axiom label in BFO2 CLIF: [061-001]
role
fiat object
fiat object part
object-aggregate
ObjectAggregate
a collection of cells in a blood biobank.
a swarm of bees is an aggregate of members who are linked together through natural bonds
a symphony orchestra
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)
defined by fiat: the aggregate of members of an organization
defined through physical attachment: the aggregate of atoms in a lump of granite
defined through physical containment: the aggregate of molecules of carbon dioxide in a sealed container
defined via attributive delimitations such as: the patients in this hospital
the aggregate of bearings in a constant velocity axle joint
the aggregate of blood cells in your body
the nitrogen atoms in the atmosphere
the restaurants in Palo Alto
your collection of Meissen ceramic plates.
An entity a is an object aggregate if and only if there is a mutually exhaustive and pairwise disjoint partition of a into objects
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).
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.
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])
(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]
object aggregate
site
Site
Manhattan Canyon)
a hole in the interior of a portion of cheese
a rabbit hole
an air traffic control region defined in the airspace above an airport
the Grand Canyon
the Piazza San Marco
the cockpit of an aircraft
the hold of a ship
the interior of a kangaroo pouch
the interior of the trunk of your car
the interior of your bedroom
the interior of your office
the interior of your refrigerator
the lumen of your gut
your left nostril (a fiat part – the opening – of your left nasal cavity)
b is a site means: b is a three-dimensional immaterial entity that is (partially or wholly) bounded by a material entity or it is a three-dimensional immaterial part thereof. (axiom label in BFO2 Reference: [034-002])
(forall (x) (if (Site x) (ImmaterialEntity x))) // axiom label in BFO2 CLIF: [034-002]
site
object
Object
atom
cell
cells and organisms
engineered artifacts
grain of sand
molecule
organelle
organism
planet
solid portions of matter
star
BFO 2 Reference: BFO rests on the presupposition that at multiple micro-, meso- and macroscopic scales reality exhibits certain stable, spatially separated or separable material units, combined or combinable into aggregates of various sorts (for example organisms into what are called ‘populations’). Such units play a central role in almost all domains of natural science from particle physics to cosmology. Many scientific laws govern the units in question, employing general terms (such as ‘molecule’ or ‘planet’) referring to the types and subtypes of units, and also to the types and subtypes of the processes through which such units develop and interact. The division of reality into such natural units is at the heart of biological science, as also is the fact that these units may form higher-level units (as cells form multicellular organisms) and that they may also form aggregates of units, for example as cells form portions of tissue and organs form families, herds, breeds, species, and so on. At the same time, the division of certain portions of reality into engineered units (manufactured artifacts) is the basis of modern industrial technology, which rests on the distributed mass production of engineered parts through division of labor and on their assembly into larger, compound units such as cars and laptops. The division of portions of reality into units is one starting point for the phenomenon of counting.
BFO 2 Reference: Each object is such that there are entities of which we can assert unproblematically that they lie in its interior, and other entities of which we can assert unproblematically that they lie in its exterior. This may not be so for entities lying at or near the boundary between the interior and exterior. This means that two objects – for example the two cells depicted in Figure 3 – may be such that there are material entities crossing their boundaries which belong determinately to neither cell. Something similar obtains in certain cases of conjoined twins (see below).
BFO 2 Reference: To say that b is causally unified means: b is a material entity which is such that its material parts are tied together in such a way that, in environments typical for entities of the type in question,if c, a continuant part of b that is in the interior of b at t, is larger than a certain threshold size (which will be determined differently from case to case, depending on factors such as porosity of external cover) and is moved in space to be at t at a location on the exterior of the spatial region that had been occupied by b at t, then either b’s other parts will be moved in coordinated fashion or b will be damaged (be affected, for example, by breakage or tearing) in the interval between t and t.causal changes in one part of b can have consequences for other parts of b without the mediation of any entity that lies on the exterior of b. Material entities with no proper material parts would satisfy these conditions trivially. Candidate examples of types of causal unity for material entities of more complex sorts are as follows (this is not intended to be an exhaustive list):CU1: Causal unity via physical coveringHere the parts in the interior of the unified entity are combined together causally through a common membrane or other physical covering\. The latter points outwards toward and may serve a protective function in relation to what lies on the exterior of the entity [13, 47
BFO 2 Reference: an object is a maximal causally unified material entity
BFO 2 Reference: ‘objects’ are sometimes referred to as ‘grains’ [74
b is an object means: b is a material entity which manifests causal unity of one or other of the types CUn listed above & is of a type (a material universal) instances of which are maximal relative to this criterion of causal unity. (axiom label in BFO2 Reference: [024-001])
object
gdc
GenericallyDependentContinuant
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.
the pdf file on your laptop, the pdf file that is a copy thereof on my laptop
the sequence of this protein molecule; the sequence that is a copy thereof in that protein molecule.
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.
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])
(iff (GenericallyDependentContinuant a) (and (Continuant a) (exists (b t) (genericallyDependsOnAt a b t)))) // axiom label in BFO2 CLIF: [074-001]
generically dependent continuant
function
Function
the function of a hammer to drive in nails
the function of a heart pacemaker to regulate the beating of a heart through electricity
the function of amylase in saliva to break down starch into sugar
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.
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])
(forall (x) (if (Function x) (Disposition x))) // axiom label in BFO2 CLIF: [064-001]
function
1d-t-region
OneDimensionalTemporalRegion
the temporal region during which a process occurs.
BFO 2 Reference: A temporal interval is a special kind of one-dimensional temporal region, namely one that is self-connected (is without gaps or breaks).
A one-dimensional temporal region is a temporal region that is extended. (axiom label in BFO2 Reference: [103-001])
(forall (x) (if (OneDimensionalTemporalRegion x) (TemporalRegion x))) // axiom label in BFO2 CLIF: [103-001]
one-dimensional temporal region
material
MaterialEntity
material entity
a flame
a forest fire
a human being
a hurricane
a photon
a puff of smoke
a sea wave
a tornado
an aggregate of human beings.
an energy wave
an epidemic
the undetached arm of a human being
An independent continuant that is spatially extended whose identity is independent of that of other entities and can be maintained through time.
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
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.
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.
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])
Every entity which has a material entity as continuant part is a material entity. (axiom label in BFO2 Reference: [020-002])
every entity of which a material entity is continuant part is also a material entity. (axiom label in BFO2 Reference: [021-002])
(forall (x) (if (MaterialEntity x) (IndependentContinuant x))) // axiom label in BFO2 CLIF: [019-002]
(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]
(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]
material entity
immaterial
ImmaterialEntity
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
immaterial entity
process-profile
ProcessProfile
On a somewhat higher level of complexity are what we shall call rate process profiles, which are the targets of selective abstraction focused not on determinate quality magnitudes plotted over time, but rather on certain ratios between these magnitudes and elapsed times. A speed process profile, for example, is represented by a graph plotting against time the ratio of distance covered per unit of time. Since rates may change, and since such changes, too, may have rates of change, we have to deal here with a hierarchy of process profile universals at successive levels
One important sub-family of rate process profiles is illustrated by the beat or frequency profiles of cyclical processes, illustrated by the 60 beats per minute beating process of John’s heart, or the 120 beats per minute drumming process involved in one of John’s performances in a rock band, and so on. Each such process includes what we shall call a beat process profile instance as part, a subtype of rate process profile in which the salient ratio is not distance covered but rather number of beat cycles per unit of time. Each beat process profile instance instantiates the determinable universal beat process profile. But it also instantiates multiple more specialized universals at lower levels of generality, selected from rate process profilebeat process profileregular beat process profile3 bpm beat process profile4 bpm beat process profileirregular beat process profileincreasing beat process profileand so on.In the case of a regular beat process profile, a rate can be assigned in the simplest possible fashion by dividing the number of cycles by the length of the temporal region occupied by the beating process profile as a whole. Irregular process profiles of this sort, for example as identified in the clinic, or in the readings on an aircraft instrument panel, are often of diagnostic significance.
The simplest type of process profiles are what we shall call ‘quality process profiles’, which are the process profiles which serve as the foci of the sort of selective abstraction that is involved when measurements are made of changes in single qualities, as illustrated, for example, by process profiles of mass, temperature, aortic pressure, and so on.
b is a process_profile =Def. there is some process c such that b process_profile_of c (axiom label in BFO2 Reference: [093-002])
b process_profile_of c holds when b proper_occurrent_part_of c& there is some proper_occurrent_part d of c which has no parts in common with b & is mutually dependent on b& is such that b, c and d occupy the same temporal region (axiom label in BFO2 Reference: [094-005])
(forall (x y) (if (processProfileOf x y) (and (properContinuantPartOf x y) (exists (z t) (and (properOccurrentPartOf z y) (TemporalRegion t) (occupiesSpatioTemporalRegion x t) (occupiesSpatioTemporalRegion y t) (occupiesSpatioTemporalRegion z t) (not (exists (w) (and (occurrentPartOf w x) (occurrentPartOf w z))))))))) // axiom label in BFO2 CLIF: [094-005]
(iff (ProcessProfile a) (exists (b) (and (Process b) (processProfileOf a b)))) // axiom label in BFO2 CLIF: [093-002]
process profile
0d-t-region
ZeroDimensionalTemporalRegion
a temporal region that is occupied by a process boundary
right now
the moment at which a child is born
the moment at which a finger is detached in an industrial accident
the moment of death.
temporal instant.
A zero-dimensional temporal region is a temporal region that is without extent. (axiom label in BFO2 Reference: [102-001])
(forall (x) (if (ZeroDimensionalTemporalRegion x) (TemporalRegion x))) // axiom label in BFO2 CLIF: [102-001]
zero-dimensional temporal region
history
History
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])
history
Material anatomical entity that is a member of an individual species or is a viral or viroid particle.
organism or virus or viroid
A cardiovascular drug that tends to raise reduced blood pressure.
Wikipedia:Antihypotensive_agent
chebi_ontology
antihypotensive agents
pressor
pressors
vasopressor agens
vasopressor agent
CHEBI:137431
antihypotensive agent
peptide
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.
peptide
Any member of the group of substituted penams containing two methyl substituents at position 2, a carboxylate substituent at position 3 and a carboxamido group at position 6.
0
C9H11N2O4SR
243.26000
243.04395
[H][C@]12SC(C)(C)[C@@H](N1C(=O)[C@H]2NC([*])=O)C(O)=O
CHEBI:14742
CHEBI:25869
CHEBI:7961
CiteXplore:12833570
CiteXplore:1502708
CiteXplore:16033609
CiteXplore:7798534
KEGG COMPOUND:C00395
KEGG:C00395
PMID:11851248
PMID:12833570
PMID:1502708
PMID:16033609
PMID:7061385
PMID:7798534
Wikipedia:Penicillin
Penicillin
penicillin
penicillins
chebi_ontology
C9H11N2O4SR
[H][C@]12SC(C)(C)[C@@H](N1C(=O)[C@H]2NC([*])=O)C(O)=O
penicillins
CHEBI:17334
penicillin
A class of beta-lactam antibiotics differing from the penicillins in having a 6-membered, rather than a 5-membered, side ring.
A class of beta-lactam antibiotics differing from the penicillins in having a 6-membered, rather than a 5-membered, side ring. Although cephalosporins are among the most commonly used antibiotics in the treatment of routine infections, and their use is increasing over time, they can cause a range of hypersensitivity reactions, from mild, delayed-onset cutaneous reactions to life-threatening anaphylaxis in patients with immunoglobulin E (IgE)-mediated allergy.
0
C7H5NO3SR2
183.18500
182.99901
[H][C@]12SCC([*])=C(N1C(=O)[C@H]2[*])C(O)=O
CHEBI:3538
CiteXplore:12833570
CiteXplore:6762896
KEGG COMPOUND:C00875
KEGG:C00875
PMID:10069359
PMID:11936371
PMID:12833570
PMID:24269048
PMID:3320614
PMID:6762896
PMID:8426246
Wikipedia:Cephalosporin
Cephalosporin
chebi_ontology
C7H5NO3SR2
[H][C@]12SCC([*])=C(N1C(=O)[C@H]2[*])C(O)=O
cephalosphorin
cephalosphorins
cephalosporins
CHEBI:23066
cephalosporin
molecular entity
Any constitutionally or isotopically distinct atom, molecule, ion, ion pair, radical, radical ion, complex, conformer etc., identifiable as a separately distinguishable entity.
We are assuming that every molecular entity has to be completely connected by chemical bonds. This excludes protein complexes, which are comprised of minimally two separate molecular entities. We will follow up with Chebi to ensure this is their understanding as well
molecular entity
chebi_ontology
entidad molecular
entidades moleculares
entite moleculaire
molecular entities
molekulare Entitaet
CHEBI:23367
molecular entity
cyclic amide
cyclic amides
CHEBI:23443
cyclic amide
A chemical entity is a physical entity of interest in chemistry including molecular entities, parts thereof, and chemical substances.
chemical entity
chebi_ontology
CHEBI:24431
chemical entity
CHEBI:24531
heterocyclic antibiotic
A cyclic compound having as ring members atoms of carbon and at least of one other element.
chebi_ontology
organic heterocycle
organic heterocyclic compounds
CHEBI:24532
organic heterocyclic compound
Hydroxides are chemical compounds containing a hydroxy group or salts containing hydroxide (OH(-)).
chebi_ontology
CHEBI:24651
hydroxides
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).
oxoacid
oxoacids
oxacids
oxiacids
oxo acid
oxy-acids
oxyacids
CHEBI:24833
oxoacid
Cyclic amides of amino carboxylic acids, having a 1-azacycloalkan-2-one structure, or analogues having unsaturation or heteroatoms replacing one or more carbon atoms of the ring.
lactam
lactams
chebi_ontology
Laktam
Laktame
lactams
CHEBI:24995
lactam
Any polyatomic entity that is an electrically neutral entity consisting of more than one atom.
molecule
chebi_ontology
Molekuel
molecula
molecules
neutral molecular compounds
CHEBI:25367
molecule
chebi_ontology
organonitrogen heterocyclic antibiotics
CHEBI:25558
organonitrogen heterocyclic antibiotic
oxygen molecular entity
chebi_ontology
oxygen molecular entities
CHEBI:25806
oxygen molecular entity
chebi_ontology
CHEBI:25865
penicillanic acids
sulfur molecular entity
sulfur molecular entities
CHEBI:26835
sulfur molecular entity
chebi_ontology
heterobicyclic compounds
organic heterobicyclic compounds
CHEBI:27171
organic heterobicyclic compound
An organonitrogen heterocyclic antibiotic that contains a beta-lactam ring.
CHEBI:10427
CHEBI:22844
KEGG:C03438
PMID:19254642
PMID:22594007
Wikipedia:Beta-lactam_antibiotic
chebi_ontology
beta-Lactam antibiotics
beta-lactam antibiotics
CHEBI:27933
beta-lactam antibiotic
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.
CHEBI:22473
CHEBI:2633
KEGG COMPOUND:C00241
KEGG:C00241
Amide
amides
chebi_ontology
CHEBI:32988
amide
atom
A chemical entity constituting the smallest component of an element having the chemical properties of the element.
atom
An organosulfur compound is a compound containing at least one carbon-sulfur bond.
CHEBI:23010
CHEBI:25714
Wikipedia:Organosulfur_compounds
organosulfur compound
chebi_ontology
organosulfur compounds
CHEBI:33261
organosulfur compound
A heteroorganic entity is an organic molecular entity in which carbon atoms or organic groups are bonded directly to one or more heteroatoms.
chebi_ontology
heteroorganic entities
organoelement compounds
CHEBI:33285
heteroorganic entity
pnictogen molecular entity
pnictogen molecular entities
CHEBI:33302
pnictogen molecular entity
Any p-block molecular entity containing a chalcogen.
chalcogen molecular entity
chebi_ontology
chalcogen compounds
chalcogen molecular entities
CHEBI:33304
chalcogen molecular entity
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.
An 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.
0
CHO2R
45.01740
44.99765
OC([*])=O
CHEBI:13428
CHEBI:13627
CHEBI:23027
CiteXplore:17147560
CiteXplore:18433345
PMID:17147560
PMID:18433345
Wikipedia:Carboxylic_acid
carboxylic acid
carboxylic acids
chebi_ontology
CHO2R
Carbonsaeure
Carbonsaeuren
Karbonsaeure
OC([*])=O
RC(=O)OH
acide carboxylique
acides carboxyliques
acido carboxilico
acidos carboxilicos
CHEBI:33575
carboxylic acid
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.
chebi_ontology
main group compounds
main group molecular entities
CHEBI:33579
main group molecular entity
carbon group molecular entity
carbon group molecular entities
CHEBI:33582
carbon group molecular entity
Any molecule that consists of a series of atoms joined together to form a ring.
Wikipedia:Cyclic_compound
chebi_ontology
cyclic compounds
CHEBI:33595
cyclic compound
hydrogen compounds
hydrogen molecular entities
CHEBI:33608
hydrogen molecular entity
A molecule that features two fused rings.
bicyclic compounds
CHEBI:33636
bicyclic compound
A polycyclic compound in which at least one of the rings contains at least one non-carbon atom.
heteropolycyclic compounds
chebi_ontology
polyheterocyclic compounds
CHEBI:33671
heteropolycyclic compound
A bicyclic compound in which at least one of the rings contains at least one skeletal heteroatom.
heterobicyclic compounds
chebi_ontology
CHEBI:33672
heterobicyclic compound
An s-block molecular entity is a molecular entity containing one or more atoms of an s-block element.
s-block molecular entity
s-block compounds
s-block molecular entities
CHEBI:33674
s-block molecular entity
A main group molecular entity that contains one or more atoms of a p-block element.
A p-block molecular entity is a molecular entity containing one or more atoms of a p-block element.
chebi_ontology
p-block compounds
p-block molecular entities
p-block molecular entitiy
CHEBI:33675
p-block molecular entity
nucleic acid
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.
nucleic acid
Any organic molecule that consists of atoms connected in the form of a ring.
chebi_ontology
organic cyclic compounds
CHEBI:33832
organic cyclic compound
macromolecule
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.
polymer
macromolecule
Any heteroorganic entity containing at least one carbon-nitrogen bond.
organonitrogen compounds
chebi_ontology
organonitrogens
CHEBI:35352
organonitrogen compound
chebi_ontology
carbon oxoacids
oxoacids of carbon
CHEBI:35605
carbon oxoacid
A beta-lactam is a lactam in which the amide bond is contained within a four-membered ring, which includes the amide nitrogen and the carbonyl carbon.
A lactam in which the amide bond is contained within a four-membered ring, which includes the amide nitrogen and the carbonyl carbon.
0
C3H2NOR3
68.054
68.01364
C1(C(N(*)C1*)=O)*
CHEBI:10426
CHEBI:13203
CHEBI:22845
KEGG COMPOUND:C01866
KEGG:C01866
Wikipedia:Beta-lactam
beta-Lactam
beta-lactam
chebi_ontology
a beta-lactam
beta-lactams
CHEBI:35627
beta-lactam
Natural and synthetic antibiotics containing the 4-thia-1-azabicyclo[3.2.0]heptan-7-one structure, generally assumed to have the 5R configuration unless otherwise specified.
penams
chebi_ontology
CHEBI:35992
penams
Any molecular entity consisting of more than one atom.
chebi_ontology
polyatomic entities
CHEBI:36357
polyatomic entity
pseudoketone
pseudoketones
pseudoketones
CHEBI:36585
pseudoketone
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.
carbonyl compounds
chebi_ontology
CHEBI:36586
carbonyl compound
Organic compounds containing an oxygen atom, =O, doubly bonded to carbon or another element.
oxo compounds
organic oxo compounds
CHEBI:36587
organic oxo compound
A cyclic compound in which a carbonyl group in a ring is bonded to one or two skeletal heteroatoms.
cyclic pseudoketones
CHEBI:36588
cyclic pseudoketone
An organochalcogen compound is a compound containing at least one carbon-chalcogen bond.
organochalcogen compound
chebi_ontology
organochalcogen compounds
CHEBI:36962
organochalcogen compound
An organochalcogen compound containing at least one carbon-oxygen bond.
CiteXplore:17586126
PMID:17586126
organooxygen compound
chebi_ontology
organooxygen compounds
CHEBI:36963
organooxygen compound
A molecular entity consisting of two or more chemical elements.
chemical compound
heteroatomic molecular entities
CHEBI:37577
heteroatomic molecular entity
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.
0
CNOR3
42.01680
41.99799
[*]C(=O)N([*])[*]
CHEBI:35354
CHEBI:35355
carboxamides
chebi_ontology
carboxamides
primary carboxamide
CHEBI:37622
carboxamide
Any organonitrogen compound containing a cyclic component with nitrogen and at least one other element as ring member atoms.
chebi_ontology
heterocyclic organonitrogen compounds
organonitrogen heterocyclic compounds
CHEBI:38101
organonitrogen heterocyclic compound
chebi_ontology
heterocyclic organosulfur compounds
organosulfur heterocyclic compounds
CHEBI:38106
organosulfur heterocyclic compound
CHEBI:25429
CHEBI:38075
chebi_ontology
organic heteropolycyclic compounds
CHEBI:38166
organic heteropolycyclic compound
chebi_ontology
cephems
CHEBI:38311
cephem
Any molecular entity that contains carbon.
CHEBI:25700
CHEBI:33244
chebi_ontology
organic compounds
organic entity
organic molecular entities
CHEBI:50860
organic molecular entity
CHEBI:25556
CHEBI:7594
KEGG COMPOUND:C06061
KEGG:C06061
chebi_ontology
Nitrogenous compounds
nitrogen compounds
nitrogen molecular entities
CHEBI:51143
nitrogen molecular entity
A cyclic compound having as ring members atoms of at least two different elements.
Heterocyclic compound
chebi_ontology
compuesto heterociclico
compuestos heterociclicos
heterocycle
heterocyclic compounds
CHEBI:5686
heterocyclic compound
Any molecule that consists of at least one carbon atom as part of the electrically neutral entity.
chebi_ontology
organic compound
organic compounds
organic molecules
CHEBI:72695
organic molecule
cell
cell
PMID:18089833.Cancer Res. 2007 Dec 15;67(24):12018-25. "...Epithelial cells were harvested from histologically confirmed adenocarcinomas .."
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.
cell
cell
cultured cell
A cell in vitro that is or has been maintained or propagated as part of a cell culture.
cultured cell
experimentally modified cell in vitro
A cell in vitro that has undergone physical changes as a consequence of a deliberate and specific experimental procedure.
experimentally modified cell in vitro
A quantitative or qualitative value which is the result of an act of assessing a morphological or physiological state or property in a single individual or sample or a group of individuals or samples, based on direct observation or experimental manipulation.
clinical measurement
Any value resulting from the quantification of a morphological or physiological parameter pertaining to the heart and/or blood vessels.
cardiovascular measurement
The number of contractions of the cardiac ventricles per unit of time.
heart rate
Measurement of the pressure, or force per area, exerted by circulating blood against the walls of the blood vessels. The pressure is dependent on the energy of the heart action, elasticity of the vessel walls and volume and viscosity of the blood.
Not4Curation
blood pressure measurement
The maximum arterial pressure within the cardiac cycle, i.e. at the point at which the heart is in its maximal state of contraction. This is the time when the blood is forced from the ventricles of the heart into the pulmonary artery and the aorta.
systolic blood pressure
The minimum arterial pressure within the cardiac cycle, usually at the point at which the heart is in a state of relaxation and expansion. This is the time when the ventricles fill with blood.
diastolic blood pressure
The minimum pressure in the heart left ventricle, usually at the point at which the heart is in a state of relaxation and expansion and the ventricles fill with blood.
left ventricular diastolic blood pressure
Measurement of the pressure within the heart left ventricle at the point of maximal contraction, when the blood is forced from the left ventricle into the aorta.
left ventricular systolic blood pressure
A blood pressure measurement which has been normalized or adjusted by a mathematical process or computation. Blood pressure is the pressure, or force per area, exerted by circulating blood against the walls of the blood vessels. The pressure is dependent on the energy of the heart action, elasticity of the vessel walls and volume and viscosity of the blood.
Not4Curation
calculated blood pressure
The average blood pressure within an artery over a specified period of time. It is often calculated using the formula of one third systolic pressure plus two thirds diastolic pressure, or alternatively, using the formula diastolic pressure plus 1/3 of the difference between systolic pressure and diastolic pressure (i.e. 1/3 pulse pressure).
mean arterial blood pressure
A calculated value for the difference between the systolic blood pressure and the diastolic blood pressure at a given point in time when measured in an isolated organ or vessel under conditions where perfusion pressure or flow can be controlled.
developed blood pressure
The level of heat in an organism.
body temperature
A measurement of the physical form or structure of the heart, the chambered, muscular organ in vertebrates that pumps blood received from the veins into the arteries, thereby maintaining the flow of blood through the entire circulatory system.
This is the term which was just "heart measurement". Since it was under body morphological measurement it seemed to clearly refer to a morphological measurement. I made this term more specific so that another term for "heart measurement" could be added to the ontology above it which would also be a parent to other non-morphological heart-related terms. JRS 2-15-2012.
heart morphological measurement
The heaviness of the heart (the central cardiac muscle which maintains the circulation of the blood) or the degree to which it is drawn to the earth by gravity.
heart weight
A calculated measurement of the difference between the systolic pressure and the diastolic pressure in the heart left ventricle at a given point in time in an isolated organ or vessel under conditions where perfusion pressure or flow can be controlled.
left ventricular developed pressure
Measurement of the structure or forms of the entire body or parts of the body of an organism.
anthropometric measurement
morphometry
body morphological measurement
A quantification of a parameter of the chemical composition of blood.
blood molecular composition measurement
blood chemistry measurement
mshimoyama
2010-12-13T10:32:58Z
A measurement which has been normalized, adjusted or derived by a mathematical process or computation, of one or more of the various, specific types of leukocytes present in a sample of blood for which a total white blood cell count was taken, usually 1 cubic mm of peripheral venous blood.
calculated blood differential WBC count
calculated blood differential leukocyte count
calculated differential white blood cell count
The amount of hemoglobin in a specific volume of blood, expressed as grams per deciliter of whole blood in humans.
blood haemoglobin level
blood hemoglobin level
The number of white blood cells in a specified volume of blood.
leukocyte count
white corpuscle count
white blood cell count
Any measurement involving the amount, composition or type of protein, the complex organic compounds containing carbon, hydrogen, oxygen, nitrogen, and sulfur consisting of alpha-amino acids joined by peptide linkages, in blood.
blood protein measurement
The number of platelets (thrombocytes) in a specified volume of blood, usually expressed as platelets per cubic millimeter of whole blood.
platelet count
A measurement of the blood, it's contents, cells or other factors contained within the blood.
blood measurement
A value resulting from the quantification of a morphological or physiological parameter of blood cells, i.e. cells native to the circulation, including those of erythroid, lymphoid, myeloid and monocytic lineages. A cell is a membrane-enclosed protoplasmic mass constituting the smallest structural unit of an organism that is capable of independent functioning.
blood cell measurement
The level of urea in the blood in terms of nitrogen content; converted to urea concentration by multiplying by 60/28 or 2.14. Urea is the chief nitrogenous end product of protein metabolism in whole blood. Urea is formed in the liver from amino acids and from ammonia compounds and can be found in urine, blood, and lymph.
BUN level
blood urea nitrogen level
Any value resulting from the quantification of a morphological or physiological parameter of a blood-derived lipid, any of a structurally diverse group of organic compounds found in blood that are insoluble in water but soluble innonpolar solvents that, among other biological functions, serve as a source of fuel and are an important constituent of cell structure.
blood lipid measurement
Measurement of the entire amount of cholesterol, a eukaryotic sterol that in higher animals is the precursor of bile acids and steroid hormones and a key constituent of cell membranes, without taking into account any association with other molecules such as lipoproteins, in a specified volume of blood, the fluid that circulates through the heart, arteries, capillaries and veins carrying nutrients and oxygen to the body tissues and metabolites away from them.
blood TC level
blood total cholesterol level
Measurement of the amount of cholesterol, a eukaryotic sterol that in higher animals is the precursor of bile acids and steroid hormones and a key constituent of cell membranes, carried in high-density lipoprotein (HDL) molecules in a specified volume of blood, the fluid that circulates through the heart, arteries, capillaries and veins carrying nutrients and oxygen to the body tissues and metabolites away from them. HDL is the smallest of the major lipoprotein particles, complex molecules that consist of a protein membrane surrounding a core of lipids. The HDL class of lipoproteins, specifically the subtypes of HDL2 and HDL3, have densities between 1.063 and 1.210 g/ml.
blood HDL level
blood HDL-C
Values for density ranges of the lipoprotein classes are approximate. The classes may be defined differently by different researchers, in part because class definitions depend on the number of subclasses into which the lipoprotein fractions are divided.
blood high density lipoprotein cholesterol level
Measurement of the amount of cholesterol, a eukaryotic sterol that in higher animals is the precursor of bile acids and steroid hormones and a key constituent of cell membranes, carried in low-density lipoprotein (LDL) molecules in a specified volume of blood, the fluid that circulates through the heart, arteries, capillaries and veins carrying nutrients and oxygen to the body tissues and metabolites away from them. LDL constitute a class of relatively large, heterogeneous lipoprotein particles, complex molecules that consist of a protein membrane surrounding a core of lipids. The LDL class of lipoproteins has a density between 1.019 and 1.063 g/ml. In some animal species, such as canine and rodents, this may overlap with the HDL1 class and be designated LDL/HDL1.
blood LDL level
blood LDL-C level
Values for density ranges of the lipoprotein classes are approximate. The classes may be defined differently by different researchers, in part because class definitions depend on the number of subclasses into which the lipoprotein fractions are divided.
blood low density lipoprotein cholesterol level
Measurement of the total amount of all proteins, the complex organic compounds containing carbon, hydrogen, oxygen, nitrogen, and sulfur consisting of alpha-amino acids joined by peptide linkages, found in a specific volume of plasma, the fibrinogen-containing fluid portion of the blood in which the particulate components are suspended.
plasma total protein level
A quantification of one or more mineral salts found in the blood in the form of electrically charged ions.
blood electrolyte measurement
Any quantitation of the catalytic effect exerted by an enzyme in a specified sample of blood. An enzyme is a protein that catalyzes chemical reactions of other substances without itself being destroyed or altered upon completion of the reaction(s).
Not4Curation
blood enzyme activity level
A measurement of the physical form and structure of an organ.
This is the term which used to be just "organ measurement". Since it was under body morphological measurement, it clearly referred to a morphological measurement. Because a term for organ measurement was needed that was not morphological, and since this one already had annotations, I changed the term while keeping the ID and location in the ontology the same. JRS 2-15-2012.
organ morphological measurement
The weight of the heart after removal from the body but without desiccation.
heart wet weight
The weight of the heart after desiccation.
heart dry weight
The weight of the lower left chamber of the heart, which pumps oxygenated blood through the aorta into the systemic arteries, after removal from the body and separation from the rest of the heart but without desiccation.
heart left ventricle wet weight
The weight of the lower right chamber of the heart, which pumps venous blood through the pulmonary trunk and arteries to the capillaries of the lung, after removal from the body and separation from the rest of the heart but without desiccation.
heart right ventricle wet weight
calculated heart weight
A calculated value in which the weight of the heart, the chambered, muscular organ in vertebrates that pumps blood received from the veins into the arteries, thereby maintaining the flow of blood through the entire circulatory system, is divided by the total weight of the body, and the result presented as a ratio, fraction, quotient or percentage, thus normalizing it to body weight and, by extension, to the size of the organism.
heart weight to body weight ratio
A calculated value in which the weight of the heart, the chambered, muscular organ in vertebrates that pumps blood received from the veins into the arteries, thereby maintaining the flow of blood through the entire circulatory system, is presented as percentage of the total weight of the body, thus normalizing it to body weight.
heart weight as percentage of body weight
The weight of the aorta, the main trunk from which the arterial system proceeds. Weight is the heaviness or degree to which a body is drawn to the earth by gravity.
aorta weight
Any quantification of a morphological or physiological parameter of one or more blood vessels, the network of muscular tubes that carry blood through the body.
blood vessel measurement
renal/urinary measurement
The weight of one or both kidneys, the organ which functions to maintain proper water and electrolyte balance, regulate acid-base concentration, and filter the blood of metabolic wastes.
kidney weight
The weight of the right kidney, the organ which lies on the right side of the body from the perspective of the subject and functions to maintain proper water and electrolyte balance, regulate acid-base concentration, and filter the blood of metabolic wastes, after removal from the body but without desiccation.
right kidney wet weight
The weight of the left kidney, the organ which lies on the left side of the body from the perspective of the subject and functions to maintain proper water and electrolyte balance, regulate acid-base concentration, and filter the blood of metabolic wastes, after removal from the body but without desiccation.
left kidney wet weight
The weight of a single kidney, the organ which functions to maintain proper water and electrolyte balance, regulate acid-base concentration, and filter the blood of metabolic wastes, after removal from the body but without desiccation.
individual kidney wet weight
single kidney wet weight
The weight of both kidneys, the organ which functions to maintain proper water and electrolyte balance, regulate acid-base concentration, and filter the blood of metabolic wastes, after removal from the body but without desiccation.
both kidneys wet weight
Measurement of the physical form or structure of one or both kidneys, the organ which functions to maintain proper water and electrolyte balance, regulate acid-base concentration, and filter the blood of metabolic wastes.
kidney morphological measurement
mshimoyama
2009-12-17T08:17:35Z
A calculated value which compares the weight of the right ventricle, the lower chamber of the right side of the heart, which pumps venous blood through the pulmonary trunk and arteries to the capillaries of the lung, with the weight of the left ventricle, the lower chamber of the left side of the heart, which pumps oxygenated blood out through the aorta to all the tissues of the body, and presents it as a ratio.
heart right ventricle weight to left ventricle weight ratio
mshimoyama
2009-12-17T08:22:51Z
The number of granulocytes (polymorphonuclear leukocytes) in a specified volume of blood, usually 1 cubic millimeter.
blood granulocyte count
mshimoyama
2009-12-17T10:21:58Z
The amount of lipoproteins, any of a group of conjugated proteins that have at least one lipid component, in a specific volume of blood.
blood lipoprotein level
mshimoyama
2009-12-17T11:00:47Z
Measurement of the amount of creatinine in a specified sample of urine, the fluid waste product excreted by the kidneys. Creatinine is a nitrogenous compound formed in muscle as the end product of creatine metabolism. Blood and urine tests for creatinine are used as diagnostic indicators of kidney function and muscle mass.
urine creatinine level
mshimoyama
2010-06-24T01:24:08Z
Any measurement of the physical form or structure of the skeletal, smooth and/or heart muscles of the body.
muscle morphological measurement
mshimoyama
2009-12-17T11:01:46Z
The amount of albumin in a specified volume of urine. Urine albumin levels which are above normal but not detectable with routine protein testing are referred to as microalbuminuria.
urine microalbumin level
urine albumin level
RNigam
2010-05-17T01:48:45Z
A calculated measurement in which the weight after removal from the body but without desiccation of both kidneys, the paired organ which functions to maintain proper water and electrolyte balance, regulate acid-base concentration, and filter the blood of metabolic wastes, is divided by the total weight of the body and presented as a percentage, thus normalizing it to body weight.
both kidneys wet weight as percentage of body weight
RNigam
2010-05-25T04:01:05Z
Any measurement that has been normalized, adjusted or derived by a mathematical process or computation, of the weight of one or both kidneys, the paired organ which functions to maintain proper water and electrolyte balance, regulate acid-base concentration, and filter the blood of metabolic wastes.
Not4Curation
calculated kidney weight
RNigam
2010-05-25T04:11:18Z
The weight of one or both kidneys, the organ which functions to maintain proper water and electrolyte balance, regulate acid-base concentration, and filter the blood of metabolic wastes, after removal from the body but without desiccation.
kidney wet weight
RNigam
2010-05-25T04:11:36Z
The weight after desiccation of one or both kidneys, the organ which functions to maintain proper water and electrolyte balance, regulate acid-base concentration, and filter the blood of metabolic wastes.
kidney dry weight
mshimoyama
2010-06-10T09:05:26Z
The length of a line which crosses a transverse view of a blood vessel, passing through its center and ending on either side at either the inner surface or outer surface of the blood vessel wall.
blood vessel diameter
mshimoyama
2010-06-10T09:06:25Z
Percentage of blood pumped out of the left ventricle with each heart beat.
heart left ventricle ejection fraction
ejection fraction
mshimoyama
2010-06-10T09:08:28Z
Volume of blood left in a ventricle at end of contraction.
end-systolic volume
mshimoyama
2010-06-10T09:38:29Z
Any measurement of the movement of blood through the heart and blood vessels.
blood flow measurement
circulation measurement
mshimoyama
2010-06-10T09:38:42Z
The volume of blood flowing through a vessel or organ per unit of time.
blood flow rate
mshimoyama
2010-06-10T09:51:29Z
The volume of blood pumped from the right or left ventricle per minute, also used to calculate - stroke volume X heart rate.
cardiac output measurement
mshimoyama
2010-06-10T09:56:23Z
The volume of blood flowing through an artery per unit time.
arterial blood flow rate
mshimoyama
2010-06-10T09:56:38Z
The volume of blood passing through a vein per unit time.
venous blood flow rate
mshimoyama
2010-06-10T10:04:04Z
Movement of blood along the solid wall of a vessel, often represented by the Hagen-Poiseuille equation.
vessel shear stress measurement
mshimoyama
2010-06-10T10:51:43Z
in vitro vessel shear stress
mshimoyama
2010-06-10T10:52:06Z
in vivo vessel shear stress
mshimoyama
2010-06-10T11:20:31Z
The time needed for plasma to form a fibrin clot after the addition of calcium and a phospholipid reagent. It is used to evaluate the intrinsic clotting system.
activated partial thromboplastin time
mshimoyama
2010-06-10T02:02:16Z
vasodilation measurement
blood vessel dilation measurement
mshimoyama
2010-06-10T02:02:34Z
lumen diameter at maximum dilation expressed as percent of baseline
mshimoyama
2010-06-10T02:34:30Z
vasoconstriction measurement
blood vessel constriction measurement
mshimoyama
2010-06-10T02:35:20Z
lumen diameter at maximum constriction expressed as percent of baseline
mshimoyama
2010-06-10T02:41:52Z
Resistance to blood flow by blood vessels throughout the body, the degree to which the blood vessels impede the flow of blood, often calculated as SVR equal to the difference between mean arterial blood pressure(MAP) and central venous pressure(CVP) divided by cardiac output(CO).
systemic vascular resistance (SVR)
mshimoyama
2010-06-10T03:56:38Z
Volume of blood in ventricle immediately before a contraction.
end-diastolic volume
mshimoyama
2010-06-11T01:32:10Z
Volume of blood pumped from one ventricle of the heart with each beat, calculated by subtracting the volume of blood in the ventricle at the end of a beat (end-systolic volume) from the volume of blood just prior to the beat (end-diastolic volume).
stroke volume
mshimoyama
2010-06-17T10:30:36Z
Any quantification of a morphological or physiological parameter of one or more cells. A cell is a membrane-enclosed protoplasmic mass constituting the smallest structural unit of an organism that is capable of independent functioning.
cell measurement
mshimoyama
2010-06-17T10:30:50Z
Number of cells of muscular tissue in the heart in a specified sample size.
cardiomyocyte count
mshimoyama
2010-06-17T10:33:11Z
The enumeration, i.e. measurement of the total number, of the specialized liner cells that form an interface between the circulating blood and the rest of the vessel wall in a specified sample of blood vessel, any one of the network of muscular tubes that carry blood through the body.
blood vessel endothelial cell number
vascular endothelial cell count
blood vessel endothelial cell count
mshimoyama
2010-06-17T10:36:15Z
Any measurement of components of the Electrical conduction system of the heart.The electrical conduction system of the heart transmits signals generated usually by the sinoatrial node to cause contraction of the heart muscle.
heart electrical conduction measurement
mshimoyama
2010-06-17T10:39:30Z
Interval between an R wave and the next R wave of successive heart beats, inverse of the heart rate.
RR_Interval
RR interval
mshimoyama
2010-06-17T10:40:52Z
Time between the beginning of the P wave to the beginning of the QRS complex, reflects the time the electrical impulse takes to travel from the sinus node through the AVE node and entering the ventricles, used as an estimate of AV node function.
PR_Interval
PR interval
mshimoyama
2010-06-17T10:43:21Z
The time between the J point ( the point at which the QRS complex finishes and the ST segment begins) to the end of the T wave.
ST_Interval
ST interval
mshimoyama
2010-06-17T10:45:44Z
An interval measured from the onset of the QRS wave complex to the offset of the T wave.
QT_Interval
QT interval
mshimoyama
2010-06-17T10:53:08Z
heart wall thickness
mshimoyama
2010-06-17T10:54:17Z
The depth of the wall of the aorta, the main trunk from which the arterial system proceeds.
aortic wall thickness
aorta wall thickness
mshimoyama
2010-06-17T11:13:15Z
The thickness or depth of the dorsal/posterior wall of the heart. The dorsal wall is the portion of the heart muscle which is closest to the spine and farthest from the chest wall of the organism.
heart dorsal wall thickness
heart posterior wall thickness
mshimoyama
2010-06-17T11:15:28Z
The thickness or depth (i.e. the measurement of the two-dimensional extent of the distance between the inner and outer surfaces) of the dorsal/posterior wall of the left ventricle of the heart. The dorsal wall is the portion of the muscle enclosing the ventricle which is closest to the spine and farthest from the chest wall of the organism. The left ventricle is the lower chamber of the left side of the heart, which pumps oxygenated blood out through the aorta to all the tissues of the body.
heart left ventricle dorsal wall thickness
Note that "left" in this context refers to the perspective of the organism, not that of the observer.
heart left ventricle posterior wall thickness
mshimoyama
2010-06-17T11:15:42Z
The thickness or depth of the dorsal/posterior wall of the right ventricle of the heart. The dorsal wall is the portion of the muscle enclosing the ventricle which is closest to the spine and farthest from the chest wall of the organism.
heart right ventricle dorsal wall thickness
heart right ventricle posterior wall thickness
mshimoyama
2010-06-17T12:26:05Z
Any measurement of urine, the fluid waste product excreted by the kidneys, or its components.
urine measurement
mshimoyama
2010-06-17T12:27:01Z
Measure of the concentration of particles in the urine.
urine density
urine specific gravity
mshimoyama
2010-06-17T12:38:44Z
The magnitude of the P wave, the initial deflection of the cardiac cycle representing excitation of the atria as presented in an electrocardiogram.
P wave amplitude
mshimoyama
2010-06-17T12:39:11Z
The time from start to finish of the P wave , in the electrocardiograph illustrating the initial deflection of the cardiac cycle, representing the excitation of the atria.
P wave duration
mshimoyama
2010-06-17T12:39:35Z
The distance to the lowest part of the Q wave which shows the initial downward deflection related to the initial phase of depolarization of the ventricular myocardium and the depolarization of the interventricular septum as measured by electrocardiograph.
Q wave depth
mshimoyama
2010-06-17T12:39:55Z
The time from start to finish of the Q wave which illustrates the initial downward deflection related to the initial phase of depolarization of the ventricular myocardium and the depolarization of the interventricular septum as measured by an electrocardiograph.
Q wave duration
mshimoyama
2010-06-17T12:40:13Z
The time from start to finish of the QRS interval as calculated from a set of measurements taken from the beginning of the QRS complex to the end of the QRS complex representing the time it takes for ventricles to depolarize.
QRS duration
mshimoyama
2010-06-17T12:40:30Z
The magnitude of the portion of the electrocardiograph comprising the Q, R, and S waves which together represent ventricular depolarization.
QRS amplitude
mshimoyama
2010-06-17T12:40:52Z
QT interval corrected for heart rate calculated by the QT interval divided by the square root of the interval from one QRS complex to the onset of the next QRS complex measured in seconds.
QTC interval
mshimoyama
2010-06-17T12:41:09Z
The magnitude of the R wave, which is the initial upward deflection of the QRS complex following the Q wave representing early depolarization of the ventricles as illustrated by an electrocardiograph.
R wave amplitude
mshimoyama
2010-06-17T12:41:26Z
The time from start to finish of the R wave, the initial upward deflection of the QRS complex following the Q wave which represents early depolarization of the ventricles as illustrated in and electrocardiograph.
R wave duration
mshimoyama
2010-06-17T12:41:54Z
The magnitude of the S wave, the downward deflection of the QRS complex following the R wave representing late depolarization of the ventricles as illustrated in an electrocardiograph.
S wave amplitude
mshimoyama
2010-06-17T12:42:07Z
The time from start to finish of the S wave which is the downward deflection of the QRS complex following the R wave representing late depolarization as illustrated by an electrocardiograph.
S wave duration
mshimoyama
2010-06-17T12:42:27Z
ST amplitude
mshimoyama
2010-06-17T12:42:46Z
ST slope
mshimoyama
2010-06-17T12:43:04Z
ST wave displacement
mshimoyama
2010-06-17T12:43:21Z
The magnitude of the T wave, the deflection following the QRS complex representing repolarization of the ventricles as illustrated by and electrocardiograph.
T wave amplitude
mshimoyama
2010-06-17T03:09:47Z
An interval measured from the onset of the P wave in one PQRST wave complex to the onset of the P wave in the following PQRST wave complex.
PP_Interval
PP interval
mshimoyama
2010-06-25T01:54:10Z
The difference between systolic and diastolic blood pressures, i.e. the difference between the maximal arterial pressure and minimal arterial pressure during the cardiac cycle.
pulse pressure
mshimoyama
2010-08-04T10:37:40Z
The count of the rhythmic contractions and expansions of an artery due to the surge of blood from the beat of the heart.
pulse
mshimoyama
2010-09-01T08:30:15Z
Measurement of the physical form or structure of either the right or the left upper chamber of the heart that receives blood from the veins and forces it into a ventricle.
heart atrium morphological measurement
mshimoyama
2010-09-01T08:30:28Z
The weight of the left atrium of the heart, the upper chamber on the left which empties into the lower chamber. Weight is the heaviness or degree to which a body is drawn toward the earth by gravity.
left atrium weight
mshimoyama
2010-09-01T08:30:45Z
The weight of the right atrium, the upper right chamber of the heart which empties into the lower right chamber, i.e. the right ventricle. Weight is the heaviness or degree to which a body is drawn to the earth by gravity.
right atrium weight
mshimoyama
2010-09-01T08:30:56Z
A measure of the capacity of the left heart atrium, the upper left chamber which empties into the lower heart chamber.
left atrium volume
mshimoyama
2010-09-01T08:31:06Z
A measure of the three dimensional capacity of the right atrium of the heart, the upper right chamber which empties into the lower right chamber, i.e. the right ventricle.
right atrium volume
mshimoyama
2010-09-01T08:31:46Z
Any measurement of the physical form or structure of one or both ventricles of the heart, that is, the lower chambers of the heart that pump blood away from the heart either to the lungs to be oxygenated or, once oxygenated, to the rest of the body.
heart ventricle morphological measurement
mshimoyama
2011-09-21T01:41:55Z
A calculated measurement in which the weight after removal from the body but without desiccation of both kidneys, the paired organ which functions to maintain proper water and electrolyte balance, regulate acid-base concentration, and filter the blood of metabolic wastes, is divided by the total weight of the body and presented as a ratio, fraction or quotient, thus normalizing it to body weight.
both kidneys wet weight to body weight ratio
mshimoyama
2010-11-12T09:44:31Z
The amount of triglycerides in a specified volume of serum, the clear liquid that separates from blood after it has clotted completely, i.e. blood plasma from which fibrinogen has been removed. Triglycerides are any of a group of lipids that are esters formed from one molecule of glycerol and three molecules of one or more fatty acids, are widespread in adipose tissue, and commonly circulate in the blood in the form of lipoproteins.
serum triglyceride level
mshimoyama
2010-11-12T09:46:59Z
Measurement of the entire amount of cholesterol, a eukaryotic sterol that in higher animals is the precursor of bile acids and steroid hormones and a key constituent of cell membranes, without taking into account any association with other molecules such as lipoproteins, in a specified volume of serum, the clear liquid that separates from blood after it has clotted completely, i.e. blood plasma from which fibrinogen has been removed.
serum TC level
serum total cholesterol level
mshimoyama
2010-12-13T10:24:28Z
The number of each type of leukocyte present in a specific volume of blood, usually 1 cubic millimeter.
blood differential leukocyte count
blood differential WBC count
blood differential white blood cell count
mshimoyama
2010-12-13T10:35:10Z
A calculated measurement in which the number of all granulocytes (regardless of type) in a specified sample of blood is divided by the total number of white blood cells in the sample, and the result presented as a ratio, fraction, quotient or percentage.
granulocyte count as percentage of total white blood cells
granulocyte count to total WBC count ratio
granulocyte count to total white blood cell count ratio
granulocyte percentage
blood granulocyte count to total leukocyte count ratio
mshimoyama
2010-12-13T10:38:12Z
A calculated measurement in which the number of eosinophil granulocytes is divided by the number of all white blood cells in a specified sample of peripheral venous blood, and the result presented as a ratio, fraction, quotient or percentage. An eosinophil is a granular leukocyte having a nucleus with two lobes connected by a thread of chromatin, and cytoplasm containing coarse, round granules of uniform size that stain readily with eosin and other acid dyes.
eosinophil count as percentage of total white blood cells
eosinophil count to total WBC count ratio
eosinophil granulocyte percentage
eosinophil percentage
blood eosinophil count to total leukocyte count ratio
mshimoyama
2010-12-13T10:39:37Z
A calculated measurement in which the number of neutrophil granulocytes is divided by the number of all white blood cells in a specified sample of peripheral venous blood, and the result presented as a ratio, fraction, quotient or percentage. A neutrophil is, or is in the process of becoming, a granular leucocyte having a nucleus with three to five lobes connected by threads of chromatin, cytoplasm containing very fine granules, and which is readily stainable with neutral dyes.
neutrophil granulocyte percentage
neutrophil count as percentage of total white blood cells
neutrophil count to total WBC count ratio
neutrophil percentage
polymorphonuclear cell percentage
blood neutrophil count to total leukocyte count ratio
mshimoyama
2010-12-13T10:45:39Z
A calculated measurement in which the number of lymphocytes in a specified sample of blood is divided by the total number of white blood cells in the sample, and the result presented as a ratio, fraction, quotient or percentage.
lymphocyte count as percentage of total white blood cells
lymphocyte count to total WBC count ratio
lymphocyte percentage
blood lymphocyte count to total leukocyte count ratio
mshimoyama
2010-12-13T11:30:05Z
The complete or entire amount of bilirubin in a specified volume of serum, the clear liquid that separates from blood after it has clotted completely, i.e. blood plasma from which fibrinogen has been removed. Bilirubin is the bile pigment produced by breakdown of heme and reduction of biliverdin.
total serum bilirubin level
mshimoyama
2011-01-04T12:01:33Z
The amount of carbonic acid dissolved in carbon dioxide and carbonate ion found in a specified volume of serum.
serum bicarbonate level
mshimoyama
2011-01-04T12:06:48Z
The amount of chloride ions found in a specified volume of serum.
serum chloride level
mshimoyama
2011-01-04T02:41:58Z
An estimation of the volume of blood filtered from the kidney glomerular capillaries into the Bowman's capsule per specified unit of time based on serum creatinine level, wieght and age of organism and other factors.
blood glomerular filtration rate
mshimoyama
2011-01-04T02:48:14Z
blood glomerular filtration rate, Diet in Renal Disease Formula (MDRD)
mshimoyama
2011-01-04T02:48:55Z
A calculated measurement which estimates the glomerular filtration rate (GFR), that is, the volume of fluid filtered from the renal capillaries per unit time, based on the serum creatinine level and adjusted for gender.
blood glomerular filtration rate, Chronic Kidney Disease Epidemiology Collaboration formula (CKE-EPI)
mshimoyama
2011-01-04T02:50:15Z
blood glomerular filtration rate, May Quadratic formula
mshimoyama
2011-01-04T02:50:43Z
blood glomerular filtration rate, Schwartz formula
mshimoyama
2011-01-04T02:52:02Z
Amount of potassium ions in a specified volume of serum.
serum potassium level
mshimoyama
2011-01-04T02:56:30Z
The amount of sodium ions in a specified volume of serum.
serum sodium level
mshimoyama
2011-01-04T03:15:06Z
The amount of calcium ions in a specified volume of serum.
serum calcium level
mshimoyama
2011-01-21T08:57:36Z
Blood pressure measured in the pulmonary artery during diastole, that is, during dilation or relaxation of the heart ventricles.
pulmonary arterial diastolic blood pressure
mshimoyama
2011-01-21T08:58:00Z
Blood pressure measured in the pulmonary artery during systole, that is, during contraction of the heart ventricles.
pulmonary arterial systolic blood pressure
mshimoyama
2011-01-21T09:42:17Z
A calculated value in which the weight of the left ventricle, the lower chamber of the left side of the heart, which pumps oxygenated blood out through the aorta to all the tissues of the body, is divided by the total weight of the body and the result presented as a ratio, fraction, quotient or percentage, thus normalizing it to body weight and by extension to the size of the organism.
heart left ventricle weight as a percentage of body weight
LV mass/BW
heart left ventricle weight to body weight ratio
mshimoyama
2011-10-28T04:24:16Z
The difference in mean arterial blood pressure between two points in time or two conditions expressed as the result of the subtraction in and of itself without comparison by ratio with another quantity.
The term "absolute change" refers to the subtraction of one value from another, as opposed to a dissimilarity of two values expressed as a ratio or as a percentage. In this context it is not intended to necessarily imply the difference expressed as an absolute value |n|, that is, the numeric value of the difference without regard to its sign.
absolute change in mean arterial blood pressure
mshimoyama
2011-10-28T04:25:37Z
Absolute difference in heart rate between two points in time or two conditions.
The term "absolute change" refers to the subtraction of one value from another, as opposed to a dissimilarity of two values expressed as a ratio or as a percentage. In this context it is not intended to necessarily imply the difference expressed as an absolute value |n|, that is, the numeric value of the difference without regard to its sign.
absolute change in heart rate
mshimoyama
2011-10-28T04:29:17Z
The number of glomeruli in all or part of a kidney. Glomeruli are the tufts of capillaries each situated within a Bowman's capsule at the end of a renal tubule in the vertebrate kidney that filter waste products from the blood and thus initiate urine formation.
glomeruli count
glomerulus count
mshimoyama
2011-10-28T04:33:14Z
heart left ventricle dry weight
mshimoyama
2011-11-02T02:44:01Z
The amount of phosphorus, measured as inorganic phosphate, in a specified sample of serum.
serum inorganic phosphate level
serum inorganic phosphorus level
serum phosphorus level
serum phosphate level
mshimoyama
2011-11-02T02:45:05Z
Measurement of the amount of glucose, the monosaccharide sugar, C6H12O6, occurring widely in plant and animal tissues which is one of the three dietary monosaccharides that are absorbed directly into the bloodstream during digestion, is the end product of carbohydrate metabolism, and is the chief source of energy for living organisms, in a specified volume of serum, the clear liquid that separates from blood after it has clotted completely, i.e. blood plasma from which fibrinogen has been removed.
serum glucose level
mshimoyama
2011-11-02T02:48:13Z
The amount of albumin in a specified sample of serum, the clear liquid that separates from blood after it has clotted completely, i.e. blood plasma from which fibrinogen has been removed.
serum albumin level
mshimoyama
2011-11-02T04:10:11Z
The amount of ezymatic activity of glutamic-pyruvate transaminase enzyme, commonly known as alanine transaminase or alanine aminotransferase (ALT), enzyme in a specified sample of serum. ALT catalyzes the reversible transamination between alanine and 2-oxoglutarate to generate pyruvate and glutamate. Serum ALT level is used as an enzymatic marker for liver disease or damage.
serum alanine transaminase activity level
serum glutamic-pyruvate transaminase activity level
serum ALT activity level
serum GPT activity level
serum alanine aminotransferase activity level
mshimoyama
2011-11-02T04:11:05Z
Quantitation of the catalytic effect exerted by alkaline phosphatase (AP) in a specified sample of serum, the clear liquid that separates from blood after it has clotted completely, i.e. blood plasma from which fibrinogen has been removed. AP is an enzyme that catalyzes the cleavage of orthophosphate from orthophosphoric monoesters under alkaline conditions.
serum alkaline phosphatase activity level
mshimoyama
2011-11-02T04:18:08Z
The amount of enzymatic activity of glutamic-oxaloacetic transaminase enzyme, commonly known as aspartate transaminase or aspartate aminotransferase (AST), in a specified sample of serum. AST catalyzes the reversible transfer of an amine group from l-glutamic acid to oxaloacetic acid, forming alpha-ketoglutaric acid and l-aspartic acid. Serum AST level is used as an enzymatic marker for liver disease or damage.
serum aspartate transaminase activity level
serum glutamic-oxaloacetic transaminase activity level
SGOT activity level
serum AST activity level
serum GOT activity level
serum aspartate aminotransferase activity level
mshimoyama
2011-11-03T01:45:21Z
urine protein level
mshimoyama
2011-11-03T02:34:53Z
Measurement of the pressure within the heart left ventricle at the end of systole, the period of contraction of the heart when the blood is forced from the ventricles into the pulmonary artery (right ventricle) and the aorta (left ventricle).
left ventricular end-systolic blood pressure
mshimoyama
2011-11-03T02:35:59Z
The pressure in the heart left ventricle at the end of diastole, the period when the heart is in a state of relaxation and expansion and the ventricles fill with blood.
left ventricular end-diastolic blood pressure
mshimoyama
2011-11-03T02:36:40Z
Calculated measurement of a difference in the maximum arterial blood pressure, that is the pressure at the point of maximal contraction of the heart, between two points in time or two conditions expressed as a number (positive or negative), not as a ratio or percentage relative to another quantity.
The term "absolute change" refers to the subtraction of one value from another, as opposed to a dissimilarity of two values expressed as a ratio or as a percentage. In this context it is not intended to necessarily imply the difference expressed as an absolute value |n|, that is, the numeric value of the difference without regard to its sign.
absolute change in systolic blood pressure
mshimoyama
2011-11-03T02:36:56Z
Calculated measurement of a difference in diastolic blood pressure between two points or two conditions expressed as a number (positive or negative), not as a ratio or percentage relative to another quantity. The diastolic pressure is the minimum arterial pressure within the cardiac cycle, usually at the point at which the heart is in a state of relaxation and expansion. This is the time when the ventricles fill with blood.
The term "absolute change" refers to the subtraction of one value from another, as opposed to a dissimilarity of two values expressed as a ratio or as a percentage. In this context it is not intended to necessarily imply the difference expressed as an absolute value |n|, that is, the numeric value of the difference without regard to its sign.
absolute change in diastolic blood pressure
mshimoyama
2011-11-03T02:50:38Z
A calculated measurement in which the weight after removal from the body but without desiccation of a single kidney, one of the paired organs which function to maintain proper water and electrolyte balance, regulate acid-base concentration, and filter the blood of metabolic wastes, is divided by the total weight of the body and presented as a ratio, fraction or quotient, thus normalizing it to body weight.
individual kidney wet weight to body weight ratio
single kidney wet weight to body weight ratio
mshimoyama
2011-11-03T02:50:52Z
A calculated measurement in which the weight after removal from the body but without desiccation of a single kidney, one of the paired organs which function to maintain proper water and electrolyte balance, regulate acid-base concentration, and filter the blood of metabolic wastes, is divided by the total weight of the body and presented as a percentage, thus normalizing it to body weight.
individual kidney wet weight as percentage of body weight
single kidney wet weight as percentage of body weight
mshimoyama
2011-11-04T12:57:25Z
heart right ventricle dry weight
JSmith
2012-02-15T11:39:00Z
Any measurement of components of the periodic tightening and loosening of the heart muscle.
heart contractility measurement
heart contraction measurement
JSmith
2012-02-15T11:42:05Z
Measure of the time from the relaxation of the heart muscle to the beginning of the tightening of the heart muscle during contraction.
time to onset of heart contraction
JSmith
2012-02-15T11:48:18Z
Measurement of the time from the beginning of heart muscle contraction to the maximum contracted state.
time to peak heart contraction
JSmith
2012-02-15T11:56:51Z
Pressure exerted by the heart muscle in its maximally contracted state.
heart contraction pressure
JSmith
2012-02-15T05:00:53Z
Any measurement of a structural part of a system of the body that is composed of tissues and cells that enable it to perform a particular function.
organ measurement
JSmith
2012-02-15T05:06:19Z
This is not the same term as the original "heart measurement". That term is now "heart morphological measurement".
heart measurement
JSmith
2012-02-15T05:11:39Z
A measurement made on a fluid flowing out of the heart.
heart effluent measurement
JSmith
2012-02-15T05:14:44Z
The volume of a fluid flowing out of the heart.
heart effluent volume
JSmith
2012-02-15T05:16:22Z
The volume of a fluid flowing out of the heart during a specified amount of time.
timed heart effluent volume
JSmith
2012-02-15T05:21:20Z
The amount of an enzyme in a specified volume of fluid flowing out of the heart.
heart effluent enzyme level
JSmith
2012-02-15T05:25:02Z
The amount of lactate dehydrogenase activity measured in a specified volume of fluid flowing out of the heart.
heart effluent LDH activity level
heart effluent lactate dehydrogenase activity level
JSmith
2012-02-15T05:45:18Z
Measurement of a lesion in an organ. A lesion is a localized pathological change in structure of an organ or tissue due to injury or disease; especially one that is circumscribed and well defined.
tissue damage measurement
organ lesion measurement
JSmith
2012-02-15T05:48:03Z
A measurement of any lesion of the heart. A lesion is a localized pathological change in structure of an organ or tissue due to injury or disease; especially one that is circumscribed and well defined.
heart lesion measurement
JSmith
2012-02-15T05:50:09Z
Measurement of an area of necrotic tissue resulting from a reduction or obstruction of the oxygen supplied to that tissue.
infarction measurement
JSmith
2012-02-15T05:58:36Z
Measurement of an area of necrotic tissue in the heart resulting from a reduction or obstruction of the oxygen supply.
myocardial infarction measurement
heart infarction measurement
JSmith
2012-02-15T06:09:00Z
Measurement of an area of necrotic tissue in the left ventricle of the heart resulting from a reduction or obstruction of the oxygen supply to the heart.
heart left ventricle infarction measurement
JSmith
2012-02-15T06:11:07Z
Measurement of the area, volume or weight of necrotic tissue resulting from a reduction or obstruction of the oxygen supplied to that tissue.
infarction size
JSmith
2012-02-15T06:14:35Z
Measurement of the area, volume or weight of necrotic tissue in the heart resulting from a reduction or obstruction of the oxygen supply to the heart.
heart infarction size
JSmith
2012-02-15T06:18:51Z
Measurement of the area, volume or weight of necrotic tissue in the heart left ventricle resulting from a reduction or obstruction of the oxygen supply to the heart.
heart left ventricle infarction size
JSmith
2012-02-15T06:27:35Z
calculated heart left ventricle infarction size
JSmith
2012-02-15T06:28:08Z
heart left ventricle infarction size as percentage of total heart left ventricle size
JSmith
2012-02-15T06:46:40Z
The heaviness of one or both ventricles of the heart, that is, the lower chambers of the heart that pump blood away from the heart either to the lungs to be oxygenated or, once oxygenated, to the rest of the body, or the degree to which one or both ventricles of the heart are drawn toward the earth by gravity.
heart ventricle weight
JSmith
2012-02-21T02:50:48Z
heart infarction weight
JSmith
2012-02-21T03:02:09Z
heart infarction area
JSmith
2012-02-21T03:02:46Z
heart left ventricle infarction weight
JSmith
2012-02-21T03:03:35Z
heart left ventricle infarction area
JSmith
2012-02-21T03:04:15Z
calculated heart left ventricle infarction area
JSmith
2012-02-21T03:04:51Z
calculated heart left ventricle infarction weight
JSmith
2012-02-21T03:05:44Z
heart left ventricle infarction weight as percentage of total heart left ventricle weight
JSmith
2012-02-21T03:08:57Z
calculated heart infarction weight
JSmith
2012-03-09T04:05:52Z
The difference in body temperature between two different points in time or between two different conditions.
The term "absolute change" refers to the subtraction of one value from another, as opposed to a dissimilarity of two values expressed as a ratio or as a percentage. In this context it is not intended to necessarily imply the difference expressed as an absolute value |n|, that is, the numeric value of the difference without regard to its sign.
absolute change in body temperature
JSmith
2012-03-09T05:24:30Z
Measurement of the amount of resistance in a blood vessel to the flow of blood or other fluid through it.
blood vessel resistance measurement
JSmith
2012-03-09T05:53:03Z
Resistance to blood flow by blood vessels in the lung.
pulmonary vascular resistance (PVR)
JSmith
2012-03-09T05:57:02Z
Measurement of vascular resistance in lung blood vessels calculated from other indirect measurements.
calculated PVR
calculated pulmonary vascular resistance
JSmith
2012-03-09T06:00:03Z
R_Flow100
calculated pulmonary vascular resistance normalized to body weight
JSmith
2012-03-13T12:26:02Z
Measurement made on the endothelial tissue or endothelial cells lining a blood vessel.
blood vessel endothelium measurement
JSmith
2012-03-13T12:29:04Z
calculated blood vessel endothelium measurement
JSmith
2012-03-13T12:31:07Z
FAPGG metabolism-surface area product
JSmith
2012-03-13T01:02:07Z
methylene blue metabolism-surface area product without auto-oxidation
JSmith
2012-03-13T01:03:47Z
methylene blue metabolism-surface area product after auto-oxidation
JSmith
2012-03-13T01:12:29Z
Ratio of the methylene blue metabolism-surface area product without auto-oxidation to the FAPGG metabolism-surface area product.
methylene blue to FAPGG metabolism-surface area product ratio
JSmith
2012-03-13T04:15:39Z
Any measurement of the energy produced by the active reduction in the diameter of a blood vessel, any one of the network of muscular tubes that carry blood through the body, resulting from contraction of the muscular wall of the vessel.
blood vessel contractility measurement
blood vessel contractile force measurement
JSmith
2012-03-13T04:46:14Z
Measurement of the highest achievable amount of energy produced by the active reduction in the diameter of a blood vessel, any one of the network of muscular tubes that carry blood through the body, resulting from contraction of the muscular wall of the vessel.
blood vessel maximum contractility measurement
blood vessel maximum contractile force
JSmith
2012-03-13T04:47:52Z
maximum contractile force per wet weight of vessel
JSmith
2012-03-14T04:09:34Z
Measurement of an organism's, organ's, tissue's or cell's capacity to respond, such as by a change in activity, state or condition, to a drug or other chemical stimulus.
chemical response/sensitivity measurement
JSmith
2012-03-14T04:16:11Z
A measurement which has been normalized, adjusted or derived by a mathematical process or computation, of the energy produced by the active reduction in the diameter of a blood vessel, any one of the network of muscular tubes that carry blood through the body, resulting from contraction of the muscular wall of the vessel.
calculated blood vessel contractile force measurement
JSmith
2012-03-14T04:17:28Z
A calculated value for the concentration of phenylephrine (PE), the phenylethanolamine with IUPAC name (R)-3-[-1-hydroxy-2-(methylamino)ethyl]phenol and formula C9H13NO2 that acts as a selective alpha1-adrenergic receptor agonist, decongestant and vasoconstrictor, at which the energy produced by the active reduction in the diameter of a blood vessel in response to the application of PE is halfway between the baseline value and the highest achievable value of such PE-induced contractile energy.
phenylephrine half maximal effective concentration (EC50)
concentration of phenylephrine at which the force of blood vessel contraction is half the maximum value (EC50)
JSmith
2012-03-14T04:17:54Z
A calculated value for logarithm of the concentration of phenylephrine (PE), the phenylethanolamine with IUPAC name (R)-3-[-1-hydroxy-2-(methylamino)ethyl]phenol and formula C9H13NO2 that acts as a selective alpha1-adrenergic receptor agonist, decongestant and vasoconstrictor, at which the energy produced by the active reduction in the diameter of a blood vessel in response to the application of PE is halfway between the baseline value and the highest achievable value of such PE-induced contractile energy. The logarithm of the concentration is the exponent indicating the power to which 10 must be raised to obtain that concentration value.
phenylephrine Log half maximal effective concentration (Log EC50)
logarithm of the concentration of phenylephrine at which the force of blood vessel contraction is half the maximum value (Log EC50)
JSmith
2012-03-14T04:21:12Z
Measurement of the reduction in force during dilation of a blood vessel via calculations from direct measurements rather than expressing the direct measurements themselves.
calculated blood vessel dilation force reduction measurement
JSmith
2012-03-14T04:23:57Z
A calculated value for the concentration of acetylcholine (ACh), the ester of acetic acid and choline with chemical formula CH3C=OO(CH2)2-N(+)-(CH3)3 and IUPAC name 2-acetoxy-N,N,N-trimethylethanaminium, which acts as a neurotransmitter, at which the energy exerted during the active expansion in the diameter of a blood vessel in response to the application of ACh is halfway between the highest value, that is the force at greatest constriction (often measured in a pre-constricted blood vessel), and the lowest achievable value of such contractile energy during ACh-induced relaxation of the vessel wall (i.e. the maximum effect of Ach which is the minimum contractile energy).
acetylcholine half maximal effective concentration (EC50)
concentration of acetylcholine at which the reduction in force during dilation of a blood vessel is half the maximum value (EC50)
JSmith
2012-03-14T04:24:16Z
A calculated value for logarithm of the concentration of acetylcholine (ACh), the ester of acetic acid and choline with chemical formula CH3C=OO(CH2)2-N(+)-(CH3)3 and IUPAC name 2-acetoxy-N,N,N-trimethylethanaminium, which acts as a neurotransmitter, at which the energy exerted during the active expansion in the diameter of a blood vessel in response to the application of ACh is halfway between the highest value, that is the force at greatest constriction (often measured in a pre-constricted blood vessel), and the lowest achievable value of such contractile energy during ACh-induced relaxation of the vessel wall (i.e. the maximum effect of Ach which is the minimum contractile energy). The logarithm of the concentration is the exponent indicating the power to which 10 must be raised to obtain that concentration value.
acetylcholine Log half maximal effective concentration (Log EC50)
logarithm of the concentration of acetylcholine at which the reduction in force during dilation of a blood vessel is half the maximum value (Log EC50)
JSmith
2012-03-14T04:24:44Z
A calculated value for the concentration of sodium nitroprusside (SNP), the red-colored inorganic salt with the formula Na2[Fe(CN)5NO]-2H2O used as a potent vasodilator, at which the energy exerted during the active expansion in the diameter of a blood vessel in response to the application of SNP is halfway between the highest value, that is the force at greatest constriction (often measured in a pre-constricted blood vessel), and the lowest achievable value of such contractile energy during SNP-induced relaxation of the vessel wall (i.e. the maximum effect of SNP which is the minimum contractile energy).
sodium nitroprusside half maximal effective concentration (EC50)
concentration of sodium nitroprusside at which the reduction in force during dilation of a blood vessel is half the maximum value (EC50)
JSmith
2012-03-14T04:25:16Z
A calculated value for logarithm of the concentration of sodium nitroprusside (SNP), the red-coloured inorganic salt with the formula Na2[Fe(CN)5NO]-2H2O used as a potent vasodilator, at which the energy exerted during the active expansion in the diameter of a blood vessel in response to the application of SNP is halfway between the highest value, that is the force at greatest constriction (often measured in a pre-constricted blood vessel), and the lowest achievable value of such contractile energy during SNP-induced relaxation of the vessel wall (i.e. the maximum effect of SNP which is the minimum contractile energy).
sodium nitroprusside Log half maximal effective concentration (Log EC50)
logarithm of the concentration of sodium nitroprusside at which the reduction in force during dilation of a blood vessel is half the maximum value (Log EC50)
JSmith
2012-03-15T11:42:31Z
maximum contractile force per wet weight of aorta
JSmith
2012-03-15T11:48:29Z
Measurement of the reduction in force during blood vessel dilation.
blood vessel dilation force reduction measurement
JSmith
2012-03-15T11:53:37Z
blood vessel dilation expressed as percent of force at maximum constriction
JSmith
2012-03-15T11:55:20Z
acetylcholine-induced blood vessel dilation expressed as percent of phenylephrine-induced vasoconstriction
acetylcholine-induced blood vessel dilation expressed as percent of force at maximum constriction
JSmith
2012-03-15T11:59:59Z
sodium nitroprusside-induced blood vessel dilation expressed as percent of phenylephrine-induced vasoconstriction
sodium nitroprusside-induced blood vessel dilation expressed as percent of force at maximum constriction
JSmith
2012-03-15T12:00:51Z
hypoxia-induced blood vessel dilation expressed as percent of force at maximum constriction
JSmith
2012-03-15T12:03:40Z
slope measurement of phenylephrine-induced contraction
slope measurement of drug-induced contraction
slope measurement of chemical-induced contraction
JSmith
2012-03-15T12:05:49Z
fast-slope measurement of phenylephrine-induced contraction
fast-slope measurement of drug-induced contraction
fast-slope measurement of chemical-induced contraction
JSmith
2012-03-15T12:06:21Z
slow-slope measurement of phenylephrine-induced contraction
slow-slope measurement of drug-induced contraction
slow-slope measurement of chemical-induced contraction
JSmith
2012-03-15T12:11:24Z
Measurement of an organism's, organ's, tissue's or cell's capacity to respond, such as by a change in activity, state or condition, to acetylcholine (ACh), the ester of acetic acid and choline with chemical formula CH3C=OO(CH2)2-N(+)-(CH3)3 and IUPAC name 2-acetoxy-N,N,N-trimethylethanaminium, which acts as a neurotransmitter.
acetylcholine response/sensitivity measurement
JSmith
2012-03-15T12:12:47Z
Measurement of an organism's, organ's, tissue's or cell's capacity to respond, such as by a change in activity, state or condition, to phenylephrine (PE), the phenylethanolamine with IUPAC name (R)-3-[-1-hydroxy-2-(methylamino)ethyl]phenol and formula C9H13NO2 that acts as a selective alpha1-adrenergic receptor agonist, decongestant and vasoconstrictor.
phenylephrine response/sensitivity measurement
JSmith
2012-03-15T12:13:21Z
Measurement of an organism's, organ's, tissue's or cell's capacity to respond, such as by a change in activity, state or condition, to sodium nitroprusside (SNP), the red-colored inorganic salt with the formula Na2[Fe(CN)5NO]-2H2O used as a potent vasodilator.
sodium nitroprusside response/sensitivity measurement
JSmith
2012-03-20T04:21:00Z
percent change in heart rate
JSmith
2012-03-20T04:31:30Z
Calculation of a difference between representations of blood pressure in a treated versus untreated state or over time, after the original values have been normalized or adjusted by a mathematical process or computation. Blood pressure is the pressure, or force per area, exerted by circulating blood against the walls of the blood vessels. The pressure is dependent on the energy of the heart action, elasticity of the vessel walls and volume and viscosity of the blood.
change in calculated blood pressure
JSmith
2012-03-20T04:31:52Z
A calculated measurement of the difference in developed blood pressure between a treated state and a control state. Developed pressure is systolic minus diastolic pressure when measured in an isolated organ or vessel under conditions where perfusion pressure or flow can be controlled.
change in developed blood pressure
JSmith
2012-03-20T04:32:19Z
A calculated measurement of the difference in developed blood pressure between a treated state and a control state, expressed as a percentage. Developed pressure is systolic minus diastolic pressure when measured in an isolated organ or vessel under conditions where perfusion pressure or flow can be controlled.
percent change in developed blood pressure
JSmith
2012-03-20T04:34:31Z
Calculated measurement of a difference in the maximum arterial blood pressure, that is the pressure at the point of maximal contraction of the heart, between two points in time or two conditions.
change in systolic blood pressure
JSmith
2012-03-20T04:35:00Z
The relative difference in the maximum arterial blood pressure, that is the pressure at the point of maximal contraction of the heart, between two points in time or two conditions expressed as a percentage.
percent change in systolic blood pressure
JSmith
2012-03-20T04:37:30Z
change in arterial blood flow rate
JSmith
2012-03-20T04:38:02Z
percent change in arterial blood flow rate
JSmith
2012-03-20T04:38:35Z
The term "absolute change" refers to the subtraction of one value from another, as opposed to a dissimilarity of two values expressed as a ratio or as a percentage. In this context it is not intended to necessarily imply the difference expressed as an absolute value |n|, that is, the numeric value of the difference without regard to its sign.
absolute change in arterial blood flow rate
JSmith
2012-03-21T01:08:08Z
A calculated measurement of the difference in developed pressure measured in the heart left ventricle between a treated state and a control state, expressed as a percentage. Developed pressure is systolic minus diastolic pressure when measured in an isolated organ or vessel under conditions where perfusion pressure or flow can be controlled.
percent change in left ventricular developed pressure
JSmith
2012-03-21T01:09:30Z
A calculated measurement of the difference in developed pressure measured in the heart left ventricle between a treated state and a control state. Developed pressure is systolic minus diastolic pressure when measured in an isolated organ or vessel under conditions where perfusion pressure or flow can be controlled.
change in left ventricular developed pressure
JSmith
2012-03-21T01:13:41Z
Difference in the pressure within the heart left ventricle at the point of maximal contraction, when the blood is forced from the left ventricle into the aorta, between two points in time or two conditions.
change in left ventricular systolic blood pressure
JSmith
2012-03-21T01:14:31Z
The relative difference in the pressure within the heart left ventricle at the point of maximal contraction, when the blood is forced from the left ventricle into the aorta, between two points in time or two conditions expressed as a percentage.
percent change in left ventricular systolic blood pressure
JSmith
2012-03-30T07:52:39Z
The activity level of LDH in effluent expressed relative to the weight of the heart; calculated as LDH activity divided by heart wet weight.
heart effluent lactate dehydrogenase activity level normalized to heart weight
JSmith
2012-06-07T11:37:18Z
heart left ventricle weight
JSmith
2012-06-07T11:38:49Z
heart right ventricle weight
JSmith
2012-06-07T12:01:20Z
The average blood pressure within the pulmonary artery over a specified period of time, or technically over a complete cycle of one heartbeat.
mean pulmonary artery (PA) pressure
mean pulmonary arterial blood pressure
JSmith
2012-06-07T02:24:23Z
Measurement of blood pressure in the pulmonary artery.
pulmonary artery (PA) blood pressure measurement
pulmonary artery pressure
pulmonary arterial blood pressure measurement
JSmith
2012-06-26T11:34:46Z
Measurement of an organ lesion which is or has the potential to become a tumor, that is, a neoplasm or new growth of tissue in which cell multiplication is more or less uncontrolled and progressive. Tumorous lesions include tumors, preneoplastic lesions, and hyperplastic lesions composed of histologically normal cells.
organ tumorous lesion measurement
JSmith
2012-06-26T11:46:40Z
Measurement of an organ lesion which is not neoplastic in origin. A lesion is a localized pathological change in structure of an organ or tissue due to injury or disease; especially one that is circumscribed and well defined. Examples of non-tumorous lesions would include wounds, sores, ulcers, infarctions, etc.
organ non-tumorous lesion measurement
JSmith
2012-06-26T12:53:39Z
Measurement of a heart lesion which is not neoplastic in origin. A lesion is a localized pathological change in structure of an organ or tissue due to injury or disease; especially one that is circumscribed and well defined. Examples of non-tumorous lesions would include wounds, sores, ulcers, infarctions, etc.
heart non-tumorous lesion measurement
JSmith
2012-06-26T01:22:44Z
Measurement of a lesion of the heart which is or has the potential to become a tumor, that is, a neoplasm or new growth of tissue in which cell multiplication is more or less uncontrolled and progressive. Tumorous lesions include tumors, preneoplastic lesions, and hyperplastic lesions composed of histologically normal cells.
heart tumorous lesion measurement
JSmith
2012-07-11T10:34:14Z
Any measurement, morphological or physiological, involving the kidney or any part thereof.
Not4Curation
kidney measurement
JSmith
2012-07-11T10:38:08Z
Renal blood flow (RBF) is the volume of blood delivered to or exiting from the kidneys per unit time.
renal blood flow rate
JSmith
2012-07-11T10:44:48Z
Arterial renal blood flow (RBFa) is the volume of blood delivered to the kidneys per unit time via the renal arteries.
renal arterial blood flow rate
JSmith
2012-07-11T10:48:22Z
Venous renal blood flow (RBFv) is the volume of blood exiting from the kidneys per unit time via the renal veins.
renal venous blood flow rate
JSmith
2012-07-11T12:08:49Z
A calculated value in which the weight of the right ventricle, the lower chamber of the right side of the heart, which pumps venous blood through the pulmonary trunk and arteries to the capillaries of the lung, is divided by the total weight of the body and presented as a ratio thus normalizing it to body weight.
heart right ventricle weight to body weight ratio
JSmith
2012-07-11T12:09:38Z
A calculated value in which the weight of the right ventricle, the lower chamber of the right side of the heart, which pumps venous blood through the pulmonary trunk and arteries to the capillaries of the lung, is presented as percentage of the total weight of the body thus normalizing it to body weight.
heart right ventricle weight as a percentage of body weight
JSmith
2012-07-18T04:24:26Z
Any measurement of the physical form or structure of the left ventricle of the heart. The left ventricle is the lower chamber of the left side of the heart, which pumps oxygenated blood out through the aorta to all the tissues of the body.
Note, "left" in this context refers to the perspective of the organism, not that of the nobserver.
heart left ventricle morphological measurement
JSmith
2012-07-18T04:30:51Z
Any measurement of the physical form or structure of the right ventricle of the heart. The right ventricle is the lower chamber of the right side of the heart (from the perspective of the organism rather than the observer), which pumps venous blood through the pulmonary trunk and arteries to the capillaries of the lung.
heart right ventricle morphological measurement
JSmith
2012-07-26T10:04:12Z
Measurement of a localized pathological change in structure of a blood vessel due to injury or disease; especially one that is circumscribed and well defined.
blood vessel lesion measurement
JSmith
2012-07-26T12:15:46Z
A measurement of blood vessel diameter which has been normalized or adjusted by a mathematical process or computation.
Not4Curation
calculated blood vessel diameter measurement
JSmith
2012-07-26T12:18:48Z
blood vessel wall thickness
JSmith
2012-07-26T12:20:54Z
A measurement of the depth of the wall of a blood vessel which has been normalized or adjusted by a mathematical process or computation.
Not4Curation
calculated blood vessel wall thickness measurement
JSmith
2012-07-26T12:23:13Z
A measurement of the depth of the wall of an artery, one of the large blood vessels carrying blood in a direction away from the heart to the tissues.
artery wall thickness
JSmith
2012-07-26T12:27:42Z
A measurement of the depth of the wall of an artery which has been normalized or adjusted by a mathematical process or computation. An artery is one of the large blood vessels carrying blood in a direction away from the heart to the tissues.
Not4Curation
calculated artery wall thickness measurement
JSmith
2012-07-26T12:32:00Z
artery diameter
JSmith
2012-07-26T12:39:26Z
The length of a line which crosses a transverse view of a blood vessel, passing through its center and ending on either side at the inner surface of the blood vessel wall.
blood vessel lumen diameter
blood vessel inner diameter
JSmith
2012-07-26T12:41:25Z
The length of a line which crosses a transverse view of a blood vessel, passing through its center and ending on either side at the outer surface of the blood vessel wall.
blood vessel outer diameter
JSmith
2012-07-26T12:43:00Z
The length of a line which crosses a transverse view of an artery, passing through its center and ending on either side at the inner surface of the blood vessel wall.
artery lumen diameter
artery inner diameter
JSmith
2012-07-26T12:44:18Z
The length of a line which crosses a transverse view of an artery, passing through its center and ending on either side at the outer surface of the blood vessel wall.
artery outer diameter
JSmith
2012-07-26T12:48:55Z
Measurement of the length of a line which crosses a transverse view of an artery, passing through its center and ending on either side at either the inner surface or outer surface of the blood vessel wall, which has been normalized or adjusted by a mathematical process or computation.
Not4Curation
calculated artery diameter measurement
JSmith
2012-07-26T12:57:08Z
Any measurement of one of the large blood vessels carrying blood in a direction away from the heart to the tissues.
artery measurement
JSmith
2012-07-26T12:59:52Z
Measurement of any localized pathological change in structure of an artery, one of the large blood vessels carrying blood in a direction away from the heart to the tissues, due to injury or disease; especially one that is circumscribed and well defined.
artery lesion measurement
JSmith
2012-07-26T02:04:57Z
Measurement which has been normalized or adjusted by a mathematical process or computation of any localized pathological change in structure of an artery due to injury or disease; especially one that is circumscribed and well defined.
Not4Curation
calculated artery lesion measurement
JSmith
2012-07-26T02:13:01Z
Measurement which has been normalized or adjusted by a mathematical process or computation of any localized pathological change in structure of a blood vessel due to injury or disease; especially one that is circumscribed and well defined.
Not4Curation
calculated blood vessel lesion measurement
JSmith
2012-07-26T02:14:51Z
A calculated measurement in which the ratio of the wall thickness (WT) of a blood vessel is divided by the inner diameter (ID) of that vessel at that location, and the result presented as a ratio, fraction, quotient or percentage, for example, WT/ID x 100. This measurement is often used to assess stenosis, a pathological narrowing of a blood vessel.
blood vessel wall thickness as percentage of blood vessel lumen diameter
blood vessel stenosis measurement
blood vessel wall thickness as percentage of blood vessel inner diameter
blood vessel wall thickness to blood vessel inner diameter ratio
JSmith
2012-07-26T02:16:51Z
Ratio of the wall thickness (WT) of an artery to inner diameter (ID) of that artery at that location, usually expressed as a percentage, i.e. WT/ID x 100, but could also be expressed as a ratio, fraction or quotient. This measurement can be used to assess stenosis, a pathological narrowing of a blood vessel.
arterial stenosis measurement
artery wall thickness as percentage of artery inner diameter
artery wall thickness as percentage of artery lumen diameter
artery wall thickness to artery inner diameter ratio
JSmith
2012-07-26T02:25:16Z
A measurement of the length of a line which crosses a transverse view of an artery, passing through its center and ending on either side at the inner surface of the blood vessel wall, after that measurement has been normalized or adjusted by a mathematical process or computation. An artery is a blood vessel that carries blood away from the heart.
Not4Curation
calculated artery inner diameter measurement
JSmith
2012-07-26T03:24:53Z
Any measurement of components of the periodic tightening and loosening of the muscles of a ventricle of the heart.
ventricle contraction measurement
JSmith
2012-07-27T03:14:05Z
The diameter across the left ventricle of the heart at the end of diastole, that is, when the heart muscle is maximally relaxed, and usually corresponds to its largest diameter.
LVDD
LVEDD
left ventricular end-diastolic dimension
heart left ventricular end-diastolic diameter
JSmith
2012-07-27T03:32:16Z
The diameter across the left ventricle of the heart at the end of systole, that is, when the heart muscle is maximally contracted, and usually corresponds to its smallest diameter.
LVESD
LVSD
left ventricular end-systolic dimension
heart left ventricle end-systolic diameter
JSmith
2012-07-27T03:42:40Z
A measurement of the physical form or structure of the left ventricle of the heart which has been normalized or adjusted by a mathematical process or computation. The heart left ventricle is the lower chamber of the left side of the heart, which pumps oxygenated blood out through the aorta to all the tissues of the body.
calculated heart left ventricle morphological measurement
JSmith
2012-07-27T03:51:33Z
A calculated measurement corresponding to the ratio or percent reduction in left ventricular diameter between end-diastole and end-systole. Can be calculated as the left ventricle end-diastolic diameter (LVDd) minus the left ventricle end-systolic diameter (LVSd) divided by the left ventricle end-diastolic diameter (LVDd) with the quotient multiplied by 100, i.e. FS = [(LVDd-LVSd)/LVDd] x 100.
heart left ventricle fractional shortening
JSmith
2012-07-27T04:11:09Z
The thickness or depth of the ventral/anterior wall of the left ventricle of the heart. The ventral/anterior wall is the portion of the muscle enclosing the ventricle which is farthest from the spine and closest to the chest wall of the organism.
heart left ventricle ventral wall thickness
heart left ventricle anterior wall thickness
JSmith
2012-07-27T05:59:34Z
The thickness or depth of the septal wall of the heart ventricles. The septal wall is the portion of the heart left ventricle ventral/anterior wall and right ventricle dorsal/posterior wall which is shared between the ventricles.
heart ventricle septal wall thickness
SWT
antero-septal wall thickness
heart interventricular septum thickness
heart intraventricular wall thickness
heart ventricle septum thickness
heart ventricle septal wall thickness
JSmith
2012-07-27T06:00:34Z
A calculated measurement of left ventricular geometry and is calculated by dividing the end-diastolic diameter into 2x the posterior wall thickness, 2x the septal wall thickness or the sum of the posterior and septal wall thicknesses. It represents a measure of the wall thickness normalized to the size of the ventricle lumen.
heart left ventricle relative wall thickness
JSmith
2012-07-27T06:15:29Z
A calculated measurement of left ventricular geometry and is calculated by dividing the end-diastolic diameter into 2x the posterior wall thickness at end-diastole, 2x the septal wall thickness at end-diastole or the sum of the posterior and septal wall thicknesses at end-diastole. It represents a measure of the wall thickness normalized to the size of the ventricle lumen.
heart left ventricle end-diastolic relative wall thickness
JSmith
2012-07-30T10:15:23Z
The thickness or depth of the ventral/anterior wall of the heart. The ventral wall is the portion of the heart muscle which is farthest from the spine and closest to the chest wall of the organism.
heart ventral wall thickness
heart anterior wall thickness
JSmith
2012-07-30T10:31:58Z
Not4Curation
calculated heart wall thickness measurement
JSmith
2012-07-30T11:04:28Z
heart relative wall thickness
JSmith
2012-07-30T11:05:55Z
heart ventricle relative wall thickness
JSmith
2012-07-30T01:25:59Z
The extent of shortening of the minor internal circumference (at the midpoint of the long axis) between end-diastole and end-systole, divided by the time required for shortening.
mean circumferential fiber shortening rate
mean VCF
mean velocity of circumferential fiber shortening
JSmith
2012-07-30T02:57:57Z
The thickness or depth of the ventral/anterior wall of the right ventricle of the heart. The ventral wall is the portion of the muscle enclosing the ventricle which is farthest from the spine and closest to the chest wall of the organism.
heart right ventricle ventral wall thickness
heart right ventricle anterior wall thickness
JSmith
2012-08-02T01:00:46Z
Count of the number of glomeruli located in the superficial layer of the renal cortex, the cortex corticis. Glomeruli are the tufts of capillaries each situated within a Bowman's capsule at the end of a renal tubule in the vertebrate kidney that filter waste products from the blood and thus initiate urine formation.
superficial glomeruli count
superficial glomerulus count
JSmith
2012-08-02T01:14:28Z
Count of the number of glomeruli located in the superficial layer of the renal cortex, the cortex corticis, and directly in contact with the surface of the kidney, i.e. the renal capsule. Glomeruli are the tufts of capillaries each situated within a Bowman's capsule at the end of a renal tubule in the vertebrate kidney that filter waste products from the blood and thus initiate urine formation.
surface glomeruli count
count of superficial glomeruli directly contacting the kidney surface
JSmith
2012-08-02T01:15:32Z
Count of the number of glomeruli located in the superficial layer of the renal cortex, the cortex corticis but without any direct contact with the surface of the kidney, i.e. the renal capsule. Glomeruli are the tufts of capillaries each situated within a Bowman's capsule at the end of a renal tubule in the vertebrate kidney that filter waste products from the blood and thus initiate urine formation.
count of superficial glomeruli not directly contacting the kidney surface
JSmith
2012-08-03T06:05:33Z
heart infarction volume
JSmith
2012-08-03T06:17:05Z
Measurement of any change or difference in the diastolic blood pressure between two points or two conditions. The diastolic pressure is the minimum arterial pressure within the cardiac cycle, usually at the point at which the heart is in a state of relaxation and expansion. This is the time when the ventricles fill with blood.
Not4Curation
change in diastolic blood pressure
JSmith
2012-08-03T06:19:27Z
The relative difference in the diastolic blood pressure between two points or two conditions, expressed as a percentage. The diastolic pressure is the minimum arterial pressure within the cardiac cycle, usually at the point at which the heart is in a state of relaxation and expansion. This is the time when the ventricles fill with blood.
percent change in diastolic blood pressure
JSmith
2012-08-13T01:16:23Z
Calculated measurement of a difference in the pressure within the heart left ventricle at the point of maximal contraction, when the blood is forced from the left ventricle into the aorta, between two points in time or two conditions expressed as the result of the subtraction in and of itself without comparison by ratio with another quantity.
The term "absolute change" refers to the subtraction of one value from another, as opposed to a dissimilarity of two values expressed as a ratio or as a percentage. In this context it is not intended to necessarily imply the difference expressed as an absolute value |n|, that is, the numeric value of the difference without regard to its sign.
absolute change in left ventricular systolic blood pressure
jsmith
2012-08-23T03:27:50Z
Temperature measured at the surface of or within the head of an experimental subject. Because the temperature of the head/brain can influence neurological measurements, head temperature is or can be considered to be distinct from core body temperature.
cranial temperature
head temperature
jsmith
2012-08-23T04:06:16Z
The temperature of the internal tissues and organs of the body.
core temperature
core body temperature
JSmith
2012-09-13T06:09:33Z
A measurement which has been normalized or adjusted by a mathematical process or computation of the weight of the left ventricle of the heart, that is, its the heaviness or degree to which it is drawn toward the earth by gravity. The heart left ventricle is the lower chamber of the left side of the heart, which pumps oxygenated blood out through the aorta to all the tissues of the body.
calculated heart left ventricle weight
JSmith
2012-09-13T06:11:08Z
calculated heart right ventricle weight
JSmith
2012-09-13T06:14:55Z
calculated heart right ventricle morphological measurement
JSmith
2012-10-03T05:31:53Z
The length of a line which crosses a transverse view of a cerebral artery, passing through its center and ending on either side at the inner surface of the blood vessel wall. The cerebral arteries are those which supply blood to the brain, more specifically, to the cerebrum.
cerebral artery lumen diameter
cerebral artery inner diameter
JSmith
2012-10-03T05:39:47Z
The length of a line which crosses a transverse view of an anterior cerebral artery, passing through its center and ending on either side at the inner surface of the blood vessel wall. The anterior cerebral artery (ACA) is one of a pair of arteries that supply oxygenated blood to the most medial portions of the frontal lobes and superior medial parietal lobes of the brain.
ACA inner diameter
anterior cerebral artery lumen diameter
anterior cerebral artery inner diameter
JSmith
2012-10-03T05:48:00Z
The length of a line which crosses a transverse view of a middle cerebral artery, passing through its center and ending on either side at the inner surface of the blood vessel wall. The middle cerebral arteries are the largest of the cerebral arteries and supply blood to the lateral cerebral cortex, anterior temporal lobes and insular cortices of the brain.
MCA inner diameter
middle cerebral artery lumen diameter
middle cerebral artery inner diameter
JSmith
2012-10-03T05:59:18Z
The length of a line which crosses a transverse view of a posterior cerebral artery, passing through its center and ending on either side at the inner surface of the blood vessel wall. The posterior cerebral artery (PCA) is one of a pair of blood vessels that supply blood to the posterior aspect, i.e. the occipital lobe, of the brain.
PCA inner diameter
posterior cerebral artery lumen diameter
posterior cerebral artery inner diameter
JSmith
2012-10-08T02:59:36Z
Measurement of a lesion in kidney, he organ which functions to maintain proper water and electrolyte balance, regulate acid-base concentration, and filter the blood of metabolic wastes. A lesion is a localized pathological change in structure of an organ or tissue due to injury or disease; especially one that is circumscribed and well defined.
kidney lesion measurement
JSmith
2012-10-08T03:01:39Z
Measurement of a lesion in the kidney, he organ which functions to maintain proper water and electrolyte balance, regulate acid-base concentration, and filter the blood of metabolic wastes, which is not neoplastic in origin. A lesion is a localized pathological change in structure of an organ or tissue due to injury or disease; especially one that is circumscribed and well defined. Examples of non-tumorous lesions would include wounds, sores, ulcers, infarctions, etc.
kidney non-tumorous lesion measurement
JSmith
2012-10-08T03:03:01Z
Measurement of a lesion in the kidney, he organ which functions to maintain proper water and electrolyte balance, regulate acid-base concentration, and filter the blood of metabolic wastes, which is or has the potential to become a tumor, that is, a neoplasm or new growth of tissue in which cell multiplication is more or less uncontrolled and progressive. Tumorous lesions include tumors, preneoplastic lesions, and hyperplastic lesions composed of histologically normal cells.
kidney tumorous lesion measurement
JSmith
2012-10-08T03:09:04Z
Any measurement of lesions resulting from fibrosis, scarring or hyaline deposits within a kidney glomerulus, a tuft of capillaries situated within a Bowman's capsule at the end of a renal tubule in the vertebrate kidney, that filters waste products from the blood and thus initiates urine formation.
kidney glomerulosclerosis measurement
renal glomerulosclerosis measurement
renal glomerulosclerotic lesion measurement
kidney glomerulosclerotic lesion measurement
JSmith
2012-10-08T03:43:25Z
A measurement of lesions resulting from fibrosis, scarring or hyaline deposits within one or more kidney glomeruli which has been normalized, adjusted or derived by a mathematical process or computation.
calculated kidney glomerulosclerosis measurement
calculated renal glomerulosclerosis measurement
calculated renal glomerulosclerotic lesion measurement
calculated kidney glomerulosclerotic lesion measurement
JSmith
2012-10-08T03:45:56Z
A measurement of lesions resulting from fibrosis, scarring or hyaline deposits within kidney glomeruli which is derived from a combination of multiple measurements and/or objective or subjective severity scores according to a specified formula or set of criteria.
glomerular damage composite score
glomerulosclerosis composite score
glomerulosclerosis damage index
index of glomerular damage
JSmith
2012-10-12T05:28:37Z
Any measurement, morphological or physiological of a muscle or a group of muscles. Muscles are organs or tissues composed of bundles of fibers that have the power to contract and hence to produce movement.
muscle measurement
JSmith
2012-10-15T11:45:27Z
Measurement of the physical form or structure of one or more glomeruli in the kidney. Glomeruli are the tufts of capillaries each situated within a Bowman's capsule at the end of a renal tubule in the vertebrate kidney that filter waste products from the blood and thus initiate urine formation.
kidney glomerulus morphological measurement
JSmith
2012-10-15T11:48:00Z
The length of a straight line passing through the center of a kidney glomerulus and connecting opposite points on its circumference.
kidney glomerular diameter
kidney glomerulus diameter
JSmith
2012-10-15T11:55:42Z
A measurement of the volume of blood delivered to or exiting from the kidneys per unit time, which has been normalized, adjusted or derived by a mathematical process or computation.
calculated renal blood flow rate
JSmith
2012-10-15T11:59:32Z
The difference in the volume of blood delivered to or exiting from the kidneys per unit time between two points in time or two conditions expressed as the result of the subtraction in and of itself without comparison by ratio with another quantity.
The term "absolute change" refers to the subtraction of one value from another, as opposed to a dissimilarity of two values expressed as a ratio or as a percentage. In this context it is not intended to necessarily imply the difference expressed as an absolute value |n|, that is, the numeric value of the difference without regard to its sign.
absolute change in renal blood flow rate
JSmith
2012-10-22T12:14:30Z
The number of kidney glomeruli with lesions resulting from fibrosis, scarring or hyaline deposits, or the number of such lesions in a specified sample.
damaged glomeruli count
number of sclerotic glomeruli
sclerotic glomeruli count
sclerotic glomerulus count
kidney glomerulosclerotic lesion count
JSmith
2012-10-22T01:31:20Z
Any measurement involving the composition, that is, the absolute amount, relative amount or type of one or more proteins (complex high molecular weight organic compounds containing carbon, hydrogen, oxygen, nitrogen, and sulfur consisting of alpha-amino acids joined by peptide linkages) or peptides (low molecular weight compounds composed of at least two amino acids joined by peptide linkages) in kidney.
kidney tissue protein/peptide composition measurement
kidney protein/peptide composition measurement
JSmith
2012-10-22T03:13:42Z
Any measurement, morphological or physiological of the outer part of the kidney, composed mainly of glomeruli and convoluted tubules.
kidney cortex measurement
renal cortex measurement
JSmith
2012-10-22T03:20:09Z
Any measurement, morphological or physiological, of the renal medulla, the innermost part of the kidney which contains the structures of the nephrons responsible for maintaining the salt and water balance of the blood.
kidney medulla measurement
renal medulla measurement
JSmith
2012-10-22T03:28:36Z
Any measurement involving the amount, composition or type of protein, the complex organic compounds containing carbon, hydrogen, oxygen, nitrogen, and sulfur consisting of alpha-amino acids joined by peptide linkages, in kidney medulla, the innermost part of the kidney which contains the structures of the nephrons responsible for maintaining the salt and water balance of the blood.
kidney medulla protein measurement
renal medulla protein measurement
JSmith
2012-10-22T03:31:18Z
Any measurement involving the amount, composition or type of protein, the complex organic compounds containing carbon, hydrogen, oxygen, nitrogen, and sulfur consisting of alpha-amino acids joined by peptide linkages, in renal cortex, the outer part of the kidney, composed mainly of glomeruli and convoluted tubules.
kidney cortex protein measurement
renal cortex protein measurement
JSmith
2012-10-22T03:34:08Z
A measurement which has been normalized, adjusted or derived by a mathematical process or computation, of the composition, that is, the absolute amount, relative amount or type, of protein (the complex organic compounds containing carbon, hydrogen, oxygen, nitrogen, and sulfur consisting of alpha-amino acids joined by peptide linkages) in kidney.
calculated renal protein composition measurement
calculated kidney protein composition measurement
JSmith
2012-10-22T03:41:53Z
A measurement which has been normalized, adjusted or derived by a mathematical process or computation involving the amount, composition or type of protein in the kidney cortex, the outer part of the kidney, composed mainly of glomeruli and convoluted tubules.
calculated kidney cortex protein composition measurement
calculated renal cortex protein composition measurement
JSmith
2012-10-22T03:43:38Z
A measurement which has been normalized, adjusted or derived by a mathematical process or computation involving the amount, composition or type of protein in the renal medulla, the innermost part of the kidney which contains the structures of the nephrons responsible for maintaining the salt and water balance of the blood.
calculated kidney medulla protein composition measurement
calculated renal medulla protein composition measurement
JSmith
2012-10-22T04:00:13Z
A calculated value in which the amount of TRPV4 protein in a specified sample of kidney is divided by the amount of beta-actin protein in the same or a corresponding sample of kidney and presented as a ratio, fraction or quotient, thus normalizing it to the beta-actin protein level.
renal TRPV4 protein level to beta-actin protein level ratio
kidney TRPV4 protein level to beta-actin protein level ratio
JSmith
2012-10-22T04:33:48Z
A calculated value in which the amount of TRPV4 protein in a specified sample of renal cortex is divided by the amount of beta-actin protein in the same or a corresponding sample of renal cortex and presented as a ratio, fraction or quotient, thus normalizing it to the beta-actin protein level.
kidney cortex TRPV4 protein level to beta-actin protein level ratio
renal cortex TRPV4 protein level to beta-actin protein level ratio
JSmith
2012-10-22T04:35:29Z
A calculated value in which the amount of TRPV4 protein in a specified sample of renal medulla is divided by the amount of beta-actin protein in the same or a corresponding sample of renal medulla and presented as a ratio, fraction or quotient, thus normalizing it to the beta-actin protein level.
kidney medulla TRPV4 protein level to beta-actin protein level ratio
renal medulla TRPV4 protein level to beta-actin protein level ratio
JSmith
2012-10-23T10:05:50Z
The length of a line which crosses a transverse view of a cerebral artery, passing through its center and ending on either side at the inner surface of the blood vessel wall, after that measurement has been normalized or adjusted by a mathematical process or computation. The cerebral arteries are those which supply blood to the brain, more specifically, to the cerebrum.
calculated cerebral artery inner diameter measurement
JSmith
2012-10-23T10:06:14Z
The length of a line which crosses a transverse view of a middle cerebral artery, passing through its center and ending on either side at the inner surface of the blood vessel wall, after that measurement has been normalized or adjusted by a mathematical process or computation. The middle cerebral arteries are the largest of the cerebral arteries and supply blood to the lateral cerebral cortex, anterior temporal lobes and insular cortices of the brain.
calculated middle cerebral artery inner diameter measurement
JSmith
2012-10-23T10:09:32Z
A calculated measurement of the relative difference in the middle cerebral artery inner diameter between a treated state and a control state or between two points in time, expressed as a percentage.
percent change in middle cerebral artery inner diameter
JSmith
2012-11-12T15:45:39Z
A measurement of the extent of a two-dimensional plane through the left ventricle of the heart at the end of diastole, that is, when the heart muscle is maximally relaxed, and usually corresponds to its largest diameter.
EDA
LVAd
LVDa
heart left ventricle end-diastolic area
JSmith
2012-11-12T15:47:47Z
A measurement of the extent of a two-dimensional plane through the left ventricle of the heart at the end of systole, that is, when the heart muscle is maximally contracted, and usually corresponds to its smallest diameter.
ESA
LVAs
LVSa
heart left ventricle end-systolic area
JSmith
2012-11-15T15:35:17Z
A calculated value in which the weight of the heart, the chambered, muscular organ that maintains the circulation of the blood, is divided by the length of the tibia, the inner and larger bone of the lower leg or hindlimb, and presented as a ratio, fraction, quotient or percentage, thus normalizing it to the length of the leg and, by extension, to the length of the body.
heart weight to tibia length ratio
JSmith
2012-11-15T15:38:38Z
A calculated value in which the total weight after removal from the body but without desiccation of both kidneys is divided by the length of the tibia, the inner and larger bone of the lower leg or hindlimb, and presented as a ratio, fraction, quotient or percentage, thus normalizing it to the length of the leg and, by extension, to the length of the body.
both kidneys wet weight to tibia length ratio
JSmith
2013-01-07T13:24:24Z
A calculated measurement of the ratio between the change in mean arterial blood pressure and the concentration of sodium infused directly into the ventricle(s) of the brain; calculated as the slope of the curve of mean arterial blood pressure versus intracerebroventricular-infused sodium concentration.
change in mean arterial blood pressure to change in intracerebroventricular sodium concentration ratio
JSmith
2013-01-07T13:34:46Z
A calculated measurement of the ratio between the change in heart rate and the concentration of sodium infused directly into the ventricle(s) of the brain; calculated as the slope of the curve of heart rate versus intracerebroventricular-infused sodium concentration.
change in heart rate to change in intracerebroventricular sodium concentration ratio
JSmith
2013-01-07T15:55:09Z
A value calculated by dividing the proportionate change in renal blood flow (RBF) by the proportionate change in renal perfusion pressure (RPP), i.e. (RBF2 - RBF1)/RBF1 divided by (RPP2 - RPP1)/RPP1.
autoregulatory index
ratio of renal blood flow change to renal perfusion pressure change
ratio of change in renal blood flow to change in renal perfusion pressure
JSmith
2013-01-08T14:41:50Z
Any measurement of a lesion in the kidney characterized by an abnormal proliferation of fibrous connective tissue. A lesion is a localized pathological change in structure of an organ or tissue due to injury or disease; especially one that is circumscribed and well defined.
kidney fibrotic lesion measurement
JSmith
2013-01-08T14:54:45Z
Any measurement of the physical dimensions, proportions, magnitude, or extent of a lesion in the kidney characterized by an abnormal proliferation of fibrous connective tissue. A lesion is a localized pathological change in structure of an organ or tissue due to injury or disease; especially one that is circumscribed and well defined.
kidney fibrotic lesion size measurement
JSmith
2013-01-08T15:03:27Z
A measurement of the extent of a two-dimensional surface of or plane through a single kidney fibrotic lesion, or a measurement of the total area occupied by fibrotic lesions in a cross-section of the kidney.
kidney fibrotic lesion area measurement
JSmith
2013-01-08T15:17:52Z
A measurement of the extent of a two-dimensional surface of or plane through a single kidney fibrotic lesion, or a measurement of the total area occupied by fibrotic lesions in a cross-section of the kidney, when that value has been normalized, adjusted or derived by a mathematical process or computation.
calculated kidney fibrotic lesion area measurement
JSmith
2013-01-08T15:20:55Z
A calculated value in which the extent of the two-dimensional surface occupied by fibrotic lesions is divided by the total extent of the two-dimensional surface of the kidney and presented as a ratio, fraction, quotient or percentage, thus normalizing it to the size of the kidney.
kidney fibrotic lesion area to total kidney area ratio
JSmith
2013-01-08T16:28:12Z
A calculated value in which the number of glomeruli with lesions resulting from fibrosis, scarring or hyaline deposits is divided by the total number of glomeruli in a specified sample of kidney and presented as a ratio, fraction or quotient, thus normalizing it to the total number of glomeruli.
sclerotic glomeruli to total glomeruli ratio
kidney glomerulosclerotic lesion count to total glomeruli count ratio
kidney sclerotic glomeruli count to total glomeruli count ratio
JSmith
2013-01-09T15:09:49Z
The combined weight of both ventricles of the heart, that is, their heaviness or the degree to which they are drawn toward the earth by gravity. The ventricles are the lower chambers of the heart that pump blood away from the heart either to the lungs to be oxygenated or, once oxygenated, to the rest of the body.
total heart ventricle weight
JSmith
2013-01-09T16:00:43Z
A measurement of the combined weight of both heart ventricles that has been normalized, adjusted or derived by a mathematical process or computation.
Not4Curation
calculated total heart ventricle weight
JSmith
2013-01-09T16:03:12Z
A calculated value in which the combined weight of both the left and right ventricles, the lower chambers of the heart that pump blood away from the heart either to the lungs to be oxygenated or, once oxygenated, to the rest of the body, is presented as percentage of the total weight of the body thus normalizing it to body weight.
total heart ventricle weight as a percentage of body weight
JSmith
2013-01-15T10:37:51Z
Any measurement of the cavity or channel within an artery, one of the large blood vessels carrying blood in a direction away from the heart to the tissues.
artery lumen measurement
JSmith
2013-01-15T10:50:23Z
A measurement of the two-dimensional extent of the enclosed cavity or channel in a cross-section of an artery, one of the large blood vessels carrying blood in a direction away from the heart to the tissues.
artery lumen area
JSmith
2013-01-15T11:04:30Z
Any measurement of the fibrous and muscular structure of one of the large blood vessels carrying blood in a direction away from the heart to the tissues. The wall of an artery is composed of three layers: the tunica intima, the inner coat; the tunica media, the middle coat; and the tunica adventitia, the outer coat.
arterial wall measurement
artery wall measurement
JSmith
2013-01-15T11:17:48Z
Any measurement of the tunica media, or middle coat, of the wall of an artery, one of the large blood vessels carrying blood in a direction away from the heart to the tissues.
arterial tunica media measurement
artery tunica media measurement
JSmith
2013-01-15T11:21:04Z
A direct measurement of two dimensional extent of the tunica media, the middle coat of the arterial wall, in a cross-section of an artery, one of the large blood vessels carrying blood in a direction away from the heart to the tissues. The total area of the tunica media gives an indication of the thickness of the arterial wall.
arterial tunica media area
media area (MA) of artery
artery tunica media area
JSmith
2013-01-15T11:34:35Z
A calculated measurement of the average width of the tunica media, the middle coat of the arterial wall. Can be calculated using the media area and the length of the internal elastic lamina.
arterial tunica media width
media width (MW) of artery
artery tunica media width
JSmith
2013-01-15T12:10:01Z
A measurement of the extent of a two-dimensional surface of or plane through a single hyperplastic lesion of the tunica intima, that is, the inner coat of the arterial wall, or a measurement of the total area occupied by hyperplastic lesions of the tunica intima in a cross-section of an artery, one of the large blood vessels carrying blood in a direction away from the heart to the tissues. A hyperplastic lesion is a localized pathological increase in the number of cells of an organ or tissue resulting from an increased rate of cellular division due to injury or disease; especially one that is circumscribed and well defined.
artery intimal hyperplastic lesion area
neointimal hyperplasia area of artery
artery neointimal hyperplastic lesion area
JSmith
2013-01-15T12:33:00Z
Any measurement of one or more hyperplastic lesions of the arterial tunica intima which has been normalized, adjusted or derived by a mathematical process.
calculated arterial intima hyperplasia area
calculated artery neointimal hyperplastic lesion area
JSmith
2013-01-15T12:33:16Z
A calculated measurement in which the area of the arterial tunica intima occupied by one or more hyperplastic lesions is divided by the total cross-sectional area of the artery wall and presented as a ratio, fraction, quotient or percentage.
ratio of neointimal hyperplasia area to total wall area of artery
artery neointimal hyperplastic lesion area to total wall area ratio
JSmith
2013-01-15T12:50:46Z
The area of the arterial lumen remaining when the luminal space is restricted by a pathological process, e.g. hyperplasia.
residual lumen area of diseased artery
lesioned artery residual lumen area
JSmith
2013-01-16T13:36:09Z
The weight after desiccation of both kidneys, the paired organs which function to maintain proper water and electrolyte balance, regulate acid-base concentration, and filter the blood of metabolic wastes.
both kidneys dry weight
JSmith
2013-01-16T13:36:57Z
The weight after desiccation of a single kidney, one of the paired organs which function to maintain proper water and electrolyte balance, regulate acid-base concentration, and filter the blood of metabolic wastes.
individual kidney dry weight
single kidney dry weight
JSmith
2013-01-21T16:32:31Z
Any measurement of the great artery arising from the left ventricle from which the systemic arterial system proceeds.
aorta measurement
JSmith
2013-01-21T16:37:23Z
Any quantification of the physical form or structure of the great artery arising from the left ventricle from which the systemic arterial system proceeds.
aorta morphological measurement
JSmith
2013-01-25T12:50:21Z
The speed at which the blood flows through the circulatory system or through a specific segment of a vein or artery, expressed as distance per unit of time.
blood flow velocity
JSmith
2013-01-25T12:56:43Z
The speed at which the blood flows through an artery, expressed as distance per unit of time.
arterial blood flow velocity
JSmith
2013-01-25T13:10:05Z
The speed at which the blood flows through the aorta, the great artery arising from the left ventricle from which the systemic arterial system proceeds, expressed as distance per unit of time.
aortic blood flow velocity
JSmith
2013-01-25T13:15:01Z
Any measurement of the movement of blood through the aorta, the great artery arising from the left ventricle from which the systemic arterial system proceeds.
aortic blood flow measurement
JSmith
2013-01-25T13:18:41Z
The volume of blood flowing through the aorta, the great artery arising from the left ventricle from which the systemic arterial system proceeds, per unit of time.
aortic blood flow rate
JSmith
2013-01-25T13:21:50Z
The maximum speed at which the blood flows through the aorta during the cardiac cycle, expressed as distance per unit of time.
aortic peak velocity (APV)
maximum aortic velocity
peak aortic blood flow velocity
peak of aortic outflow velocity (PAV)
peak aortic velocity
JSmith
2013-01-25T13:29:29Z
The length of time in the cardiac cycle between the closing of the aortic and pulmonic/pulmonary semilunar valves and opening of the atrioventricular (AV) valves marking the beginning of ventricular filling. Used as an indicator of diastolic dysfunction.
IVRT
heart isovolumetric relaxation time
JSmith
2013-01-25T13:35:08Z
Measurement of the physical form or structure of the left upper chamber of the heart that receives blood from the veins and forces it into the left ventricle.
heart left atrium morphological measurement
JSmith
2013-01-25T13:42:05Z
Measurement of the physical form or structure of the right upper chamber of the heart that receives blood from the veins and forces it into the right ventricle.
heart right atrium morphological measurement
JSmith
2013-01-25T13:51:15Z
The distance between two specified opposite points on the periphery of the left atrium of the heart at the end of systole, that is, when the left ventricle is maximally contracted, and usually corresponds to the left atrium's largest diameter.
heart left atrium end-systolic diameter
JSmith
2013-01-25T15:50:33Z
The distance between two specified opposite points on the periphery of the left atrium of the heart at the end of diastole, that is, when the left ventricle is maximally dilated, and usually corresponds to the left atrium's smallest diameter.
heart left atrium end-diastolic diameter
JSmith
2013-01-25T15:51:30Z
A measurement of the physical form or structure of the left atrium, the left upper chamber of the heart that receives blood from the veins and forces it into the left ventricle, which has been normalized, adjusted or derived by a mathematical process or computation.
calculated heart left atrium morphological measurement
JSmith
2013-01-25T16:00:18Z
A calculated measurement corresponding to the ratio or percent reduction in left atrial diameter between end-systole and end-diastole. It is calculated as the left atrium end-systolic diameter (LADs) minus the left atrium end-diastolic diameter (LADd) divided by the left atrium end-systolic diameter (LADs).
heart left atrium fractional shortening
JSmith
2013-01-28T16:41:10Z
Measurement of the number of white blood cells, including lymphocytes and monocytes, with a single round or oval nucleus in a specified volume of blood.
mononuclear leukocyte count
blood mononuclear cell count
JSmith
2013-01-30T14:16:47Z
A measurement of the movement of blood through one or more vessels or organs in the body which has been normalized, adjusted or derived by a mathematical process or computation.
calculated blood flow measurement
JSmith
2013-03-15T17:22:25Z
Any measurement of the thick contractile middle layer of uniquely constructed and arranged muscle cells that forms the bulk of the heart wall.
myocardium measurement
JSmith
2013-03-15T17:29:25Z
The volume of fluid flowing into, out of or through the blood vessels and microvasculature of the myocardium, the thick contractile middle layer of uniquely constructed and arranged muscle cells that forms the bulk of the heart wall, per unit time.
myocardial flow rate
JSmith
2013-03-15T17:38:35Z
Measurement of the amount of radioactive or other tracer is lost from the myocardium, the thick contractile middle layer of uniquely constructed and arranged muscle cells that forms the bulk of the heart wall, per unit time.
myocardial clearance rate
JSmith
2013-06-18T10:33:25Z
A value resulting from the quantification of a morphological or physiological parameter of vascular smooth muscle, the contractile soft tissue having fine myofibrils but lacking transverse striations composing the majority of the wall of blood vessels, the network of muscular tubes that carry blood through the body.
vascular smooth muscle measurement
Not4Curation
blood vessel smooth muscle measurement
JSmith
2013-06-18T10:41:10Z
Any quantification of the physical form or structure of the layered tissue which encloses and constitutes the structural component of the great artery arising from the left ventricle from which the systemic arterial system proceeds.
aortic wall morphological measurement
aorta wall morphological measurement
JSmith
2013-06-18T10:42:34Z
Measurement of the total number of cells, membrane-enclosed protoplasmic masses constituting the smallest structural unit of an organism that is capable of independent functioning, in a specified sample of the aorta smooth muscle, the contractile soft tissue having fine myofibrils but lacking transverse striations composing the majority of the wall of the great artery arising from the left ventricle from which the systemic arterial system proceeds.
aortic smooth muscle cell count
aorta smooth muscle cell count
JSmith
2013-06-18T11:29:28Z
Measurement of the total number of cells, membrane-enclosed protoplasmic masses constituting the smallest structural unit of an organism that is capable of independent functioning, in a specified sample of vascular smooth muscle, the contractile soft tissue having fine myofibrils but lacking transverse striations composing the majority of the wall of blood vessels, the network of muscular tubes that carry blood through the body.
vascular smooth muscle cell count
blood vessel smooth muscle cell count
JSmith
2013-06-18T12:57:40Z
A measurement which has been normalized, adjusted or derived by a mathematical process or computation of the total number of cells, membrane-enclosed protoplasmic masses constituting the smallest structural unit of an organism that is capable of independent functioning, in a specified sample of vascular smooth muscle, the contractile soft tissue having fine myofibrils but lacking transverse striations composing the majority of the wall of blood vessels, the network of muscular tubes that carry blood through the body.
calculated vascular smooth muscle cell count
calculated blood vessel smooth muscle cell count
JSmith
2013-06-18T12:59:11Z
A measurement which has been normalized, adjusted or derived by a mathematical process or computation of the total number of cells, membrane-enclosed protoplasmic masses constituting the smallest structural unit of an organism that is capable of independent functioning, in a specified sample of the aorta smooth muscle, the contractile soft tissue having fine myofibrils but lacking transverse striations composing the majority of the wall of the great artery arising from the left ventricle from which the systemic arterial system proceeds.
calculated aortic smooth muscle cell count
calculated aorta smooth muscle cell count
JSmith
2013-06-18T13:25:39Z
A calculated value in which the total number of cells, membrane-enclosed protoplasmic masses constituting the smallest structural unit of an organism that is capable of independent functioning, in a specified sample of the aorta smooth muscle, the contractile soft tissue having fine myofibrils but lacking transverse striations composing the majority of the wall of the great artery arising from the left ventricle from which the systemic arterial system proceeds, is divided by the length of the smooth muscle section in which that number is determined.
aortic smooth muscle cell count per unit vessel length
aorta smooth muscle cell count per unit vessel length
JSmith
2013-06-18T14:44:11Z
The amount of deoxyribonucleic acid (DNA), the molecule composed of the sugar deoxyribose, phosphate groups and any combination of the bases adenine, guanine, cytosine, and/or thymine, extracted from or contained in the heart left ventricle, the lower chamber of the left side of the heart (from the perspective of the organism rather than the observer), which pumps oxygenated blood out through the aorta to all the tissues of the body.
heart LV DNA content
heart left ventricle DNA content
heart left ventricle deoxyribonucleic acid content
JSmith
2013-06-18T14:46:40Z
A measurement which has been normalized, adjusted or derived by a mathematical process or computation, of the amount of deoxyribonucleic acid (DNA), the molecule composed of the sugar deoxyribose, phosphate groups and any combination of the bases adenine, guanine, cytosine, and/or thymine, extracted from or contained in the heart left ventricle, the lower chamber of the left side of the heart (from the perspective of the organism rather than the observer), which pumps oxygenated blood out through the aorta to all the tissues of the body.
calculated heart LV DNA content
calculated heart left ventricle DNA content
calculated heart left ventricle deoxyribonucleic acid content
JSmith
2013-06-18T14:49:33Z
A calculated measurement in which amount of deoxyribonucleic acid (DNA), the molecule composed of the sugar deoxyribose, phosphate groups and any combination of the bases adenine, guanine, cytosine, and/or thymine, extracted from or contained in the heart left ventricle, the lower chamber of the left side of the heart (from the perspective of the organism rather than the observer), which pumps oxygenated blood out through the aorta to all the tissues of the body, is divided by the total weight or heaviness of the body and presented as a ratio, fraction, quotient or percentage, thus normalizing it to body weight and, by extension, to the size of the organism.
heart LV DNA content to body weight ratio
heart left ventricle DNA content to BW ratio
heart left ventricle DNA content to body weight ratio
heart left ventricle deoxyribonucleic acid content to body weight ratio
JSmith
2013-06-18T14:52:32Z
The amount of deoxyribonucleic acid (DNA), the molecule composed of the sugar deoxyribose, phosphate groups and any combination of the bases adenine, guanine, cytosine, and/or thymine, extracted from or contained in the heart right ventricle, the lower chamber of the right side of the heart (from the perspective of the organism rather than the observer), which pumps venous blood through the pulmonary trunk and arteries to the capillaries of the lung.
heart RV DNA content
heart right ventricle DNA content
heart right ventricle deoxyribonucleic acid content
JSmith
2013-06-18T14:54:27Z
A measurement which has been normalized, adjusted or derived by a mathematical process or computation, of the amount of deoxyribonucleic acid (DNA), the molecule composed of the sugar deoxyribose, phosphate groups and any combination of the bases adenine, guanine, cytosine, and/or thymine, extracted from or contained in the heart right ventricle, the lower chamber of the right side of the heart (from the perspective of the organism rather than the observer), which pumps venous blood through the pulmonary trunk and arteries to the capillaries of the lung.
calculated heart RV DNA content
calculated heart right ventricle DNA content
calculated heart right ventricle deoxyribonucleic acid content
JSmith
2013-06-18T14:56:34Z
A calculated measurement in which amount of deoxyribonucleic acid (DNA), the molecule composed of the sugar deoxyribose, phosphate groups and any combination of the bases adenine, guanine, cytosine, and/or thymine, extracted from or contained in the heart right ventricle, the lower chamber of the right side of the heart (from the perspective of the organism rather than the observer), which pumps venous blood through the pulmonary trunk and arteries to the capillaries of the lung, is divided by the total weight or heaviness of the body and presented as a ratio, fraction, quotient or percentage, thus normalizing it to body weight and, by extension, to the size of the organism.
heart RV DNA content to body weight ratio
heart right ventricle DNA content to BW ratio
heart right ventricle DNA content to body weight ratio
heart right ventricle deoxyribonucleic acid content to body weight ratio
JSmith
2013-06-20T14:09:54Z
Measurement of the highest achievable amount of energy produced by the active reduction in the diameter of a blood vessel, any one of the network of muscular tubes that carry blood through the body, resulting from a contraction of the muscular wall of the vessel which does not involve the action of a receptor, a molecule on the surface or within a cell that recognizes and binds with specific molecules, producing a specific effect.
blood vessel receptor-independent maximum contractility
receptor-independent blood vessel maximum contractile force
JSmith
2013-06-20T14:10:59Z
Measurement of the highest achievable amount of energy produced by the active reduction in the diameter of a blood vessel, any one of the network of muscular tubes that carry blood through the body, resulting from a contraction of the muscular wall of the vessel which is instigated by the activation of a receptor, a molecule on the surface or within a cell that recognizes and binds with specific molecules, producing a specific effect.
blood vessel receptor-dependent maximum contractility
receptor-dependent blood vessel maximum contractile force
JSmith
2013-06-20T14:12:17Z
A measurement which has been normalized, adjusted or derived by a mathematical process or computation, of the highest achievable amount of energy produced by the active reduction in the diameter of a blood vessel, any one of the network of muscular tubes that carry blood through the body, resulting from contraction of the muscular wall of the vessel.
calculated blood vessel maximum contractile force measurement
JSmith
2013-06-20T14:14:00Z
A calculated measurement in which the receptor-dependent maximum contractile force of a blood vessel is divided by the receptor-independent maximum contractile force of a blood vessel and presented as a ratio, fraction, quotient or percentage. The maximum contractile force of a blood vessel is the highest achievable amount of energy produced by the active reduction in the diameter of a blood vessel, any one of the network of muscular tubes that carry blood through the body, resulting from a contraction of the muscular wall of the vessel. Receptor-dependent refers to such a contraction which is instigated by the activation of a receptor, a molecule on the surface or within a cell that recognizes and binds with specific molecules, producing a specific effect. Receptor-independent denotes such a contraction that does not involve the action of a receptor.
blood vessel receptor-dependent contractility to receptor-independent contractility ratio
receptor-dependent blood vessel maximum contractile force exoressed as a percentage of receptor-independent blood vessel maximum contractile force
receptor-dependent blood vessel maximum contractile force to receptor-independent blood vessel maximum contractile force ratio
JSmith
2013-06-20T14:22:08Z
A calculated value for the concentration of angiotensin II (AngII), the octapeptide, Asp-Arg-Val-Tyr-Ile-His-Pro-Phe, that is derived from angiotensinogen and acts as a powerful vasopressor and stimulator of aldosterone secretion, at which the energy produced by the active reduction in the diameter of a blood vessel in response to the application of AngII is halfway between the baseline value and the highest achievable value of such AngII-induced contractile energy.
Ang2 half maximal effective concentration
AngII half maximal effective concentration
angiotensin 2 half maximal effective concentration
angiotensin II half maximal effective concentration (EC50)
concentration of angiotensin II at which the force of blood vessel contraction is half the maximum value (EC50)
JSmith
2013-06-20T14:24:41Z
A calculated value for logarithm of the concentration of angiotensin II (AngII), the octapeptide, Asp-Arg-Val-Tyr-Ile-His-Pro-Phe, that is derived from angiotensinogen and acts as a powerful vasopressor and stimulator of aldosterone secretion, at which the energy produced by the active reduction in the diameter of a blood vessel in response to the application of AngII is halfway between the baseline value and the highest achievable value of such AngII-induced contractile energy. The logarithm of the concentration is the exponent indicating the power to which 10 must be raised to obtain that concentration value.
Ang2 Log half maximal effective concentration
AngII Log half maximal effective concentration
angiotensin 2 Log half maximal effective concentration
angiotensin II Log half maximal effective concentration (EC50)
logarithm of the concentration of angiotensin II at which the force of blood vessel contraction is half the maximum value (Log EC50)
JSmith
2013-06-20T15:45:33Z
Measurement of an organism's, organ's, tissue's or cell's capacity to respond, such as by a change in activity, state or condition, to angiotensin II (AngII), the octapeptide, Asp-Arg-Val-Tyr-Ile-His-Pro-Phe, that is derived from angiotensinogen and acts as a powerful vasopressor and stimulator of aldosterone secretion.
angiotensin II response/sensitivity measurement
JSmith
2013-07-31T13:40:52Z
The difference in left ventricular diastolic blood pressure between two points in time or two conditions expressed as the result of the subtraction in and of itself without comparison by ratio with another quantity.
absolute change in LVDBP
The term "absolute change" refers to the subtraction of one value from another, as opposed to a dissimilarity of two values expressed as a ratio or as a percentage. In this context it is not intended to necessarily imply the difference expressed as an absolute value |n|, that is, the numeric value of the difference without regard to its sign.
absolute change in left ventricular diastolic blood pressure
JSmith
2013-07-31T15:17:53Z
Any measurement of the blood pressure in the left ventricle of the heart which has been normalized or adjusted by a mathematical process or computation. Left ventricular blood pressure is the pressure, or force per area, exerted by circulating blood against the walls of the left ventricle, the lower chamber of the left side of the heart, which pumps oxygenated blood out through the aorta to all the tissues of the body.
calculated left ventricular pressure
calculated left ventricular blood pressure
JSmith
2013-07-31T15:24:11Z
A calculated measurement that is used as an index to characterize the contractile ability of the heart. It is believed that maximum dP/dt is a reasonable index of the initial velocity of myocardial contraction.
LV +dP/dt Max
peak +LVdP/dt
rate of maximum positive change in left ventricular blood pressure
maximum rate of positive change in left ventricular blood pressure
JSmith
2013-07-31T15:27:12Z
A calculated hemodynamic measurement related to the ability of the heart left ventricle to relax. The point at which the negative pressure fall velocity reaches its peak is taken to be the onset of isovolumic relaxation of the left ventricle.
LV -dP/dt Max
peak -LVdP/dt
rate of maximum negative change in left ventricular blood pressure
maximum rate of negative change in left ventricular blood pressure
JSmith
2013-07-31T15:29:00Z
A calculated hemodynamic value related to the ability of the heart left ventricle to relax. Tau is calculated as an exponential function of the change in intraventricular pressure during the diastolic isovolumic left ventricular pressure decrease.
time constant of left ventricular relaxation
time constant of left ventricular pressure decay
JSmith
2013-10-16T12:18:32Z
The thickness or depth (i.e. the measurement of the two-dimensional extent of the distance between the inner and outer surfaces) of the dorsal/posterior wall of the left ventricle of the heart at the end of systole, that is, when the heart muscle is maximally contracted. The dorsal wall is the portion of the muscle enclosing the ventricle which is closest to the spine and farthest from the chest wall of the organism. The left ventricle is the lower chamber of the left side of the heart, which pumps oxygenated blood out through the aorta to all the tissues of the body.
end-systolic heart left ventricle posterior wall thickness
end-systolic heart left ventricle PWT
Note that "left" in this context refers to the perspective of the organism, not that of the observer.
heart left ventricle end-systolic posterior wall thickness
JSmith
2013-11-04T17:14:28Z
Any quantification of the amounts or proportions of proteins, lipids, minerals, nutrients, gases, or other substances ina specified sample of kidney tissue, that is, tissue from one or both of the paired organs which function to maintain proper water and electrolyte balance, regulate acid-base concentration, and filter the blood of metabolic wastes.
kidney molecular composition measurement
JSmith
2013-11-04T17:16:16Z
Quanitification of one or more lipids in a specified sample of kidney tissue, that is, tissue from one or both of the paired organs which function to maintain proper water and electrolyte balance, regulate acid-base concentration, and filter the blood of metabolic wastes. A lipid is any of a structurally diverse group of organic compounds that are insoluble in water but soluble innonpolar solvents that, among other biological functions, serve as a source of fuel and are an important constituent of cell structure.
kidney lipid composition measurement
JSmith
2013-11-04T17:22:56Z
The amount of 20-hydroxyeicosatetraenoic acid, a vasoconstrictor that consists of arachidonic acid (a C20, polyunsaturated fatty acid having four (Z)-double bonds at positions 5, 8, 11 and 14) bearing a hydroxy substituent at position 20, in a specified sample of kidney tissue, that is, tissue from one or both of the paired organs which function to maintain proper water and electrolyte balance, regulate acid-base concentration, and filter the blood of metabolic wastes.
kidney 20-hydroxyeicosatetraenoic acid level
kidney 20-HETE level
JSmith
2013-11-07T16:12:26Z
The number of immune cells in a specified sample. An immune cell is any cell involved in the immune system, a complex set of interconnected and interdependent cellular and molecular components having the primary functions of distinguishing self from not self and of defense against foreign organisms or substances. A cell is a membrane-enclosed protoplasmic mass constituting the smallest structural unit of an organism that is capable of independent functioning.
immune cell count
JSmith
2013-11-08T16:00:08Z
The difference in the pulse pressure of an individual between two points in time or two conditions expressed as the result of the subtraction in and of itself without comparison by ratio with another quantity. Pulse pressure is the difference between systolic and diastolic blood pressures, i.e. the difference between the maximal arterial pressure and minimal arterial pressure during the cardiac cycle.
The term "absolute change" refers to the subtraction of one value from another, as opposed to a dissimilarity of two values expressed as a ratio or as a percentage. In this context it is not intended to necessarily imply the difference expressed as an absolute value |n|, that is, the numeric value of the difference without regard to its sign.
absolute change in pulse pressure
JSmith
2013-11-18T15:00:01Z
A calculated measurement of the degree to which a change in the size of the remaining kidney after surgical removal of the other kidney can be attributed to compensatory growth, calculated as the ratio of the normalized weight of a single kidney at the time of surgical removal divided by the similarly normalized weight of the single remaining kidney at a specified period of time after removal. The normalized kidney weight is the weight of the kidney corrected for body weight using an empirically determined allometric scaling factor (i.e., an exponential factor which adjusts for the normal increase in kidney weight due to normal growth and development of the individual). Compensatory growth is the phenomenon in which the impaired function of one organ in a paired organ system or of part of an organ in a single organ system is followed by enlargement of the surviving organ or tissue so that functional capacity is maintained. Kidney is the paired organ which functions to maintain proper water and electrolyte balance, regulate acid-base concentration, and filter the blood of metabolic wastes.
CRG score
compensatory renal growth score
JSmith
2013-11-18T16:20:39Z
A calculated measurement in which the difference in the volume of blood delivered to and/or exiting from the kidneys per unit time between two points in time or two conditions is divided by the weight (heaviness or degree to which a body is drawn toward the earth by gravity) of one or both kidneys, and presented as a ratio, fraction, quotient or percentage. The kidney is the paired organ which functions to maintain proper water and electrolyte balance, regulate acid-base concentration, and filter the blood of metabolic wastes.
ratio of change in renal blood flow rate to kidney weight
JSmith
2013-11-18T17:22:16Z
A measurement of the degree to which the blood vessels of the kidneys impede the flow of blood through them. Renal vascular resistance is calculated as the renal blood flow rate divided by the mean arterial pressure.
kidney vascular resistance
renal vascular resistance
JSmith
2013-11-18T17:23:40Z
A measurement that has been normalized, adjusted or derived by a mathematical process or computation, of the degree to which the blood vessels of the kidneys impede the flow of blood through them. Blood vessels are the network of muscular tubes that carry blood throughout the body. Blood is the fluid that circulates through the heart, arteries, capillaries and veins carrying nutrients and oxygen to the body tissues and metabolites away from them. Kidney is the paired organ which functions to maintain proper water and electrolyte balance, regulate acid-base concentration, and filter the blood of metabolic wastes.
calculated kidney vascular resistance
calculated renal vascular resistance
JSmith
2013-11-18T17:26:57Z
The difference in renal vascular resistance between two points in time or two conditions expressed as the result of the subtraction in and of itself without comparison by ratio with another quantity. Renal vascular resistance is the degree to which the blood vessels of the kidneys impede the flow of blood through them. Blood vessels are the network of muscular tubes that carry blood throughout the body. Blood is the fluid that circulates through the heart, arteries, capillaries and veins carrying nutrients and oxygen to the body tissues and metabolites away from them. Kidney is the paired organ which functions to maintain proper water and electrolyte balance, regulate acid-base concentration, and filter the blood of metabolic wastes.
absolute change in kidney vascular resistance
The term "absolute change" refers to the subtraction of one value from another, as opposed to a dissimilarity of two values expressed as a ratio or as a percentage. In this context it is not intended to necessarily imply the difference expressed as an absolute value |n|, that is, the numeric value of the difference without regard to its sign.
absolute change in renal vascular resistance
JSmith
2013-11-18T17:27:01Z
A calculated measurement of the slope, the ratio of vertical change to horizontal change, of the line of a graph designating the change in renal vascular resistance in response to a drug or other condition which causes constriction or reduction of the interior diameter of blood vessels. Renal vascular resistance is the degree to which the blood vessels of the kidneys impede the flow of blood through them. Blood vessels are the network of muscular tubes that carry blood throughout the body. Blood is the fluid that circulates through the heart, arteries, capillaries and veins carrying nutrients and oxygen to the body tissues and metabolites away from them. Kidney is the paired organ which functions to maintain proper water and electrolyte balance, regulate acid-base concentration, and filter the blood of metabolic wastes.
slope of constriction-induced renal vascular resistance curve
slope of contraction-induced kidney vascular resistance curve
slope of contraction-induced renal vascular resistance curve
JSmith
2013-11-19T13:00:18Z
The enumeration, i.e. measurement of the total number, of defects or lesions of the internal elastic lamina which are not hyperplastic or neoplastic in origin in a specified sample of artery. A lesion is a localized pathological change in structure of an organ or tissue due to injury or disease; especially one that is circumscribed and well defined. The internal elastic lamina (IEL) is a fenestrated (perforated) layer of elastic tissue, i.e., one having the property of returning to the original shape after being distorted, that is the outermost part of the intima (innermost layer) of an artery. The IEL is the elastic layer that is situated between the tunica intima (inner layers) and tunica media (middle layers) of artery walls. An artery is any one of the branching system of muscular, elastic blood vessels that carry blood away from the heart.
artery internal elastic lamina defect count
artery internal elastic lamina non-tumorous lesion count
JSmith
2013-11-19T14:28:34Z
The amount of plasma that perfuses the kidneys per unit time. Plasma is the fibrinogen-containing fluid portion of the blood in which the particulate components are suspended. The kidneys are the paired organs that function to maintain proper water and electrolyte balance, regulate acid-base concentration, and filter the blood of metabolic wastes.
renal plasma flow rate
RPF
renal plasma flow
JSmith
2013-11-19T14:51:51Z
A calculated measurement in which the effective renal plasma flow rate (eRPF) is divided by weight (i.e. the heaviness or the degree to which an object is drawn toward the earth by gravity) of both kidneys and presented as a ratio, fraction, quotient or percentage. The eRPF is the amount of plasma that perfuses the renal tubules per unit time, derived by measurement of the clearance rate of a non-metabolizable solute such as para-aminohippurate (PAH). Plasma is the fibrinogen-containing fluid portion of the blood in which the particulate components are suspended. The kidneys are the paired organs that function to maintain proper water and electrolyte balance, regulate acid-base concentration, and filter the blood of metabolic wastes.
effective renal plasma flow rate to both kidney weight ratio
eRPF to both kidney weight ratio
ratio of the effective renal plasma flow to the weight of both kidneys
JSmith
2013-11-19T14:52:06Z
A calculated measurement of the amount of plasma that perfuses the renal tubules per unit time, derived by measurement of the clearance rate of a non-metabolizable solute such as para-aminohippurate (PAH). The effective RPF is approximately 10% less than the actual RPF. Plasma is the fibrinogen-containing fluid portion of the blood in which the particulate components are suspended. The kidneys are the paired organs that function to maintain proper water and electrolyte balance, regulate acid-base concentration, and filter the blood of metabolic wastes.
effective renal plasma flow rate
eRPF
effective renal plasma flow
JSmith
2013-11-19T14:52:10Z
A measurement which has been normalized, adjusted or derived by a mathematical process or computation, of the amount of plasma that perfuses the kidneys per unit time. Plasma is the fibrinogen-containing fluid portion of the blood in which the particulate components are suspended. The kidneys are the paired organs that function to maintain proper water and electrolyte balance, regulate acid-base concentration, and filter the blood of metabolic wastes.
calculated renal plasma flow rate
calculated RPF
calculated renal plasma flow
JSmith
2013-11-26T15:36:46Z
Any measurement that has been normalized, adjusted or derived by a mathematical process or computation, of the weight of only one of the kidneys, the paired organ which functions to maintain proper water and electrolyte balance, regulate acid-base concentration, and filter the blood of metabolic wastes.
calculated single kidney weight
JSmith
2013-11-26T15:39:42Z
Any measurement that has been normalized, adjusted or derived by a mathematical process or computation, of the weight of both (the complete set of two) of the kidneys, the paired organ which functions to maintain proper water and electrolyte balance, regulate acid-base concentration, and filter the blood of metabolic wastes.
calculated both kidneys weight
JSmith
2013-11-26T15:48:04Z
A calculated measurement in which the weight after removal from the body but without desiccation of only the single right kidney is divided by the total weight of the body and presented as a ratio, fraction, quotient or percent, thus normalizing it to body weight and by extension to the size of the organism. The right kidney is the organ which lies on the right side of the body from the perspective of the subject.
individual right kidney wet weight to body weight ratio
right kidney wet weight to body weight ratio
JSmith
2013-11-26T15:48:07Z
A calculated measurement in which the weight after removal from the body but without desiccation of only the left kidney is divided by the total weight of the body and presented as a ratio, fraction, quotient or percent, thus normalizing it to body weight and, by extension, to the size of the organism. The left kidney is the organ which lies on the left side of the body from the perspective of the subject.
individual left kidney wet weight to body weight ratio
left kidney wet weight to body weight ratio
JSmith
2013-11-26T16:04:13Z
A calculated measurement in which the value for the volume of blood delivered to and/or exiting from the kidneys per unit time is divided by the weight (heaviness or degree to which an object is drawn toward the earth by gravity) of one or both kidneys, and presented as a ratio, fraction, quotient or percentage.
renal blood flow rate to kidney weight ratio
JSmith
2013-12-02T10:53:31Z
A calculated measurement in which difference in the mean arterial blood pressure between two or more dosages of a drug or chemical which reduces the interior diameter of blood vessels is divided by difference in the logarithm of the applied dosages and presented as a ratio, fraction, quotient or percentage. The value is calculated as the slope of the curve of the mean arterial blood pressure versus log of the vasoconstrictor dose [VC] graph, given by the equation (log[VC]2 - log[VC]1)/(MAP at [VC]2 - MAP at [VC]1). A logarithm is the power to which a base, such as 10, must be raised to produce a given number.
change in MAP to change in log[vasoconstrictor] ratio
change in mean arterial blood pressure to change in the logarithm of the vasoconstrictor dose ratio
JSmith
2013-12-02T11:03:44Z
Measurement of the length of a straight line passing through the center and connecting opposite points on the circumference of a circle delineating the outer limits of a glomerulosclerotic lesion.
kidney glomerulosclerotic lesion diameter
JSmith
2013-12-02T11:54:57Z
A calculated measurement in which the diameter of kidney glomerular injury is divided by the value of the mean arterial blood pressure and presented as a ratio, fraction, quotient or percentage, for example to give an index of kidney damage relative to the level of hypertension.
kidney glomerulosclerotic lesion diameter to mean arterial blood pressure ratio
JSmith
2013-12-03T17:32:45Z
Measurement of the physical form or structure of one or more blood vessels, the network of muscular tubes that carry blood through the body.
blood vessel morphological measurement
JSmith
2013-12-03T18:01:02Z
Any quantitation of the molecules, atoms and/or ions which constitute the chemical make-up of the wall of the aorta, the layered tissue which encloses and constitutes the structural component of the great artery arising from the left ventricle from which the systemic arterial system proceeds. A molecule is an aggregation of atoms, specifically a chemical combination of two or more atoms forming a specific chemical substance.
aortic wall molecular composition measurement
aorta wall molecular composition measurement
JSmith
2013-12-03T18:08:51Z
The amount of elastin in a specified sample of aorta wall tissue. Elastin is an elastic, fibrous mucoprotein, similar to collagen, and the major connective tissue protein of elastic fibers, such as those in arterial walls.
aortic wall elastin level
aorta wall extracellular elastin level
JSmith
2013-12-03T18:13:06Z
The amount of collagen in a specified sample of aorta wall tissue. Collagen refers to any of a family of extracellular, closely related proteins occurring as a major component of connective tissue, giving it strength and flexibility.
aortic wall collagen level
aorta wall extracellular collagen level
JSmith
2013-12-03T18:14:39Z
A measurement which has been normalized, adjusted or derived by a mathematical process or computation, of the molecules, atoms and/or ions which constitute the chemical make-up of the wall of the aorta.
calculated aortic wall molecular composition measurement
calculated aorta wall molecular composition measurement
JSmith
2013-12-03T18:21:20Z
A calculated measurement in which the weight after dessication of the extracellular elastin in a specified sample of aorta wall is divided by the total weight after dessication of that sample of aorta wall, and the result presented as a ratio, fraction, quotient or percentage.
aortic wall elastin dry weight to total aortic wall dry weight ratio
aorta wall extracellular elastin dry weight to aorta wall dry weight ratio
JSmith
2013-12-03T18:29:26Z
A calculated measurement in which the weight after dessication of the extracellular elastin in a specified sample of aorta wall is divided by the weight of extracellular collagen in that sample of aorta wall, and the result presented as a ratio, fraction, quotient or percentage.
aortic wall elastin dry weight to aortic wall collagen weight ratio
aorta wall extracellular elastin dry weight to aorta wall extracellular collagen weight ratio
JSmith
2013-12-04T10:31:25Z
The total amount of protein extracted from within the cells of the aortic wall in a specified sample of aorta. Protein is any of a group of complex organic compounds containing carbon, hydrogen, oxygen, nitrogen, and sulfur consisting of alpha-amino acids joined by peptide linkages.
aorta cellular protein level
aorta wall total intracellular protein level
aorta wall intracellular protein level
JSmith
2014-01-07T16:35:21Z
The difference in mean arterial blood pressure between two points in time or two conditions expressed as a percentage (the proportion or rate per hundred parts).
The term "absolute change" refers to the subtraction of one value from another, as opposed to a dissimilarity of two values expressed as a ratio or as a percentage. In this context it is not intended to necessarily imply the difference expressed as an absolute value |n|, that is, the numeric value of the difference without regard to its sign.
percent change in mean arterial blood pressure
JSmith
2014-01-07T16:51:06Z
Average slope of the line defined by the change in heart rate (the number of contractions of the cardiac ventricles per unit of time) relative to the change in mean arterial blood pressure (the average force the blood exerts on an artery wall) over time and/or in response to a change in conditions.
change in heart rate to change in mean arterial blood pressure ratio
JSmith
2014-01-07T16:53:44Z
Maximum, largest or steepest slope of the line defined by the change in heart rate (the number of contractions of the cardiac ventricles per unit of time) relative to the change in mean arterial blood pressure (the average blood pressure within an artery over a specified period of time) over time and/or in response to a change in conditions.
maximum change in heart rate to change in mean arterial blood pressure ratio
JSmith
2014-01-23T17:03:36Z
The amount of sterol, any of a group of steroids with a long (8 to 10 carbons) aliphatic side-chain at position 17 and at least one alcoholic group, in a specified sample of blood.
blood sterol level
JSmith
2014-01-23T17:04:50Z
The amount of sterol, any of a group of steroids with a long (8 to 10 carbons) aliphatic side-chain at position 17 and at least one alcoholic group, in a specified sample of serum, the clear liquid that separates from blood after it has clotted completely, i.e. blood plasma from which fibrinogen has been removed.
serum sterol level
JSmith
2014-01-24T15:13:32Z
Any quantitation of the molecules, atoms and/or ions which constitute the chemical make-up of a specified tissue or set of tissues.
tissue molecular composition measurement
JSmith
2014-01-27T15:49:38Z
Determination of the number of mononuclear cells, i.e. leukocytes such as lymphocytes and monocytes with a single round or oval nucleus (including but not limited to such cells found in blood, lymph or spleen) found in a specified sample.
mononuclear cell number
mononuclear cell count
JSmith
2014-01-28T16:41:28Z
A calculated measurement in which .the number of kidney glomeruli displaying an abnormal (i.e., pathogenic) crescentic morphology is divided by the number of kidney glomeruli displaying normal morphology, and the result presented as a ratio, fraction, quotient or percentage.
kidney crescentic glomeruli count to kidney normal glomeruli count ratio
JSmith
2014-01-31T16:39:20Z
A measurement which has been normalized, adjusted or derived by a mathematical process or computation, of heart rate, the number of contractions of the cardiac ventricles per unit of time.
calculated heart rate measurement
JSmith
2014-01-31T16:41:23Z
The difference between two points in time or two conditions in heart rate expressed as the ratio of the low frequency R-R interval component of the power spectrum analysis to the high frequency R-R interval component of the power spectrum analysis, expressed as the result of the subtraction in and of itself without comparison by ratio with another quantity.
absolute change in heart rate variability
absolute change in ECG LF/HF ratio
absolute change in EKG LF/HF ratio
absolute change in electrocardiographic low frequency R-R interval to high frequency R-R interval ratio
The term "absolute change" refers to the subtraction of one value from another, as opposed to a dissimilarity of two values expressed as a ratio or as a percentage. In this context it is not intended to necessarily imply the difference expressed as an absolute value |n|, that is, the numeric value of the difference without regard to its sign.
absolute change in electrocardiographic low frequency R-R spectral component to high frequency R-R spectral component ratio
JSmith
2014-02-03T17:42:14Z
Any quantitation of the molecules, atoms and/or ions which constitute the chemical make-up of the tissue(s) of the heart left ventricle. A molecule is an aggregation of atoms, specifically a chemical combination of two or more atoms forming a specific chemical substance.
heart left ventricle molecular composition measurement
JSmith
2014-02-03T17:43:11Z
The amount in a specified sample of tissue from the heart left ventricle, of natriuretic peptide A (NPPA), a powerful vasodilator and peptide hormone secreted mainly by heart muscle cells and involved in control of extracellular fluid volume and electrolyte homeostasis.
heart left ventricle atrial natriuretic factor level
heart left ventricle natriuretic peptide A protein level
heart left ventricle NPPA level
heart left ventricle natriuretic peptide A level
JSmith
2014-02-03T17:55:31Z
The amount of renin in a specified sample of kidney tissue. Renin, an aspartyl protease, catalyzes the cleavage of angiotensinogen to form angiotensin I, the first step in the activation pathway of angiotensinogen--a cascade that can result in aldosterone release,vasoconstriction, and increase in blood pressure.
kidney renin protein level
kidney REN level
kidney renin level
JSmith
2014-03-10T15:24:43Z
Any quantification of the ability of a protein of the kidney to accomplish an effect, e.g. take part in a chemical reaction or carry out a specified molecular function.
kidney protein activity measurement
JSmith
2014-03-10T15:31:04Z
Any quantification of the ability of a kidney enzyme, i.e. a protein located in the kidney that catalyzes chemical reactions of other substances without itself being destroyed or altered upon completion of the reactions, to carry out its specified molecular function.
kidney enzyme activity measurement
JSmith
2014-03-10T17:51:03Z
A calculated measurement in which the level of catalase enzyme activity in a specified sample of kidney is divided by the weight of total protein in that sample. Catalase converts the reactive oxygen species hydrogen peroxide to water and oxygen.
kidney catalase activity to total protein level ratio
JSmith
2014-03-10T17:52:00Z
A calculated measurement in which the level of glucose-6-phosphate dehydrogenase enzyme activity in a specified sample of kidney is divided by the weight of total protein in that sample. Glucose-6-phosphate dehydrogenase catalizes the conversion of D-glucose 6-phosphate + NADP+ to 6-phospho-D-glucono-1,5-lactone + NADPH.
kidney G6PD activity to total protein level ratio
kidney glucose-6-phosphate dehydrogenase activity to total protein level ratio
JSmith
2014-03-10T17:53:05Z
A calculated measurement in which the level of glutathione reductase (GSR) enzyme activity in a specified sample of kidney is divided by the weight of total protein in that sample. GSR reduces oxidized glutathione disulfide (GSSG) to the sulfhydryl form GSH.
kidney GSR activity to total protein level ratio
kidney glutathione reductase activity to total protein level ratio
JSmith
2014-03-10T17:54:38Z
A calculated measurement in which the level of glutathione peroxidase enzyme activity in a specified sample of kidney is divided by the weight of total protein in that sample. Glutathione peroxidases constitute a family of proteins that reduce lipid hydroperoxides to their corresponding alcohols and reduce free hydrogen peroxide to water.
kidney glutathione peroxidase activity to total protein level ratio
JSmith
2014-03-10T17:55:21Z
A calculated measurement in which the level of glutathione-S-transferase enzyme activity in a specified sample of kidney is divided by the weight of total protein in that sample. Glutathione-S-transferase refers to any of a family of proteins with the ability to catalyze the conjugation of the reduced form of glutathione (GSH) to xenobiotic substrates for the purpose of detoxification.
kidney glutathione-S-transferase activity to total protein level ratio
JSmith
2014-03-10T17:55:56Z
A calculated measurement in which the level of superoxide dismutase enzyme activity in a specified sample of kidney is divided by the weight of total protein in that sample. superoxide dismutases constitute a family of proteins that convert naturally-occuring but harmful superoxide radicals to molecular oxygen and hydrogen peroxide.
kidney superoxide dismutase activity to total protein level ratio
JSmith
2014-03-10T17:56:39Z
A calculated measurement in which the level of paraoxonase 1 enzyme activity in a specified sample of kidney is divided by the weight of total protein in that sample. Paraoxonase 1 is an arylesterase that mainly hydrolyzes paroxon, an organophosphorus anticholinesterase compound, to produce p-nitrophenol.
kidney paraoxonase-1 activity to total protein level ratio
kidney paraoxonase1 activity to total protein level ratio
JSmith
2014-03-10T17:57:32Z
A calculated measurement in which the level of glutathione peroxidase enzyme activity in a specified sample of kidney is divided by the level of glutathione reductase enzyme activity in that same sample.
kidney glutathione peroxidase activity to glutathione reductase activity ratio
JSmith
2014-03-10T17:58:30Z
A calculated measurement in which the level of superoxide dismutase enzyme activity in a specified sample of kidney is divided by the level of catalase enzyme activity in that same sample.
kidney superoxide dismutase to catalase activity ratio
JSmith
2014-03-10T17:59:04Z
A calculated measurement in which the level of superoxide dismutase enzyme activity in a specified sample of kidney is divided by the level of glutathione peroxidase enzyme activity in that same sample.
kidney superoxide dismutase to glutathione peroxidase ratio
JSmith
2014-03-10T17:59:34Z
A calculated measurement in which the level of superoxide dismutase enzyme activity in a specified sample of kidney is divided by the level of paraoxonase 1 enzyme activity in that same sample.
kidney superoxide dismutase to paraoxonase-1 activity ratio
kidney superoxide dismutase to paraoxonase1 activity ratio
JSmith
2014-03-10T18:02:47Z
The amount of glutathione in a specified sample of kidney tissue. Glutathione (GSH/GSSG) is an antioxidant tripeptide with a gamma peptide linkage between the amine group of cysteine (which is attached by normal peptide linkage to a glycine) and the carboxyl group of the glutamate side-chain.
kidney GSH level
kidney glutathione level
JSmith
2014-03-10T18:03:40Z
The amount of malondialdehyde in a specified sample of kidney tissue. Malondialdehyde is an organic compound with the formula CH2(CHO)2. It is a reactive species which occurs naturally, is generally found in the enol form (HOCH=CH-CHO), and is a marker for oxidative stress.
kidney malondialdehyde level
JSmith
2014-03-10T18:04:53Z
A calculated measurement in which the level of protein carbonyl (PCO) derivatives in a specified sample of kidney is divided by the total amount of protein in the sample. Protein carbonyl (PCO) derivatives are produced by the oxidation of amino acids and can be used as a marker of oxidative stress.
kidney protein carbonyl level to total protein level ratio
JSmith
2014-03-10T18:06:09Z
The amount of platinum, the chemical element with atomic number 78, in a specified sample of kidney tissue.
kidney platinum level
JSmith
2014-03-11T14:14:26Z
The amount of enzymatic activity of creatine kinase (CK) enzyme in a specified sample of serum. CK catalyses the reversible transfer of phosphate between ATP and various phosphogens such as creatine phosphate. Serum CK level is used as an enzymatic marker for myocardial infarction, rhabdomyolysis and acute renal failure.
serum creatine phosphokinase activity level
serum CK activity level
serum CPK activity level
serum creatine kinase activity level
JSmith
2014-03-11T16:52:38Z
The amount of lipid peroxidation end products in a specified sample of kidney tissue. Lipid peroxidation is the oxidative degradation of lipids.
kidney LPO level
kidney lipid peroxidation level
kidney lipid peroxide level
JSmith
2014-03-12T15:00:11Z
Measurement of the size of the three dimensional space occupied by a single kidney glomerulus.
kidney glomerulus volume
JSmith
2014-03-24T12:45:12Z
Calculated measurement of a difference in the maximum arterial blood pressure, that is the pressure at the point of maximal contraction of the heart, between two points in time, one during the day and the other at night, expressed as a number (positive or negative), not as a ratio or percentage relative to another quantity.
absolute circadian change in systolic blood pressure
systolic diurnal amplitude
The term "absolute change" refers to the subtraction of one value from another, as opposed to a dissimilarity of two values expressed as a ratio or as a percentage. In this context it is not intended to necessarily imply the difference expressed as an absolute value |n|, that is, the numeric value of the difference without regard to its sign.
absolute diurnal change in systolic blood pressure
JSmith
2014-03-24T13:34:25Z
The amount of cholesterol, a eukaryotic sterol that in higher animals is the precursor of bile acids and steroid hormones and a key constituent of cell membranes, in a specified sample of blood. Cholesterol in the blood is generally associated with various lipoproteins.
Not4Curation
blood cholesterol level
JSmith
2014-03-24T13:36:35Z
The amount of cholesterol, a eukaryotic sterol that in higher animals is the precursor of bile acids and steroid hormones and a key constituent of cell membranes, in a specified sample of serum, the clear liquid that separates from blood after it has clotted completely, i.e. blood plasma from which fibrinogen has been removed. Cholesterol in the serum is associated with various lipoproteins.
Not4Curation
serum cholesterol level
JSmith
2014-03-28T12:01:46Z
A calculated measurement in which difference in the mean arterial blood pressure between two or more dosages of a drug or chemical which reduces or increases the interior diameter of blood vessels is divided by difference the applied dosages and presented as a ratio, fraction, quotient or percentage. The value is calculated as the slope of the curve of the mean arterial blood pressure versus the chemical dose graph.
beta coefficient of mean arterial blood pressure change
change in MAP to change in [vasoactive chemical] ratio
slope of the change in mean arterial blood pressure
change in mean arterial blood pressure to change in vasoactive chemical dose ratio
JSmith
2014-03-28T16:44:54Z
Ratio of the wall thickness (WT) of an artery to outer diameter (OD) of that artery at that location, usually expressed as a percentage, i.e. WT/OD x 100, but could also be expressed as a ratio, fraction or quotient. This measurement can be used to assess stenosis, a pathological narrowing of a blood vessel.
arterial stenosis measurement
artery wall thickness as percentage of artery outer diameter
artery wall thickness as percentage of artery total diameter
artery wall thickness to artery total diameter ratio
JSmith
2014-04-24T12:47:44Z
Any value resulting from the quantification of a morphological or physiological parameter of leukocytes, largely colorless blood corpuscles capable of ameboid movement, whose chief function is to protect the body against microorganisms and other disease-causing entities.
leukocyte measurement
white blood cell measurement
JSmith
2014-05-13T18:19:12Z
A calculated measurement in which the number of white blood cells of one or more specific types in a specified sample of blood is divided by the total number of white blood cells in the sample, and the result presented as a ratio, fraction, quotient or percentage.
Not4Curation
blood differential leukocyte count to total WBC count ratio
blood differential leukocyte count as percentage of total white blood cells
differential white blood cell percentage
blood differential leukocyte count to total leukocyte count ratio
JSmith
2014-05-27T13:59:17Z
Any measurement which has been normalized, adjusted or derived by a mathematical process or computation, of a morphological or physiological parameter of non-neoplastic lesions in the kidney.
Not4Curation
calculated renal non-tumorous lesion measurement
calculated kidney non-tumorous lesion measurement
JSmith
2014-05-27T14:01:07Z
A calculated measurement in which the area occupied by renal protein casts is divided by the total, combined area of the outer stripe of the kidney outer medulla and the kidney cortex, and the result presented as a ratio, fraction, quotient or percentage. Renal protein casts are gelled proteins precipitated in the renal tubules and molded to the tubular lumen. The medulla outer stripe is the section of the renal medula adjacent to the renal cortex and contains portions of the nephron, including the straight proximal tubules, and portions of the loops of henle and outer medullary collecting ducts.
percent area of renal protein casting
ratio of the area occupied by protein casts to the total area of the kidney outer medulla outer stripe and cortex
JSmith
2014-05-28T15:22:49Z
A calculated value in which the weight of the heart after removal from the body but without dessication is divided by the total weight of the body, and the result presented as a ratio, fraction, quotient or percentage, thus normalizing it to body weight and, by extension, to the size of the organism.
heart wet weight as a percentage of body weight
heart wet weight to body weight ratio
JSmith
2014-06-09T17:16:49Z
A calculated measurement in which the difference between the contractile force of a blood vessel in response to a vasoconstrictor and the baseline contractile force exerted by that vessel in the absence of any external stimuli, is divided by the baseline contractile force measurement and the result expressed as a percentage. A vasoconstrictor is any agent or condition that narrows blood vessels by constricting the smooth muscle in the vessel walls.
vasoconstrictor-induced blood vessel contractile force expressed as percent of force at baseline
JSmith
2014-06-09T17:21:51Z
A calculated measurement in which the difference between the contractile force of a blood vessel in response to a specified dosage of phenylephrine and the baseline contractile force exerted by that vessel in the absence of any external stimuli, is divided by the baseline contractile force measurement and the result expressed as a percentage. Phenylephrine is an adrenergic drug that is a powerful vasoconstrictor.
phenylephrine-induced blood vessel constriction expressed as percent of force at baseline
phenylephrine-induced blood vessel contractile force expressed as percent of force at baseline
JSmith
2014-06-09T17:30:04Z
A calculated measurement in which the difference between the contractile force of a blood vessel in response to a specified dosage of potassium chloride and the baseline contractile force exerted by that vessel in the absence of any external stimuli, is divided by the baseline contractile force measurement and the result expressed as a percentage. Potassium chloride is the salt of the potassium cation (K+) and the chlorine/chloride anion (Cl-). It is used as an eletroylyte replenisher and has mild vasoconstrictive properties when applied directly to blood vessels.
KCl-induced blood vessel constriction expressed as percent of force at baseline
potassium chloride-induced blood vessel contractile force expressed as percent of force at baseline
JSmith
2014-06-09T18:11:50Z
Measurement of an organism's, organ's, tissue's or cell's capacity to respond, such as by a change in activity, state or condition, to potassium chloride, the salt of the potassium cation (K+) and the chlorine/chloride anion (Cl-). Potassium chloride is used as an eletroylyte replenisher and has mild vasoconstrictive properties when applied directly to blood vessels.
KCl response/sensitivity measurement
potassium chloride response/sensitivity measurement
JSmith
2014-06-09T18:19:26Z
A calculated value for the concentration of potassium chloride (KCl) at which the energy produced by the active reduction in the diameter of a blood vessel in response to the application of KCl is halfway between the baseline value and the highest achievable value of such KCl-induced contractile energy. Potassium chloride is the salt of the potassium cation (K+) and the chlorine/chloride anion (Cl-). It is used as an eletroylyte replenisher and has mild vasoconstrictive properties when applied directly to blood vessels.
potassium chloride half maximal effective concentration (EC50)
KCl half maximal effective concentration (EC50)
concentration of potassium chloride at which the force of blood vessel contraction is half the maximum value (EC50)
JSmith
2014-06-09T18:28:02Z
A calculated value for logarithm of the concentration of potassium chloride (KCl) at which the energy produced by the active reduction in the diameter of a blood vessel in response to the application of KCl is halfway between the baseline value and the highest achievable value of such KCl-induced contractile energy. The logarithm of the concentration is the exponent indicating the power to which 10 must be raised to obtain that concentration value.
potassium chloride Log half maximal effective concentration (Log EC50)
KCl Log half maximal effective concentration (Log EC50)
logarithm of the concentration of potassium chloride at which the force of blood vessel contraction is half the maximum value (Log EC50)
JSmith
2014-06-09T18:33:14Z
A calculated value for the concentration of a vasoconstrictor at which the energy produced by the active reduction in the diameter of a blood vessel in response to the application of the stimulus is halfway between the baseline value and the highest achievable value of such stimulus-induced contractile energy. A vasoconstrictor is any agent or condition that narrows blood vessels by constricting the smooth muscle in the vessel walls.
vasoconstrictor half maximal effective concentration (EC50)
concentration of vasoconstrictor at which the force of blood vessel contraction is half the maximum value (EC50)
JSmith
2014-06-09T18:47:36Z
A calculated value for logarithm of the concentration of a vasoconstrictor at which the energy produced by the active reduction in the diameter of a blood vessel in response to the application of the stimulus is halfway between the baseline value and the highest achievable value of such stimulus-induced contractile energy. The logarithm of the concentration is the exponent indicating the power to which 10 must be raised to obtain that concentration value. A vasoconstrictor is any agent or condition that narrows blood vessels by constricting the smooth muscle in the vessel walls.
vasoconstrictor Log half maximal effective concentration (Log EC50)
logarithm of the concentration of vasoconstrictor at which the force of blood vessel contraction is half the maximum value (Log EC50)
JSmith
2014-06-24T10:28:27Z
The thickness or depth of the ventral/anterior wall of the left ventricle of the heart at the end of diastole, that is, when the heart muscle is maximally relaxed. The ventral/anterior wall is the portion of the muscle enclosing the ventricle which is farthest from the spine and closest to the chest wall of the organism.
heart left ventricle end-diastolic ventral wall thickness
LVAWd
heart left ventricle end-diastolic anterior wall thickness
JSmith
2014-06-24T10:38:32Z
A calculated measurement in which the weight of the left ventricle of the heart is divided by its area at end-diastole, that is, when the heart muscle is maximally relaxed, and the result presented as a ratio, fraction, quotient or percentage.
heart left ventricle weight to heart left ventricle end-diastolic area ratio
JSmith
2014-07-01T11:15:11Z
Any measurement of the movement of blood into, through or out of the heart.
heart blood flow measurement
JSmith
2014-07-01T11:21:13Z
Measurement of the speed at which blood flows into the ventricle during passive filling, that is, during the period when the blood flows from the atrium to the ventricle due to gravity rather than as a result of active contraction of the atrium.
E wave velocity
JSmith
2014-07-01T11:23:06Z
An echocardiographic measurement of the amount of time between the maximum 'E point', that is, the maximum velocity of passive blood flow from the atrium to the ventricle, and the return to baseline at the end of early mitral flow.
DT
EDT
E wave deceleration time
JSmith
2014-07-01T11:26:09Z
Measurement of the decrease in transmitral blood flow velocity per unit time or the rate at which the velocity of passive blood flow from the atrium to the ventricle decreases over time as the ventricle fills and the atrium empties, calculated as the slope of transmitral velocity vs time.
EDR
E wave deceleration rate
JSMITH
2014-08-05T16:41:32Z
Any measurement of the physical form or structure of a muscle fiber, any of the cells of skeletal or cardiac muscle tissue. Each cell is one fiber of the muscle.
muscle fiber morphological measurement
JSMITH
2014-08-05T16:42:27Z
Any measurementof the physical form or structure of a skeletal muscle fiber, a cylindrical multinucleate cell of skeletal muscle tissue containing contracting myofibrils and across which run transverse striations.
skeletal muscle fiber morphological measurement
JSMITH
2014-08-05T16:43:25Z
The average number of capillaries associated with and/or surrounding an individual skeletal muscle fiber, a cylindrical multinucleate cell of skeletal muscle tissue containing contracting myofibrils and across which run transverse striations. Capillaries are the minute vessels connecting arterioles and venules, the walls of which act as a semipermeable membrane for interchange of various substances between the blood and tissue fluid.
number of capillaries per skeletal muscle cell
number of capillaries per skeletal muscle fiber
JSMITH
2014-08-05T16:46:26Z
Any measurement, morphological or physiological of the minute vessels connecting arterioles and venules, the walls of which act as a semipermeable membrane for interchange of various substances between the blood and tissue fluid.
capillary measurement
JSMITH
2014-08-06T10:31:27Z
The length of time in the cardiac cycle between the end of left ventricular relaxation and the start of left ventricular filling. This represents the time in the cardiac cycle between closure of the aortic valve and opening of the mitral valve.
time constant of isovolumetric LV fall
LV-IVRT
left ventricular isovolumetric relaxation time
JSMITH
2014-08-06T10:46:35Z
The time interval from the completion of the mitral valve closure to the beginning of the aortic valve opening, that is, the period of contraction during which both the mitral and aortic valves are closed so that the volume of the ventricular space doesn't change.
left ventricular isovolumetric contraction time
JSMITH
2014-08-18T11:44:51Z
The length of time in the cardiac cycle between the end of right ventricular relaxation and the start of right ventricular filling.
RV-IVRT
right ventricular isovolumetric relaxation time
JSMITH
2014-08-18T11:59:50Z
A measurement which has been normalized, adjusted or derived by a mathematical process or computation, of the length of time in the cardiac cycle between the end of left ventricular relaxation and the start of left ventricular filling.
calculated LV-IVRT
calculated left ventricular isovolumetric relaxation time
JSMITH
2014-08-18T12:04:19Z
A calculated measurement in which the value of the left ventricular isovolumetric relaxation time is corrected by the square root of the R-R interval [IVRT/(RR)1/2] on a simultaneously-recorded ECG.
heart rate-corrected left ventricular isovolumetric relaxation time
JSMITH
2014-08-18T12:19:05Z
Measurement of the length of time between the closing of the mitral valve (the dual-flap valve in the heart that controls blood flow between the left atrium and the left ventricle) at the end of ventricular filling (that is, after atrial contraction) and its opening at the beginning of the next round of ventricular filling.
MV co
mitral valve closure to opening time
JSMITH
2014-08-18T13:27:39Z
The time interval from the opening to the closing of the aortic valve (mechanical systole).
LVET
left ventricular ejection time
JSMITH
2014-08-18T13:54:20Z
A calculated measurement comprised of the sum of left ventricular isovolumetric contraction time and isovolumetric relaxation time divided by the left ventricular ejection time.
MPI
TEI-Doppler index
myocardial performance index
JSMITH
2014-08-18T14:05:03Z
Any measurement of the degree to which the presentation of any cardiovascular disease state, causes pain or damage, or interferes with the normal functioning of an organism or of any part thereof.
cardiovascular disease severity measurement
JSMITH
2014-08-18T14:20:49Z
Any measurement related to a deviation from or interruption of the normal structure or function of the cardiovascular system that is manifested by a characteristic set of symptoms and signs.
cardiovascular disease measurement
JSMITH
2014-08-18T14:23:23Z
Any measurement of the degree to which the presentation of an arterial disease state, causes pain or damage, or interferes with the normal functioning of an organism or of any part thereof. Arterial disease is a deviation from or interruption of the normal structure or function of one or more arteries, the vessels in which blood flows away from the heart carrying oxygenated blood, that is manifested by a characteristic set of symptoms and signs.
arterial disease severity measurement
JSMITH
2014-08-18T15:16:50Z
Measurement of the degree to which a tear or break in the continuity or configuration of the aorta (the great artery arising from the left ventricle and from which the systemic arterial system proceeds) causes pain or damage, or interferes with the normal functioning of an organism or of any part thereof.
aortic rupture severity measurement
JSMITH
2014-08-18T15:33:42Z
The value or quantity determined by count of tears or breaks in the continuity or configuration of the fenestrated layer of elastic tissue that is the outermost part of the intima of an artery.
number of ruptures of internal elastic lamina in arteries
number of ruptures of internal elastic laminae in arteries
number of RIEL in arteries
number of ruptures of arterial IEL
number of ruptures of arterial internal elastic lamina
JSMITH
2014-08-18T15:35:18Z
The value or quantity determined by count of tears or breaks in the continuity or configuration of the internal elastic lamina (IEL) of the abdominal aorta and iliac arteries, that is, the distal segment of the descending aorta and the large arteries that originate from it.
number of AA- and IA-RIEL
number of RIEL in abdominal aorta and iliac arteries
number of ruptures of the internal elastic lamina of the abdominal aorta and iliac arteries
JSMITH
2014-08-18T15:47:20Z
The value or quantity determined by count of tears or breaks in the continuity or configuration of the internal elastic lamina (IEL) of the renal arteries, that is, the ateries which arise from the side of the abdominal aorta and which supply the kidneys with blood.
number of RIEL in renal arteries
number of ruptures of the internal elastic lamina of the renal arteries
JSMITH
2014-08-18T15:50:34Z
A measurement of the severity of tears or breaks in the arterial internal elastic lamina (IEL) which is derived from a combination of multiple measurements and/or objective or subjective severity scores according to a specified formula or set of criteria. The IEL is the fenestrated layer of elastic tissue that is the outermost part of the intima of an artery.
arterial RIEL score
arterial internal elastic lamina rupture composite score
JSMITH
2014-08-18T18:42:12Z
A calculated measurement in which the weight after dessication of the extracellular elastin in a specified sample of the wall of the aorta is divided by the length (that is, the distance between the two ends) of that segment, and the result presented as a ratio, fraction, quotient or percentage.
aorta wall extracellular elastin dry weight to aorta length ratio
JSMITH
2014-08-18T18:54:19Z
A measurement of the existance and severity of a patent ductus arteriosus (PDA) when such a measurement is derived from a combination of multiple measurements and/or an objective or subjective ranking or rating system according to a specified formula or set of criteria. PDA is the abnormal persistence of an open lumen in the ductus arteriosus, between the aorta and the pulmonary artery, after birth.
PDA score
score for PDA
patent ductus arteriosus score
JSmith
2014-08-26T13:32:08Z
Any measurement involving the composition, that is, the absolute amount, relative amount or type of one or more proteins (complex high molecular weight organic compounds containing carbon, hydrogen, oxygen, nitrogen, and sulfur consisting of alpha-amino acids joined by peptide linkages) or peptides (low molecular weight compounds composed of at least two amino acids joined by peptide linkages) in a specified tissue or set of tissues.
tissue protein/peptide composition measurement
JSmith
2014-08-26T13:35:55Z
Any measurement involving the composition, that is, the absolute amount, relative amount or type of one or more proteins or peptides in a specified sample of tissue from the wall of the aorta.
aortic wall protein/peptide composition measurement
aorta wall protein/peptide composition measurement
JSmith
2014-09-11T17:13:44Z
A calculated parameter derived from a a sequence of blood pressure measurements taken sequentially and ordered in time. A parameter is a mathematical and statistical variable in a model system that partially or completely characterises the mathematical model.
blood pressure time series calculated parameter
JSmith
2014-09-11T18:09:25Z
A mathematical and statistical variable in a model system that partially or completely characterises the baroreceptor response in a blood pressure time series calculation. The baroreceptor response is the system whereby specific nerve terminals that stabilize moment to moment blood pressure variability in the carotid sinus and aortic arch sense deviations from the baseline pressure and initiate signals that dampens such deviations.
blood pressure time series baroreceptor response calculation parameter
JSmith
2014-09-11T18:10:33Z
The first order coefficient parameter derived from a blood pressure time series moving average (also known as a rolling average, running average, moving mean, or rolling mean) calculation.
blood pressure time series first order moving average coefficient
JSmith
2014-09-11T18:24:22Z
The fractal parameter derived from a blood pressure time series calculation based on a autoregressive fractionally integrated moving average time series model (ARFIMA, FARIMA, or fARIMA).
blood pressure time series fractal parameter
JSmith
2014-09-11T18:26:20Z
The experimental set point parameter of the blood pressure time series baroreceptor response calculation.
blood pressure time series experimental set point of the baroreceptor response
JSmith
2014-09-11T18:28:14Z
The average exponential scaling factor parameter of the blood pressure time series baroreceptor response calculation.
blood pressure time series average exponential scaling factor of the baroreceptor response
JSmith
2014-09-11T18:33:18Z
A parameter based on a blood pressure time series calculation using a first order mechanistic model.
blood pressure time series linear term first order parameter
JSmith
2014-09-11T18:33:53Z
A parameter based on a blood pressure time series calculation using a second order mechanistic model.
blood pressure time series linear term second order parameter
JSmith
2014-10-29T10:36:08Z
The thickness or depth (i.e. the measurement of the two-dimensional extent of the distance between the inner and outer surfaces) of the dorsal/posterior wall of the left ventricle of the heart at the end of diastole, that is, when the heart muscle is maximally relaxed. The dorsal wall is the portion of the muscle enclosing the ventricle which is closest to the spine and farthest from the chest wall of the organism.
end-diastolic heart left ventricle posterior wall thickness
end-diastolic heart left ventricle PWT
Note that "left" in this context refers to the perspective of the organism, not that of the observer.
heart left ventricle end-diastolic posterior wall thickness
jesmith
2015-12-03T15:18:18Z
A value resulting from the quantification of a morphological or physiological parameter of a blood-derived lipoprotein, any of a class of complex molecules found in blood that consist of a protein membrane surrounding a core of lipids.
blood lipoprotein measurement
jesmith
2015-12-03T15:41:10Z
Measurement of the amount of cholesterol, a eukaryotic sterol that in higher animals is the precursor of bile acids and steroid hormones and a key constituent of cell membranes, carried in lipoprotein molecules in a specified volume of blood. Lipoprotein particles are complex molecules that consist of a protein membrane surrounding a core of lipids.
blood lipoprotein cholesterol level
jesmith
2017-02-22T13:08:55Z
The distance between the two ends, that is, of the extent of the longest dimension, of the aorta, the main trunk from which the arterial system proceeds.
aorta length
jesmith
2017-02-22T13:12:37Z
A measurement which has been normalized, adjusted or derived by a mathematical process or computation of the physical form or structure of the aorta, the main trunk from which the arterial system proceeds.
calculated aorta morphological measurement
jesmith
2017-02-22T13:14:54Z
A calculated measurement in which the weight of the aorta is divided by its length and the resulting quantity is divided by the total body weight of the organism.
Am/AI/Bm
aorta mass to aorta length to body mass ratio
aorta weight to aorta length to body weight ratio
jesmith
2017-02-22T13:28:13Z
A calculated measurement of the relative difference in pulse pressure between a treated state and a control state or between two points in time, expressed as a percentage.
percent change in pulse pressure
jesmith
2017-07-19T12:56:36Z
Any quantification of the ability of a protein of the heart to accomplish an effect, e.g. take part in a chemical reaction or carry out a specified molecular function.
heart protein activity measurement
jesmith
2017-07-19T13:02:57Z
Any quantification of the ability of a heart enzyme, i.e. a protein located in the heart that catalyzes chemical reactions of other substances without itself being destroyed or altered upon completion of the reactions, to carry out its specified molecular function.
heart enzyme activity level
jesmith
2017-07-19T13:04:34Z
Quantitation of the catalytic effect exerted by angiotensin I converting enzyme 2 (ACE2) in a specified sample of heart tissue. ACE2, an ACE homolog, is a zinc-dependent peptidase of the M2-metalloprotease family that is sensitive to chloride ion concentration, is a membrane-bound enzyme that acts as a monocarboxypeptidase, and is an essential regulator of heart function.
heart ACE2 activity level
heart angiotensin II converting enzyme activity level
heart angiotensin I converting enzyme 2 activity level
jesmith
2017-07-19T13:05:42Z
Quantitation of the catalytic effect exerted by angiotensin I converting enzyme (ACE) in a specified sample of heart tissue. ACE is one of the enzymes of the renin-angiotensin system, and catalyzes the conversion of angiotensin I into a physiologically active vasoconstrictor peptide angiotensin II.
heart ACE activity level
heart angiotensin I converting enzyme activity level
jesmith
2017-07-20T10:00:38Z
Quantitation of the catalytic effect exerted by angiotensin converting enzyme2 (ACE2) in a specified sample of kidney. ACE2, an ACE homolog, is a zinc-dependent peptidase of the M2-metalloprotease family that is sensitive to chloride ion concentration, and is a membrane-bound enzyme that acts as a monocarboxypeptidase and is an essential regulator of heart function.
kidney ACE2 activity level
kidney angiotensin II converting enzyme activity level
kidney angiotensin I converting enzyme 2 activity level
jesmith
2017-07-20T10:01:18Z
Quantitation of the catalytic effect exerted by angiotensin I converting enzyme (ACE) in a specified sample of kidney tissue. ACE is one of the enzymes of the renin-angiotensin system, and catalyzes the conversion of angiotensin I into a physiologically active vasoconstrictor peptide angiotensin II.
kidney ACE activity level
kidney angiotensin I converting enzyme activity level
jesmith
2017-07-20T13:40:53Z
Any measurement of the physical form or structure of a cardiac muscle fiber, a striated cardiac muscle cell (cardiomyocyte) that is responsible for heart contraction.
cardiac muscle cell morphological measurement
cardiac myocyte morphological measurement
cardiomyocyte morphological measurement
heart muscle cell morphological measurement
cardiocyte morphological measurement
cardiac muscle fiber morphological measurement
jesmith
2017-07-20T13:43:26Z
The length of a straight line passing through a cardiac muscle fiber, that is a cardiomyocyte, for instance through the center of its nucleus, and connecting opposite points on its periphery.
cardiac myocyte diameter
cardiomyocyte diameter
heart muscle cell diameter
cardiocyte diameter
cardiomyocyte width
cardiac muscle fiber diameter
jrsmith
2018-05-03T09:34:26Z
A measurement which has been normalized, adjusted or derived by a mathematical process or computation, of the amount of plasma that perfuses the kidneys per unit time per amount of body weight.
renal plasma flow to body weight ratio
jrsmith
2018-05-03T17:41:50Z
A calculated measurement in which glomerular filtration rate, an estimate of the volume of fluid filtered from the kidney glomerular capillaries into the Bowman's capsule per specified unit of time, is divided by the total weight of the body and the result is presented as a ratio, fraction, quotient or percentage.
glomerular filtration rate to body weight ratio
jrsmith
2018-05-11T12:56:54Z
A calculated value in which the volume of glomeruli with lesions resulting from fibrosis, scarring or hyaline deposits is divided by the total volume of glomeruli in a specified sample of kidney and presented as a ratio, fraction or quotient, thus normalizing it to the total volume of glomeruli.
kidney sclerotic glomerular volume to total kidney glomerular volume ratio
jrsmith
2018-05-15T16:59:53Z
A calculated value in which the weight of the heart left ventricle is divided by the length of the tibia (the medial and larger of the two bones of the lower leg of bipeds or hindlimb of quadrupeds which articulates with the femur, fibula, and talus), and the result is presented as a ratio, fraction, quotient or percentage,thus normalizing it to the length of the leg and, by extension, to the size of the body.
LV weight/tibial length
heart left ventricle weight to tibia length ratio
jrsmith
2018-05-15T17:02:51Z
Any measurement which has been normalized, adjusted or derived by a mathematical process or computation, of the movement of blood into, through or out of the heart.
calculated heart blood flow measurement
jrsmith
2018-05-15T17:05:23Z
A calculated measurement in which the value of the E wave (that is, the velocity of the blood flow across the mitral valve during passive filling of the left ventricle in early diastole) is divided by the value of the A wave (that is, the velocity of the blood flow across the mitral valve during active filling of the left ventricle caused by atrial contraction in late diastole).
mitral E/A wave ratio
E/A wave ratio
jrsmith
2018-05-15T17:08:42Z
A calculated measurement in which the average width of the tunica media is divided by the inner diameter (that is, the diameter of the lumen) of the artery and the result is presented as a ratio, fraction, quotient or percentage.
artery tunica media width to artery inner diameter ratio
jrsmith
2018-05-15T17:12:15Z
The thickness, width or depth of the septal wall of the heart ventricles (that is, the portion of the wall between the left and right ventricles that is shared between the two) at the end of diastole when the heart muscle is maximally relaxed.
heart intraventricular septum end-diastolic thickness
IVSd
heart intraventricular end-diastolic wall thickness
jrsmith
2018-05-15T17:13:43Z
The thickness, width or depth of the septal wall of the heart ventricles (that is, the portion of the wall between the left and right ventricles that is shared between the two) at the end of systole when the heart muscle is maximally contracted.
heart intraventricular septum end-systolic thickness
IVSs
heart intraventricular end-systolic wall thickness
sjwang
2018-11-13T15:00:11Z
A variability measurement in which the mean is calculated from the standard deviations or the standard deviation is calculated from the means of sequential one hour systolic blood pressure measurements.
systolic blood pressure variability
sjwang
2018-11-13T15:02:20Z
A variability measurement in which the mean is calculated from the standard deviations or the standard deviation is calculated from the means of sequential one hour diastolic blood pressure measurements.
diastolic blood pressure variability
sjwang
2018-11-13T15:04:28Z
A variability measurement in which the mean is calculated from the standard deviations or the standard deviation is calculated from the means of sequential one hour mean arterial blood pressure measurements.
mean arterial blood pressure variability
sjwang
2018-11-13T15:12:25Z
A variability measurement in which the mean is calculated from the standard deviations or the standard deviation is calculated from the means of sequential one hour heart rate measurements.
heart rate variability
sjwang
2018-11-14T10:49:02Z
A calculated value in which the number of glomeruli with microaneurysm (focal dilation of arteriocapillary junctions), is divided by the total number of glomeruli in the kidney and presented as a ratio, fraction or quotient, thus normalizing it to the total number of glomeruli.
ratio of number of glomeruli with microaneurysms to number of total glomeruli
sjwang
2018-11-14T11:16:40Z
A calculated value in which the area of glomeruli with activated mesangial cells (determined by the expression of α-smooth muscle actin), is divided by the total area of glomeruli counted in the kidney and presented as a ratio, fraction or quotient, thus normalizing it to the total number of glomeruli.
ratio of glomerular area occupied by activated mesangial cells to total glomerular area
sjwang
2018-11-14T11:19:47Z
Any measurement that has been normalized, adjusted or derived by a mathematical process or computation, of the glomeruli of one or both kidneys, the paired organ which functions to maintain proper water and electrolyte balance, regulate acid-base concentration, and filter the blood of metabolic wastes.
calculated kidney glomerulus morphological measurement
calculated kidney glomerulus measurement
sjwang
2018-11-19T15:28:14Z
Any measurement of the physical form or structure of one or more of the mesenteric arteries, which arise from the anterior surface of the abdominal aorta, just inferior to the origin of the celiac trunk, and supplies blood to the intestine from the lower part of the duodenum through two-thirds of the transverse colon, as well as the pancreas.
mesenteric artery morphological measurement
sjwang
2018-11-19T15:30:34Z
Any quantitation of the molecules, atoms and/or ions which constitute the chemical make-up of the wall of one or more of the mesenteric arteries.
mesenteric artery molecular composition measurement
sjwang
2018-11-19T15:33:20Z
A measurement which has been normalized, adjusted or derived by a mathematical process or computation of the physical form or structure of any of the mesenteric arteries.
calculated mesenteric artery wall molecular composition measurement
calculated mesenteric artery molecular composition measurement
sjwang
2018-11-19T15:35:54Z
A calculated measurement in which mesenteric artery phosphorylated eNOS protein level is divided by aorta wall total eNOS protein level and presented as a ratio, fraction, quotient or percentage. Phosphorylation of eNOS is a mechanism that catylzes a structural change of the enzyme to an activated form.
mesenteric artery phosphylated eNOS protein level to total eNOS protein level ratio
mesenteric artery wall phosphylated eNOS level to total eNOS level ratio
mesenteric artery phosphylated eNOS level to total eNOS level ratio
sjwang
2018-11-19T15:53:29Z
A calculated measurement in which aorta wall phosphorylated eNOS protein level is divided by aorta wall total eNOS protein level and presented as a ratio, fraction, quotient or percentage. Phosphorylation of eNOS is a mechanism that catylzes a structural change of the enzyme to an activated form.
aorta wall phosphylated eNOS protein level to total eNOS protein level ratio
aorta wall phosphylated eNOS level to total eNOS level ratio
sjwang
2018-11-26T13:03:49Z
Monophasic action potentials (MAPs) are recorded using contact electrode catheters. The recordings provide local information about the actual cellular depolarization and repolarization process of myocardial tissue. They are different from body surface electrocardiographic (ECG) recordings or standard endocardial electrograms, which produce a summative or derivative view of the heart's electrical activity
Monophasic action potential
sjwang
2018-11-26T13:39:11Z
Conduction velocity is calculated as the distance from pacing electrode to the monophasic action potential recording electrode across the epicardial surface, divided by the conduction time, the time from the pacing spike to monophasic action potential onset.
Conduction velocity
sjwang
2018-11-26T14:10:18Z
The E/E' is a ratio of peak velocity of early diastolic trans-mitral flow (E) to the peak velocity of early diastolic mitral annular motion (E')
E wave velocity to E' wave velocity ratio
E/E' wave ratio
sjwang
2018-11-26T14:27:05Z
Any quantitation of the molecules, atoms and/or ions which constitute the chemical make-up of the tissue(s) of the heart.
cardiac molecular composition measurement
heart molecular composition measurement
sjwang
2018-11-26T14:31:33Z
Measurement of the amount of free fatty acids within the heart.
cardiac free fatty acid level
cardiac non-esterified fatty acid level
heart NEFA level
heart non-esterified fatty acid level
heart free fatty acid level
sjwang
2018-11-26T14:35:50Z
Measurement of the amount of triglycerides within the heart.
cardiac triglyceride level
heart triglyceride level
sjwang
2018-11-26T14:44:30Z
A measurement which has been normalized, adjusted or derived by a mathematical process or computation, of the end-systolic heart left ventricle posterior wall thickness.
calculated heart left ventricle end-systolic posterior wall thickness
sjwang
2018-11-26T14:50:07Z
A calculated measurement in which the heart left ventricle end-systolic posterior wall thickness is divided by the weight of the body, and the result presented as a ratio, fraction, quotient or percentage.
heart left ventricle end-systolic posterior wall index
sjwang
2018-11-26T14:59:27Z
A measurement which has been normalized, adjusted or derived by a mathematical process or computation, of the heart left ventricle end-systolic internal diameter.
calculated heart left ventricle end-systolic internal dimension
calculated heart left ventricle end-systolic internal diameter
sjwang
2018-11-26T15:03:09Z
A calculated measurement in which the heart left ventricle end-systolic internal diameter is divided by the weight of the body, and the result presented as a ratio, fraction, quotient or percentage.
heart left ventricle end-systolic internal dimension index
heart left ventricle end-systolic internal diameter index
sjwang
2018-11-26T15:08:05Z
A measurement which has been normalized, adjusted or derived by a mathematical process or computation, of the heart ventricle end-systolic septal wall thickness.
calculated heart end-systolic intraventricular wall thickness
calculated heart ventricle end-systolic septal wall thickness
sjwang
2018-11-26T15:11:20Z
A calculated measurement in which the heart ventricle end-systolic septal wall thickness is divided by the weight of the body, and the result presented as a ratio, fraction, quotient or percentage.
heart ventricle end-systolic septal wall index
sjwang
2018-11-26T15:13:54Z
Peak velocity of late atrial diastolic trans-mitral flow (A).
A wave velocity
sjwang
2018-11-26T15:20:51Z
E' wave velocity is the peak velocity of early mitral annular diastolic motion.
e' wave velocity
E' wave velocity
sjwang
2018-11-26T15:23:27Z
A' wave velocity (A') is the peak velocity of late (atrial) diastolic mitral annular motion.
a' wave velocity
A' wave velocity
sjwang
2018-11-27T15:03:00Z
A measurement which has been normalized, adjusted or derived by a mathematical process or computation, of cardiac output.
calculated cardiac output measurement
sjwang
2018-11-27T15:09:41Z
A calculated measurement in which the cardiac output is divided by the weight of the body, and the result presented as a ratio, fraction, quotient or percentage.
cardiac index
sjwang
2018-11-27T15:14:24Z
A measurement which has been normalized, adjusted or derived by a mathematical process or computation, of cardiac stroke volume.
calculated stroke volume
sjwang
2018-11-27T15:16:25Z
A calculated measurement in which the cardiac stroke volume is divided by the weight of the body, and the result presented as a ratio, fraction, quotient or percentage.
stroke index
sjwang
2018-11-27T15:20:50Z
A measurement which has been normalized, adjusted or derived by a mathematical process or computation, of the left ventricular end-systolic blood pressure.
calculated left ventricular end-systolic blood pressure
sjwang
2018-11-27T15:23:57Z
Effective arterial elastance (Ea), defined as the ratio of left ventricular (LV) end-systolic pressure and stroke volume, lumps the steady and pulsatile components of the arterial load in a concise way.
arterial elastance
sjwang
2018-11-27T15:29:19Z
Defined as the work performed by the left or right ventricle to eject the stroke volume into the aorta or pulmonary artery, respectively.
ventricle stroke work
sjwang
2018-11-27T15:32:24Z
Defined as the work performed by the left ventricle to eject the stroke volume into the aorta.
left ventricle stroke work
sjwang
2018-11-27T15:34:52Z
Preload recruitable stroke work (PRSW) is determined by the linear regression of stroke work with the end-diastolic volume. The slope of the PRSW relationship is a highly linear index of myocardial contractility that is insensitive to preload and afterload.
preload recruitable left ventricle stroke work
sjwang
2018-11-27T15:38:49Z
A calculated measurement in which the maximum rate of positive change in left ventricular blood pressure is divided by the left ventricular end-diastolic volume, and the result presented as a ratio, fraction, quotient or percentage.
maximum rate of positive change in left ventricular blood pressure to left ventricular end-diastolic volume ratio
sjwang
2018-11-27T15:46:13Z
A measurement which has been normalized, adjusted or derived by a mathematical process or computation, of the end-diastolic heart left ventricle posterior wall thickness.
calculated heart left ventricle end-diastolic posterior wall thickness
sjwang
2018-11-27T15:56:21Z
A calculated measurement in which the heart left ventricle end-diastolic posterior wall thickness is divided by the weight of the body, and the result presented as a ratio, fraction, quotient or percentage.
heart left ventricle end-diastolic posterior wall index
sjwang
2018-11-27T15:58:19Z
A measurement which has been normalized, adjusted or derived by a mathematical process or computation, of the heart left ventricle end-diastolic anterior wall thickness.
calculated heart left ventricle end-diastolic anterior wall thickness
sjwang
2018-11-27T16:14:56Z
A calculated measurement in which the heart left ventricle end-diastolic anterior wall thickness is divided by the weight of the body, and the result presented as a ratio, fraction, quotient or percentage.
heart left ventricle end-diastolic anterior wall index
sjwang
2018-11-27T16:18:07Z
A measurement which has been normalized, adjusted or derived by a mathematical process or computation, of the heart ventricle end-diastolic septal wall thickness.
calculated heart ventricle end-diastolic septal wall thickness
sjwang
2018-11-27T16:19:43Z
A calculated measurement in which the heart ventricle end-diastolic septal wall thickness is divided by the weight of the body, and the result presented as a ratio, fraction, quotient or percentage.
heart ventricle end-diastolic septal wall index
sjwang
2018-11-30T15:55:22Z
Renal medullary blood flow (MBF) is the volume of blood delivered to or exiting from the renal medulla per unit time.
renal medullary blood flow rate
sjwang
2018-12-03T16:21:42Z
Left ventricle end-diastolic elastance (Eed) is the estimate of the slope of the line Ped=Eed(Ved-V0), which is based on linear regression of points determined by iterative calculation of the LV end-diastolic pressurevolume relationship.
heart left ventricle end-diastolic elastance
sjwang
2018-12-03T16:24:05Z
Left ventricle end-systolic elastance (Ees) is the estimate of the slope of the line Pes=Ees(Ves-V0), which is based on linear regression of points determined by iterative calculation of the LV end-systolic pressurevolume relationship.
heart left ventricle end-systolic elastance
sjwang
2018-12-04T12:06:42Z
A measurement which has been normalized, adjusted or derived by a mathematical process or computation, of components of the periodic tightening and loosening of the muscles of a ventricle of the heart.
calculated ventricle contraction measurement
sjwang
2018-12-04T12:31:25Z
Left ventricle diastolic volume-axis intercept (V0) is determined by the line Ped=Eed(Ved-V0), which is based on linear regression of points determined by interative calculation of the LV end-diastolic pressurevolume relationship.
Heart left ventricle diastolic volume-axis intercept (V0)
sjwang
2018-12-04T12:34:18Z
Left ventricle systolic volume-axis intercept (V0) is determined by the line Pes=Ees(Ves-V0), which is based on linear regression of points determined by iterative calculation of the LV end-diastolic pressurevolume relationship.
Heart left ventricle systolic volume-axis intercept (V0)
sjwang
2018-12-04T12:46:20Z
A measurement of the volume of blood in ventricle immediately before a contraction which has been normalized or adjusted by a mathematical process or computation. .
Calculated endo-diastolic volume
sjwang
2018-12-04T12:59:56Z
A measurement of the volume of blood in a ventricle at the end of a contraction which has been normalized or adjusted by a mathematical process or computation.
Calculated endo-systolic volume
sjwang
2018-12-05T13:54:43Z
The amount of adrenomedullin in a specified sample of kidney tissue.
kidney adrenomedullin level
sjwang
2018-12-05T13:57:39Z
The amount of adrenomedullin in a specified sample of medullary kidney tissue.
kidney medullary adrenomedullin level
sjwang
2018-12-05T13:59:17Z
The amount of adrenomedullin in a specified sample of cortical kidney tissue.
kidney cortical adrenomedullin level
sjwang
2018-12-07T10:37:27Z
Any measurement which has been normalized, adjusted or derived by a mathematical process or computation, of the volume of fluid filtered from the kidney glomerular capillaries into the Bowman's capsule per specified unit of time based on serum creatinine level, wieght and age of organism and other factors.
calculated glomerular filtration rate
sjwang
2018-12-07T11:57:13Z
Any quantification of a morphological or physiological parameter of one or more nucleic acids in the heart. Nucleic acids are high-molecular-weight polymeric compounds composed of nucleotides, each consisting of a purine or pyrimidine base, a ribose or deoxyribose sugar, and a phosphate group, and are involved in the determination and transmission of genetic characteristics.
heart nucleic acid measurement
sjwang
2018-12-07T12:02:20Z
Any measurement of the absolute or relative amount(s) of one or more of the ribonucleic acids (RNAs) of which the heart is formed or composed.
heart ribonucleic acid composition measurement
sjwang
2018-12-07T12:04:28Z
heart Igf1 mRNA level
heart insulin-like growth factor 1 mRNA level
sjwang
2018-12-07T12:09:49Z
Any measurement of the absolute or relative amount(s) of one or more of the ribonucleic acids (RNAs) of which the heart left ventricle is formed or composed.
heart left ventricle ribonucleic acid content
sjwang
2018-12-07T12:23:27Z
heart right ventricle insulin-like growth factor 1 mRNA level
sjwang
2018-12-07T12:28:34Z
The amount of ribonucleic acid (DNA), the molecule composed of the sugar ribose, phosphate groups and any combination of the bases adenine, guanine, cytosine, and/or uracil , extracted from or contained in the heart right ventricle, the lower chamber of the right side of the heart (from the perspective of the organism rather than the observer), which pumps venous blood through the pulmonary trunk and arteries to the capillaries of the lung.
heart right ventricle ribonucleic acid content
sjwang
2018-12-07T12:30:31Z
heart right ventricle molecular composition measurement
sjwang
2018-12-07T12:35:54Z
heart left ventricle Igf1r mRNA level
heart left ventricle insulin-like growth factor 1 mRNA level
sjwang
2018-12-07T12:44:11Z
heart Igf1r mRNA level
heart insulin-like growth factor 1 receptor mRNA level
sjwang
2018-12-07T12:46:44Z
heart right ventricle insulin-like growth factor 1 receptor mRNA level
sjwang
2018-12-07T12:49:23Z
heart left ventricle insulin-like growth factor 1 receptor mRNA level
sjwang
2018-12-07T14:45:56Z
Filtration fraction is the ratio of the glomerular filtration rate (GFR) to the renal plasma flow (RPF). Filtration Fraction, FF = GFR/RPF. The filtration fraction, therefore, represents the proportion of the fluid reaching the kidneys which passes into the renal tubules.
FF
filtration fraction
renal filtration fraction
sjwang
2018-12-07T14:51:40Z
glomerular filtration rate to kidney weight ratio
sjwang
2018-12-07T14:54:49Z
A calculated measurement to determine the volume of fluid filtered from the renal (kidney) glomerular capillaries of a single nephron into Bowman's capsule per unit time.
SNGFR
single nephron glomerular filtration rate
sjwang
2018-12-07T14:57:04Z
A calculated measurement to determine the ratio of the single nephron glomerular filtration rate (SNGFR) to the renal plasma flow (RPF). Single nephron filtration Fraction, SNFF = SNGFR/RPF. The single nephron filtration fraction, therefore, represents the proportion of the fluid reaching the kidneys which passes into the renal tubules from a single nephron.
SNFF
single nephron filtration fraction
sjwang
2018-12-07T15:14:18Z
calculated kidney morphological measurement
sjwang
2018-12-07T15:16:47Z
""A semiquantitative evaluation of the renal interstitium using a grading system with a score of 0 to 4+, which assesses the tubules and the interstitium for the presence of (1) tubular atrophy, (2) tubular dilatation, (3) interstitial inflammatory cell infiltrates, and (4) interstitial fibrosis. A score of 0 indicates no lesion (normal kidney), 1+ indicates a single, small focal lesion with very minimal tubular alterations and interstitial inflammatory cell infiltration, and 2+ to 4+ indicated increasing severity of tubular lesions, interstitial inflammatory cell infiltration, and/or fibrosis. A score of 4+ indicates involvement of approximately 50% or more of the renal parenchyma or interstitium." [PMID:PMID\:9369281]
kidney tubulointerstitial score
renal tubulointerstitial score
sjwang
2018-12-20T14:50:34Z
A calculated value in which the weight of the left atrium, the upper chamber on the left side of the heart which empties into the lower left chamber, is divided by the total weight of the body and the result presented as a ratio, fraction, quotient or percentage, thus normalizing it to body weight.
heart left atrium weight to body weight ratio
sjwang
2018-12-20T14:57:33Z
A measurement of the physical form or structure of the right atrium, the right upper chamber of the heart that receives blood from the vena cava and forces it into the right ventricle, which has been normalized, adjusted or derived by a mathematical process or computation.
calculated heart right atrium morphological measurement
sjwang
2018-12-20T14:59:58Z
A calculated value in which the weight of the right atrium, the upper chamber on the right side of the heart which empties into the lower right left chamber, is divided by the total weight of the body and the result presented as a ratio, fraction, quotient or percentage, thus normalizing it to body weight.
heart right atrium weight to body weight ratio
sjwang
2018-12-20T15:02:38Z
The weight of the septum of the heart, which is the portion of the heart left ventricle ventral/anterior wall and right ventricle dorsal/posterior wall which is shared between the ventricles, after removal from the body and separation from the rest of the heart.
Heart septum weight
sjwang
2018-12-20T15:09:32Z
The average number of podocytes in the kidney glomeruli.
number of podocytes per kidney glomerulus
sjwang
2018-12-20T15:13:54Z
A calculated measurement in which the average number of podocytes is divided by the average volume of kidney glomeruli.
number of podocytes to glomerular volume ratio
sjwang
2018-12-26T16:17:20Z
The average number of nucleated cells in the kidney glomeruli.
number of nucleated cells per kidney glomerulus
sjwang
2018-12-26T16:20:07Z
An injury score obtained by multiplying the degree of glomerular damage (0 to 4) with the percentage of the glomeruli with that type of injury (i.e., increase in mesangial matrix material or glomerulosclerosis).
mesangial injury score
sjwang
2018-12-27T11:44:39Z
Volume of blood plasma delivered to a single glomerulus per unit time
Qa
glomerular capillary plasma flow rate
sjwang
2018-12-27T11:55:22Z
Force exerted on the luminal capillary wall from fluid flowing through the capillary.
glomerular capillary hydraulic pressure
sjwang
2018-12-27T12:03:45Z
Any measurement of one of the small blood vessels carrying blood between arteries and capillaries.
arteriole measurement
sjwang
2018-12-27T12:07:55Z
Resistance that must be overcome to push blood through arterioles to create flow.
arteriolar resistance
sjwang
2018-12-27T12:21:25Z
Resistance to blood flow measured within the efferent arteriole proximal to a glomerular capillary network.
Re
efferent glomerular arteriolar resistance
efferent arteriolar resistance
sjwang
2018-12-27T12:27:17Z
Resistance to blood flow measured within the afferent arteriole distal to a glomerular capillary network.
Ra
afferent glomerular arteriolar resistance
afferent arteriolar resistance
sjwang
2018-12-27T12:33:35Z
Total resistance to blood flow measured within the afferent arteriole proximal and distal to a glomerular capillary network (Rt = Ra + Re).
Rt; total glomerular arteriolar resistance
total arteriolar resistance
sjwang
2018-12-27T12:45:26Z
Measurement of the total amount of all proteins found in a specific volume of afferent arteriolar plasma.
Ca
afferent arteriolar plasma protein concentration
sjwang
2018-12-27T12:49:32Z
Measurement of the total amount of all proteins found in a specific volume of efferent arteriolar plasma.
Ce
efferent arteriolar plasma protein concentration
sjwang
2018-12-27T12:53:15Z
A form of osmotic pressure exerted by proteins, notably albumin, in the afferent arteriole's plasma that tends to pull water into the circulatory system. It is the opposing force to hydrostatic pressure. It has a major effect on the pressure across the glomerular filter.
afferent colloid osmotic pressure
sjwang
2018-12-27T13:07:24Z
A form of osmotic pressure exerted by proteins, notably albumin, in the efferent arteriole's plasma that tends to pull water into the circulatory system. It is the opposing force to hydrostatic pressure. It has a major effect on the pressure across the glomerular filter
efferent colloid osmotic pressure
sjwang
2018-12-27T13:11:50Z
A measure of a membrane's permeability to water; specifically, the volume of fluid filtered in unit time through a unit area of membrane per unit pressure difference, and it is defined as the glomerular filtration rate (GFR) for both kidneys per millimeter of mercury (mmHg) of filtration pressure.
Kf
glomerular capillary ultrafiltration coefficient
sjwang
2018-12-27T14:28:13Z
A calculated measurement in which the area occupied by renal cysts is divided by the total the kidney, and the result presented as a ratio, fraction, quotient or percentage.
ratio of the area occupied by cysts to the total area of the kidney
sjwang
2018-12-27T15:20:35Z
Force exerted on the luminal surface of the proximal tubule from fluid flowing through the tubule.
mean proximal tubular hydraulic pressure
sjwang
2018-12-27T15:22:41Z
Force exerted on the luminal vessel wall from fluid flowing through the efferent arteriole.
efferent glomerular arteriolar hydraulic pressure
efferent arteriolar hydraulic pressure
sjwang
2018-12-27T15:27:01Z
The difference between the force exerted on the luminal glomerular capillary wall and the force exerted on the luminal proximal tubular membrane (Pgc - Pt = delta P).
Pgc - Pt = delta P
glomerular transcapillary hydraulic pressure gradient
sjwang
2018-12-27T15:58:18Z
calculated left ventricular end-diastolic blood pressure measurement
sjwang
2018-12-27T16:00:35Z
A calculated measurement in which the pressure in the heart left ventricle at the end of diastole, the period when the heart is in a state of relaxation and expansion and the ventricles fill with blood, divided by the diameter across the left ventricle of the heart at the end of diastole and the result presented as a ratio, fraction, quotient or percentage.
LVEDP/LVDd
heart left ventricular end-diastolic blood pressure to heart left ventricular end-diastolic diameter ratio
sjwang
2019-01-02T13:36:28Z
Rate-pressure product is defined as the product of the heart rate (the number of contractions of the cardiac ventricles per unit of time) and mean arterial blood pressure (the average force the blood exerts on an artery wall).
RPP
rate-pressure product
sjwang
2019-01-22T15:47:09Z
A calculated measurement of the average width of the tunica media (the middle coat of the arterial wall) divided by the artery total diameter (measured as the length of a line which crosses a transverse view of an artery, passing through its center and ending on either side at the outer surface of the blood vessel wall).
artery tunica media to artery total diameter ratio
sjwang
2019-01-22T15:50:45Z
A calculated measurement of the average width of the artery lumen (measured as the length of a line which crosses a transverse view of an artery, passing through its center and ending on either side at the inner surface of the blood vessel wall) divided by the artery total diameter (measured as the length of a line which crosses a transverse view of an artery, passing through its center and ending on either side at the outer surface of the blood vessel wall).
artery lumen to artery total diameter ratio
the role of a material entity to prevent, diagnose, treat, or study disease and/or its effects
William Hogan
William Hogan
clinical drug role
a material entity (1) containing at least one scattered molecular aggregate as part that is the bearer of an active ingredient role and (2) that is itself the bearer of a clinical drug role
William Hogan
William Hogan
drug product
active ingredient role
a role of a scattered molecular aggregate that is part of a drug product that is realized by (1) administration of the drug to an organism followed by (2) some change in the structure or functioning of some part of the organism
William R. Hogan
active ingredient
role of a scattered molecular aggregate
a role borne by a scattered molecular aggregate and realized by its grains participating in one or more processes
William R. Hogan
role of scattered molecular aggregate
administration of a drug product to an organism
a treatment that has as participants an extended organism and a drug product and that results in part of the drug product being located in the extended organism
William R. Hogan
drug administration
https://en.wikipedia.org/wiki/Geographic_feature
macroscopic spatial feature
envoPolar
May appear on a map.
geographic feature
An anthropogenic geographic feature is a geographic feature
resulting from the influence of human beings on nature.
An anthropogenic geographic feature is a geographic feature resulting from the influence of human beings on nature.
FTT:78
TGN:50001
man-made feature
manmade feature
anthropogenic geographic feature
FTT:1242
FTT:1252
FTT:15
FTT:16
FTT:18
FTT:19
FTT:21
FTT:22
FTT:23
FTT:24
FTT:25
FTT:26
FTT:27
FTT:28
FTT:29
FTT:37
SWEETRealm:AdministrativeRegion
TGN:80001
TGN:81099
TGN:81123
https://en.wikipedia.org/wiki/Administrative_region
administrative area
administrative division
administrative entity
boundary region
civil area
district
free trade zone
governed place
leased area (government)
leased zone (government)
neutral zone (political)
prefecture
protectorate
sheikdom
sultanate
trade zone
administrative region
A political association with effective dominion over a geographic area.
FTT:424
FTT:566
FTT:567
FTT:571
SWEETRealm:Country
SWEETRealm:State
TGN:80006
TGN:81010
TGN:81011
TGN:81102
https://en.wikipedia.org/wiki/Nation
nation
independent nation
independent political entity
independent sovereign nation
ENVO
country
political entity
state
ENVO:00000009
national geopolitical entity
1
Place or area with clustered or scattered buildings and a permanent human population.
place
FTT:1097
FTT:33
Geonames:P.PPL
Geonames:P.PPLS
TGN:22201
TGN:83002
https://en.wikipedia.org/wiki/Populated_place
inhabited place
populated place
populated places
settlement
ENVO
inhabited region
populated locality
ENVO:00000062
populated place
A feature that has been constructed by deliberate human effort.
"constructed" should probably be made something like a quality and this class obsoleted or filled only by inference
constructed feature
construction
A permanent walled and roofed construction.
FTT:42
Geonames:S.BLDG
LTER:76
TGN:51011
https://en.wikipedia.org/wiki/Building
BUILDING
building
building
A geographical region whose affairs and population are administered by an authority.
FTT:1093
Geonames:A.PCL
TGN:80002
political entity
political entity
Incorporated populated place.
urban area
EcoLexicon:city
FTT:430
FTT:483
FTT:484
FTT:485
SWEETRealm:City
TGN:83020
TGN:83040
TGN:83043
https://en.wikipedia.org/wiki/City
ENVO
ENVO:00000856
city
An environmental feature that is, or can be, contained and is predominantly composed of one or a few types of stuff.
An object which is large enough to be visible to humans, but small enough that humans can handle the object (i.e. transport it, examine it, etc) in its entirety with little to no technological assistance.
mesoscopic physical object
This is a legacy class from ENVO's early versions. It will be depopulated and filled in by inference using a PATO quality. Not to be confused with "mesoscopic" as defined in physics, which deals with objects typically between 10e-6 and 10-8 meters in diameter.
mesoscopic physical object
physical object of mesoscopic geological size
A material entity which determines an environmental system.
ENVO
ENVO:00002297
A material entity determines an environmental system when its removal would cause the collapse of that system. For example, a seamount determines a seamount environment, acting as its 'hub'. 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.
environmental feature
A material entity that has been processed by humans or their technology in any way, including intermediate products as well as final products.
manufactured good
manufactured product
ENVO
ENVO:00003075
anthropogenic abiotic mesoscopic feature
A portion of environmental material is a fiat object part which forms the medium or part of the medium of an environmental system.
A portion of environmental material is a fiat object which forms the medium or part of the medium of an environmental system.
portion of environmental material
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.
environmental material
ENVO
ENVO:01000010
abiotic mesoscopic physical object
A system which has the disposition to environ one or more material entities.
2013-09-23T16:04:08Z
EcoLexicon:environment
environment
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.
environmental system
An anthropogenic environment is an environmental system which is the product of human activity.
Unsatisfactory definition here. Must consider the threshold that makes an environmental system anthropogenic.
anthropogenic environment
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.
environmental area
envoPolar
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.
environmental zone
A building part is a construction which is part of a building.
Not recommended for annotation. This class is likely to be made into an inferred class as its subclasses are distributed among more meaningful superclasses (i.e. ceiling is_a surface layer). See for example, "building floor". The boundaries between building parts may be bona fide or fiat.
building part
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.
space
envoAstro
outer space
A settlement with a high density of buildings and inhabitants.
See also: http://www.ecotope.org/anthromes/v1/guide/urban/12_dense_settlements/default.aspx
The thresholds for what makes a settlment "dense" can be determined as needed. If there is a specific threshold that should be added to ENVO, please make a new class request.
dense settlement
A self-contained constructed feature used by one or more households as a home, such as a house, apartment, mobile home, houseboat or other 'substantial' structure. A dwelling typically includes nearby outbuildings, sheds etc. within the curtilage of the property, excluding any 'open fields beyond'. It has significance in relation to search and seizure, conveyancing of real property, burglary, trespass, and land use planning.
See https://github.com/EnvironmentOntology/envo/issues/264 for discussion. This definition needs a lot of clean up and links to household and related classes must be made to form logical definitions for inference to work.
Subclasses will be added by inference.
human dwelling
A village is a clustered human settlement or community, larger than a hamlet but smaller than a town, with a population ranging from a few hundred to a few thousand. Though often located in rural areas, the term urban village is also applied to certain urban neighbourhoods. Villages are normally permanent, with fixed dwellings; however, transient villages can occur. Further, the dwellings of a village are fairly close to one another, not scattered broadly over the landscape, as a dispersed settlement.
This class may be split. "urban village" doesn't sit well and prevents relations to village biomes.
village
An object which is naturally occuring, bound together by gravitational or electromagnetic forces, and surrounded by space.
celestial body
envoAstro
Astronomical bodies are usually cohesive, thus the use of the term 'object' sensu BFO 'object'.
astronomical body
1
An object which is composed of one or more gravitationally bound structures that are associated with a position in space.
celestial object
envoAstro
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.
astronomical object
A material part of an astronomical body.
envoAstro
envoPolar
astronomical body part
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.
A biosphere is an environmental system which includes, as parts, all the living entities within the gravitational sphere of influence of an astronomical body, and the non-living and dead entities which they interact with.
Whether this class should be grouped with classes such as "hydrosphere" and "cryosphere" requires some discussion.
envoAstro
envoPolar
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.
biosphere
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.
non-anthropised environment
non-anthropized environment
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.
natural environment
A process during which a natural environmental system is altered by human action.
anthropization
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.
anthropisation
A part of an astronomical body which includes, as parts, all the entities which have been constructed or manufactured by humans or their technology and which are within the gravitational sphere of influence of that body.
An environmental system which includes, as parts, all the entities which have been constructed or manufactured by humans or their technology within the gravitational sphere of influence of an astronomical body.
envoAstro
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.
technosphere
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.
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.
manufacturing process
An process during which natural or manufactured materials and products are processed and arranged by humans or their technology into structures.
The nature of "structures" must be further specified.
construction process
An environmental system which includes both living and non-living components.
LTER:173
This class will be primarily filled by inference, any environmental system which necessarily includes living parts should be autoclassified here.
ecosystem
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.
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.
geodiversity
A process during which an ecosystem, its parts, or the processes it participates in are modified by human intervention to accomplish an objective.
ecosystem management
Umweltmaßnahme
environmental management
active ecosystem management process
A process during which an ecosystem - natural or anthropised - is changed by the actions of humans.
http://orcid.org/0000-0002-4366-3088
anthropogenic ecosystem conversion process
A planned process during which humans access and obtain resources, benefits, or services from a natural or anthropised ecosystem.
http://orcid.org/0000-0002-4366-3088
planned environmental usage process
A planned environmental usage process during which an environment supports the settlement and dwelling of a community of humans.
http://orcid.org/0000-0002-4366-3088
residential
This class does not include environments which are primarily used for commerce or industry.
usage of an environment for residential activity
A building which is primarily used for the long-term habitation of humans.
http://orcid.org/0000-0002-4366-3088
2018-10-04T14:04:49Z
domestic building
A process in which includes the components of an environmental system as participants.
This is a convenience class for organisation and should not be used for annotation.
environmental system process
A process during which humans apply technology to alter the magnitude, duration, rate, or impact of an environmental process.
Relabel the obo foundry unique label to be generic process
anthropogenic modulatory intervention process
An environmental process which is driven by the action of humans.
anthropogenic environmental process
A process during which material is displaced from its original location and transported either to a new location or back to the original location.
http://orcid.org/0000-0002-3410-4655
http://orcid.org/0000-0002-4366-3088
envoPolar
Experimental class for structural purposes not recommended for annotation.
material transport process
A process during which a portion of some environmental material is converted into a different material or a collection of materials.
A different material transformation process class (or similarly named class) pertaining to the conversion of a specific chemical into another belongs in CHEBI and or REX ontologies.
http://orcid.org/0000-0002-3410-4655
http://orcid.org/0000-0002-4366-3088
envoPolar
Experimental class for structural purposes not recommended for annotation. A material transformation process only refers to ENVO:environmental material classes (e.g. bulk and typically impure substances), rather than transformations converting a specific chemical into another.
material transformation process
immunoglobulin complex
A protein complex that in its canonical form is composed of two identical immunoglobulin heavy chains and two identical immunoglobulin light chains, held together by disulfide bonds and sometimes complexed with additional proteins. An immunoglobulin complex may be embedded in the plasma membrane or present in the extracellular space, in mucosal areas or other tissues, or circulating in the blood or lymph.
immunoglobulin complex
B cell receptor complex
An immunoglobulin complex that is present in the plasma membrane of B cells and that in its canonical form is composed of two identical immunoglobulin heavy chains and two identical immunoglobulin light chains and a signaling subunit, a heterodimer of the Ig-alpha and Ig-beta proteins.
B cell receptor complex
protein-containing complex
A ribosome is a protein complex.
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.
protein complex
protein-containing complex
T cell receptor complex
A protein complex that contains a disulfide-linked heterodimer of T cell receptor (TCR) chains, which are members of the immunoglobulin superfamily, and mediates antigen recognition, ultimately resulting in T cell activation. The TCR heterodimer is associated with the CD3 complex, which consists of the nonpolymorphic polypeptides gamma, delta, epsilon, zeta, and, in some cases, eta (an RNA splice variant of zeta) or Fc epsilon chains.
T cell receptor complex
immunoglobulin complex, circulating
An immunoglobulin complex that is secreted into extracellular space and found in mucosal areas or other tissues or circulating in the blood or lymph. In its canonical form, a circulating immunoglobulin complex is composed of two identical heavy chains and two identical light chains, held together by disulfide bonds. Some forms of are polymers of the basic structure and contain additional components such as J-chain and the secretory component.
antibody
antibody
immunoglobulin complex, circulating
A phenotypic abnormality.
Phenotypic abnormality
Osteoporosis is a systemic skeletal disease characterized by low bone density and microarchitectural deterioration of bone tissue with a consequent increase in bone fragility. According to the WHO, osteoporosis is characterized by a value of BMD 2.5 standard deviations or more below the young adult mean.
Osteoporosis
Eczema is a form of dermatitis. The term eczema is broadly applied to a range of persistent skin conditions and can be related to a number of underlying conditions. Manifestations of eczema can include dryness and recurring skin rashes with redness, skin edema, itching and dryness, crusting, flaking, blistering, cracking, oozing, or bleeding.
Eczema
Any abnormality of the cardiovascular system.
Abnormality of the cardiovascular system
Abnormality of metabolism/homeostasis
Elevated body temperature due to failed thermoregulation.
Fever
A condition in which the stomach contents leak backwards from the stomach into the esophagus through the lower esophageal sphincter.
Gastroesophageal reflux
A lack or loss of appetite for food (as a medical condition).
Anorexia
An abnormality of the respiratory system, which include the airways, lungs, and the respiratory muscles.
Abnormality of the respiratory system
Difficult or labored breathing.
Dyspnea
Cephalgia, or pain sensed in various parts of the head, not confined to the area of distribution of any nerve.
Headache
Excessive daytime sleepiness.
Drowsiness
Functional respiratory abnormality
An atrial arrhythmia characterized by disorganized atrial activity without discrete P waves on the surface EKG, but instead by an undulating baseline or more sharply circumscribed atrial deflections of varying amplitude an frequency ranging from 350 to 600 per minute.
Atrial fibrillation
Stridor is a high pitched sound resulting from turbulent air flow in the upper airway.
Stridor
An abnormal accumulation of fluid beneath the skin of the legs.
Edema of the lower limbs
An abnormality of the gastrointestinal tract.
Abnormality of the gastrointestinal tract
Abnormal functionality of the cardiovascular system.
Abnormality of cardiovascular system physiology
An infection of the upper or lower respiratory tract.
Respiratory tract infection
Edema (swelling) of the bulbar conjunctiva.
Chemosis
A functional anomaly of the nervous system.
Abnormality of nervous system physiology
Abnormal structure of the gastrointestinal tract.
Morphological abnormality of the gastrointestinal tract
Abnormal functionality of the gastrointestinal tract.
Functional abnormality of the gastrointestinal tract
A sudden, audible expulsion of air from the lungs through a partially closed glottis, preceded by inhalation.
Cough
Abnormality of the digestive system
A functional anomaly of the digestive system.
Abnormality of digestive system physiology
Abnormality of vascular function.
Abnormal vascular physiology
A high-pitched whistling sound associated with labored breathing.
Wheezing
An anomalous (adventitious) sound produced by the breathing process.
Abnormal breath sound
Abnormal breath sounds characterized by discontinuous clicking or rattling.
Rales
Abnormal breath sounds characterized by low-pitched, snoring or rattle-like sounds.
Rhonchi
Increased jugular venous pressure.
Elevated jugular venous pressure
measurement unit label
Examples of measurement unit labels are liters, inches, weight per volume.
A measurement unit label is as a label that is part of a scalar measurement datum and denotes a unit of measure.
2009-03-16: provenance: a term measurement unit was
proposed for OBI (OBI_0000176) , edited by Chris Stoeckert and
Cristian Cocos, and subsequently moved to IAO where the objective for
which the original term was defined was satisfied with the definition
of this, different, term.
2009-03-16: review of this term done during during the OBI workshop winter 2009 and the current definition was considered acceptable for use in OBI. If there is a need to modify this definition please notify OBI.
PERSON: Alan Ruttenberg
PERSON: Melanie Courtot
measurement unit label
objective specification
In the protocol of a ChIP assay the objective specification says to identify protein and DNA interaction.
A directive information entity that describes an intended process endpoint. When part of a plan specification the concretization is realized in a planned process in which the bearer tries to effect the world so that the process endpoint is achieved.
2009-03-16: original definition when imported from OBI read: "objective is an non realizable information entity which can serve as that proper part of a plan towards which the realization of the plan is directed."
2014-03-31: In the example of usage ("In the protocol of a ChIP assay the objective specification says to identify protein and DNA interaction") there is a protocol which is the ChIP assay protocol. In addition to being concretized on paper, the protocol can be concretized as a realizable entity, such as a plan that inheres in a person. The objective specification is the part that says that some protein and DNA interactions are identified. This is a specification of a process endpoint: the boundary in the process before which they are not identified and after which they are. During the realization of the plan, the goal is to get to the point of having the interactions, and participants in the realization of the plan try to do that.
Answers the question, why did you do this experiment?
PERSON: Alan Ruttenberg
PERSON: Barry Smith
PERSON: Bjoern Peters
PERSON: Jennifer Fostel
goal specification
OBI Plan and Planned Process/Roles Branch
OBI_0000217
objective specification
Pour the contents of flask 1 into flask 2
A directive information entity that describes an action the bearer will take.
Alan Ruttenberg
OBI Plan and Planned Process branch
action specification
datum label
A label is a symbol that is part of some other datum and is used to either partially define the denotation of that datum or to provide a means for identifying the datum as a member of the set of data with the same label
http://www.golovchenko.org/cgi-bin/wnsearch?q=label#4n
GROUP: IAO
9/22/11 BP: changed the rdfs:label for this class from 'label' to 'datum label' to convey that this class is not intended to cover all kinds of labels (stickers, radiolabels, etc.), and not even all kind of textual labels, but rather the kind of labels occuring in a datum.
datum label
model number
A model number is an information content entity specifically borne by catalogs, design specifications, advertising materials, inventory systems and similar that is about manufactured objects of the same class. The model number is an alternative term for the class. The manufactered objects may or may not also bear the model number. Model numbers can be encoded in a variety of other information objects, such as bar codes, numerals, or patterns of dots.
manufactered items may have more than one model number, sometimes by rebranding, or because companies are sold and the products issued new model numbers
Person: Alan Ruttenberg
model number
data item
Data items include counts of things, analyte concentrations, and statistical summaries.
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.
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.
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.
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.
2009-03-16: removed datum as alternative term as datum specifically refers to singular form, and is thus not an exact synonym.
2014-03-31: See discussion at http://odontomachus.wordpress.com/2014/03/30/aboutness-objects-propositions/
JAR: datum -- well, this will be very tricky to define, but maybe some
information-like stuff that might be put into a computer and that is
meant, by someone, to denote and/or to be interpreted by some
process... I would include lists, tables, sentences... I think I might
defer to Barry, or to Brian Cantwell Smith
JAR: A data item is an approximately justified approximately true approximate belief
PERSON: Alan Ruttenberg
PERSON: Chris Stoeckert
PERSON: Jonathan Rees
data
data item
symbol
a serial number such as "12324X"
a stop sign
a written proper name such as "OBI"
An information content entity that is a mark(s) or character(s) used as a conventional representation of another entity.
20091104, MC: this needs work and will most probably change
2014-03-31: We would like to have a deeper analysis of 'mark' and 'sign' in the future (see https://code.google.com/p/information-artifact-ontology/issues/detail?id=154).
2014-03-31: We would like to have a deeper analysis of 'mark' and 'sign' in the future (see https://github.com/information-artifact-ontology/IAO/issues/154).
PERSON: James A. Overton
PERSON: Jonathan Rees
based on Oxford English Dictionary
symbol
numeral
A symbol that denotes a number.
PERSON: Jonathan Rees
numeral
information content entity
Examples of information content entites include journal articles, data, graphical layouts, and graphs.
A generically dependent continuant that is about some thing.
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).
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).
Previous. An information content entity is a non-realizable information entity that 'is encoded in' some digital or physical entity.
PERSON: Chris Stoeckert
OBI_0000142
information content entity
information content entity
integer numeral
a numeral that denotes an integer
PERSON: Jonathan Rees
integer numeral
1
1
10 feet. 3 ml.
a scalar measurement datum is a measurement datum that is composed of two parts, numerals and a unit label.
2009-03-16: we decided to keep datum singular in scalar measurement datum, as in
this case we explicitly refer to the singular form
Would write this as: has_part some 'measurement unit label' and has_part some numeral and has_part exactly 2, except for the fact that this won't let us take advantage of OWL reasoning over the numbers. Instead use has measurment value property to represent the same. Use has measurement unit label (subproperty of has_part) so we can easily say that there is only one of them.
PERSON: Alan Ruttenberg
PERSON: Melanie Courtot
scalar measurement datum
An information content entity whose concretizations indicate to their bearer how to realize them in a process.
2009-03-16: provenance: a term realizable information entity was proposed for OBI (OBI_0000337) , edited by the PlanAndPlannedProcess branch. Original definition was "is the specification of a process that can be concretized and realized by an actor" with alternative term "instruction".It has been subsequently moved to IAO where the objective for which the original term was defined was satisfied with the definitionof this, different, term.
2013-05-30 Alan Ruttenberg: What differentiates a directive information entity from an information concretization is that it can have concretizations that are either qualities or realizable entities. The concretizations that are realizable entities are created when an individual chooses to take up the direction, i.e. has the intention to (try to) realize it.
8/6/2009 Alan Ruttenberg: Changed label from "information entity about a realizable" after discussions at ICBO
Werner pushed back on calling it realizable information entity as it isn't realizable. However this name isn't right either. An example would be a recipe. The realizable entity would be a plan, but the information entity isn't about the plan, it, once concretized, *is* the plan. -Alan
PERSON: Alan Ruttenberg
PERSON: Bjoern Peters
directive information entity
dot plot
Dot plot of SSC-H and FSC-H.
A dot plot is a report graph which is a graphical representation of data where each data point is represented by a single dot placed on coordinates corresponding to data point values in particular dimensions.
person:Allyson Lister
person:Chris Stoeckert
OBI_0000123
group:OBI
dot plot
graph
A diagram that presents one or more tuples of information by mapping those tuples in to a two dimensional space in a non arbitrary way.
PERSON: Lawrence Hunter
person:Alan Ruttenberg
person:Allyson Lister
OBI_0000240
group:OBI
graph
contour plot
Contour plot of SSC-H, FSC-H, and FL1-H.
generically_dependent_continuants
person:Allyson Lister
person:Chris Stoeckert
OBI_0000246
group:Flow Cytometry community
contour plot
curation status specification
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.
Better to represent curation as a process with parts and then relate labels to that process (in IAO meeting)
PERSON:Bill Bug
GROUP:OBI:<http://purl.obolibrary.org/obo/obi>
OBI_0000266
curation status specification
density plot
Density plot of SSC-H and FSC-H.
A density plot is a report graph which is a graphical representation of data where the tint of a particular pixel corresponds to some kind of function corresponding the the amount of data points relativelly with their distance from the the pixel.
person:Allyson Lister
person:Chris Stoeckert
OBI_0000179
group:Flow Cytometry community
density plot
data set
Intensity values in a CEL file or from multiple CEL files comprise a data set (as opposed to the CEL files themselves).
A data item that is an aggregate of other data items of the same type that have something in common. Averages and distributions can be determined for data sets.
2009/10/23 Alan Ruttenberg. The intention is that this term represent collections of like data. So this isn't for, e.g. the whole contents of a cel file, which includes parameters, metadata etc. This is more like java arrays of a certain rather specific type
2014-05-05: Data sets are aggregates and thus must include two or more data items. We have chosen not to add logical axioms to make this restriction.
person:Allyson Lister
person:Chris Stoeckert
OBI_0000042
group:OBI
data set
image
An image is an affine projection to a two dimensional surface, of measurements of some quality of an entity or entities repeated at regular intervals across a spatial range, where the measurements are represented as color and luminosity on the projected on surface.
person:Alan Ruttenberg
person:Allyson
person:Chris Stoeckert
OBI_0000030
group:OBI
image
data about an ontology part
Data about an ontology part is a data item about a part of an ontology, for example a term
data about an ontology part is a data item about a part of an ontology, for example a term
Person:Alan Ruttenberg
Person:Alan Ruttenberg
data about an ontology part
plan specification
PMID: 18323827.Nat Med. 2008 Mar;14(3):226.New plan proposed to help resolve conflicting medical advice.
A directive information entity with action specifications and objective specifications as parts that, when concretized, is realized in a process in which the bearer tries to achieve the objectives by taking the actions specified.
2009-03-16: provenance: a term a plan was proposed for OBI (OBI_0000344) , edited by the PlanAndPlannedProcess branch. Original definition was " a plan is a specification of a process that is realized by an actor to achieve the objective specified as part of the plan". It has been subsequently moved to IAO where the objective for which the original term was defined was satisfied with the definitionof this, different, term.
2014-03-31: A plan specification can have other parts, such as conditional specifications.
Alternative previous definition: a plan is a set of instructions that specify how an objective should be achieved
Alan Ruttenberg
OBI Plan and Planned Process branch
OBI_0000344
2/3/2009 Comment from OBI review.
Action specification not well enough specified.
Conditional specification not well enough specified.
Question whether all plan specifications have objective specifications.
Request that IAO either clarify these or change definitions not to use them
plan specification
measurement datum
Examples of measurement data are the recoding of the weight of a mouse as {40,mass,"grams"}, the recording of an observation of the behavior of the mouse {,process,"agitated"}, the recording of the expression level of a gene as measured through the process of microarray experiment {3.4,luminosity,}.
A measurement datum is an information content entity that is a recording of the output of a measurement such as produced by a device.
2/2/2009 is_specified_output of some assay?
person:Chris Stoeckert
OBI_0000305
group:OBI
measurement datum
version number
A version number is an information content entity which is a sequence of characters borne by part of each of a class of manufactured products or its packaging and indicates its order within a set of other products having the same name.
Note: we feel that at the moment we are happy with a general version number, and that we will subclass as needed in the future. For example, see 7. genome sequence version
GROUP: IAO
version number
serial number
A serial number is an information content entity which is a unique sequence of characters borne by part of manufactured product or its packaging that is assigned to each individual in some class of products, and so can serve as a way to identify an individual product within the class. Serial numbers can be encoded in a variety of other information objects, such as bar codes, numerals, or patterns of dots.
Note: during the call there was some confusion between serial number and model number. We agreed that it would be very helpful for all those terms to have example of usages - please add if you have any :-)
GROUP: IAO
serial number
lot number
A lot number is an information content entity which is an identical sequence of character borne by part of manufactured product or its packaging for each instances of a product class in a discrete batch of an item. Lot numbers are usually assigned to each separate production run of an item. Manufacturing as a lot might be due to a variety of reasons, for example, a single process during which many individuals are made from the same portion of source material. Lot numbers can be encoded in a pattern of other information objects, such as bar codes, numerals, or patterns of dots.
GROUP: IAO
batch number
lot number
histogram
A histogram is a report graph which is a statistical description of a
distribution in terms of occurrence frequencies of different event classes.
PERSON:Chris Stoeckert
PERSON:James Malone
PERSON:Melanie Courtot
GROUP:OBI
histogram
heatmap
A heatmap is a report graph which is a graphical representation of data
where the values taken by a variable(s) are shown as colors in a
two-dimensional map.
PERSON:Chris Stoeckert
PERSON:James Malone
PERSON:Melanie Courtot
GROUP:OBI
heatmap
Venn diagram
A Venn diagram is a report graph showing all hypothetically possible
logical relations between a finite collection of sets.
PERSON:Chris Stoeckert
PERSON:James Malone
PERSON:Melanie Courtot
WEB: http://en.wikipedia.org/wiki/Venn_diagram
Venn diagram
dendrogram
Dendrograms are often used in computational biology to
illustrate the clustering of genes.
A dendrogram is a report graph which is a tree diagram
frequently used to illustrate the arrangement of the clusters produced by a
clustering algorithm.
PERSON:Chris Stoeckert
PERSON:James Malone
PERSON:Melanie Courtot
WEB: http://en.wikipedia.org/wiki/Dendrogram
dendrogram
scatter plot
Comparison of gene expression values in two samples can be displayed in a scatter plot
A scatterplot is a graph which uses Cartesian coordinates to display values for two variables for a set of data. The data is displayed as a collection of points, each having the value of one variable determining the position on the horizontal axis and the value of the other variable determining the position on the vertical axis.
PERSON:Chris Stoeckert
PERSON:James Malone
PERSON:Melanie Courtot
scattergraph
WEB: http://en.wikipedia.org/wiki/Scatterplot
scatter plot
A photograph is created by projecting an image onto a photosensitive surface such as a chemically treated plate or film, CCD receptor, etc.
PERSON:Alan Ruttenberg
PERSON:Joanne Luciano
PERSON:Melanie Courtot
WEB: http://en.wiktionary.org/wiki/photograph
photograph
textual entity
Words, sentences, paragraphs, and the written (non-figure) parts of publications are all textual entities
A textual entity is a part of a manifestation (FRBR sense), a generically dependent continuant whose concretizations are patterns of glyphs intended to be interpreted as words, formulas, etc.
AR, (IAO call 2009-09-01): a document as a whole is not typically a textual entity, because it has pictures in it - rather there are parts of it that are textual entities. Examples: The title, paragraph 2 sentence 7, etc.
MC, 2009-09-14 (following IAO call 2009-09-01): textual entities live at the FRBR (http://en.wikipedia.org/wiki/Functional_Requirements_for_Bibliographic_Records) manifestation level. Everything is significant: line break, pdf and html versions of same document are different textual entities.
PERSON: Lawrence Hunter
text
textual entity
citation
Verspoor, K., Cohen, KB., Hunter, L. Textual characteristics of traditional and Open Access scientific journals are similar, BMC Bioinformatics 2009, 10:183.
a textual entity intended to identify a particular publication
PERSON: Lawrence Hunter
citation
document title
Textual characteristics of traditional and Open Access scientific journals are similar
A textual entity that names a document
PERSON: Lawrence Hunter
document title
table
| T F
--+-----
T | T F
F | F F
A textual entity that contains a two-dimensional arrangement of texts repeated at regular intervals across a spatial range, such that the spatial relationships among the constituent texts expresses propositions
PERSON: Lawrence Hunter
table
figure
Any picture, diagram or table
An information content entity consisting of a two dimensional arrangement of information content entities such that the arrangement itself is about something.
PERSON: Lawrence Hunter
figure
diagram
A molecular structure ribbon cartoon showing helices, turns and sheets and their relations to each other in space.
A figure that expresses one or more propositions
PERSON: Lawrence Hunter
diagram
document
A journal article, patent application, laboratory notebook, or a book
A collection of information content entities intended to be understood together as a whole
PERSON: Lawrence Hunter
document
hypothesis textual entity
that fucoidan has a small statistically significant effect on AT3 level but no useful clinical effect as in-vivo anticoagulant, a paraphrase of part of the last paragraph of the discussion section of the paper 'Pilot clinical study to evaluate the anticoagulant activity of fucoidan', by Lowenthal et. al.PMID:19696660
A textual entity that expresses an assertion that is intended to be tested.
2009/09/28 Alan Ruttenberg. Fucoidan-use-case
Person:Alan Ruttenberg
hypothesis textual entity
A scalar measurement datum that is the result of measuring a temporal interval
2009/09/28 Alan Ruttenberg. Fucoidan-use-case
Person:Alan Ruttenberg
time measurement datum
A textual entity that is used as directive to deliver something to a person, or organization
2010-05-24 Alan Ruttenberg. Use label for the string representation. See issue https://github.com/information-artifact-ontology/IAO/issues/59
postal address
email address
Alan Ruttenberg 1/3/2012 - Provisional id, see issue at https://github.com/information-artifact-ontology/IAO/issues/130&thanks=130&ts=1325636583
Person:Alan Ruttenberg
Person:Chris Stoeckart
email address
Recording the current temperature in a laboratory notebook. Writing a journal article. Updating a patient record in a database.
A planned process in which a document is created or added to by including the specified input in it.
a planned process in which a document is created or added to by including the specified input in it.
6/11/9: Edited at OBI workshop. We need to be able identify a child form of information artifact which corresponds to something enduring (not brain like). This used to be restricted to physical document or digital entity as the output, but that excludes e.g. an audio cassette tape
Bjoern Peters
wikipedia http://en.wikipedia.org/wiki/Documenting
documenting
line graph
A line graph is a type of graph created by connecting a series of data
points together with a line.
PERSON:Chris Stoeckert
PERSON:Melanie Courtot
line chart
GROUP:OBI
WEB: http://en.wikipedia.org/wiki/Line_chart
line graph
A new pubmed ID being created for a journal article, and the associated pubmed record containing information to the journal article. A license plate number registered at the DMV to be belonging to a specific vehicle and owner. Placing a barcode on a product and entering information in a database that this barcode is assigned.
A planned process in which a new CRID is created, associated with an entity, and stored in the CRID registry thereby registering it as being associated with some entity
2014-05-05: It is the CRID registry that assigns CRIDs, not the users of the registry.
Person:Alan Ruttenberg
Person:Bjoern Peters
Person:Melanie Courtot
assigning a CRID
assigning a centrally registered identifier
The sentence "The article has Pubmed ID 12345." contains a CRID that has two parts: one part is the CRID symbol, which is '12345'; the other part denotes the CRID registry, which is Pubmed.
A symbol that is part of a CRID and that is sufficient to look up a record from the CRID's registry.
PERSON: Alan Ruttenberg
PERSON: Bill Hogan
PERSON: Bjoern Peters
PERSON: Melanie Courtot
CRID symbol
Original proposal from Bjoern, discussions at IAO calls
centrally registered identifier symbol
Entries in a Column of which the header is "Pubmed ID"
PMID:12345
The following URL: "http://www.ncbi.nlm.nih.gov/pubmed/19918065"
The following sentence contains a CRID: "The article with Pubmed ID: 19918065".
The sentence "The article has Pubmed ID 12345." contains a CRID that has two parts: one part is the CRID symbol, which is '12345'; the other part denotes the CRID registry, which is Pubmed.
An information content entity that consists of a CRID symbol and additional information about the CRID registry to which it belongs.
An information content entity that consists of a CRID symbol and additional information about which CRID registry it belongs.
2014-05-05: In defining this term we take no position on what the CRID denotes. In particular do not assume it denotes a *record* in the CRID registry (since the registry might not have 'records').
Alan, IAO call 20101124: potentially the CRID denotes the instance it was associated with during creation.
Note, IAO call 20101124: URIs are not always CRID, as not centrally registered. We acknowledge that CRID is a subset of a larger identifier class, but this subset fulfills our current needs. OBI PURLs are CRID as they are registered with OCLC. UPCs (Universal Product Codes from AC Nielsen)are not CRID as they are not centrally registered.
PERSON: Alan Ruttenberg
PERSON: Bill Hogan
PERSON: Bjoern Peters
PERSON: Melanie Courtot
CRID
Centrally Registered IDentifier
Original proposal from Bjoern, discussions at IAO calls
http://purl.obolibrary.org/obo/iao.owl
CRID
centrally registered identifier
PubMed is a CRID registry. It has a dataset of PubMed identifiers associated with journal articles.
A CRID registry is a dataset of CRID records, each consisting of a CRID symbol and additional information which was recorded in the dataset through a assigning a centrally registered identifier process.
PERSON: Alan Ruttenberg
PERSON: Bill Hogan
PERSON: Bjoern Peters
PERSON: Melanie Courtot
CRID registry
Original proposal from Bjoern, discussions at IAO calls
centrally registered identifier registry
written name
"Bill Clinton"
"The Eiffel Tower"
"United States of America"
A textual entity that denotes a particular in reality.
PERSON: Bill Hogan
https://github.com/information-artifact-ontology/IAO/issues/114
The qualifier "written" is to set it apart from spoken names. Also, note the restrictions to particulars. We are not naming universals. We could however, be naming, attributive collections which are particulars, so "All people located in the boundaries of the city of Little Rock, AR on June 18, 2011 at 9:50a CDT" would be a name.
written name
author information textual entity
From Takon. Ann Gen Psychiatry. 2011; 10: 25. (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3204268/):
IT [the author] is the lead paediatrician for ADHD services in East Hertfordshire, UK, where she runs a weekly joint ADHD clinic with the Child and Adolescent psychiatrist and works within an ADHD specialist team. IT also sees children with other neurodisability issues who may have comorbid ADHD, where the presentation may be more complex and challenging to manage. IT has vast experience in managing children with complex ADHD. She has 18 years of experience in paediatrics and also has extensive experience in the use of psychopharmacologic agents in managing children with ADHD.
A textual entity expression information about an author of a document. This information may include biographical information and may discuss how the authors' professional experiences are relevant to the work described in the document.
PERSON: Bill Baumgartner
author information textual entity
case report textual entity
Excerpt from Taglia et al. Acta Myol. 2012 Dec; 31(3): 201–203. (http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3631801/):
The patient is a 50-year-old man. His medical history was not contributory. At the age of 37 years, he complained of persistent fatigue and dyspnoea even for modest efforts and oedema of lower limbs. The patient was examined at the department of internal medicine of the local hospital, and hospitalised with a diagnosis of dilated cardiomyopathy probably consequence of a myocarditis process. Soon after he was transferred to the cardiologic department of the regional hospital, and pharmacologically treated for heart failure and pulmonary hypertension.
A textual entity that expresses a detailed account of a portion of the medical history for a specific patient.
PERSON: Bill Baumgartner
case report textual entity
Colonel Klink giving Sergeant Schultz an order, Jake promising Jill to take her to the junior prom
A planned process that is carried out by a conscious being or an organization, and is self-generated, directed towards another conscious being or an aggregate of conscious beings, an organization or an aggregate of organizations, and that needs to be perceived.
A process that is carried out by a conscious being or an aggregate of conscious beings and is spontaneous, directed towards other conscious beings and aggregates thereof and needs to be perceived.
Mathias Brochhausen
MB: Regarding the use of the term 'sponteneous' in the definition:
The term is used in the following meaning of being self generated. It does not stand in contrast to being planned.
social act
the claim of a piece of land, the obligation to pay rent to the owner of a rental property
Socio-legal generically dependent continuants are generically dependent continuants that come into existence through declarations and are concretized as roles. They differ from information content entities in that they are not about something, but exist as quasi-abstract social entities. Socio-legal generically dependent continuants are not concretized as qualities inhering in independent continuants, but only as realizable entities borne by an organism or an aggregate of organisms.
Mathias Brochhausen
socio-legal generically dependent continuant
my consenting verbally to buy a used TV set for $ 500, Jane Doe's signing of the divorce papers, John Robie's taking of Mrs. Steven's jewels
A social act that brings about, transfers or revokes a socio-legal generically dependent continuant or brings about or revokes a role. Declarations do not depend on words spoken or written, but sometimes are merely actions, for instance the signing of a document.
Mathias Brochhausen
declaration
A document that is intended to be the specified input in a document act. It has a plan specification as a part that specifies the intended socio-legal entities that are created through the document (objective specification) and the way in which the document act is to be performed (by signing, by stamping, etc.) (action specification).
Mathias Brochhausen
document act input document
a judge's role of signing a court order, a hospital committee's to sanction conformance to a specific guideline for hospital employees.
A role inhering in a human being or an organization or an aggregate of any of the aforementioned that is realized by the bearer being the agent in a declaration.
Mathias Brochhausen
declaration performer role
A document that explains all relevant information to assist a human being in understanding the expectations and requirements of participation in a process, and is an instrument in obtaining consent and, after having obtained consent, is a record that such a consent has occurred.
The term definition is adapted from NCIt definition of 'consent form' (C16468) with modification. For instance, whereas the NCIt definition restricted informed consent forms to clinical trials, the present definition does not.
Alla Karnovsky, Frank Manion, Yongqun He, Asiyah Yu Lin, Marcy Harris, Elizabeth Eisenhauer, Jonathan Vajda, Cooper Stansbury, J. Neil Otte
informed consent document
NCIt C16468
See curator note for 'incomplete informed consent form'.
C0009797
C16468
informed consent form
A social act that is a part of an informed consent process and has output of a signed informed consent form. The signing process leads to a legal obligation.
Alla Karnovsky, Frank Manion, Yongqun He, Jihad Obeid, Chris Stoeckert, and Mathias Brochhausen
This class is under group discussion as of 03/26/2019.
Signing here does not mean that we have to sign with a pen. It may happen in terms of signing a piece of a paper or an electronic form.
signing an informed consent form
A document act input document that explains all relevant information to assist a human being in understanding the expectations and requirements of participation in a process, and whose purpose is to assist in obtaining consent.
J. Neil Otte
Note: instances of 'incomplete informed consent form' include both blank informed consent forms that are waiting to be used in a process of informed consent, as well as those that have been left blank by a patient, whether on purpose or in error. Those that have been left blank on purpose have been used in a process of informed consent, where the patient must have reached a decision.
incomplete informed consent form
A document act input document that has, as part, an incomplete informed consent form, along with some additional parts, such as a signature, stamp, or initials, which serve as a record to an act of consent that had the incomplete informed consent form as a specified input.
J. Neil Otte
complete informed consent form indicating consent
An information content entity that is a handwritten depiction of a name.
Jonathan Vajda, Cooper Stansbury, J. Neil Otte.
signature
Sudden and sustained deterioration of the kidney function characterized by decreased glomerular filtration rate, increased serum creatinine or oliguria.
DOID:3021
ICD10:N17
MESH:D058186
NCIT:C26808
AKI
ARF
acute kidney injury
acute renal failure
kidney failure, acute
MONDO:0002492
acute kidney failure
Progressive kidney disorder caused by vascular damage to the glomerular capillaries, in patients with diabetes mellitus. It is usually manifested with nephritic syndrome and glomerulosclerosis.
EFO:0000401
ICD9:250.4
ICD9:250.40
ICD9:583.81
MESH:D003928
NCIT:C84417
SCTID:127013003
diabetic Nephropathy
diabetic kidney disease
MONDO:0005016
diabetic nephropathy
A disease involving the kidney.
DOID:557
EFO:0003086
ICD10:N08
ICD10:N28.9
ICD9:583.81
MESH:D007674
NCIT:C3149
SCTID:90708001
UMLS:C0022658
disease of kidney
disease or disorder of kidney
disorder of kidney
kidney disease
kidney disease or disorder
kidney disorder
nephropathy
renal disease
renal disorder
disorder of kidney
MONDO:0005240
kidney disease
Impairment of the renal function secondary to chronic kidney damage persisting for three or more months.
COHD:46271022
DOID:784
EFO:0003884
ICD10:N18.9
ICD9:585
ICD9:585.6
MESH:D007676
NCIT:C80078
SCTID:709044004
UMLS:C0022661
CKD
CKD - chronic kidney disease
chronic kidney disease
chronic kidney failure
chronic renal disease
kidney disease, chronic
renal failure - chronic
chronic renal failure syndrome
chronic renal insufficiency
MONDO:0005300
chronic kidney disease
Viruses
GC_ID:1
ncbi_taxonomy
Vira
Viridae
viruses
Viruses
Teleostomi
Euteleostomi
bony vertebrates
bony vertebrates
Euteleostomi
Dipnotetrapodomorpha
Boreotheria
Boreoeutheria
Bacteria
eubacteria
GC_ID:11
PMID:10425795
PMID:10425796
PMID:10425797
PMID:10490293
PMID:10843050
PMID:10939651
PMID:10939673
PMID:10939677
PMID:11211268
PMID:11321083
PMID:11321113
PMID:11411719
PMID:11540071
PMID:11542017
PMID:11542087
PMID:11760965
PMID:12054223
PMID:2112744
PMID:270744
PMID:7520741
PMID:8123559
PMID:8186100
PMID:8590690
PMID:9103655
PMID:9336922
eubacteria
ncbi_taxonomy
Monera
Procaryotae
Prokaryota
Prokaryotae
bacteria
not Bacteria Haeckel 1894
prokaryote
prokaryotes
Bacteria
Homo/Pan/Gorilla group
Homininae
Archaea
GC_ID:11
PMID:10425795
PMID:10425796
PMID:10425797
PMID:10490293
PMID:10843050
PMID:10939651
PMID:10939673
PMID:10939677
PMID:11211268
PMID:11321083
PMID:11321113
PMID:11411719
PMID:11540071
PMID:11541975
PMID:11542064
PMID:11542149
PMID:11760965
PMID:12054223
PMID:2112744
PMID:25527841
PMID:270744
PMID:8123559
PMID:8590690
PMID:9103655
PMID:9336922
ncbi_taxonomy
Archaebacteria
Mendosicutes
Metabacteria
Monera
Procaryotae
Prokaryota
Prokaryotae
archaea
prokaryote
prokaryotes
Archaea
Eukaryota
eucaryotes
eukaryotes
GC_ID:1
PMID:23020233
PMID:30257078
eucaryotes
eukaryotes
ncbi_taxonomy
Eucarya
Eucaryotae
Eukarya
Eukaryotae
eukaryotes
NCBITaxon:2759
Eukaryota
Euarchontoglires
Euarchontoglires
Anthropoidea
Simiiformes
ape
apes
Hominoidea
Tetrapoda
tetrapods
tetrapods
Tetrapoda
Amniota
amniotes
amniotes
Amniota
Theria
Theria <Mammalia>
Opisthokonta
GC_ID:1
ncbi_taxonomy
Fungi/Metazoa group
opisthokonts
NCBITaxon:33154
Opisthokonta
metazoans
multicellular animals
Animalia
animals
Metazoa
Bilateria
Bilateria
deuterostomes
Deuterostomia
A misfolded protein that has the ability to transmit its misfolded shape onto normal variants of the same protein.
https://en.wikipedia.org/wiki/Prion
GC_ID:1
ncbi_taxonomy
prion
Haplorrhini
Mammalia
mammals
mammals
mammals
Mammalia
Eumetazoa
chordates
chordates
Chordata
Vertebrata <vertebrates>
Vertebrata
vertebrates
Vertebrata
vertebrates
vertebrates
Vertebrata <Metazoa>
Vertebrata <vertebrates>
Gnathostomata
jawed vertebrates
Gnathostomata <vertebrate>
Sarcopterygii
Craniata
Craniata <chordata>
eutherian mammals
placental mammals
placentals
Placentalia
placentals
Eutheria
primate
Primata
primates
Primates
Catarrhini
great apes
Pongidae
Hominidae
humans
Homo
Homo sapiens
Homo sapiens
human
human being
man
person
GC_ID:1
human
man
ncbi_taxonomy
humans
Homo sapiens
Homo sapiens
An individual's total number of brothers and sisters.
C102469
Qualitative Concept
Number of Siblings
C0557094
FDA
Number of Siblings
Number of Siblings
The age of the subject at the time of the vaccination.
C103173
Organism Attribute
Age at Time of Vaccination
C3641107
FDA
Age at Time of Vaccination
Age at the Time of Vaccination
Age at Time of Vaccination
A group of people characterized by the practice of a common religion.
C103282
Population Group
Religious Group
C0597369
Religious Group
Religious Group
A member of the Jewish faith whose ancestors lived in North Africa, the Middle East, Portugal or Spain.
C103283
Population Group
Sephardic Jew
C0574825
A person of Sephardic Jewish descent.
SEPHARDIC JEW
Sephardi
Sephardic Jew
Sephardic Jew
Individuals who do not necessarily identify with any particular race or others who do not wish to self select into a racial category(ies).
C104495
Population Group
Other Race
C0425379
OTHER RACE
Other Race
RACEOTH
Other Race
The age at which permanent cessation of menses occurs.
C106497
Clinical Attribute
Age at Menopause
C1629609
CDISC
The age at which permanent cessation of menses occurred. (NCI)
Age at Menopause
MENOAGE
Menopause Age
Age at Menopause
A person having origins in the original peoples of Asia, but not China, India, Korea, the Philippine Islands or Vietnam.
C107601
Population Group
Other Asian
C0438971
FDA
Other Asian
Other Asian
A person having origins in the original peoples of the Pacific Islands, but not Guam, Hawaii, the Mariana Islands or Samoa.
C107602
Population Group
Other Pacific Islander
C1553351
FDA
Other Pacific Islander
Other Pacific Islander
A person of Mexican or Mexican American culture or origin, regardless of race.
C107607
Population Group
Mexican or Mexican American
C3829110
FDA
Mexican or Mexican American
Mexican or Mexican American
A person of Cuban culture or origin, regardless of race.
C107608
Population Group
Cuban
C1553379
FDA
A person of Cuban descent.
CUBAN
Cuban
Cuban
A person of Spanish culture or origin, but not Cuban, Mexican, Puerto Rican, South or Central American, regardless of race.
C107609
Population Group
Other Hispanic or Latino(a)
C3828691
FDA
Other Hispanic or Latino(a)
Other Hispanic or Latino(a)
The time elapsed between the day of conception and the day of delivery.
C114088
Organism Attribute
Conception Age
C3827345
NICHD
The time elapsed between the day of conception and the day of delivery.
Conception Age
Conception Age
Conceptional Age
Conceptual Age
Post-Conceptional Age
Post-Conceptual Age
Conception Age
Chronological age reduced by the number of weeks born before 40 weeks of gestation; most appropriately used to describe children up to 3 years of age who were born preterm.
C114089
Organism Attribute
Corrected Age
C3831006
NICHD
Chronological age reduced by the number of weeks born before 40 weeks of gestation; most appropriately used to describe children up to 3 years of age who were born preterm.
Corrected Age
Adjusted Age
Corrected Age
Corrected Gestational Age
Corrected Age
Best estimate of the first day of last menstrual period to birth plus time elapsed from day of birth.
C114090
Organism Attribute
Postmenstrual Age
C3828508
NICHD
Best estimate of the first day of last menstrual period to birth plus time elapsed from day of birth.
Postmenstrual Age
Postmenstrual Age
Postmenstrual Age
Birth weight less than 1500 grams.
C114935
Finding
Very Low Birth Weight
C0282666
GAIA
NICHD
Birth weight less than 1500 grams.
Very Low Birth Weight
VLBW
Very Low Birth Weight
Very Low Birth Weight
Birth weight less than 1000 grams.
C114936
Finding
Extremely Low Birth Weight
C0456065
GAIA
NICHD
Birth weight less than 1000 grams.
Extremely Low Birth Weight
ELBW
Extremely Low Birth Weight
Extremely Low Birth Weight
Birth weight less than 750 grams.
C114937
Finding
Ultra Low Birth Weight
C3896584
ULBW
Ultra Low Birth Weight
Ultra Low Birth Weight
A person's optimum weight as calculated by a standard methodology.
C117976
Quantitative Concept
Ideal Body Weight
C0421272
CDISC
A person's optimum weight as calculated by a standard methodology.
IDEALWT
Ideal Body Weight
Ideal Body Weight
The money received by retired workers who have paid in to the Social Security system during their working years.
C120451
Group Attribute
Social Security Retirement Benefit
C0037435
Social Security
Social Security Retirement Benefit
Social Security Retirement Benefit
A fixed sum paid regularly to a person by their former employer.
C120452
Group Attribute
Pension
C0030854
Pension
Pension
The pressure within the left ventricle following the completion of diastolic filling, just prior to systole.
C120919
Quantitative Concept
Left Ventricular End Diastolic Pressure
C0456190
CDISC
The pressure within the left ventricle of the heart at the end of the period when the chambers of the heart refill with blood and just before the contraction begins.
LVEDP
Left Ventricular End Diastolic Pressure
Left Ventricular End Diastolic Pressure
The pressure in the left ventricle at any point prior to the ejection of its contents into the aorta (systole).
C120920
Quantitative Concept
Left Ventricular Systolic Pressure
C0456189
CDISC
The pressure within the left ventricle of the heart during the contraction of the left ventricle of the heart.
LVSYSBP
Left Ventricular Systolic Pressure
Left Ventricular Systolic Pressure
An approximate calculation of the gestational age of the fetus.
C122188
Organism Attribute
Estimated Gestational Age
C0262472
CDISC
An approximate calculation of the gestational age of the fetus.
EGESTAGE
Estimated Gestational Age
Estimated Gestational Age
The number of education years that a subject has competed.
C122393
Qualitative Concept
Number of Years of Education
C4054327
CDISC
The number of years of education that a person has completed.
EDUYRNUM
Number of Years of Education
Number of Years of Education
The age at which the first episode occurred.
C124438
Organism Attribute
Age at First Episode
C4085940
CDISC
The age at which the first episode occurred.
AGEEPSD1
Age At First Episode
Age at First Episode
Age at First Episode
The age at which the first hospitalization event occurred.
C124439
Organism Attribute
Age at First Hospitalization
C4085941
CDISC
The age at which the first hospitalization event occurred.
AGEHOSP1
Age At First Hospitalization
Age at First Hospitalization
Age at First Hospitalization
The age at which the first treatment event occurred.
C124440
Organism Attribute
Age at First Treatment
C4085942
CDISC
The age at which the first treatment for the condition occurred.
AGETRT1
Age At First Treatment
Age at First Treatment
Age at First Treatment
The maternal body weight adjusted for the weight of the gravid uterus. This is derived by subtracting the gravid uterus weight from the total maternal body weight.
C124477
Conceptual Entity
Gravid Uterus Adjusted Maternal Body Weight
C4086368
CDISC
The maternal body weight adjusted for the weight of the gravid uterus. This is derived by subtracting the gravid uterus weight from the total maternal body weight.
BWADJGU
Gravid Uterus Adjusted Body Weight
Gravid Uterus Adjusted Maternal Body Weight
Gravid Uterus Adjusted Maternal Body Weight
An estimate or direct measurement of the heaviness of a fetus.
C124479
Conceptual Entity
Fetal Body Weight
C0751992
CDISC
The weight of a fetus.
BWFETAL
Fetal Body Weight
Fetal Body Weight
A measurement of the average weight of all live fetuses.
C124627
Conceptual Entity
Average Live Fetal Weight
C4086012
CDISC
A measurement of the average weight of all live fetuses.
Average Live Fetal Weight
FWAVGL
Average Live Fetal Weight
A measurement of the average weight of all live female fetuses.
C124628
Conceptual Entity
Average Female Live Fetal Weight
C4086011
CDISC
A measurement of the average weight of all live female fetuses.
Average Female Live Fetal Weight
FWAVGLF
Average Female Live Fetal Weight
A measurement of the average weight of all live male fetuses.
C124629
Conceptual Entity
Average Male Live Fetal Weight
C4086996
CDISC
A measurement of the average weight of all live male fetuses.
Average Male Live Fetal Weight
FWAVGLM
Average Male Live Fetal Weight
A measurement of the total weight of all live fetuses.
C124630
Conceptual Entity
Total Live Fetal Weight
C4086909
CDISC
A measurement of the total weight of all live fetuses.
FWTOTL
Total Live Fetal Weight
Total Live Fetal Weight
The age at which a minor assumes legal control over their person, actions, and decisions.
C126362
Organism Attribute
Age of Majority
CL504920
Age of Majority
Age of Majority
Denotes a person whose ancestry is in any of the countries of the central part of the African continent: Burundi, the Central African Republic, Chad, the Democratic Republic of the Congo, and Rwanda.
C126528
Population Group
Central African
C0238602
Central African
Central African
Denotes a person whose ancestry is in any of the countries of the northern part of the African continent: Algeria, Egypt, Libya, Morocco, Sudan, Tunisia, and Western Sahara.
C126529
Population Group
North African
C0238604
North African
North African
Denotes a person whose ancestry is in the country of South Africa.
C126530
Population Group
South African
C0238605
South African
South African
Denotes a person whose ancestry is in any of the countries of the Americas or the Caribbean where Spanish or Portuguese is spoken.
C126531
Population Group
Latin American
C1553378
A person of Latin American descent.
LATIN AMERICAN
Latin American
Latin American
Denotes a person whose ancestry is in any of the countries of South America.
C126532
Population Group
South American
C0425359
A person of South American descent.
SOUTH AMERICAN
South American
South American
Denotes a person whose ancestry is in any of the Asian countries south of China, east of India, west of New Guinea and north of Australia.
C126533
Population Group
Southeast Asian
C0238697
Southeast Asian
Southeast Asian
Denotes a person whose ancestry is in any of the Asian countries between the Caspian Sea in the west, China in the east, Afghanistan in the south, and Russia in the north.
C126534
Population Group
Central Asian
C0238696
Central Asian
Central Asian
Denotes a person whose ancestry is in the country or continent of Australia.
C126535
Population Group
Australian
C0238711
Australian
Australian
Denotes a person whose ancestry is in the country of New Zealand.
C126536
Population Group
New Zealander
CL505027
New Zealander
New Zealander
Denotes a person whose ancestry is in the country of Iceland.
C126537
Population Group
Icelander
C0337808
Icelander
Icelandic
Icelander
Denotes a person whose ancestry is in the countries of Scandinavia: Denmark, Norway and Sweden. Finland and Iceland are generally included as part of the Scandinavian region.
C126538
Population Group
Scandinavian
C0240951
Scandinavian
Scandinavian
A collection of ethnic geographical categories including African American, North American, Latin American, Caribbean, and South American.
C128457
Population Group
American Ethnicity
C0596070
American
American Ethnicity
Americas
American Ethnicity
A collection of ethnic geographical categories including Australian and New Zealander.
C128458
Population Group
Australian/New Zealand Ethnicity
CL509688
Australian/New Zealand
Australian/New Zealand Ethnicity
Australian/New Zealand Ethnicity
A collection of ethnic geographical categories including Middle Eastern and Hispanic.
C128459
Population Group
Intercontinental Ethnicity
CL509475
Intercontinental
Intercontinental Ethnicity
Intercontinental Ethnicity
Denotes a person of African ancestral origins whose family settled in America.
C128937
Population Group
African American
CL415133
A person having origins in the original peoples of sub-Saharan Africa and the United States.
AFRICAN AMERICAN
African American
Afro American
African American
C128938
Population Group
Black
C0005680
CDISC
A person having origins in the original peoples of sub-Saharan Africa or the Caribbean.
BLACK
Black
Black Populations
Black
Denotes a person of African ancestral origins whose family settled in Central America.
C128991
Population Group
Black Central American
CL512097
A person having origins in the original peoples of sub-Saharan Africa and Central America.
BLACK CENTRAL AMERICAN
Black Central American
Black Central American
Denotes a person of African ancestral origins whose family settled in South America.
C128992
Population Group
Black South American
CL512098
A person having origins in the original peoples of sub-Saharan Africa and South America.
BLACK SOUTH AMERICAN
Black South American
Black South American
A person having origins in any of the original peoples of Europe, the Middle East, or North Africa and Central America.
C128993
Population Group
White Central American
CL512246
A person having origins in the original peoples of Europe, the Middle East, or North Africa, and Central America.
WHITE CENTRAL AMERICAN
White Central American
White Central American
A person having origins in any of the original peoples of Europe, the Middle East, or North Africa and South America.
C128994
Population Group
White South American
CL512247
A person having origins in the original peoples of Europe, the Middle East, or North Africa, and South America.
WHITE SOUTH AMERICAN
White South American
White South American
The maximum pressure exerted into the systemic arterial circulation during the contraction of the right ventricle of the heart.
C129953
Quantitative Concept
Right Ventricular Systolic Pressure
C0456181
RVSP
Right Ventricular Systolic Pressure
Right Ventricular Systolic Pressure
Blood pressure in the pulmonary artery.
C129958
Clinical Attribute
Pulmonary Artery Pressure
C0428642
PAP
Pulmonary Artery Pressure
Pulmonary Artery Pressure
Blood pressure within the left atrium. It is commonly measured indirectly by a pulmonary capillary wedge pressure.
C129959
Clinical Attribute
Left Atrial Pressure
C0456170
LAP
Left Atrial Pressure
PLA
Left Atrial Pressure
The estimated arithmetic average of atrial pressure.
C130056
Quantitative Concept
Estimated Mean Atrial Pressure
CL514049
Estimated Mean Atrial Pressure
Estimated Mean Atrial Pressure
An approximate determination of the weight of a body.
C132482
Conceptual Entity
Estimated Body Weight
CL521346
CDISC
An approximate determination of the weight of the subject.
EWEIGHT
Estimated Body Weight
Estimated Weight
Estimated Body Weight
The age at which death occurred.
C135383
Organism Attribute
Age at Death
C1546180
CDISC
The age at which death occurred. (NCI)
AGEDTH
Age at Death
Age at Death
The result of a body mass index measurement.
C138901
Finding
Body Mass Index Finding
BMI
Body Mass Index
Body Mass Index Finding
Body Mass Index Finding
Indicates a body mass index measurement less than 19.
C138932
Finding
Body Mass Index Less Than 19
BMI < 19
Body Mass Index Less Than 19
Body Mass Index Less Than 19
Indicates a body mass index measurement greater than or equal to 19 but below 21.
C138933
Finding
Body Mass Index 19 to Less Than 21
BMI 19 to < 21
Body Mass Index 19 to Less Than 21
Body Mass Index 19 to Less Than 21
Indicates a body mass index measurement greater than or equal to 21 but below 23.
C138934
Finding
Body Mass Index 21 to Less Than 23
BMI 21 to < 23
Body Mass Index 21 to Less Than 23
Body Mass Index 21 to Less Than 23
Indicates a body mass index measurement greater than or equal to 23.
C138935
Finding
Body Mass Index Greater Than or Equal to 23
BMI > 23
Body Mass Index Greater Than or Equal to 23
Body Mass Index Greater Than or Equal to 23
An indication that an individual's age is or was greater than 85 years.
C138936
Organism Attribute
Age Greater than 85 Years
Age > 85
Age Greater than 85 Years
Age Greater than 85 Years
An indication that an individual's age is or was between 80 and 85 years.
C138937
Organism Attribute
Age Between 80 and 85 Years
Age 80-85
Age Between 80 and 85 Years
Age Between 80 and 85 Years
An indication that an individual's age is or less than 80 years.
C138938
Organism Attribute
Age Less than 80 Years
Age < 80
Age Less than 80 Years
Age Less than 80 Years
A quantitative estimate of the pressure in a given cardiovascular structure during ventricular systole.
C139031
Quantitative Concept
Estimated Systolic Blood Pressure
CDISC
A quantitative estimate of the pressure in a given cardiovascular structure during ventricular systole.
Estimated Systolic Blood Pressure
SYSPRS_E
Systolic Pressure, Estimated
Estimated Systolic Blood Pressure
The age at which the full-time use of an entity occurred.
C139175
Organism Attribute
Age at Full-Time Use
CDISC
The age at which the full-time use of a pre-specified object first occurred.
AGEFTUSE
Age at Full-Time Use
Age at Full-Time Use
Denotes a person having origins in any of the original peoples of the Far East, Southeast Asia, or the Indian subcontinent, and who was either born in the United States or who was naturalized as a citizen of the United States.
C16310
Population Group
Asian American
C0003988
A person having origins in the original peoples of Asia and the United States.
Asian_American
ASIAN AMERICAN
Asian American
Asian Americans
Asian American
A person having origins in any of the Black racial groups of Africa. Terms such as "Haitian" or "Negro" can be used in addition to "Black or African American". (OMB)
C16352
Population Group
Black or African American
C0085756
CDISC
FDA
A person having origins in any of the black racial groups of Africa. Terms such as "Haitian" or "Negro" can be used in addition to "Black or African American." (FDA)
African_American
BLACK OR AFRICAN AMERICAN
Black or African American
Black or African American
A general indicator of the body fat an individual is carrying based upon the ratio of weight to height.
C16358
Clinical Attribute
Body Mass Index
C1305855
CDISC
NCPDP
A general indicator of the body fat an individual is carrying based upon the ratio of weight to height. (NCI)
A measure that relates body weight to height. BMI is sometimes used to measure total body fat and whether a person is a healthy weight. Excess body fat is linked to an increased risk of some diseases including heart disease and some cancers.
Body_Mass_Index
BMI
Body Mass Index
Quetelet Index
body mass index
Body Mass Index
A social group characterized by a distinctive social and cultural tradition that is maintained from generation to generation. Members share a common history and origin and a sense of identification with the group. They have similar and distinctive features in their lifestyle habits and shared experiences. They often have a common genetic heritage which may be reflected in their experience of health and disease.
C16564
Population Group
Ethnic Group
C0015031
CDISC
CDISC-GLOSS
NICHD
Denotes social groups with a shared history, sense of identity, geography, and cultural roots.
Ethnic_Group
Ethnic Group
ETHNIC
Ethnic Group
Ethnic Origin
Ethnic Origins
Ethnicity
ethnicity
Ethnic Group
A group of individuals united by a common factor (e.g., geographic location, ethnicity, disease, age, gender)
C17005
Population Group
Population Group
C1257890
CDISC-GLOSS
Any finite or infinite collection of subjects from which a sample is drawn for a study to obtain estimates for values that would be obtained if the entire population were sampled. [AMA style Manual]
Population_Group
Group
Population
Population Group
Subpopulation
population
Population Group
A subjective and comparative term describing a lack of sufficient wealth (usually understood as capital, money, material goods, or resources especially natural resources) to live what is understood in a society as a "normal" life: for instance, to be capable of raising a healthy family, and especially educating children and participating in society. A person living in this condition of poverty is said to be poor. The meaning of "sufficient" varies widely across the different political and economic areas of the world.
C17009
Group Attribute
Poverty
C0032854
Poverty
Low Income
Poor
Poverty
Poverty
An arbitrary classification of a taxonomic group that is a division of a species. It usually arises as a consequence of geographical isolation within a species and is characterized by shared heredity, physical attributes and behavior, and in the case of humans, by common history, nationality, or geographic distribution.
C17049
Population Group
Race
C0034510
FDA
NICHD
Race
Race
RACE
Race
Racial Group
Race
A person of Cuban, Mexican, Puerto Rican, South or Central American, or other Spanish culture or origin, regardless of race. The term, "Spanish origin," can be used in addition to "Hispanic or Latino." (OMB)
C17459
Population Group
Hispanic or Latino
C0086409
CDISC
FDA
A person of Mexican, Puerto Rican, Cuban, Central or South American or other Spanish culture or origin, regardless of race. (NCI)
Hispanic
HISPANIC OR LATINO
Hispanic
Hispanic Populations
Hispanic or Latino
Hispanics or Latinos
Latino Population
Spanish Origin
Hispanic or Latino
Characteristics of a person such as education and occupation, used to describe the person's position in stratification systems, access to services, etc.
C17468
Qualitative Concept
Socioeconomic Factors
C0086996
Socioeconomic_Factors
Socioeconomic Factors
Socioeconomic Status
Socioeconomic Factors
Ashkenazi Jews, also called Ashkenazim, are Jews who are descendants of Jews from Germany, Poland, Austria and Eastern Europe.
C17950
Population Group
Ashkenazi Jew
C0337704
A person of Ashkenazi Jewish descent.
One of two major ancestral groups of Jewish individuals, comprised of those whose ancestors lived in Eastern Europe (Germany, Poland, Russia). The other group is designated Sephardic Jews and includes those whose ancestors lived in North Africa, the Middle East, and Spain. Most Jews living in the United States are Ashkenazi Jews.
Ashkenazi_Jew
ASHKENAZI JEW
Ashkenazi Jew
Ashkenazim
Ashkenazi Jew
Denotes a person having origins in any indigenous people of Alaska and their descendants and who maintains tribal affiliation, or community or cultural attachment. The concept refers to population subgroups such as Eskimos, Aleuts, Inupiat, Yupik, Alutiiq, Egegik,and Pribilovian, Alaskan Athabascan, Tlingit, and Haida. The concept refers also to individuals who classify themselves as such.
C18237
Population Group
Alaska Native
C0682125
The native people of Alaska.
Alaska_Native
ALASKA NATIVE
Alaska Indian
Alaska Indians
Alaska Native
Alaska Natives
Alaska Native
A demographic parameter indicating the average amount of earnings made by a family in a particular population or/and during a particular period of time.
C19308
Quantitative Concept
Average Household Income
C1510993
Average_Household_Income
Average Household Income
Average Household Income
a demographics parameter useful for identifying socio-economic groups.
C19309
Quantitative Concept
Number of Children in Household
C1518468
Number_of_Children_in_Household
Number of Children in Household
Number of Children in Household
The distinguishing qualities or prominent aspects of an individual person.
C19332
Organism Attribute
Personal Attribute
C0681884
Personal_Attribute
Personal
Personal Attribute
Subject Characteristics
Personal Attribute
Age of first menstruation. A risk factor for breast cancer
C19666
Clinical Attribute
Age at Menarche
C1314691
CDISC
The age at which the first menstruation event occurred. (NCI)
Age_at_Menarche
Age at Menarche
MENARAGE
Menarche Age
Age at Menarche
The age at which a woman gave birth to her first live child.
C19667
Clinical Attribute
Age at First Live Birth
C1510831
Age_at_First_Live_Birth
Age at First Full-Term Pregnancy
Age at First Live Birth
Age at First Live Birth
An indication of a person's current tobacco and nicotine consumption as well as some indication of smoking history.
C19796
Organism Attribute
Smoking Status
C1519386
Smoking_Status
Current Tobacco and Nicotine Consumption Status
Smoking Status
Smoking Status
How long something has existed; elapsed time since birth.
C25150
Organism Attribute
Age
C0001779
CDISC
FDA
NICHD
How long something has existed; elapsed time since birth. (NCI)
The time elapsed since birth.
Age
Chronological Age
AGE
Age
Aged
Chronological Age
Postnatal Age
age
Age
The maximum pressure exerted into the systemic arterial circulation during the contraction of the left ventricle of the heart.
C25298
Quantitative Concept
Systolic Blood Pressure
C0871470
CDISC
NCPDP
The maximum blood pressure in the systemic arterial circulation during the cardiac cycle.
Systolic_Pressure
SYSBP
Systolic Blood Pressure
Systolic Pressure
Systolic Blood Pressure
The minimum pressure exerted into the systemic arterial circulation during cardiac ventricular relaxation and filling.
C25299
Clinical Attribute
Diastolic Blood Pressure
C0428883
CDISC
NCPDP
The minimum blood pressure in the systemic arterial circulation during the cardiac cycle.
Diastolic_Pressure
DIABP
Diastolic Blood Pressure
Diastolic Pressure
Diastolic Blood Pressure
The vertical measurement or distance from the base to the top of an object; the vertical dimension of extension.
C25347
Quantitative Concept
Height
C0489786
CDISC
FDA
NCPDP
The vertical measurement or distance from the base to the top of an object; the vertical dimension of extension. (NCI)
Vertical measurement value.
Height
HEIGHT
Height
Height
A system, commonly called the INR, established by the World Health Organization (WHO) and the International Committee on Thrombosis and Hemostasis for reporting the results of blood coagulation (clotting) tests. All results are standardized using the international sensitivity index (ISI) for the particular thromboplastin reagent and instrument combination utilized to perform the test; the ratio of a patient's clotting time to the lab's mean reference value is normalized against the ISI. (from medterms.com and medicine.ucsf.edu)
C25352
Quantitative Concept
International Normalized Ratio
CL448971
International_Normalized_Ratio
INR
International Normalized Ratio
International Normalized Ratio
A birth weight that is less than 2500 grams.
C34724
Finding
Low Birth Weight
C0024032
GAIA
NICHD
Birth weight less than 2500 grams.
Low_Birth_Weight
Low Birth Weight
Low Birth Weight
Low Birth Weight
The length of a person's life, stated in months since birth.
C37907
Organism Attribute
Age-Months
C1510828
NCPDP
Age-Months
Age, in Months
Age-Months
Age-Months
The length of a person's life, stated in years since birth.
C37908
Organism Attribute
Age-Years
C1510829
NCPDP
Age-Years
Age, in Years
Age-Years
Age-Years
A gain or recurrent benefit during a period of time, usually measured in money that derives from capital or labor.
C41150
Group Attribute
Income
C0021162
Income
Income is one of the major demographic parameters used in population-based biomedical research.
Income
Income
A person having origins in any of the original peoples of Hawaii, Guam, Samoa, or other Pacific Islands. (OMB)
C41219
Population Group
Native Hawaiian or Other Pacific Islander
C1513907
CDISC
FDA
Denotes a person having origins in any of the original peoples of Hawaii, Guam, Samoa, or other Pacific Islands. The term covers particularly people who identify themselves as part-Hawaiian, Native Hawaiian, Guamanian or Chamorro, Carolinian, Samoan, Chuu. (FDA)
Native_Hawaiian_or_Other_Pacific_Islander
NATIVE HAWAIIAN OR OTHER PACIFIC ISLANDER
Native Hawaiian or Other Pacific Islander
Native Hawaiian or Other Pacific Islander
A person not of Cuban, Mexican, Puerto Rican, South or Central American, or other Spanish culture or origin, regardless of race.
C41222
Population Group
Not Hispanic or Latino
C1518424
CDISC
FDA
A person not of Cuban, Mexican, Puerto Rican, South or Central American, or other Spanish culture or origin, regardless of race. An arbitrary ethnic classification. (NCI)
Not_Hispanic_or_Latino
NOT HISPANIC OR LATINO
Non-Hispanic
Non-Hispanic or Latino
Not Hispanic or Latino
Not Hispanic/Spanish origin
Not Hispanic or Latino
Denotes a person of African ancestral origins whose family settled in the Caribbean region.
C41226
Population Group
African Caribbean
C0422771
A person having origins in the original peoples of sub-Saharan Africa and the Caribbean.
African_Caribbean
AFRICAN CARIBBEAN
African Caribbean
African Caribbean
A person having origins in any of the original peoples of North and South America (including Central America) and who maintains tribal affiliation or community attachment. (OMB)
C41259
Population Group
American Indian or Alaska Native
C0282204
CDISC
FDA
A person having origins in any of the original peoples of North and South America (including Central America), and who maintains tribal affiliation or community attachment. (FDA)
American_Indian_or_Alaska_Native
AMERICAN INDIAN OR ALASKA NATIVE
American Indian or Alaska Native
First Nations
Native American
Native Americans
American Indian or Alaska Native
A person having origins in any of the original peoples of the Far East, Southeast Asia, or the Indian subcontinent, including for example, Cambodia, China, India, Japan, Korea, Malaysia, Pakistan, the Philippine Islands, Thailand, and Vietnam. (OMB)
C41260
Population Group
Asian
C0078988
CDISC
FDA
A person having origins in any of the original peoples of the Far East, Southeast Asia, or the Indian subcontinent including, for example, Cambodia, China, India, Japan, Korea, Malaysia, Pakistan, the Philippine Islands, Thailand, and Vietnam. (FDA)
Asian
ASIAN
Asian
Asians
Asian
A person having origins in any of the original peoples of Europe, the Middle East, or North Africa. (OMB)
C41261
Population Group
White
C0043157
CDISC
FDA
Denotes a person with European, Middle Eastern, or North African ancestral origin who identifies, or is identified, as White. (FDA)
White
Caucasian
Caucasians
Caucasoid
Occidental
WHITE
White
Whites
White
A person having origins in the original peoples of the Indian sub-continent.
C41262
Population Group
Asian Indian
C1524069
CDISC
FDA
A person having origins in any of the original peoples of the Indian subcontinent.
Asian_Indian
The concept is close to the term South Asian but several major South Asian populations such as Pakistani and Bangladeshi may not identify with it.
ASIAN INDIAN
Asian Indian
Asian Indians
Indian
Asian Indian
Denotes a person whose ancestry is in the countries of the Indian sub-continent, including India, Pakistan, Bangladesh, and Sri Lanka.
C41263
Population Group
South Asian
C1519427
South_Asian
South Asian
South Asians
South Asian
Denotes a person with African ancestral origins who self identifies, or is identified, as African. The concept does not refer to those of other ancestry, for example, European and South Asian. In practice, the term mainly refers to people originated from forty-eight sub-Saharan Africa nations; and excludes individuals from North Africa countries, e.g. such as Algeria, Morocco, Egypt, Tunisia with Arab and Berber ethnicity.
C42331
Population Group
African
C0027567
A person having origins in any of the original peoples of sub-Saharan Africa.
African
AFRICAN
African
African
C42568
Classification
Unit by Category
C1710551
Header_Concept
Unit_by_Category
Unit by Category
Unit by Category
Aleutian - a person having origins from the Aleut indigenous group of Alaska and their descendants and who maintains tribal affiliation, or community or cultural attachment.
C43389
Population Group
Aleutian
C1553304
Aleutian
Aleutian
Aleutian
The native people inhabiting the Arctic of northern Canada, Greenland, Alaska, or eastern Siberia. The two main groups referred to as Eskimo are the Yupik and Inuit. A third group, the Aleut, is related. In Canada and Greenland, the term Eskimo has fallen out of favor, as it is considered pejorative by the natives and has been replaced by the term Inuit.
C43390
Population Group
Eskimo
C0014845
Eskimo
Eskimo
Inuit
Eskimo
A person having origins in any of the original peoples of China.
C43391
Population Group
Chinese
C0152035
FDA
A person having origins in any of the original peoples of China.
Chinese
CHINESE
Chinese
Chinese
A person having origins in any of the original peoples of Japan..
C43392
Population Group
Japanese
C1556094
FDA
A person having origins in any of the original peoples of Japan.
Japanese
JAPANESE
Japanese
Japanese
A person having origins in any of the original peoples of the Philippine Islands.
C43393
Population Group
Filipino
C1556093
FDA
A person having origins in any of the original peoples of the Philippines.
Filipino
FILIPINO
Filipino
Filipino
A person having origins in any of the original peoples of Hawaii.
C43394
Population Group
Native Hawaiian
C0337920
FDA
Hawaiian
Hawaiian
Native Hawaiian
Native Hawaiian
A person having origins in any of the original peoples of Korea.
C43395
Population Group
Korean
C1556095
A person having origins in any of the original peoples of North and South Korea.
Korean
KOREAN
Korean
Korean
A person having origins in any of the original peoples of Viet Nam.
C43396
Population Group
Vietnamese
C1561452
FDA
A person having origins in any of the original peoples of Viet Nam.
Vietnamese
VIETNAMESE
Vietnamese
Vietnamese
Denotes the inhabitants of Laos, a person from there, or their descendants elsewhere.
C43397
Population Group
Laotian
C1553325
A person having origins in any of the original peoples of Laos.
Laotian
LAOTIAN
Laotian
Laotian
Denotes a person having origins in any of the original Hmong people originating in China around the Yellow River or Hoang Ho.
C43398
Population Group
Hmong
C1553324
The native people originating in China around the Yellow River or Hoang Ho.
Hmong
Early in the 19th century, the Hmong migrated to French Indochina, which comprised Vietnam, Cambodia and Laos. In 1947, Hmong officially became citizens of Loas. Later a number of Hmong emigrated to Thailand and the United States.
HMONG
Hmong
Hmong
Denotes the inhabitants of Cambodia (formerly Kampuchea), a person from there, or their descendants elsewhere.
C43399
Population Group
Cambodian
C1553323
A person having origins in any of the original peoples of Cambodia (formerly Kampuchea).
Kampuchean
CAMBODIAN
Cambodian
Kampuchean
Cambodian
Denotes the inhabitants of Thailand, a person from there, or their descendants elsewhere.
C43400
Population Group
Thai
C0337910
A person having origins in any of the original peoples of Thailand.
Thai
THAI
Thai
Thai
Denotes a person from any of the islands in the western pacific encompassing the area from the Philippines in the west, Indonesia to the south west, Papua New Guinea and Melanesia to the south, and Polynesia to the south-east and east.
C43402
Population Group
Micronesian
C1556099
A person having origins in any of the original peoples of Micronesia.
Micronesian
MICRONESIAN
Micronesian
Micronesian
Denotes any of the indigenous Chamorro people of Guam and the Mariana Islands or persons of that ancestry.
C43403
Population Group
Chamorran
C1553343
Chamorran
Chamorran
Chamorro
Chamorran
Denotes the inhabitants of Guam, a person from there, or their descendants elsewhere.
C43404
Population Group
Guamanian
C0920541
Guamanian
Guamanian
Guamanian
Denotes a person from any of the over 1,000 islands in the central and southern Pacific Ocean bounded by a triangle with its three corners at Hawaii, New Zealand, and Easter Island or a person of that ancestry.
C43405
Population Group
Polynesian
C0240790
A person having origins in any of the original peoples of Polynesia.
Polynesian
POLYNESIAN
Polynesian
Polynesian
Denotes the inhabitants of Tahiti, a person from there, or their descendants elsewhere.
C43406
Population Group
Tahitian
C0241329
Tahitian
Tahitian
Tahitian
A person having origins in any of the original peoples of Samoa.
C43407
Population Group
Samoan
C1556103
FDA
Samoan
Samoan
Samoan
Denotes the inhabitants of Tonga, a person from there, or their descendants elsewhere.
C43408
Population Group
Tongan
C0337933
Tongan
Tongan
Tongan
Denotes a person from any of the islands in the region extending from the west Pacific to the Arafura Sea, north and north-east of Australia. or of that ancestry.
C43409
Population Group
Melanesian
C0337924
A person having origins in any of the original peoples of Melanesia.
Melanesian
MELANESIAN
Melanesian
Melanesian
Denotes the inhabitants of Fiji, a person from there, or their descendants elsewhere.
C43410
Population Group
Fiji Islander
C1556097
Fiji_Islander
Fiji Islander
Fijian
Fiji Islander
Denotes the inhabitants of Papua New Guinea, a person from there, or their descendants elsewhere.
C43411
Population Group
Papua New Guinean
C1553350
New_Guinean
New Guinean
Papua New Guinean
Papua New Guinean
Primarily refers to a person having origins in the original peoples of the Indian sub-continent, a subset of which formed Pakistan. The term also refers to a person from Pakistan, whether or not ancestors were from India.
C43427
Population Group
Pakistani
C0240620
A person having origins in any of the original peoples of Pakistan.
Pakistani
PAKISTANI
Pakistani
Pakistani
C43650
Population Group
Alaska Indian
CL333681
Alaska_Indian
Alaska Indian
Alaska Indian
Denotes the inhabitants of Bangladesh, a person from there, or their descendants elsewhere.
C43671
Population Group
Bangladeshi
C1556107
A person having origins in any of the original peoples of Bangladesh.
Bangladeshi
BANGLADESHI
Bangladeshi
Bangladeshi
Denotes the inhabitants of Sri Lanka, a person from there, or their descendants elsewhere.
C43672
Population Group
Sri Lankan
C1553327
A person having origins in any of the original peoples of Sri Lanka.
Sri_Lankan
SRI LANKAN
Sri Lankan
Sri Lankan
Denotes the inhabitants of Bhutan, a person from there, or their descendants elsewhere.
C43673
Population Group
Bhutanese
C0337894
CDISC
A person having origins in any of the original peoples of Bhutan.
Bhutanese
BHUTANESE
Bhutanese
Bhutanese
Denotes the inhabitants of Myanmar (formerly Burma), a person from there, or their descendants elsewhere.
C43674
Population Group
Burmese
C1553322
A person having origins in any of the original peoples of Myanmar (formerly Burma).
Burmese
BURMESE
Burmese
Burmese
Denotes the inhabitants of Taiwan, a person from there, or their descendants elsewhere.
C43675
Population Group
Taiwanese
C1556096
A person having origins in any of the original peoples of Taiwan.
Taiwanese
TAIWANESE
Taiwanese
Taiwanese
Denotes the inhabitants of Indonesia, a person from there, or their descendants elsewhere.
C43715
Population Group
Indonesian
C0337900
A person having origins in any of the original peoples of Indonesia.
Indonesian
INDONESIAN
Indonesian
Indonesian
Denotes the inhabitants of Malaysia, a person from there, or their descendants elsewhere.
C43716
Population Group
Malaysian
C0240293
A person having origins in any of the original peoples of Malaysia.
Malaysian
MALAYSIAN
Malaysian
Malaysian
Denotes the inhabitants of the japanese island of Okinawa, a person from there, or their descendants elsewhere.
C43717
Population Group
Okinawan
C1553326
A person having origins in any of the original peoples of Okinawa.
Okinawan
OKINAWAN
Okinawan
Okinawan
Denotes the inhabitants of Iwo Jima, a person from there, or their descendants elsewhere.
C43718
Population Group
Iwo Jiman
C1553328
A person having origins in any of the original peoples of Iwo Jima.
Iwo_Jiman
IWO JIMAN
Iwo Jiman
Iwo Jiman
Denotes the inhabitants of the Maldives, a person from there, or their descendants elsewhere.
C43719
Population Group
Maldivian
C1553329
A person having origins in any of the original peoples of the Maldives.
Maldivian
MALDIVIAN
Maldivian
Maldivian
Denotes the inhabitants of Nepal, a person from there, or their descendants elsewhere.
C43720
Population Group
Nepalese
C1553330
A person having origins in any of the original peoples of Nepal.
Nepalese
NEPALESE
Nepalese
Nepalese
Denotes the inhabitants of Singapore, a person from there, or their descendants elsewhere.
C43721
Population Group
Singaporean
C1553331
A person having origins in any of the original peoples of Singapore.
Singaporean
SINGAPOREAN
Singaporean
Singaporean
Denotes the inhabitants of Madagascar, a person from there, or their descendants elsewhere.
C43722
Population Group
Malagasy
C1553332
A person having origins in any of the original peoples of Madagascar.
Madagascar_Race
MALAGASY
Madagascar
Malagasy
Malagasy
Denotes the inhabitants of Barbados, a person from there, or their descendants elsewhere.
C43823
Population Group
Barbadian
C1553337
A person having origins in any of the original peoples of Barbados.
Barbadian
BARBADIAN
Barbadian
Barbadian
Denotes the inhabitants of Dominica, a person from there, or their descendants elsewhere.
C43824
Population Group
Dominica Islander
C1553338
A person having origins in any of the original peoples of Dominica.
Dominican
DOMINICA ISLANDER
Dominica Islander
Dominican
Dominica Islander
Denotes the inhabitants of Haiti, a person from there, or their descendants elsewhere.
C43825
Population Group
Haitian
C0239806
A person having origins in any of the original peoples of Haiti.
Haitian
HAITIAN
Haitian
Haitian
Denotes the inhabitants of Jamaica, a person from there, or their descendants elsewhere.
C43826
Population Group
Jamaican
C0240072
A person having origins in any of the original peoples of Jamaica.
Jamaican
JAMAICAN
Jamaican
Jamaican
Denotes the inhabitants of Tobago, a person from there, or their descendants elsewhere.
C43827
Population Group
Tobagoan
C1553339
A person having origins in any of the original peoples of Tobago.
Tobagoan
TOBAGOAN
Tobagoan
Tobagoan
Denotes the inhabitants of Trinidad, a person from there, or their descendants elsewhere.
C43828
Population Group
Trinidadian
C1553340
A person having origins in any of the original peoples of Trinidad.
Trinidadian
TRINIDADIAN
Trinidadian
Trinidadian
Denotes the inhabitants of the West Indies, a person from there, or their descendants elsewhere.
C43829
Population Group
West Indian
C0425373
A person having origins in any of the original peoples of the West Indies.
West_Indian
WEST INDIAN
West Indian
West Indian
Denotes the inhabitants of Botswana, a person from there, or their descendants elsewhere.
C43830
Population Group
Botswanan
C1553333
A person having origins in any of the original peoples of Botswana.
Botswanan
BOTSWANAN
Botswanan
Motswana
Botswanan
Denotes the inhabitants of Ethiopia, a person from there, or their descendants elsewhere.
C43831
Population Group
Ethiopian
C0239304
A person having origins in any of the original peoples of Ethiopia.
Ethiopian
ETHIOPIAN
Ethiopian
Ethiopian
Denotes the inhabitants of Liberia, a person from there, or their descendants elsewhere.
C43832
Population Group
Liberian
C1556088
A person having origins in any of the original peoples of Liberia.
Liberian
LIBERIAN
Liberian
Liberian
Denotes the inhabitants of Namibia, a person from there, or their descendants elsewhere.
C43833
Population Group
Namibian
C1553334
A person having origins in any of the original peoples of Namibia.
Namibian
NAMIBIAN
Namibian
Namibian
Denotes the inhabitants of Nigeria, a person from there, or their descendants elsewhere.
C43834
Population Group
Nigerian
C1556089
A person having origins in any of the original peoples of Nigeria.
Nigerian
NIGERIAN
Nigerian
Nigerian
Denotes the inhabitants of the Democratic Republic of the Congo (formerly Zaire), a person from there, or their descendants elsewhere.
C43835
Population Group
Zairean
C1553335
A person having origins in any of the original peoples of Zaire.
Zairean
ZAIREAN
Zairean
Zairean
Denotes the inhabitants of Tokelau, a person from there, or their descendants elsewhere.
C43836
Population Group
Tokelauan
C0438967
Tokelauan
Tokelauan
Tokelauan
A person having origins in any of the original peoples of Guam or the Mariana Islands.
C43837
Population Group
Guamanian or Chamorro
C1553342
FDA
Guamanian_or_Chamorro
Guamanian or Chamorro
Guamanian or Chamorro
Denotes the inhabitants of the Northern Mariana Islands, a person from there, or their descendants elsewhere.
C43838
Population Group
Mariana Islander
C1553344
Mariana_Islander
Mariana Islander
Mariana Islander
Denotes the inhabitants of the Marshall Islands, a person from there, or their descendants elsewhere.
C43839
Population Group
Marshallese
C1556098
Marshallese
Marshallese
Marshallese
Denotes the inhabitants of Palau, a person from there, or their descendants elsewhere.
C43840
Population Group
Palauan
C0337928
Palauan
Palauan
Palauan
Denotes the inhabitants of the Caroline Islands, a person from there, or their descendants elsewhere.
C43841
Population Group
Carolinian
C1553345
Carolinian
Carolinian
Carolinian
Denotes the inhabitants of the island of Kosrae, a person from there, or their descendants elsewhere.
C43842
Population Group
Kosraean
C1553346
Kosraean
Kosraean
Kosraean
Denotes the inhabitants of the island of Pohnpei, a person from there, or their descendants elsewhere.
C43843
Population Group
Pohnpeian
C1553347
Pohnpeian
Pohnpeian
Pohnpeian
Denotes the inhabitants of the Saipan Islands, a person from there, or their descendants elsewhere.
C43844
Population Group
Saipanese
C1556102
Saipanese
Saipanese
Saipanese
Denotes the inhabitants of Kiribati, a person from there, or their descendants elsewhere.
C43845
Population Group
Kiribati
C1553348
Kiribati_Race
Kiribati
Kiribati
Denotes the inhabitants of the island of Chuuk, a person from there, or their descendants elsewhere.
C43846
Population Group
Chuukese
C1553349
Chuukese
Chuukese
Chuukese
Denotes the inhabitants of the island of Yap, a person from there, or their descendants elsewhere.
C43847
Population Group
Yapese
C1556105
Yapese
Yapese
Yapese
Denotes the inhabitants of the Solomon Islands, a person from there, or their descendants elsewhere.
C43849
Population Group
Solomon Islander
C0337932
Solomon_Islander
Solomon Islander
Solomon Islander
Denotes the inhabitants of the islands of Vanuatu, a person from there, or their descendants elsewhere.
C43850
Population Group
New Hebrides
C1571857
New_Hebrides
New Hebrides
New Hebrides
Denotes the inhabitants of any of the countries of Europe, a person from there, or their descendants elsewhere.
C43851
Population Group
European
C1535514
A person having origins in any of the original peoples of Europe.
European
EUROPEAN
European
European
Denotes the inhabitants of Armenia, a person from there, or their descendants elsewhere.
C43852
Population Group
Armenian
C0337794
Armenian
Armenian
Armenian
Denotes the inhabitants of England, a person from there, or their descendants elsewhere.
C43853
Population Group
English
C1556083
English
English
English
Denotes the inhabitants of France, a person from there, or their descendants elsewhere.
C43854
Population Group
French
C1556084
French
French
French
Denotes the inhabitants of Germany, a person from there, or their descendants elsewhere.
C43855
Population Group
German
C1556085
German
German
German
Denotes the inhabitants of Ireland, a person from there, or their descendants elsewhere.
C43856
Population Group
Irish
C0087186
Irish
Irish
Irish
Denotes the inhabitants of Italy, a person from there, or their descendants elsewhere.
C43857
Population Group
Italian
C0337810
Italian
Italian
Italian
Denotes the inhabitants of Poland, a person from there, or their descendants elsewhere.
C43858
Population Group
Polish
C0220896
Polish
Polish
Polish
Denotes the inhabitants of Scotland, a person from there, or their descendants elsewhere.
C43859
Population Group
Scottish
C0240966
Scottish
Scottish
Scottish
Denotes the inhabitants of Russia, a person from there, or their descendants elsewhere.
C43860
Population Group
Russian
C0337816
A person having origins in any of the original peoples of Russia.
Russian
RUSSIAN
Russian
Russian
Denotes the inhabitants of Sweden, a person from there, or their descendants elsewhere.
C43861
Population Group
Swedish
C1710263
Swedish
Swedish
Swedish
Denotes the inhabitants of Norway, a person from there, or their descendants elsewhere.
C43862
Population Group
Norwegian
C0337812
Norwegian
Norwegian
Norwegian
Denotes the inhabitants of Ukraine, a person from there, or their descendants elsewhere.
C43863
Population Group
Ukranian
C1710525
Ukranian
Ukranian
Ukranian
Denotes the inhabitants of Mongolia, a person from there, or their descendants elsewhere.
C43864
Population Group
Mongolian
C1709065
A person having origins in any of the original peoples of Mongolia.
Mongolian
MONGOLIAN
Mongolian
Mongolian
Denotes the inhabitants of Finland, a person from there, or their descendants elsewhere.
C43865
Population Group
Finnish
C1711254
Finnish
Finnish
Finnish
Denotes a person from any of the countries of southwest Asia and northeastern Africa; this region includes those countries east of Egypt and south of Turkey and extending to Iran in the east.
C43866
Population Group
Middle Eastern or North African
C1553353
Middle_Eastern_or_North_African
Middle Eastern or North African
Middle Eastern or North African
A collective term used to identify indigenous peoples of northern Iraq and neighboring areas of Syria and Turkey, who also identify themselves as Aramaeans and Chaldeans. They are the survivors of the formerly extensive Aramaic- or Syriac- speaking Christian community of northern Iraq, southeastern Turkey, and northwestern Iran.
C43867
Population Group
Assyrian
C1553354
Assyrian
Assyrian
Assyrian
Denotes the inhabitants of Egypt, a person from there, or their descendants elsewhere.
C43868
Population Group
Egyptian
C0337801
Egyptian
Egyptian
Egyptian
Denotes the inhabitants of Iran, a person from there, or their descendants elsewhere.
C43869
Population Group
Iranian
C1553355
Iranian
Iranian
Iranian
Denotes the inhabitants of Iraq, a person from there, or their descendants elsewhere.
C43870
Population Group
Iraqi
C1556087
Iraqi
Iraqi
Iraqi
Denotes the inhabitants of Lebanon, a person from there, or their descendants elsewhere.
C43871
Population Group
Lebanese
C1553356
Lebanese
Lebanese
Lebanese
Denotes those persons of mainly Arabic speakers who regard themselves as a distinct branch of the Arabic-speaking peoples, with family origin in Palestine being the defining characteristic.
C43872
Population Group
Palestinian
C0282539
Palestinian
Palestinian
Palestinian
Denotes the inhabitants of Syria, a person from there, or their descendants elsewhere.
C43873
Population Group
Syrian
C0337819
Syrian
Syrian
Syrian
Denotes the inhabitants of Afghanistan, a person from there, or their descendants elsewhere.
C43874
Population Group
Afghanistani
C1553357
Afghanistani
Afghanistani
Afghanistani
Denotes the inhabitants of Israel, a person from there, or their descendants elsewhere.
C43875
Population Group
Israeli
C0240069
Israeli
Israeli
Israeli
Denotes a person with ethnic origins in the Semitic people originally from the Arabian peninsula and surrounding territories in the Middle East and northern Africa.
C43876
Population Group
Arab
C0282540
A person having origins in any of the original peoples of the Arabian peninsula and surrounding territories in the Middle East and northern Africa.
Arab
ARAB
Arab
Arab
Denotes a person having origins in one of the indigenous peoples of North America, who lived on the continent prior to the European colonization. The term includes individuals belonging to a large number of tribes, states, and ethnic groups, many of them still enduring as communities.
C43877
Population Group
American Indian
C0002460
The native people of North America.
American_Indian
AMERICAN INDIAN
American Indian
American Indian
C43878
Population Group
Abenaki
C1555038
Abenaki
Abenaki
Abenaki
C43879
Population Group
Algonquian
C1555039
Algonquian
Algonquian
Algonquian
C43880
Population Group
Apache
C0337855
Apache
Apache
Apache
C43881
Population Group
Chiricahua
C1555040
Chiricahua
Chiricahua
Chiricahua
C43882
Population Group
Fort Sill Apache
C1555041
Fort_Sill_Apache
Fort Sill Apache
Fort Sill Apache
C43883
Population Group
Jicarilla Apache
C1555042
Jicarilla_Apache
Jicarilla Apache
Jicarilla Apache
C43884
Population Group
Lipan Apache
C1555043
Lipan_Apache
Lipan Apache
Lipan Apache
C43885
Population Group
Mescalero Apache
C1555044
Mescalero_Apache
Mescalero Apache
Mescalero Apache
C43886
Population Group
Oklahoma Apache
C1555045
Oklahoma_Apache
Oklahoma Apache
Oklahoma Apache
C43887
Population Group
Payson Apache
C1555046
Payson_Apache
Payson Apache
Payson Apache
C43888
Population Group
San Carlos Apache
C1555047
San_Carlos_Apache
San Carlos Apache
San Carlos Apache
C43889
Population Group
White Mountain Apache
C1555048
White_Mountain_Apache
White Mountain Apache
White Mountain Apache
C43890
Population Group
Arapaho
C0682104
Arapaho
Arapaho
Arapaho
C43891
Population Group
Northern Arapaho
C1555049
Northern_Arapaho
Northern Arapaho
Northern Arapaho
C43892
Population Group
Southern Arapaho
C1555050
Southern_Arapaho
Southern Arapaho
Southern Arapaho
C43893
Population Group
Wind River Arapaho
C1555051
Wind_River_Arapaho
Wind River Arapaho
Wind River Arapaho
C43894
Population Group
Arikara
C1555052
Arikara
Arikara
Arikara
C43895
Population Group
Assiniboine
C1555053
Assiniboine
Assiniboine
Assiniboine
C43896
Population Group
Assiniboine Sioux
C1555054
Assiniboine_Sioux
Assiniboine Sioux
Assiniboine Sioux
C43897
Population Group
Fort Peck Assiniboine Sioux
C1555055
Fort_Peck_Assiniboine_Sioux
Fort Peck Assiniboine Sioux
Fort Peck Assiniboine Sioux
C43898
Population Group
Bannock
C1555056
Bannock
Bannock
Bannock
C43899
Population Group
Blackfeet
C0337860
Blackfeet
Blackfeet
Blackfeet
C43900
Population Group
Brotherton
C1555057
Brotherton
Brotherton
Brotherton
C43901
Population Group
Burt Lake Band
C1555058
Burt_Lake_Band
Burt Lake Band
Burt Lake Band
C43902
Population Group
Caddo
C1555059
Caddo
Caddo
Caddo
C43903
Population Group
Oklahoma Cado
C1555060
Oklahoma_Cado
Oklahoma Cado
Oklahoma Cado
C43904
Population Group
Cahuilla
C1555061
Cahuilla
Cahuilla
Cahuilla
C43905
Population Group
Agua Caliente Cahuilla
C1555062
Agua_Caliente_Cahuilla
Agua Caliente Cahuilla
Agua Caliente Cahuilla
C43909
Population Group
Augustine
C1555063
Augustine
Augustine
Augustine
C43910
Population Group
Cabazon
C1555064
Cabazon
Cabazon
Cabazon
C43911
Population Group
Los Coyotes
C1555065
Los_Coyotes
Los Coyotes
Los Coyotes
C43912
Population Group
Morongo
C1555066
Morongo
Morongo
Morongo
C43913
Population Group
Santa Rosa Cahuilla
C1555067
Santa_Rosa_Cahuilla
Santa Rosa Cahuilla
Santa Rosa Cahuilla
C43914
Population Group
Torres-Martinez
C1555068
Torres_Martinez
Torres-Martinez
Torres-Martinez
C43915
Population Group
California Tribes
C1555069
California_Tribes
California Tribes
California Tribes
C43916
Population Group
Canadian and Latin American Indian
C1555083
Canadian_and_Latin_American_Indian
Canadian and Latin American Indian
Canadian and Latin American Indian
C43917
Population Group
Catawba
C0682102
Catawba
Catawba
Catawba
C43918
Population Group
Cayuse
C1555088
Cayuse
Cayuse
Cayuse
C43919
Population Group
Chehalis
C1555089
Chehalis
Chehalis
Chehalis
C43920
Population Group
Chemakuan
C1555090
Chemakuan
Chemakuan
Chemakuan
C43921
Population Group
Hoh
C1555091
Hoh
Hoh
Hoh
C43922
Population Group
Quileute
C1555092
Quileute
Quileute
Quileute
C43923
Population Group
Chemehuevi
C1555093
Chemehuevi
Chemehuevi
Chemehuevi
C43924
Population Group
Cherokee
C0682103
Cherokee
Cherokee
Cherokee
C43925
Population Group
Cherokee Shawnee
C1555104
Cherokee_Shawnee
Cherokee Shawnee
Cherokee Shawnee
C43926
Population Group
Cheyenne
C0682106
Cheyenne
Cheyenne
Cheyenne
C43927
Population Group
Northern Cheyenne
C1555105
Northern_Cheyenne
Northern Cheyenne
Northern Cheyenne
C43928
Population Group
Southern Cheyenne
C1555106
Southern_Cheyenne
Southern Cheyenne
Southern Cheyenne
C43929
Population Group
Cheyenne-Arapaho
C1555107
Cheyenne_Arapaho
Cheyenne-Arapaho
Cheyenne-Arapaho
C43930
Population Group
Chickahominy
C1555108
Chickahominy
Chickahominy
Chickahominy
C43931
Population Group
Eastern Chickahominy
C1555109
Eastern_Chickahominy
Eastern Chickahominy
Eastern Chickahominy
C43932
Population Group
Western Chickahominy
C1555110
Western_Chickahominy
Western Chickahominy
Western Chickahominy
C43933
Population Group
Chickasaw
C0682101
Chickasaw
Chickasaw
Chickasaw
C43934
Population Group
Chinook
C1555111
Chinook
Chinook
Chinook
C43935
Population Group
Chippewa
C0337862
Chippewa
Chippewa
Chippewa
C43936
Population Group
Chippewa Cree
C1555144
Chippewa_Cree
Chippewa Cree
Chippewa Cree
C43937
Population Group
Rocky Boy's Chippewa Cree
C1555145
Rocky_Boy_s_Chippewa_Cree
Rocky Boy's Chippewa Cree
Rocky Boy's Chippewa Cree
C43938
Population Group
Chitimacha
C1555146
Chitimacha
Chitimacha
Chitimacha
C43939
Population Group
Choctaw
C0682100
Choctaw
Choctaw
Choctaw
C43940
Population Group
Clifton Choctaw
C1555147
Clifton_Choctaw
Clifton Choctaw
Clifton Choctaw
C43941
Population Group
Jena Choctaw
C1555148
Jena_Choctaw
Jena Choctaw
Jena Choctaw
C43942
Population Group
Mississippi Choctaw
C1555149
Mississippi_Choctaw
Mississippi Choctaw
Mississippi Choctaw
C43943
Population Group
Mowa Band of Choctaw
C1555150
Mowa_Band_of_Choctaw
Mowa Band of Choctaw
Mowa Band of Choctaw
C43944
Population Group
Oklahoma Choctaw
C1555151
Oklahoma_Choctaw
Oklahoma Choctaw
Oklahoma Choctaw
C43945
Population Group
Chumash
C0682116
Chumash
Chumash
Chumash
C43946
Population Group
Santa Ynez
C1555152
Santa_Ynez
Santa Ynez
Santa Ynez
C43947
Population Group
Clear Lake
C1555153
Clear_Lake
Clear Lake
Clear Lake
C43948
Population Group
Coeur D'Alene
C1555154
Coeur_D_Alene
Coeur D'Alene
Coeur D'Alene
C43949
Population Group
Coharie
C1555155
Coharie
Coharie
Coharie
C43950
Population Group
Colorado River
C1555156
Colorado_River
Colorado River
Colorado River
C43951
Population Group
Colville
C1555157
Colville
Colville
Colville
C43952
Population Group
Comanche
C0682105
Comanche
Comanche
Comanche
C43953
Population Group
Oklahoma Comanche
C1555158
Oklahoma_Comanche
Oklahoma Comanche
Oklahoma Comanche
C43954
Population Group
Coos Lower Umpqua Siuslaw
C1555159
Coos_Lower_Umpqua_Siuslaw
Coos Lower Umpqua Siuslaw
Coos Lower Umpqua Siuslaw
C43955
Population Group
Coos
C1555160
Coos
Coos
Coos
C43956
Population Group
Coquilles
C1555161
Coquilles
Coquilles
Coquilles
C43957
Population Group
Costanoan
C1555162
Costanoan
Costanoan
Costanoan
C43958
Population Group
Coushatta
C0337865
Coushatta
Coushatta
Coushatta
C43959
Population Group
Alabama Coushatta
C1555163
Alabama_Coushatta
Alabama Coushatta
Alabama Coushatta
C43961
Population Group
Cowlitz
C1555164
Cowlitz
Cowlitz
Cowlitz
C43962
Population Group
Cree
C0702268
Cree
Cree
Cree
C43963
Population Group
Creek
C1555165
Creek
Creek
Creek
C43964
Population Group
Croatan
C1555178
Croatan
Croatan
Croatan
C43965
Population Group
Crow
C1555179
Crow
Crow
Crow
C43967
Population Group
Cupeno
C1555180
Cupeno
Cupeno
Cupeno
C43968
Population Group
Agua Caliente
C1555181
Agua_Caliente
Agua Caliente
Agua Caliente
C43969
Population Group
Delaware
C1555182
Delaware_Indian
Delaware
Delaware
C43970
Population Group
Diegueno
C0337867
Diegueno
Diegueno
Diegueño
Diegueno
C43971
Population Group
Eastern Tribes
C1555198
Eastern_Tribes
Eastern Tribes
Eastern Tribes
C43972
Population Group
Esselen
C1555214
Esselen
Esselen
Esselen
C43973
Population Group
Fort Belknap
C1555215
Fort_Belknap
Fort Belknap
Fort Belknap
C43974
Population Group
Fort Berthold
C1555216
Fort_Berthold
Fort Berthold
Fort Berthold
C43975
Population Group
Fort McDowell
C1555217
Fort_McDowell
Fort McDowell
Fort Mcdowell
Fort McDowell
C43976
Population Group
Fort Hall
C1555218
Fort_Hall
Fort Hall
Fort Hall
C43977
Population Group
Gabrieleno
C1555219
Gabrieleno
Gabrieleno
Gabrieleno
C43978
Population Group
Grand Ronde
C1555220
Grand_Ronde
Grand Ronde
Grand Ronde
C43979
Population Group
Gros Ventres
C1555221
Gros_Ventres
Gros Ventres
Gros Ventres
C43980
Population Group
Atsina
C1555222
Atsina
Atsina
Atsina
C43981
Population Group
Haliwa
C1555223
Haliwa
Haliwa
Haliwa
C43982
Population Group
Hidatsa
C1555224
Hidatsa
Hidatsa
Hidatsa
C43983
Population Group
Hoopa
C1555225
Hoopa
Hoopa
Hoopa
C43984
Population Group
Trinity
C1555226
Trinity
Trinity
Trinity
C43985
Population Group
Whilkut
C1555227
Whilkut
Whilkut
Whilkut
C43986
Population Group
Hoopa Extension
C1555228
Hoopa_Extension
Hoopa Extension
Hoopa Extension
C43987
Population Group
Houma
C1555229
Houma
Houma
Houma
C43988
Population Group
Inaja-Cosmit
C1555230
Inaja_Cosmit
Inaja-Cosmit
Inaja-Cosmit
C43989
Population Group
Iowa
C1555231
Iowa_Indian
Iowa
Iowa
C43990
Population Group
Iowa of Kansas-Nebraska
C1555232
Iowa_of_Kansas_Nebraska
Iowa of Kansas-Nebraska
Iowa of Kansas-Nebraska
C43991
Population Group
Iowa of Oklahoma
C1555233
Iowa_of_Oklahoma
Iowa of Oklahoma
Iowa of Oklahoma
C43992
Population Group
Iroquois
C0682098
Iroquois
Iroquois
Iroquois
C43993
Population Group
Juaneno
C1555243
Juaneno
Juaneno
Juaneno
C43994
Population Group
Kalispel
C1555244
Kalispel
Kalispel
Kalispel
C43995
Population Group
Karuk
C1555245
Karuk
Karuk
Karuk
C43996
Population Group
Kaw
C1555246
Kaw
Kaw
Kaw
C43997
Population Group
Kickapoo
C1555247
Kickapoo
Kickapoo
Kickapoo
C43998
Population Group
Oklahoma Kickapoo
C1555248
Oklahoma_Kickapoo
Oklahoma Kickapoo
Oklahoma Kickapoo
C43999
Population Group
Texas Kickapoo
C1555249
Texas_Kickapoo
Texas Kickapoo
Texas Kickapoo
C44000
Population Group
Kiowa
C1555250
Kiowa
Kiowa
Kiowa
C44001
Population Group
Oklahoma Kiowa
C1555251
Oklahoma_Kiowa
Oklahoma Kiowa
Oklahoma Kiowa
C44002
Population Group
Klallam
C1555252
Klallam
Klallam
Klallam
C44003
Population Group
Jamestown
C1555253
Jamestown
Jamestown
Jamestown
C44004
Population Group
Lower Elwha
C1555254
Lower_Elwha
Lower Elwha
Lower Elwha
C44005
Population Group
Port Gamble Klallam
C1555255
Port_Gamble_Klallam
Port Gamble Klallam
Port Gamble Klallam
C44006
Population Group
Klamath
C1555256
Klamath
Klamath
Klamath
C44007
Population Group
Konkow
C1555257
Konkow
Konkow
Konkow
C44008
Population Group
Kootenai
C1555258
Kootenai
Kootenai
Kootenai
C44009
Population Group
Lassik
C1555259
Lassik
Lassik
Lassik
C44010
Population Group
Long Island
C1555260
Long_Island
Long Island
Long Island
C44011
Population Group
Matinecock
C1555261
Matinecock
Matinecock
Matinecock
C44012
Population Group
Montauk
C1555262
Montauk
Montauk
Montauk
C44013
Population Group
Poospatuck
C1555263
Poospatuck
Poospatuck
Poospatuck
C44014
Population Group
Setauket
C1555264
Setauket
Setauket
Setauket
C44015
Population Group
Luiseno
C0682114
Luiseno
Luiseno
Luiseno
C44016
Population Group
La Jolla
C1555265
La_Jolla
La Jolla
La Jolla
C44017
Population Group
Pala
C1555266
Pala
Pala
Pala
C44018
Population Group
Pauma
C1555267
Pauma
Pauma
Pauma
C44019
Population Group
Pechanga
C1555268
Pechanga
Pechanga
Pechanga
C44020
Population Group
Soboba
C1555269
Soboba
SoboInOwlba
Soboba
C44021
Population Group
Twenty-Nine Palms
C1555270
Twenty_Nine_Palms
Twenty-Nine Palms
Twenty-Nine Palms
C44022
Population Group
Temecula
C1555271
Temecula
Temecula
Temecula
C44023
Population Group
Lumbee
C1555272
Lumbee
Lumbee
Lumbee
C44024
Population Group
Lummi
C1555273
Lummi
Lummi
Lummi
C44025
Population Group
Maidu
C1555274
Maidu
Maidu
Maidu
C44026
Population Group
Mountain Maidu
C1555275
Mountain_Maidu
Mountain Maidu
Mountain Maidu
C44027
Population Group
Nishinam
C1551415
Nishinam
Nishinam
Nishinam
C44028
Population Group
Makah
C1551416
Makah
Makah
Makah
C44029
Population Group
Maliseet
C1551417
Maliseet
Maliseet
Maliseet
C44030
Population Group
Mandan
C1551418
Mandan
Mandan
Mandan
C44031
Population Group
Mattaponi
C1551419
Mattaponi
Mattaponi
Mattaponi
C44032
Population Group
Menominee
C1551420
Menominee
Menominee
Menominee
C44033
Population Group
Miami
C1551421
Miami
Miami
Miami
C44034
Population Group
Illinois Miami
C1551422
Illinois_Miami
Illinois Miami
Illinois Miami
C44035
Population Group
Indiana Miami
C1551423
Indiana_Miami
Indiana Miami
Indiana Miami
C44036
Population Group
Oklahoma Miami
C1551424
Oklahoma_Miami
Oklahoma Miami
Oklahoma Miami
C44037
Population Group
Miccosukee
C1551425
Miccosukee
Miccosukee
Miccosukee
C44038
Population Group
Micmac
C1551426
Micmac
Micmac
Micmac
C44039
Population Group
Aroostook
C1551427
Aroostook
Aroostook
Aroostook
C44040
Population Group
Mission Indians
C1551428
Mission_Indians
Mission Indians
Mission Indians
C44041
Population Group
Miwok
C1551429
Miwok
Miwok
Miwok
C44042
Population Group
Modoc
C1551430
Modoc
Modoc
Modoc
C44043
Population Group
Mohegan
C1551431
Mohegan
Mohegan
Mohegan
C44044
Population Group
Mono
C1551432
Mono
Mono
Mono
C44045
Population Group
Nanticoke
C1551433
Nanticoke
Nanticoke
Nanticoke
C44046
Population Group
Narragansett
C1551434
Narragansett
Narragansett
Narragansett
C44048
Population Group
Dine
C0337879
Dine
Dine
Navaho
Navajo
Dine
C44049
Population Group
Alamo Dine
C1551435
Alamo_Dine
Alamo Dine
Alamo Navaho
Alamo Navajo
Alamo Dine
C44050
Population Group
Canoncito Dine
C1551436
Canoncito_Dine
Canoncito Dine
Canoncito Navaho
Canoncito Navajo
Canoncito Dine
C44051
Population Group
Ramah Dine
C1551437
Ramah_Dine
Ramah Dine
Ramah Navaho
Ramah Navajo
Ramah Dine
C44052
Population Group
Nez Perce
C0337880
Nez_Perce
Nez Perce
Nez Percé
Nez Perce
C44053
Population Group
Nomalaki
C1551438
Nomalaki
Nomalaki
Nomalaki
C44054
Population Group
Northwest Tribes
C1551439
Northwest_Tribes
Northwest Tribes
Northwest Tribes
C44055
Population Group
Alsea
C1551440
Alsea
Alsea
Alsea
C44056
Population Group
Celilo
C1551441
Celilo
Celilo
Celilo
C44057
Population Group
Columbia
C1551442
Columbia_Indian
Columbia
Columbia
C44058
Population Group
Kalapuya
C1551443
Kalapuya
Kalapuya
Kalapuya
C44059
Population Group
Molala
C1551444
Molala
Molala
Molala
C44060
Population Group
Talakamish
C1551445
Talakamish
Talakamish
Talakamish
C44061
Population Group
Tenino
C1551446
Tenino
Tenino
Tenino
C44062
Population Group
Tillamook
C1551447
Tillamook
Tillamook
Tillamook
C44063
Population Group
Wenatchee
C1551448
Wenatchee
Wenatchee
Wenatchee
C44064
Population Group
Yahooskin
C1551449
Yahooskin
Yahooskin
Yahooskin
C44065
Population Group
Omaha
C1551450
Omaha
Omaha
Omaha
C44066
Population Group
Oregon Athabaskan
C1551451
Oregon_Athabaskan
Oregon Athabaskan
Oregon Athabaskan
C44067
Population Group
Osage
C1551452
Osage
Osage
Osage
C44068
Population Group
Otoe-Missouria
C1551453
Otoe_Missouria
Otoe-Missouria
Otoe-Missouria
C44069
Population Group
Ottawa
C1551454
Ottawa
Ottawa
Ottawa
C44070
Population Group
Burt Lake Ottawa
C1551455
Burt_Lake_Ottawa
Burt Lake Ottawa
Burt Lake Ottawa
C44071
Population Group
Michigan Ottawa
C1551456
Michigan_Ottawa
Michigan Ottawa
Michigan Ottawa
C44072
Population Group
Oklahoma Ottawa
C1551457
Oklahoma_Ottawa
Oklahoma Ottawa
Oklahoma Ottawa
C44073
Population Group
Paiute
C0682113
Paiute
Paiute
Paiute
C44074
Population Group
Pamunkey
C1551479
Pamunkey
Pamunkey
Pamunkey
C44075
Population Group
Passamaquoddy
C1551480
Passamaquoddy
Passamaquoddy
Passamaquoddy
C44076
Population Group
Indian Township
C1551481
Indian_Township
Indian Township
Indian Township
C44077
Population Group
Pleasant Point Passamaquoddy
C1551482
Pleasant_Point_Passamaquoddy
Pleasant Point Passamaquoddy
Pleasant Point Passamaquoddy
C44078
Population Group
Pawnee
C0682108
Pawnee
Pawnee
Pawnee
C44079
Population Group
Oklahoma Pawnee
C1551483
Oklahoma_Pawnee
Oklahoma Pawnee
Oklahoma Pawnee
C44080
Population Group
Penobscot
C0682097
Penobscot
Penobscot
Penobscot
C44081
Population Group
Peoria
C1551484
Peoria
Peoria
Peoria
C44082
Population Group
Oklahoma Peoria
C1551485
Oklahoma_Peoria
Oklahoma Peoria
Oklahoma Peoria
C44083
Population Group
Pequot
C1551486
Pequot
Pequot
Pequot
C44084
Population Group
Marshantucket Pequot
C1551487
Marshantucket_Pequot
Marshantucket Pequot
Marshantucket Pequot
C44085
Population Group
Pima
C1551488
Pima
Pima
Pima
C44086
Population Group
Gila River Pima-Maricopa
C1551489
Gila_River_Pima_Maricopa
Gila River Pima-Maricopa
Gila River Pima-Maricopa
C44087
Population Group
Salt River Pima-Maricopa
C1551490
Salt_River_Pima_Maricopa
Salt River Pima-Maricopa
Salt River Pima-Maricopa
C44088
Population Group
Piscataway
C1551491
Piscataway
Piscataway
Piscataway
C44089
Population Group
Pit River
C1551492
Pit_River
Pit River
Pit River
C44090
Population Group
Pomo
C1551493
Pomo
Pomo
Pomo
C44091
Population Group
Ponca
C1551502
Ponca
Ponca
Ponca
C44092
Population Group
Nebraska Ponca
C1551503
Nebraska_Ponca
Nebraska Ponca
Nebraska Ponca
C44093
Population Group
Oklahoma Ponca
C1551504
Oklahoma_Ponca
Oklahoma Ponca
Oklahoma Ponca
C44094
Population Group
Potawatomi
C1551505
Potawatomi
Potawatomi
Potawatomi
C44095
Population Group
Powhatan
C1551513
Powhatan
Powhatan
Powhatan
C44096
Population Group
Pueblo
C1556090
Pueblo
Pueblo
Pueblo
C44102
Population Group
Puget Sound Salish
C1551539
Puget_Sound_Salish
Puget Sound Salish
Puget Sound Salish
C44103
Population Group
Quapaw
C1551561
Quapaw
Quapaw
Quapaw
C44104
Population Group
Quinault
C1551562
Quinault
Quinault
Quinault
C44105
Population Group
Rappahannock
C1551563
Rappahannock
Rappahannock
Rappahannock
C44106
Population Group
Reno-Sparks
C1551564
Reno_Sparks
Reno-Sparks
Reno-Sparks
C44107
Population Group
Round Valley
C1551565
Round_Valley
Round Valley
Round Valley
C44108
Population Group
Sac and Fox
C1551566
Sac_and_Fox
Sac and Fox
Sac and Fox
C44109
Population Group
Iowa Sac and Fox
C1551567
Iowa_Sac_and_Fox
Iowa Sac and Fox
Iowa Sac and Fox
C44110
Population Group
Missouri Sac and Fox
C1551568
Missouri_Sac_and_Fox
Missouri Sac and Fox
Missouri Sac and Fox
C44111
Population Group
Oklahoma Sac and Fox
C1551569
Oklahoma_Sac_and_Fox
Oklahoma Sac and Fox
Oklahoma Sac and Fox
C44112
Population Group
Salinan
C1551570
Salinan
Salinan
Salinan
C44113
Population Group
Salish
C1551571
Salish
Salish
Salish
C44114
Population Group
Salish and Kootenai
C1551572
Salish_and_Kootenai
Salish and Kootenai
Salish and Kootenai
C44115
Population Group
Schaghticoke
C1551573
Schaghticoke
Schaghticoke
Schaghticoke
C44116
Population Group
Scott Valley
C1551574
Scott_Valley
Scott Valley
Scott Valley
C44117
Population Group
Seminole
C1556091
Seminole
Seminole
Seminole
C44118
Population Group
Big Cypress
C1551575
Big_Cypress
Big Cypress
Big Cypress
C44119
Population Group
Brighton
C1551576
Brighton
Brighton
Brighton
C44120
Population Group
Florida Seminole
C1551577
Florida_Seminole
Florida Seminole
Florida Seminole
C44121
Population Group
Hollywood Seminole
C1551578
Hollywood_Seminole
Hollywood Seminole
Hollywood Seminole
C44122
Population Group
Oklahoma Seminole
C1551579
Oklahoma_Seminole
Oklahoma Seminole
Oklahoma Seminole
C44123
Population Group
Serrano
C1551580
Serrano
Serrano
Serrano
C44124
Population Group
San Manual
C1551581
San_Manual
San Manual
San Manual
C44125
Population Group
Shasta
C1551582
Shasta
Shasta
Shasta
C44126
Population Group
Shawnee
C1551583
Shawnee
Shawnee
Shawnee
C44127
Population Group
Absentee Shawnee
C1551584
Absentee_Shawnee
Absentee Shawnee
Absentee Shawnee
C44128
Population Group
Eastern Shawnee
C1551585
Eastern_Shawnee
Eastern Shawnee
Eastern Shawnee
C44129
Population Group
Shinnecock
C1551586
Shinnecock
Shinnecock
Shinnecock
C44130
Population Group
Shoalwater Bay
C1551587
Shoalwater_Bay
Shoalwater Bay
Shoalwater Bay
C44131
Population Group
Shoshone
C0337886
Shoshone
Shoshone
Shoshone
C44132
Population Group
Shoshone Paiute
C1551602
Shoshone_Paiute
Shoshone Paiute
Shoshone Paiute
C44133
Population Group
Duck Valley
C1551603
Duck_Valley
Duck Valley
Duck Valley
C44134
Population Group
Fallon
C1551604
Fallon
Fallon
Fallon
C44135
Population Group
Fort McDermitt
C1551605
Fort_McDermitt
Fort McDermitt
Fort McDermitt
C44136
Population Group
Siletz
C1551606
Siletz
Siletz
Siletz
C44137
Population Group
Sioux
C0682107
Sioux
Sioux
Sioux
C44138
Population Group
Blackfoot Sioux
C1551607
Blackfoot_Sioux
Blackfoot Sioux
Blackfoot Sioux
C44139
Population Group
Brule Sioux
C1551608
Brule_Sioux
Brule Sioux
Brule Sioux
C44140
Population Group
Cheyenne River Sioux
C1551609
Cheyenne_River_Sioux
Cheyenne River Sioux
Cheyenne River Sioux
C44141
Population Group
Lakota
C1551631
Lakota
Lakota
Lakota Sioux
Teton Sioux
Lakota
C44142
Population Group
Dakota
C1551611
Dakota
Dakota
Dakota Sioux
Dakota
C44143
Population Group
Nakota
CL448673
Nakota
Nakota
Nakota Sioux
Nakota
C44144
Population Group
Crow Creek Sioux
C1551610
Crow_Creek_Sioux
Crow Creek Sioux
Crow Creek Sioux
C44145
Population Group
Flandreau Santee
C1551612
Flandreau_Santee
Flandreau Santee
Flandreau Santee
C44146
Population Group
Lake Traverse Sioux
C1551614
Lake_Traverse_Sioux
Lake Traverse Sioux
Lake Traverse Sioux
C44147
Population Group
Fort Peck Sioux
C1551613
Fort_Peck_Sioux
Fort Peck
Fort Peck Sioux
Fort Peck Sioux
C44148
Population Group
Lower Brule Sioux
C1551615
Lower_Brule_Sioux
Lower Brule Sioux
Lower Brule Sioux
C44149
Population Group
Lower Sioux
C1551616
Lower_Sioux
Lower Sioux
Lower Sioux
C44150
Population Group
Mdewakanton Sioux
C1551617
Mdewakanton_Sioux
Mdewakanton Sioux
Mdewakanton Sioux
C44151
Population Group
Miniconjou
C1551618
Miniconjou
Miniconjou
Miniconjou
C44152
Population Group
Oglala Sioux
C1551619
Oglala_Sioux
Oglala Sioux
Oglala Sioux
C44153
Population Group
Pine Ridge Sioux
C1551620
Pine_Ridge_Sioux
Pine Ridge Sioux
Pine Ridge Sioux
C44154
Population Group
Pipestone Sioux
C1551621
Pipestone_Sioux
Pipestone Sioux
Pipestone Sioux
C44155
Population Group
Prairie Island Sioux
C1551622
Prairie_Island_Sioux
Prairie Island Sioux
Prairie Island Sioux
C44156
Population Group
Prior Lake Sioux
C1551623
Prior_Lake_Sioux
Prior Lake Sioux
Prior Lake Sioux
C44157
Population Group
Rosebud Sioux
C1551624
Rosebud_Sioux
Rosebud Sioux
Rosebud Sioux
C44158
Population Group
Sans Arc Sioux
C1551625
Sans_Arc_Sioux
Sans Arc Sioux
Sans Arc Sioux
C44159
Population Group
Santee Sioux
C1551626
Santee_Sioux
Santee Sioux
Santee Sioux
C44160
Population Group
Sisseton-Wahpeton
C1551627
Sisseton_Wahpeton
Sisseton-Wahpeton
Sisseton-Wahpeton
C44161
Population Group
Sisseton Sioux
C1551628
Sisseton_Sioux
Sisseton Sioux
Sisseton Sioux
C44162
Population Group
Wahpeton Sioux
C1551635
Wahpeton_Sioux
Wahpeton Sioux
Wahpeton Sioux
C44163
Population Group
Spirit Lake Sioux
C1551629
Spirit_Lake_Sioux
Spirit Lake Sioux
Spirit Lake Sioux
C44164
Population Group
Standing Rock Sioux
C1551630
Standing_Rock_Sioux
Standing Rock Sioux
Standing Rock Sioux
C44165
Population Group
Two Kettle Sioux
C1551632
Two_Kettle_Sioux
Two Kettle Sioux
Two Kettle Sioux
C44187
Population Group
Upper Sioux
C1551633
Upper_Sioux
Upper Sioux
Upper Sioux
C44188
Population Group
Wahpekute Sioux
C1551634
Wahpekute_Sioux
Wahpekute Sioux
Wahpekute Sioux
C44189
Population Group
Wazhaza Sioux
C1551636
Wazhaza_Sioux
Wazhaza Sioux
Wazhaza Sioux
C44190
Population Group
Yankton Sioux
C1551637
Yankton_Sioux
Yankton Sioux
Yankton Sioux
C44191
Population Group
Yanktonai Sioux
C1551638
Yanktonai_Sioux
Yanktonai Sioux
Yanktonai Sioux
C44192
Population Group
Siuslaw
C1551639
Siuslaw
Siuslaw
Siuslaw
C44193
Population Group
Spokane
C1551640
Spokane
Spokane
Spokane
C44194
Population Group
Stewart
C1551641
Stewart
Stewart
Stewart
C44195
Population Group
Stockbridge
C1551642
Stockbridge
Stockbridge
Stockbridge
C44196
Population Group
Susanville
C1551643
Susanville
Susanville
Susanville
C44197
Population Group
Tohono O'Odham
C1551644
Tohono_O_Odham
Tohono O'Odham
Tohono O'Odham
C44198
Population Group
Ak-Chin
C1551645
Ak_Chin
Ak-Chin
Ak-Chin
C44199
Population Group
Gila Bend
C1551646
Gila_Bend
Gila Bend
Gila Bend
C44200
Population Group
San Xavier
C1551647
San_Xavier
San Xavier
San Xavier
C44201
Population Group
Sells
C1551648
Sells
Sells
Sells
C44202
Population Group
Tolowa
C1551649
Tolowa
Tolowa
Tolowa
C44203
Population Group
Tonkawa
C1551650
Tonkawa
Tonkawa
Tonkawa
C44204
Population Group
Tygh
C1551651
Tygh
Tygh
Tygh
C44205
Population Group
Umatilla
C1551652
Umatilla
Umatilla
Umatilla
C44206
Population Group
Umpqua
C1551653
Umpqua
Umpqua
Umpqua
C44207
Population Group
Cow Creek Umpqua
C1551654
Cow_Creek_Umpqua
Cow Creek Umpqua
Cow Creek Umpqua
C44208
Population Group
Ute
C1556092
Ute
Ute
Ute
C44209
Population Group
Allen Canyon
C1551655
Allen_Canyon
Allen Canyon
Allen Canyon
C44210
Population Group
Uintah Ute
C1551656
Uintah_Ute
Uintah Ute
Uintah Ute
C44211
Population Group
Ute Mountain Ute
C1551657
Ute_Mountain_Ute
Ute Mountain Ute
Ute Mountain Ute
C44212
Population Group
Wailaki
C1551658
Wailaki
Wailaki
Wailaki
C44213
Population Group
Walla-Walla
C1551659
Walla_Walla
Walla-Walla
Walla-Walla
C44214
Population Group
Wampanoag
C1551660
Wampanoag
Wampanoag
Wampanoag
C44215
Population Group
Gay Head Wampanoag
C1551661
Gay_Head_Wampanoag
Gay Head Wampanoag
Gay Head Wampanoag
C44216
Population Group
Mashpee Wampanoag
C1551662
Mashpee_Wampanoag
Mashpee Wampanoag
Mashpee Wampanoag
C44217
Population Group
Warm Springs
C1551663
Warm_Springs
Warm Springs
Warm Springs
C44218
Population Group
Wascopum
C1551664
Wascopum
Wascopum
Wascopum
C44219
Population Group
Washoe
C1551665
Washoe
Washoe
Washoe
C44220
Population Group
Alpine
C1551666
Alpine
Alpine
Alpine
C44221
Population Group
Carson
C1551667
Carson
Carson
Carson
C44222
Population Group
Dresslerville
C1551668
Dresslerville
Dresslerville
Dresslerville
C44223
Population Group
Wichita
C1551669
Wichita
Wichita
Wichita
C44224
Population Group
Wind River
C1551670
Wind_River
Wind River
Wind River
C44225
Population Group
Winnebago
C1551671
Winnebago
Winnebago
Winnebago
C44226
Population Group
Ho-Chunk
C1551672
Ho_Chunk
Ho-Chunk
Ho-Chunk
C44227
Population Group
Nebraska Winnebago
C1551673
Nebraska_Winnebago
Nebraska Winnebago
Nebraska Winnebago
C44228
Population Group
Winnemucca
C1551674
Winnemucca
Winnemucca
Winnemucca
C44229
Population Group
Wintun
C1551675
Wintun
Wintun
Wintun
C44230
Population Group
Wiyot
C1551676
Wiyot
Wiyot
Wiyot
C44231
Population Group
Table Bluff
C1551677
Table_Bluff
Table Bluff
Table Bluff
C44232
Population Group
Yakama
C1551678
Yakama
Yakama
Yakama
C44233
Population Group
Yakama Cowlitz
C1551679
Yakama_Cowlitz
Yakama Cowlitz
Yakama Cowlitz
C44234
Population Group
Yaqui
C1551680
Yaqui
Yaqui
Yaqui
C44236
Population Group
Barrio Libre
C1551681
Barrio_Libre
Barrio Libre
Barrio Libre
C44237
Population Group
Pascua Yaqui
C1551682
Pascua_Yaqui
Pascua Yaqui
Pascua Yaqui
C44238
Population Group
Yavapai Apache
C1551683
Yavapai_Apache
Yavapai Apache
Yavapai Apache
C44239
Population Group
Yokuts
C1551684
Yokuts
Yokuts
Yokuts
C44240
Population Group
Chukchansi
C1551685
Chukchansi
Chukchansi
Chukchansi
C44241
Population Group
Tachi
C1551686
Tachi
Tachi
Tachi
C44242
Population Group
Tule River
C1551687
Tule_River
Tule River
Tule River
C44244
Population Group
Yuchi
C1551688
Yuchi
Yuchi
Yuchi
C44245
Population Group
Yuman
C1551689
Yuman
Yuman
Yuman
C44246
Population Group
Cocopah
C1551690
Cocopah
Cocopah
Cocopah
C44247
Population Group
Havasupai
C1551691
Havasupai
Havasupai
Havasupai
C44248
Population Group
Hualapai
C1551692
Hualapai
Hualapai
Hualapai
C44249
Population Group
Maricopa
C1551693
Maricopa
Maricopa
Maricopa
C44250
Population Group
Mohave
C1551694
Mohave
Mohave
Mohave
C44251
Population Group
Quechan
C1551695
Quechan
Quechan
Quechan
C44252
Population Group
Yurok
C1551697
Yurok
Yurok
Yurok
C44253
Population Group
Coast Yurok
C1551698
Coast_Yurok
Coast Yurok
Coast Yurok
C44254
Population Group
Alaskan Athabascan
C1551699
Alaskan_Athabascan
Alaskan Athabascan
Alaskan Athabascan
C44257
Population Group
Southeast Alaska
C1551770
Southeast_Alaska
Southeast Alaska
Southeast Alaska
C44259
Population Group
Tlingit-Haida
C1551771
Tlingit_Haida
Tlingit-Haida
Tlinit-Haida
Tlingit-Haida
C44261
Population Group
Tsimshian
C1551792
Tsimshian
Tsimshian
Tsimshian
C44263
Population Group
Metlakatla
C1551793
Metlakatla
Metlakatla
Metlakatla
C44265
Population Group
Greenland Eskimo
C1551794
The native people of Greenland.
Greenland_Eskimo
GREENLAND INUIT
Greenland Eskimo
Greenland Eskimo
C44268
Population Group
Inupiat Eskimo
C1551795
The native people inhabiting the territory spanning the Norton Sound on the Bering Sea to the Canadian border.
Inupiat_Eskimo
INUPIAT INUIT
Inupiat Eskimo
Inupiat Eskimo
C44269
Population Group
Siberian Eskimo
C1551841
The native Yupik people inhabiting the coast of the Chukchi Peninsula in the far northeast of the Russian Federation and on St. Lawrence Island in Alaska.
Siberian_Eskimo
SIBERIAN ESKIMO
Siberian Eskimo
Siberian Eskimo
C44270
Population Group
Yupik Eskimo
C1551845
The native people inhabiting western, southwestern, and southcentral Alaska and the Russian Far East.
Yupik_Eskimo
YUPIK ESKIMO
Yupik Eskimo
Yupik Eskimo
C44286
Population Group
Alutiiq Aleut
C1553271
Alutiiq_Aleut
Alutiiq Aleut
Alutiiq Aleut
C44287
Population Group
Tatitlek
C1553272
Tatitlek
Tatitlek
Tatitlek
C44288
Population Group
Ugashik
C1553273
Ugashik
Ugashik
Ugashik
C44289
Population Group
Bristol Bay Aleut
C1553507
Bristol_Bay_Aleut
Bristol Bay Aleut
Bristol Bay Aleut
C44290
Population Group
Chugach Aleut
C1553284
Chugach_Aleut
Chugach Aleut
Chugach Aleut
C44486
Population Group
Eyak
C1553289
Eyak
Eyak
Eyak
C44487
Population Group
Koniag Aleut
C1553290
Koniag_Aleut
Koniag Aleut
Koniag Aleut
C44488
Population Group
Sugpiaq
C1553299
Sugpiaq
Sugpiaq
Sugpiaq
C44489
Population Group
Suqpigaq
C1553300
Suqpigaq
Suqpigaq
Suqpigaq
C44490
Population Group
Unangan Aleut
C1553301
Unangan_Aleut
Unangan Aleut
Unangan Aleut
C44491
Population Group
Chenega
C1553285
Chenega
Chenega
Chenega
C44492
Population Group
Chugach Corporation
C1553286
Chugach_Corporation
Chugach Corporation
Chugach Corporation
C44493
Population Group
English Bay
C1553287
English_Bay
English Bay
English Bay
C44494
Population Group
Port Graham
C1553288
Port_Graham
Port Graham
Port Graham
C44495
Population Group
Akhiok
C1553291
Akhiok
Akhiok
Akhiok
C44496
Population Group
Agdaagux
C1553292
Agdaagux
Agdaagux
Agdaagux
C44497
Population Group
Karluk
C1553293
Karluk
Karluk
Karluk
C44498
Population Group
Kodiak
C1553294
Kodiak
Kodiak
Kodiak
C44499
Population Group
Larsen Bay
C1553295
Larsen_Bay
Larsen Bay
Larsen Bay
C44500
Population Group
Old Harbor
C1553296
Old_Harbor
Old Harbor
Old Harbor
C44501
Population Group
Ouzinkie
C1553297
Ouzinkie
Ouzinkie
Ouzinkie
C44502
Population Group
Port Lions
C1553298
Port_Lions
Port Lions
Port Lions
C44503
Population Group
Gambell
C1551842
Gambell
Gambell
Gambell
C44504
Population Group
Savoonga
C1551843
Savoonga
Savoonga
Savoonga
C44505
Population Group
Siberian Yupik
C1551844
Siberian_Yupik
Siberian Yupik
Siberian Yupik
C44506
Population Group
Cahto
C1555070
Cahto
Cahto
Cahto
C44507
Population Group
Chimariko
C1555071
Chimariko
Chimariko
Chimariko
C44508
Population Group
Coast Miwok
C1555072
Coast_Miwok
Coast Miwok
Coast Miwok
C44509
Population Group
Digger
C1555073
Digger
Digger
Digger
C44510
Population Group
Kawaiisu
C1555074
Kawaiisu
Kawaiisu
Kawaiisu
C44511
Population Group
Kern River
C1555075
Kern_River
Kern River
Kern River
C44512
Population Group
Mattole
C1555076
Mattole
Mattole
Mattole
C44513
Population Group
Red Wood
C1555077
Red_Wood
Red Wood
Red Wood
C44514
Population Group
Santa Rosa
C1555078
Santa_Rosa
Santa Rosa
Santa Rosa
C44515
Population Group
Takelma
C1555079
Takelma
Takelma
Takelma
C44516
Population Group
Wappo
C1555080
Wappo
Wappo
Wappo
C44517
Population Group
Yana
C1555081
Yana
Yana
Yana
C44518
Population Group
Yuki
C1555082
Yuki
Yuki
Yuki
C44525
Population Group
Campo
C1555189
Campo
Campo
Campo
C44526
Population Group
Capitan Grande
C1555190
Capitan_Grande
Capitan Grande
Capitan Grande
C44527
Population Group
Cuyapaipe
C1555191
Cuyapaipe
Cuyapaipe
Cuyapaipe
C44528
Population Group
La Posta
C1555192
La_Posta
La Posta
La Posta
C44529
Population Group
Manzanita
C1555193
Manzanita
Manzanita
Manzanita
C44530
Population Group
Mesa Grande
C1555194
Mesa_Grande
Mesa Grande
Mesa Grande
C44531
Population Group
San Pasqual
C1555195
San_Pasqual
San Pasqual
San Pasqual
C44532
Population Group
Santa Ysabel
C1555196
Santa_Ysabel
Santa Ysabel
Santa Ysabel
C44533
Population Group
Sycuan
C1555197
Sycuan
Sycuan
Sycuan
C44534
Population Group
Bishop
C1551458
Bishop
Bishop
Bishop
C44535
Population Group
Bridgeport
C1551459
Bridgeport
Bridgeport
Bridgeport
C44536
Population Group
Burns Paiute
C1551460
Burns_Paiute
Burns Paiute
Burns Paiute
C44537
Population Group
Cedarville
C1551461
Cedarville
Cedarville
Cedarville
C44538
Population Group
Fort Bidwell
C1551462
Fort_Bidwell
Fort Bidwell
Fort Bidwell
C44539
Population Group
Fort Independence
C1551463
Fort_Independence
Fort Independence
Fort Independence
C44540
Population Group
Kaibab
C1551464
Kaibab
Kaibab
Kaibab
C44541
Population Group
Las Vegas
C1551465
Las_Vegas
Las Vegas
Las Vegas
C44542
Population Group
Lone Pine
C1551466
Lone_Pine
Lone Pine
Lone Pine
C44543
Population Group
Lovelock
C1551467
Lovelock
Lovelock
Lovelock
C44544
Population Group
Malheur Paiute
C1551468
Malheur_Paiute
Malheur Paiute
Malheur Paiute
C44545
Population Group
Moapa
C1551469
Moapa
Moapa
Moapa
C44546
Population Group
Northern Paiute
C1551470
Northern_Paiute
Northern Paiute
Northern Paiute
C44547
Population Group
Owens Valley
C1551471
Owens_Valley
Owens Valley
Owens Valley
C44548
Population Group
Pyramid Lake
C1551472
Pyramid_Lake
Pyramid Lake
Pyramid Lake
C44549
Population Group
San Juan Southern Paiute
C1551473
San_Juan_Southern_Paiute
San Juan Southern Paiute
San Juan Southern Paiute
C44550
Population Group
Southern Paiute
C1551474
Southern_Paiute
Southern Paiute
Southern Paiute
C44551
Population Group
Summit Lake
C1551475
Summit_Lake
Summit Lake
Summit Lake
C44552
Population Group
Utu Utu Gwaitu Paiute
C1551476
Utu_Utu_Gwaitu_Paiute
Utu Utu Gwaitu Paiute
Utu Utu Gwaitu Paiute
C44553
Population Group
Walker River
C1551477
Walker_River
Walker River
Walker River
C44554
Population Group
Yerington Paiute
C1551478
Yerington_Paiute
Yerington Paiute
Yerington Paiute
C44555
Population Group
Battle Mountain
C1551588
Battle_Mountain
Battle Mountain
Battle Mountain
C44556
Population Group
Duckwater
C1551589
Duckwater
Duckwater
Duckwater
C44557
Population Group
Elko
C1551590
Elko
Elko
Elko
C44558
Population Group
Ely
C1551591
Ely
Ely
Ely
C44559
Population Group
Goshute
C1551592
Goshute
Goshute
Goshute
C44560
Population Group
Panamint
C1551593
Panamint
Panamint
Panamint
C44561
Population Group
Ruby Valley
C1551594
Ruby_Valley
Ruby Valley
Ruby Valley
C44562
Population Group
Skull Valley
C1551595
Skull_Valley
Skull Valley
Skull Valley
C44563
Population Group
South Fork Shoshone
C1551596
South_Fork_Shoshone
South Fork Shoshone
South Fork Shoshone
C44564
Population Group
Te Moak Western Shoshone
C1551597
Te_Moak_Western_Shoshone
Te Moak Western Shoshone
Te-Moak Western Shoshone
Te Moak Western Shoshone
C44565
Population Group
Timbi Sha Shoshone
C1551598
Timbi_Sha_Shoshone
Timbi Sha Shoshone
Timbi-Sha Shoshone
Timbi Sha Shoshone
C44566
Population Group
Washakie
C1551599
Washakie
Washakie
Washakie
C44567
Population Group
Wind River Shoshone
C1551600
Wind_River_Shoshone
Wind River Shoshone
Wind River Shoshone
C44568
Population Group
Yomba
C1551601
Yomba
Yomba
Yomba
C44569
Population Group
Akiachak
C1551846
Akiachak
Akiachak
Akiachak
C44570
Population Group
Akiak
C1551847
Akiak
Akiak
Akiak
C44571
Population Group
Alakanuk
C1551848
Alakanuk
Alakanuk
Alakanuk
C44572
Population Group
Aleknagik
C1551849
Aleknagik
Aleknagik
Aleknagik
C44573
Population Group
Andreafsky
C1551850
Andreafsky
Andreafsky
Andreafsky
C44574
Population Group
Aniak
C1551851
Aniak
Aniak
Aniak
C44575
Population Group
Atmautluak
C1551852
Atmautluak
Atmautluak
Atmautluak
C44576
Population Group
Bethel
C1551853
Bethel
Bethel
Bethel
C44577
Population Group
Bill Moore's Slough
C1551854
Bill_Moore_s_Slough
Bill Moore's Slough
Bill Moore's Slough
C44578
Population Group
Bristol Bay Yupik
C1551855
Bristol_Bay_Yupik
Bristol Bay Yupik
Bristol Bay Yupik
C44579
Population Group
Calista Yupik
C1551856
Calista_Yupik
Calista Yupik
Calista Yupik
C44580
Population Group
Chefornak
C1551857
Chefornak
Chefornak
Chefornak
C44581
Population Group
Chevak
C1551858
Chevak
Chevak
Chevak
C44582
Population Group
Chuathbaluk
C1551859
Chuathbaluk
Chuathbaluk
Chuathbaluk
C44583
Population Group
Clark's Point
C1551860
Clark_s_Point
Clark's Point
Clark's Point
C44584
Population Group
Crooked Creek
C1551861
Crooked_Creek
Crooked Creek
Crooked Creek
C44585
Population Group
Dillingham
C1551862
Dillingham
Dillingham
Dillingham
C44586
Population Group
Eek
C1551863
Eek
Eek
Eek
C44587
Population Group
Ekuk
C1551864
Ekuk
Ekuk
Ekuk
C44588
Population Group
Ekwok
C1551865
Ekwok
Ekwok
Ekwok
C44589
Population Group
Emmonak
C1551866
Emmonak
Emmonak
Emmonak
C44590
Population Group
Goodnews Bay
C1551867
Goodnews_Bay
Goodnews Bay
Goodnews Bay
C44591
Population Group
Hooper Bay
C1551868
Hooper_Bay
Hooper Bay
Hooper Bay
C44592
Population Group
Iqurmuit Russian Mission
C1551869
Iqurmuit_Russian_Mission
Iqurmuit (Russian Mission)
Iqurmuit Russian Mission
Iqurmuit Russian Mission
C44593
Population Group
Kalskag
C1551870
Kalskag
Kalskag
Kalskag
C44594
Population Group
Kasigluk
C1551871
Kasigluk
Kasigluk
Kasigluk
C44595
Population Group
Kipnuk
C1551872
Kipnuk
Kipnuk
Kipnuk
C44596
Population Group
Koliganek
C1551873
Koliganek
Koliganek
Koliganek
C44597
Population Group
Kongiganak
C1551874
Kongiganak
Kongiganak
Kongiganak
C44598
Population Group
Kotlik
C1551875
Kotlik
Kotlik
Kotlik
C44599
Population Group
Kwethluk
C1551876
Kwethluk
Kwethluk
Kwethluk
C44600
Population Group
Kwigillingok
C1551877
Kwigillingok
Kwigillingok
Kwigillingok
C44601
Population Group
Levelock
C1551878
Levelock
Levelock
Levelock
C44602
Population Group
Lower Kalskag
C1551879
Lower_Kalskag
Lower Kalskag
Lower Kalskag
C44603
Population Group
Manokotak
C1551880
Manokotak
Manokotak
Manokotak
C44604
Population Group
Marshall
C1551881
Marshall
Marshall
Marshall
C44605
Population Group
Mekoryuk
C1551882
Mekoryuk
Mekoryuk
Mekoryuk
C44606
Population Group
Mountain Village
C1551883
Mountain_Village
Mountain Village
Mountain Village
C44607
Population Group
Naknek
C1551884
Naknek
Naknek
Naknek
C44608
Population Group
Napaumute
C1551885
Napaumute
Napaumute
Napaumute
C44609
Population Group
Napakiak
C1551886
Napakiak
Napakiak
Napakiak
C44610
Population Group
Napaskiak
C1551887
Napaskiak
Napaskiak
Napaskiak
C44611
Population Group
Newhalen
C1553245
Newhalen
Newhalen
Newhalen
C44612
Population Group
New Stuyahok
C1553246
New_Stuyahok
New Stuyahok
New Stuyahok
C44613
Population Group
Newtok
C1553247
Newtok
Newtok
Newtok
C44614
Population Group
Nightmute
C1553248
Nightmute
Nightmute
Nightmute
C44615
Population Group
Nunapitchukv
C1553249
Nunapitchukv
Nunapitchukv
Nunapitchukv
C44616
Population Group
Oscarville
C1553250
Oscarville
Oscarville
Oscarville
C44617
Population Group
Pilot Station
C1553251
Pilot_Station
Pilot Station
Pilot Station
C44618
Population Group
Pitkas Point
C1553252
Pitkas_Point
Pitkas Point
Pitkas Point
C44619
Population Group
Portage Creek
C1553254
Portage_Creek
Portage Creek
Portage Creek
C44620
Population Group
Quinhagak
C1553255
Quinhagak
Quinhagak
Quinhagak
C44621
Population Group
Red Devil
C1553256
Red_Devil
Red Devil
Red Devil
C44623
Population Group
Scammon Bay
C1553258
Scammon_Bay
Scammon Bay
Scammon Bay
C44624
Population Group
Sheldon's Point
C1553259
Sheldon_s_Point
Sheldon's Point
Sheldon's Point
C44625
Population Group
Sleetmute
C1553260
Sleetmute
Sleetmute
Sleetmute
C44626
Population Group
Stebbins
C1553261
Stebbins
Stebbins
Stebbins
C44627
Population Group
Togiak
C1553262
Togiak
Togiak
Togiak
C44628
Population Group
Toksook
C1553263
Toksook
Toksook
Toksook
C44629
Population Group
Tulukskak
C1553264
Tulukskak
Tulukskak
Tulukskak
C44630
Population Group
Tuntutuliak
C1553265
Tuntutuliak
Tuntutuliak
Tuntutuliak
C44631
Population Group
Tununak
C1553266
Tununak
Tununak
Tununak
C44632
Population Group
Twin Hills
C1553267
Twin_Hills
Twin Hills
Twin Hills
C44633
Population Group
Georgetown
C1553268
Georgetown
Georgetown
Georgetown
C44635
Population Group
Umkumiate
C1553270
Umkumiate
Umkumiate
Umkumiate
C44636
Population Group
Akutan
C1553302
Akutan
Akutan
Akutan
C44637
Population Group
Aleut Corporation
C1553303
Aleut_Corporation
Aleut Corporation
Aleut Corporation
C44638
Population Group
Aleutian Islander
C1553305
Aleutian_Islander
Aleutian Islander
Aleutian Islander
C44639
Population Group
Atka
C1553306
Atka
Atka
Atka
C44640
Population Group
Belkofski
C1553307
Belkofski
Belkofski
Belkofski
C44641
Population Group
Chignik Lagoon
C1553308
Chignik_Lagoon
Chignik Lagoon
Chignik Lagoon
C44642
Population Group
King Cove
C1553309
King_Cove
King Cove
King Cove
C44643
Population Group
False Pass
C1553310
False_Pass
False Pass
False Pass
C44644
Population Group
Nelson Lagoon
C1553311
Nelson_Lagoon
Nelson Lagoon
Nelson Lagoon
C44645
Population Group
Nikolski
C1553312
Nikolski
Nikolski
Nikolski
C44646
Population Group
Pauloff Harbor
C1553313
Pauloff_Harbor
Pauloff Harbor
Pauloff Harbor
C44647
Population Group
Qagan Toyagungin
C1553314
Qagan_Toyagungin
Qagan Toyagungin
Qagan Toyagungin
C44648
Population Group
Qawalangin
C1553315
Qawalangin
Qawalangin
Qawalangin
C44651
Population Group
Sand Point
C1553318
Sand_Point
Sand Point
Sand Point
C44652
Population Group
South Naknek
C1553319
South_Naknek
South Naknek
South Naknek
C44653
Population Group
Unalaska
C1553320
Unalaska
Unalaska
Unalaska
C44654
Population Group
Unga
C1553321
Unga
Unga
Unga
C44655
Population Group
Chignik
C1553274
Chignik
Chignik
Chignik
C44656
Population Group
Chignik Lake
C1553275
Chignik_Lake
Chignik Lake
Chignik Lake
C44657
Population Group
Egegik
C1553276
Egegik
Egegik
Egegik
C44658
Population Group
Igiugig
C1553277
Igiugig
Igiugig
Igiugig
C44659
Population Group
Ivanof Bay
C1553278
Ivanof_Bay
Ivanof Bay
Ivanof Bay
C44660
Population Group
King Salmon
C1553279
King_Salmon
King Salmon
King Salmon
C44661
Population Group
Kokhanok
C1553280
Kokhanok
Kokhanok
Kokhanok
C44662
Population Group
Perryville
C1553281
Perryville
Perryville
Perryville
C44663
Population Group
Pilot Point
C1553282
Pilot_Point
Pilot Point
Pilot Point
C44664
Population Group
Port Heiden
C1553283
Port_Heiden
Port Heiden
Port Heiden
C44665
Population Group
Ambler
C1551796
Ambler
Ambler
Ambler
C44666
Population Group
Anaktuvuk
C1551797
Anaktuvuk
Anaktuvuk
Anaktuvuk
C44667
Population Group
Anaktuvuk Pass
C1551798
Anaktuvuk_Pass
Anaktuvuk Pass
Anaktuvuk Pass
C44668
Population Group
Arctic Slope Inupiat
C1551799
Arctic_Slope_Inupiat
Arctic Slope Inupiat
Arctic Slope Inupiat
C44669
Population Group
Arctic Slope Corporation
C1551800
Arctic_Slope_Corporation
Arctic Slope Corporation
Arctic Slope Corporation
C44670
Population Group
Atqasuk
C1551801
Atqasuk
Atqasuk
Atqasuk
C44671
Population Group
Barrow
C1551802
Barrow
Barrow
Barrow
C44672
Population Group
Bering Straits Inupiat
C1551803
Bering_Straits_Inupiat
Bering Straits Inupiat
Bering Straits Inupiat
C44673
Population Group
Brevig Mission
C1551804
Brevig_Mission
Brevig Mission
Brevig Mission
C44674
Population Group
Buckland
C1551805
Buckland
Buckland
Buckland
C44675
Population Group
Chinik
C1551806
Chinik
Chinik
Chinik
C44676
Population Group
Council
C1551807
Council
Council
Council
C44677
Population Group
Deering
C1551808
Deering
Deering
Deering
C44678
Population Group
Elim
C1551809
Elim
Elim
Elim
C44679
Population Group
Golovin
C1551810
Golovin
Golovin
Golovin
C44680
Population Group
Inalik Diamede
C1551811
Inalik_Diamede
Inalik Diamede
Inalik Diomede
Inalik Diamede
C44681
Population Group
Inupiaq
C1551812
Inupiaq
Inupiaq
Inupiaq
C44682
Population Group
Kaktovik
C1551813
Kaktovik
Kaktovik
Kaktovik
C44683
Population Group
Kawerak
C1551814
Kawerak
Kawerak
Kawerak
C44684
Population Group
Kiana
C1551815
Kiana
Kiana
Kiana
C44685
Population Group
Kivalina
C1551816
Kivalina
Kivalina
Kivalina
C44686
Population Group
Kobuk
C1551817
Kobuk
Kobuk
Kobuk
C44687
Population Group
Kotzebue
C1551818
Kotzebue
Kotzebue
Kotzebue
C44688
Population Group
Koyuk
C1551819
Koyuk
Koyuk
Koyuk
C44689
Population Group
Kwiguk
C1551820
Kwiguk
Kwiguk
Kwiguk
C44690
Population Group
Mauneluk Inupiat
C1551821
Mauneluk_Inupiat
Mauneluk Inupiat
Mauneluk Inupiat
C44691
Population Group
Nana Inupiat
C1551822
Nana_Inupiat
Nana Inupiat
Nana Iñupiat
Nana Inupiat
C44692
Population Group
Noatak
C1551823
Noatak
Noatak
Noatak
C44693
Population Group
Nome
C1551824
Nome
Nome
Nome
C44694
Population Group
Noorvik
C1551825
Noorvik
Noorvik
Noorvik
C44695
Population Group
Nuiqsut
C1551826
Nuiqsut
Nuiqsut
Nuiqsut
C44696
Population Group
Point Hope
C1551827
Point_Hope
Point Hope
Point Hope
C44697
Population Group
Point Lay
C1551828
Point_Lay
Point Lay
Point Lay
C44698
Population Group
Selawik
C1551829
Selawik
Selawik
Selawik
C44699
Population Group
Shaktoolik
C1551830
Shaktoolik
Shaktoolik
Shaktoolik
C44700
Population Group
Shishmaref
C1551831
Shishmaref
Shishmaref
Shishmaref
C44701
Population Group
Shungnak
C1551832
Shungnak
Shungnak
Shungnak
C44702
Population Group
Solomon
C1551833
Solomon
Solomon
Solomon
C44703
Population Group
Teller
C1551834
Teller
Teller
Teller
C44704
Population Group
Unalakleet
C1551835
Unalakleet
Unalakleet
Unalakleet
C44705
Population Group
Wainwright
C1551836
Wainwright
Wainwright
Wainwright
C44706
Population Group
Wales
C1551837
Wales
Wales
Wales
C44707
Population Group
White Mountain
C1551838
White_Mountain
White Mountain
White Mountain
C44708
Population Group
White Mountain Inupiat
C1551839
White_Mountain_Inupiat
White Mountain Inupiat
White Mountain Inupiat
C44709
Population Group
Mary's Igloo
C1551840
Mary_s_Igloo
Mary's Igloo
Mary's Igloo
C44710
Population Group
Angoon
C1551772
Angoon
Angoon
Angoon
C44711
Population Group
Central Council of Tlingit and Haida Tribes
C1551773
Central_Council_of_Tlingit_and_Haida_Tribes
Central Council of Tlingit and Haida Tribes
Central Council of Tlingit and Haida Tribes
C44712
Population Group
Chilkat
C1551774
Chilkat
Chilkat
Chilkat
C44713
Population Group
Chilkoot
C1551775
Chilkoot
Chilkoot
Chilkoot
C44714
Population Group
Craig
C1551776
Craig
Craig
Craig
C44715
Population Group
Douglas
C1551777
Douglas
Douglas
Douglas
C44716
Population Group
Haida
C0682117
Haida
Haida
Haida
C44717
Population Group
Hoonah
C1551778
Hoonah
Hoonah
Hoonah
C44718
Population Group
Hydaburg
C1551779
Hydaburg
Hydaburg
Hydaburg
C44719
Population Group
Kake
C1551780
Kake
Kake
Kake
C44720
Population Group
Kasaan
C1551781
Kasaan
Kasaan
Kasaan
C44721
Population Group
Kenaitze
C1551782
Kenaitze
Kenaitze
Kenaitze
C44722
Population Group
Ketchikan
C1551783
Ketchikan
Ketchikan
Ketchikan
C44723
Population Group
Klawock
C1551784
Klawock
Klawock
Klawock
C44724
Population Group
Pelican
C1551785
Pelican
Pelican
Pelican
C44725
Population Group
Petersburg
C1551786
Petersburg
Petersburg
Petersburg
C44726
Population Group
Saxman
C1551787
Saxman
Saxman
Saxman
C44727
Population Group
Sitka
C1551788
Sitka
Sitka
Sitka
C44728
Population Group
Tenakee Springs
C1551789
Tenakee_Springs
Tenakee Springs
Tenakee Springs
C44729
Population Group
Tlingit
C0682118
Tlingit
Tlingit
Tlingit
C44730
Population Group
Wrangell
C1551790
Wrangell
Wrangell
Wrangell
C44731
Population Group
Yakutat
C1551791
Yakutat
Yakutat
Yakutat
C44732
Population Group
Ahtna
C1551700
Ahtna
Ahtna
Ahtna
C44733
Population Group
Alatna
CL334372
Alatna
Alatna
Alatna
C44734
Population Group
Alexander
C1551702
Alexander
Alexander
Alexander
C44735
Population Group
Allakaket
C1551703
Allakaket
Allakaket
Allakaket
C44736
Population Group
Alanvik
C1551704
Alanvik
Alanvik
Alanvik
C44737
Population Group
Anvik
C1551705
Anvik
Anvik
Anvik
C44738
Population Group
Arctic
CL337306
Arctic
Arctic
Arctic
C44739
Population Group
Beaver
C1551707
Beaver
Beaver
Beaver
C44740
Population Group
Birch Creek
C1551708
Birch_Creek
Birch Creek
Birch Creek
C44741
Population Group
Cantwell
C1551709
Cantwell
Cantwell
Cantwell
C44742
Population Group
Chalkyitsik
C1551710
Chalkyitsik
Chalkyitsik
Chalkyitsik
C44743
Population Group
Chickaloon
C1551711
Chickaloon
Chickaloon
Chickaloon
C44744
Population Group
Chistochina
C1551712
Chistochina
Chistochina
Chistochina
C44745
Population Group
Chitina
C1551713
Chitina
Chitina
Chitina
C44746
Population Group
Circle Tribe
C1551714
Circle_Tribe
Circle
Circle Tribe
Circle Tribe
C44747
Population Group
Cook Inlet
C1551715
Cook_Inlet
Cook Inlet
Cook Inlet
C44748
Population Group
Copper Center
C1551716
Copper_Center
Copper Center
Copper Center
C44749
Population Group
Copper River
C1551717
Copper_River
Copper River
Copper River
C44750
Population Group
Dot Lake
C1551718
Dot_Lake
Dot Lake
Dot Lake
C44751
Population Group
Doyon
C1551719
Doyon
Doyon
Doyon
C44752
Population Group
Eagle
C1551720
Eagle
Eagle
Eagle
C44753
Population Group
Eklutna
C1551721
Eklutna
Eklutna
Eklutna
C44754
Population Group
Evansville
C1551722
Evansville
Evansville
Evansville
C44755
Population Group
Fort Yukon
C1551723
Fort_Yukon
Fort Yukon
Fort Yukon
C44756
Population Group
Gakona
C1551724
Gakona
Gakona
Gakona
C44757
Population Group
Galena
C1551725
Galena
Galena
Galena
C44758
Population Group
Grayling
C1551726
Grayling
Grayling
Grayling
C44759
Population Group
Gulkana
C1551727
Gulkana
Gulkana
Gulkana
C44760
Population Group
Healy Lake
C1551728
Healy_Lake
Healy Lake
Healy Lake
C44761
Population Group
Holy Cross
C1551729
Holy_Cross
Holy Cross
Holy Cross
C44762
Population Group
Hughes
C1551730
Hughes
Hughes
Hughes
C44763
Population Group
Huslia
C1551731
Huslia
Huslia
Huslia
C44764
Population Group
Iliamna
C1551732
Iliamna
Iliamna
Iliamna
C44765
Population Group
Kaltag
C1551733
Kaltag
Kaltag
Kaltag
C44766
Population Group
Kluti Kaah
C1551734
Kluti_Kaah
Kluti Kaah
Kluti Kaah
C44767
Population Group
Knik
C1551735
Knik
Knik
Knik
C44768
Population Group
Koyukuk
C1551736
Koyukuk
Koyukuk
Koyukuk
C44769
Population Group
Lake Minchumina
C1551737
Lake_Minchumina
Lake Minchumina
Lake Minchumina
C44770
Population Group
Lime
C1551738
Lime
Lime
Lime
C44771
Population Group
Mcgrath
C1551739
Mcgrath
Mcgrath
Mcgrath
C44772
Population Group
Manley Hot Springs
C1551740
Manley_Hot_Springs
Manley Hot Springs
Manley Hot Springs
C44773
Population Group
Mentasta Lake
C1551741
Mentasta_Lake
Mentasta Lake
Mentasta Lake
C44774
Population Group
Minto
CL334407
Minto
Minto
Minto
C44775
Population Group
Nenana
C1551743
Nenana
Nenana
Nenana
C44776
Population Group
Nikolai
C1551744
Nikolai
Nikolai
Nikolai
C44777
Population Group
Ninilchik
C1551745
Ninilchik
Ninilchik
Ninilchik
C44778
Population Group
Nondalton
C1551746
Nondalton
Nondalton
Nondalton
C44779
Population Group
Northway
C1551747
Northway
Northway
Northway
C44780
Population Group
Nulato
C1551748
Nulato
Nulato
Nulato
C44781
Population Group
Pedro Bay
C1551749
Pedro_Bay
Pedro Bay
Pedro Bay
C44782
Population Group
Rampart
C1551750
Rampart
Rampart
Rampart
C44783
Population Group
Ruby
C1551751
Ruby
Ruby
Ruby
C44784
Population Group
Salamatof
CL334417
Salamatof
Salamatof
Salamatof
C44785
Population Group
Seldovia
C1551753
Seldovia
Seldovia
Seldovia
C44786
Population Group
Slana
C1551754
Slana
Slana
Slana
C44787
Population Group
Shageluk
C1551755
Shageluk
Shageluk
Shageluk
C44788
Population Group
Stevens
CL334421
Stevens
Stevens
Stevens
C44789
Population Group
Stony River
C1551757
Stony_River
Stony River
Stony River
C44790
Population Group
Takotna
C1551758
Takotna
Takotna
Takotna
C44791
Population Group
Tanacross
C1551759
Tanacross
Tanacross
Tanacross
C44792
Population Group
Tanaina
C1551760
Tanaina
Tanaina
Tanaina
C44793
Population Group
Tanana
C1551761
Tanana
Tanana
Tanana
C44794
Population Group
Tanana Chiefs
C1551762
Tanana_Chiefs
Tanana Chiefs
Tanana Chiefs
C44795
Population Group
Tazlina
CL334428
Tazlina
Tazlina
Tazlina
C44796
Population Group
Telida
C1551764
Telida
Telida
Telida
C44797
Population Group
Tetlin
C1551765
Tetlin
Tetlin
Tetlin
C44798
Population Group
Tok
C1551766
Tok
Tok
Tok
C44799
Population Group
Tyonek
C1551767
Tyonek
Tyonek
Tyonek
C44800
Population Group
Venetie
C1551768
Venetie
Venetie
Venetie
C44801
Population Group
Wiseman
C1551769
Wiseman
Wiseman
Wiseman
C44802
Population Group
Duwamish
C1551540
Duwamish
Duwamish
Duwamish
C44803
Population Group
Kikiallus
C1551541
Kikiallus
Kikiallus
Kikiallus
C44804
Population Group
Lower Skagit
C1551542
Lower_Skagit
Lower Skagit
Lower Skagit
C44805
Population Group
Muckleshoot
C1551543
Muckleshoot
Muckleshoot
Muckleshoot
C44806
Population Group
Nisqually
C1551544
Nisqually
Nisqually
Nisqually
C44807
Population Group
Nooksack
C1551545
Nooksack
Nooksack
Nooksack
C44808
Population Group
Port Madison
C1551546
Port_Madison
Port Madison
Port Madison
C44809
Population Group
Puyallup
C1551547
Puyallup
Puyallup
Puyallup
C44810
Population Group
Samish
C1551548
Samish
Samish
Samish
C44811
Population Group
Sauk-Suiattle
C1551549
Sauk-Suiattle
Sauk-Suiattle
Sauk-Suiattle
C44812
Population Group
Skokomish
C1551550
Skokomish
Skokomish
Skokomish
C44813
Population Group
Skykomish
C1551551
Skykomish
Skykomish
Skykomish
C44814
Population Group
Snohomish
C1551552
Snohomish
Snohomish
Snohomish
C44815
Population Group
Snoqualmie
C1551553
Snoqualmie
Snoqualmie
Snoqualmie
C44816
Population Group
Squaxin Island
C1551554
Squaxin_Island
Squaxin Island
Squaxin Island
C44817
Population Group
Steilacoom
C1551555
Steilacoom
Steilacoom
Steilacoom
C44818
Population Group
Stillaguamish
C1551556
Stillaguamish
Stillaguamish
Stillaguamish
C44819
Population Group
Suquamish
C1551557
Suquamish
Suquamish
Suquamish
C44820
Population Group
Swinomish
C1551558
Swinomish
Swinomish
Swinomish
C44821
Population Group
Tulalip
C1551559
Tulalip
Tulalip
Tulalip
C44822
Population Group
Upper Skagit
C1551560
Upper_Skagit
Upper Skagit
Upper Skagit
C44823
Population Group
Acoma
C1551514
Acoma
Acoma
Acoma
C44824
Population Group
Arizona Tewa
C1551515
Arizona_Tewa
Arizona Tewa
Arizona Tewa
C44825
Population Group
Cochiti
C1551516
Cochiti
Cochiti
Cochiti
C44826
Population Group
Hopi
C0682111
Hopi
Hopi
Hopi
C44827
Population Group
Isleta
C1551517
Isleta
Isleta
Isleta
C44828
Population Group
Jemez
C1551518
Jemez
Jemez
Jemez
C44829
Population Group
Keres
C1551519
Keres
Keres
Keres
C44830
Population Group
Laguna
C1551520
Laguna
Laguna
Laguna
C44831
Population Group
Nambe
C1551521
Nambe
Nambe
Nambe
C44832
Population Group
Picuris
C1551522
Picuris
Picuris
Picuris
C44833
Population Group
Piro
C1551523
Piro
Piro
Piro
C44834
Population Group
Pojoaque
C1551524
Pojoaque
Pojoaque
Pojoaque
C44835
Population Group
San Felipe
C1551525
San_Felipe
San Felipe
San Felipe
C44836
Population Group
San Ildefonso
C1551526
San_Ildefonso
San Ildefonso
San Ildefonso
C44837
Population Group
San Juan Pueblo
C1551527
San_Juan_Pueblo
San Juan Pueblo
San Juan Pueblo
C44838
Population Group
San Juan De
C1551528
San_Juan_De
San Juan De
San Juan De
C44839
Population Group
San Juan
C1551529
San_Juan
San Juan
San Juan
C44840
Population Group
Sandia
C1551530
Sandia
Sandia
Sandia
C44841
Population Group
Santa Ana
C1551531
Santa_Ana
Santa Ana
Santa Ana
C44842
Population Group
Santa Clara
C1551532
Santa_Clara
Santa Clara
Santa Clara
C44843
Population Group
Santo Domingo
C1551533
Santo_Domingo
Santo Domingo
Santo Domingo
C44844
Population Group
Taos
C1551534
Taos
Taos
Taos
C44845
Population Group
Tesuque
C1551535
Tesuque
Tesuque
Tesuque
C44846
Population Group
Tewa
C1551536
Tewa
Tewa
Tewa
C44847
Population Group
Tigua
C1551537
Tigua
Tigua
Tigua
C44848
Population Group
Zia
C1551538
Zia
Zia
Zia
C44849
Population Group
Zuni
C0682110
Zuni
Zuni
Zuñi
Zuni
C44850
Population Group
Citzen Band Potawatomi
C1551506
Citzen_Band_Potawatomi
Citizen Band Potawatomi
Citzen Band Potawatomi
Citzen Band Potawatomi
C44851
Population Group
Forest County
C1551507
Forest_County
Forest County
Forest County
C44852
Population Group
Hannahville
C1551508
Hannahville
Hannahville
Hannahville
C44853
Population Group
Huron Potawatomi
C1551509
Huron_Potawatomi
Huron Potawatomi
Huron Potawatomi
C44854
Population Group
Pokagon Potawatomi
C1551510
Pokagon_Potawatomi
Pokagon Potawatomi
Pokagon Potawatomi
C44855
Population Group
Prairie Band
C1551511
Prairie_Band
Prairie Band
Prairie Band
C44856
Population Group
Wisconsin Potawatomi
C1551512
Wisconsin_Potawatomi
Wisconsin Potawatomi
Wisconsin Potawatomi
C44857
Population Group
Central Pomo
C1551494
Central_Pomo
Central Pomo
Central Pomo
C44858
Population Group
Dry Creek
C1551495
Dry_Creek
Dry Creek
Dry Creek
C44859
Population Group
Eastern Pomo
C1551496
Eastern_Pomo
Eastern Pomo
Eastern Pomo
C44860
Population Group
Kashia
C1551497
Kashia
Kashia
Kashia
C44861
Population Group
Northern Pomo
C1551498
Northern_Pomo
Northern Pomo
Northern Pomo
C44862
Population Group
Scotts Valley
C1551499
Scotts_Valley
Scotts Valley
Scotts Valley
C44863
Population Group
Stonyford
C1551500
Stonyford
Stonyford
Stonyford
C44864
Population Group
Sulphur Bank
C1551501
Sulphur_Bank
Sulphur Bank
Sulphur Bank
C44865
Population Group
Cayuga
C1555234
Cayuga
Cayuga
Cayuga
C44866
Population Group
Mohawk
C0682099
Mohawk
Mohawk
Mohawk
C44867
Population Group
Oneida
C1555235
Oneida
Oneida
Oneida
C44868
Population Group
Onondaga
C1555236
Onondaga
Onondaga
Onondaga
C44869
Population Group
Seneca
C1555237
Seneca
Seneca
Seneca
C44870
Population Group
Seneca Nation
C1555238
Seneca_Nation
Seneca Nation
Seneca Nation
C44871
Population Group
Seneca-Cayuga
C1555239
Seneca-Cayuga
Seneca-Cayuga
Seneca-Cayuga
C44872
Population Group
Tonawanda Seneca
C1555240
Tonawanda_Seneca
Tonawanda Seneca
Tonawanda Seneca
C44873
Population Group
Tuscarora
C1555241
Tuscarora
Tuscarora
Tuscarora
C44874
Population Group
Wyandotte
C1555242
Wyandotte
Wyandotte
Wyandotte
C44875
Population Group
Attacapa
C1555199
Attacapa
Attacapa
Attacapa
C44876
Population Group
Biloxi
C1555200
Biloxi
Biloxi
Biloxi
C44877
Population Group
Moor
C1555202
Moor
Moor
Moor
C44878
Population Group
Nansemond
C1555203
Nansemond
Nansemond
Nansemond
C44879
Population Group
Natchez
C1555204
Natchez
Natchez
Natchez
C44880
Population Group
Nausu Waiwash
C1555205
Nausu_Waiwash
Nausu Waiwash
Nausu Waiwash
C44881
Population Group
Nipmuc
C1555206
Nipmuc
Nipmuc
Nipmuc
C44882
Population Group
Paugussett
C1555207
Paugussett
Paugussett
Paugussett
C44883
Population Group
Pocomoke Acohonock
C1555208
Pocomoke_Acohonock
Pocomoke Acohonock
Pocomoke Acohonock
C44884
Population Group
Southeastern Indians
C1555209
Southeastern_Indians
Southeastern Indians
Southeastern Indians
C44885
Population Group
Susquehanock
C1555210
Susquehanock
Susquehanock
Susquehanock
C44886
Population Group
Tunica Biloxi
C1555211
Tunica_Biloxi
Tunica Biloxi
Tunica Biloxi
C44887
Population Group
Waccamaw Siousan
C1555212
Waccamaw_Siousan
Waccamaw Siousan
Waccamaw Siousan
C44888
Population Group
Wicomico
C1555213
Wicomico
Wicomico
Wicomico
C44889
Population Group
Eastern Delaware
C1555183
Eastern_Delaware
Eastern Delaware
Eastern Delaware
C44890
Population Group
Lenni Lenape
C1555184
Lenni_Lenape
Lenni Lenape
Lenni Lenape
C44891
Population Group
Munsee
C1555185
Munsee
Munsee
Munsee
C44892
Population Group
Oklahoma Delaware
C1555186
Oklahoma_Delaware
Oklahoma Delaware
Oklahoma Delaware
C44893
Population Group
Rampough Mountain
C1555187
Rampough_Mountain
Rampough Mountain
Rampough Mountain
C44894
Population Group
Sand Hill
C1555188
Sand_Hill
Sand Hill
Sand Hill
C44895
Population Group
Alabama Creek
C1555166
Alabama_Creek
Alabama Creek
Alabama Creek
C44896
Population Group
Alabama Quassarte
C1555167
Alabama_Quassarte
Alabama Quassarte
Alabama Quassarte
C44897
Population Group
Eastern Creek
C1555168
Eastern_Creek
Eastern Creek
Eastern Creek
C44898
Population Group
Eastern Muscogee
C1555169
Eastern_Muscogee
Eastern Muscogee
Eastern Muscogee
C44899
Population Group
Kialegee
C1555170
Kialegee
Kialegee
Kialegee
C44900
Population Group
Lower Muscogee
C1555171
Lower_Muscogee
Lower Muscogee
Lower Muscogee
C44901
Population Group
Machis Lower Creek Indian
C1555172
Machis_Lower_Creek_Indian
Machis Lower Creek Indian
Machis Lower Creek Indian
C44902
Population Group
Poarch Band
C1555173
Poarch_Band
Poarch Band
Poarch Band
C44903
Population Group
Principal Creek Indian Nation
C1555174
Principal_Creek_Indian_Nation
Principal Creek Indian Nation
Principal Creek Indian Nation
C44904
Population Group
Star Clan of Muscogee Creeks
C1555175
Star_Clan_of_Muscogee_Creeks
Star Clan of Muscogee Creeks
Star Clan of Muscogee Creeks
C44905
Population Group
Thlopthlocco
C1555176
Thlopthlocco
Thlopthlocco
Thlopthlocco
C44906
Population Group
Tuckabachee
C1555177
Tuckabachee
Tuckabachee
Tuckabachee
C44907
Population Group
Bad River
C1555119
Bad_River
Bad River
Bad River
C44908
Population Group
Bay Mills Chippewa
C1555120
Bay_Mills_Chippewa
Bay Mills Chippewa
Bay Mills Chippewa
C44909
Population Group
Bois Forte
C1555121
Bois_Forte
Bois Forte
Bois Forte
C44910
Population Group
Burt Lake Chippewa
C1555122
Burt_Lake_Chippewa
Burt Lake Chippewa
Burt Lake Chippewa
C44911
Population Group
Fond du Lac
C1555123
Fond_du_Lac
Fond du Lac
Fond du Lac
C44912
Population Group
Grand Portage
C1555124
Grand_Portage
Grand Portage
Grand Portage
C44913
Population Group
Grand Traverse Band of Ottawa Chippewa
C1555125
Grand_Traverse_Band_of_Ottawa_Chippewa
Grand Traverse Band of Ottawa Chippewa
Grand Traverse Band of Ottawa Chippewa
C44914
Population Group
Keweenaw
C1555126
Keweenaw
Keweenaw
Keweenaw
C44915
Population Group
Lac Courte Oreilles
C1555127
Lac_Courte_Oreilles
Lac Courte Oreilles
Lac Courte Oreilles
C44916
Population Group
Lac du Flambeau
C1555128
Lac_du_Flambeau
Lac du Flambeau
Lac du Flambeau
C44917
Population Group
Lac Vieux Desert Chippewa
C1555129
Lac_Vieux_Desert_Chippewa
Lac Vieux Desert Chippewa
Lac Vieux Desert Chippewa
C44918
Population Group
Lake Superior
C1555130
Lake_Superior
Lake Superior
Lake Superior
C44919
Population Group
Leech Lake
C1555131
Leech_Lake
Leech Lake
Leech Lake
C44920
Population Group
Little Shell Chippewa
C1555132
Little_Shell_Chippewa
Little Shell Chippewa
Little Shell Chippewa
C44921
Population Group
Mille Lacs
C1555133
Mille_Lacs
Mille Lacs
Mille Lacs
C44922
Population Group
Minnesota Chippewa
C1555134
Minnesota_Chippewa
Minnesota Chippewa
Minnesota Chippewa
C44923
Population Group
Ontonagon
C1555135
Ontonagon
Ontonagon
Ontonagon
C44924
Population Group
Red Cliff Chippewa
C1555136
Red_Cliff_Chippewa
Red Cliff Chippewa
Red Cliff Chippewa
C44925
Population Group
Red Lake Chippewa
C1555137
Red_Lake_Chippewa
Red Lake Chippewa
Red Lake Chippewa
C44926
Population Group
Saginaw Chippewa
C1555138
Saginaw_Chippewa
Saginaw Chippewa
Saginaw Chippewa
C44929
Population Group
Sokoagon Chippewa
C1555141
Sokoagon_Chippewa
Sokoagon Chippewa
Sokoagon Chippewa
C44930
Population Group
Turtle Mountain
C1555142
Turtle_Mountain
Turtle Mountain
Turtle Mountain
C44931
Population Group
White Earth
C1555143
White_Earth
White Earth
White Earth
C44932
Population Group
Clatsop
C1555112
Clatsop
Clatsop
Clatsop
C44934
Population Group
Kathlamet
C1555114
Kathlamet
Kathlamet
Kathlamet
C44935
Population Group
Upper Chinook
C1555115
Upper_Chinook
Upper Chinook
Upper Chinook
C44936
Population Group
Wakiakum Chinook
C1555116
Wakiakum_Chinook
Wakiakum Chinook
Wakiakum Chinook
C44937
Population Group
Willapa Chinook
C1555117
Willapa_Chinook
Willapa Chinook
Willapa Chinook
C44938
Population Group
Wishram
C1555118
Wishram
Wishram
Wishram
C44939
Population Group
Cherokee Alabama
C1555094
Cherokee_Alabama
Cherokee Alabama
Cherokee Alabama
C44940
Population Group
Cherokees of Northeast Alabama
C1555095
Cherokees_of_Northeast_Alabama
Cherokees of Northeast Alabama
Cherokees of Northeast Alabama
C44941
Population Group
Cherokees of Southeast Alabama
C1555096
Cherokees_of_Southeast_Alabama
Cherokees of Southeast Alabama
Cherokees of Southeast Alabama
C44942
Population Group
Eastern Cherokee
C1555097
Eastern_Cherokee
Eastern Cherokee
Eastern Cherokee
C44943
Population Group
Echota Cherokee
C1555098
Echota_Cherokee
Echota Cherokee
Echota Cherokee
C44944
Population Group
Etowah Cherokee
C1555099
Etowah_Cherokee
Etowah Cherokee
Etowah Cherokee
C44946
Population Group
Tuscola
C1555101
Tuscola
Tuscola
Tuscola
C44947
Population Group
United Keetowah Band of Cherokee
C1555102
United_Keetowah_Band_of_Cherokee
United Keetowah Band of Cherokee
United Keetowah Band of Cherokee
C44948
Population Group
Western Cherokee
C1555103
Western_Cherokee
Western Cherokee
Western Cherokee
C44949
Population Group
Canadian Indian
C1555084
Canadian_Indian
Canadian Indian
Canadian Indian
C44950
Population Group
Central American Indian
C0021207
The native people of Central America.
Central_American_Indian
CENTRAL AMERICAN INDIAN
Central American Indian
Central American Indian
C44951
Population Group
French American Indian
C1555085
French_American_Indian
French American Indian
French American Indian
C44952
Population Group
Mexican American Indian
C1555086
Mexican_American_Indian
Mexican American Indian
Mexican American Indian
C44953
Population Group
South American Indian
C1610165
The native people of South America.
South_American_Indian
SOUTH AMERICAN INDIAN
South American Indian
South American Indian
C44954
Population Group
Spanish American Indian
C1555087
Spanish_American_Indian
Spanish American Indian
Spanish American Indian
C45170
Population Group
Aleut
C0085766
Aleut
Aleut
Aleut
C45218
Population Group
Columbia River Chinook
C1555113
Columbia_River_Chinook
Columbia River Chinook
Columbia River Chinook
C45220
Population Group
Northern Cherokee
C1555100
Northern_Cherokee
Northern Cherokee
Northern Cherokee
C45221
Population Group
Platinum Eskimo
C1553253
Platinum_Eskimo
Platinum
Platinum Eskimo
Platinum Eskimo
C45222
Population Group
Deleware Indian
C1707669
Deleware_Indian
Deleware
Deleware Indian
Deleware Indian
C45223
Population Group
Sault Ste. Marie Chippewa
C1555140
Sault_Ste_Marie_Chippewa
Sault Ste. Marie Chippewa
Sault Ste. Marie Chippewa
C45224
Population Group
St. Croix Chippewa
C1555139
St_Croix_Chippewa
St. Croix Chippewa
St. Croix Chippewa
C45225
Population Group
St. George
C1553316
St_George
St. George
St. George
C45226
Population Group
St. Paul
C1553317
St_Paul
St. Paul
St. Paul
C45227
Population Group
St. Mary's
C1553269
St_Marys
St. Mary's
St. Mary's
C45228
Population Group
St. Michael
C1553257
St_Michael
St. Michael
St. Michael
C45229
Population Group
Yavapai
C1551696
Yavapai
Yavapai
Yavapai
The mean pressure of the blood within the arterial circulation. The arterial pressure may be directly measured by insertion of an intra-arterial catheter connected to a transducer. The mean arterial pressure (MAP) can be calculated by subsequent analysis of the waveform. MAP can be approximated without an invasive procedure using the following formula: diastolic pressure plus 1/3 of the pulse pressure, where pulse pressure is systolic pressure - diastolic pressure.
C49679
Quantitative Concept
Mean Arterial Pressure
C0428886
CDISC
NCPDP
The mean pressure of the blood within the arterial circulation. The arterial pressure may be directly measured by insertion of an intra-arterial catheter connected to a transducer. The mean arterial pressure (MAP) can be calculated by subsequent analysis of the waveform. MAP can be approximated without an invasive procedure using the following formula: diastolic pressure plus 1/3 of the pulse pressure, where pulse pressure is systolic pressure - diastolic pressure. (NCI)
Mean_Arterial_Pressure
MAP
Mean Arterial Pressure
Mean Arterial Pressure
The pressure of the circulating blood against the walls of the blood vessels.
C54706
Clinical Attribute
Blood Pressure
C0005823
NICHD
The force of circulating blood on the walls of the arteries. Blood pressure is taken using two measurements: systolic (measured when the heart beats, when blood pressure is at its highest) and diastolic (measured between heart beats, when blood pressure is at its lowest). Blood pressure is written with the systolic blood pressure first, followed by the diastolic blood pressure (for example 120/80).
Blood_Pressure
Blood Pressure
BP
Blood Pressure
blood pressure
Blood Pressure
A person who was not smoking at the time of the interview and has smoked less than 100 cigarettes in their life.
C65108
Organism Attribute
Never Smoker
Never Smoker
C0425293
CTRP
Never_Smoker
Never Smoked
Never Smoker
Non-Smoker
Never Smoker
Having ancestors of several or various races.
C67109
Population Group
Multiracial
C1881928
Multiracial
Multiracial
Multiracial
A person living in the United States of Mexican, Puerto Rican, Cuban, Central or South American, or other Spanish culture or origin. The concept does not include Brazilian Americans or Portuguese Americans.
C67111
Population Group
Multiple Hispanic
C1881927
Multiple_Hispanic
Multiple Hispanic
Multiple Hispanic
A person of Puerto Rican culture or origin, regardless of race.
C67112
Population Group
Puerto Rican
C0034043
FDA
A person of Puerto Rican descent.
Puerto_Rican
PUERTO RICAN
Puerto Rican
Puertorican
Puerto Rican
Denotes a person from or of Mexico.
C67113
Population Group
Mexican
C0240339
A person of Mexican descent.
Mexican
MEXICAN
Mexican
Mexican
Denotes an american citizen of Mexican descent.
C67114
Population Group
Mexican American
C0025884
A person of Mexican and American descent.
Mexican_American
MEXICAN AMERICAN
Mexican American
Mexican American
Denotes a person from or of Cuba or an American citizen of Cuban descent.
C67115
Population Group
Cuban or Cuban American
C0010436
A person of Cuban and American descent.
Cuban_or_Cuban_American
CUBAN AMERICAN
Cuban or Cuban American
Cuban or Cuban American
Denotes the inhabitants of the Dominican Republic, a person from there, or their descendants elsewhere.
C67117
Population Group
Dominican
CL388698
A person having origins in any of the original peoples of the Dominican Republic.
Dominican_Republican
DOMINICAN
Dominican
Dominican
Denotes a person from the area between north and south America including persons from Belize, Costa Rica, El Salvador, Guatemala, Honduras, Nicaragua, Panama, and the Panama Canal zone.
C67118
Population Group
Central American
C0238914
A person of Central American descent.
Cental_American
CENTRAL AMERICAN
Central American
Central American
Denotes a person from Spain or of Spanish descent.
C67120
Population Group
Spanish
C3161473
A person from Spain or of Spanish descent.
Spanish
SPANISH
Spanish
Spanish
Indicates a person who has smoked at least 100 cigarettes in his or her lifetime and who currently smokes every day.
C67145
Organism Attribute
Current Every Day Smoker
C3266136
Current_Every_Day_Smoker
Current Every Day Smoker
Daily Smoker
Every Day Smoker
Current Every Day Smoker
Indicates a person who has smoked at least 100 cigarettes in his or her lifetime, who smokes now, but does not smoke every day.
C67146
Organism Attribute
Current Some Day Smoker
C1880200
Current_Some_Day_Smoker
Chipper
Current Some Day Smoker
Non-Daily Smoker
Occasional Smoker
Some Day Smoker
Current Some Day Smoker
An adult who has smoked 100 cigarettes in his or her lifetime and who currently smokes cigarettes. Includes daily smokers and non-daily smokers (also known as occasional smokers).
C67147
Organism Attribute
Current Smoker
Current Smoker
C3241966
CTRP
Current_Smoker
Current Smoker
Smoker
Current Smoker
A person who was not smoking at the time of the interview but has smoked at least 100 cigarettes in their life.
C67148
Organism Attribute
Former Smoker
Former Smoker
C0337671
CTRP
Former_Smoker
Former Smoker
Prior Smoker
Former Smoker
Indicates a person who is known to have smoked but whose current smoking status is unknown.
C67150
Organism Attribute
Smoker, Current Status Unknown
C1883049
Smoker_Current_Status_Unknown
Smoker, Current Status Unknown
Smoker, Current Status Unknown
Indicates that a person's smoking status is unknown.
C67151
Organism Attribute
Unknown If Ever Smoked
C1883465
Unknown_If_Ever_Smoked
Unknown If Ever Smoked
Unknown If Ever Smoked
Denotes the inhabitants of the Bahamas, a person from there, or their descendants elsewhere.
C67271
Population Group
Bahamian
C1553336
A person having origins in any of the original peoples of the Bahamas.
Bahamian
BAHAMIAN
Bahamian
Bahamian
A person who inhales or has inhaled combustible products of organic material during their lifetime.
C68751
Organism Attribute
Smoker
C0337664
Smoker
Smoker
Smoker
The age of a person at the start of a specific event.
C69217
Organism Attribute
Age Started
C2348002
The age of a patient on the first occurrence of an event, such as the first use of a medication.
Age_Started
Age Started
Age Started
The age of a person who is the subject in a study.
C69260
Organism Attribute
Subject Age
C2348575
Age of patient who is the subject of observations.
Subject_Age
Subject Age
Subject Age
A demographic parameter indicating the amount of earnings made by a family.
C70811
Quantitative Concept
Household Income
C0557163
Household_Income
Household Income
Household Income
The first weight of a newborn obtained after birth.
C76325
Quantitative Concept
Birth Weight
C0005612
NICHD
A measured weight of a newborn obtained immediately or shortly after birth.
Birth_Weight_New
Birth Weight
Birth Weight
Birth Weight (NCIT)
Denotes a person having origins in one of the indigenous people of South or Central America such as Mayans or Incas.
C77809
Population Group
South or Central American Indian
C2699496
South_or_Central_American_Indian
South or Central American Indian
South or Central American Indian
Denotes a person having origins in one of the indigenous people of the Caribbean.
C77810
Population Group
Caribbean Indian
C2698999
The native people of the Caribbean.
Caribbean_Indian
CARIBBEAN INDIAN
Caribbean Indian
Caribbean Indian
Denotes a person having origins in any of the countries abutting the Mediterranean Sea, principally those of Europe.
C77811
Population Group
Mediterranean
C0240321
A person having origins in any of the original peoples of the countries surrounding the Mediterranean sea.
Mediterranean
MEDITERRANEAN
Mediterranean
Mediterranean
Denotes a person of European, Middle Eastern, or North African ancestral origins whose family settled in a North American country such as the United States of America or Canada.
C77812
Population Group
North American
C0425358
North_American
North American
North American
Denotes a person having origins in a northern country of Africa such as Egypt, Sudan, Libya, Algeria, Morocco, or Tunisia.
C77813
Population Group
North Coast of Africa
C2698500
A person having origins in any of the original peoples of North Africa.
North_Coast_of_Africa_Origin
NORTH AFRICAN
North Coast of Africa
North Coast of Africa Origin
North Coast of Africa
Denotes a person having origins in any of the countries of northern Europe such as Belgium, Denmark, Austria, Switzerland, Norway, Sweden, or Great Britain.
C77814
Population Group
Northern European
C0239310
A person having origins in any of the original peoples of Northern Europe.
Northern_European
NORTHERN EUROPEAN
Northern European
Northern European
Denotes a person having origins in any of the black racial groups of Africa whose family settled in a South or Central American country such as Argentina, Brazil, or Mexico.
C77815
Population Group
Black South or Central American
C2698522
Black_South_or_Central_American
Black South or Central American
Black South or Central American
Denotes a person with European, Middle Eastern, or North African ancestral origin whose family settled in the Caribbean region.
C77816
Population Group
White Caribbean
C2700273
A person having origins in the original peoples of Europe, the Middle East, or North Africa, and the Caribbean.
White_Caribbean
WHITE CARIBBEAN
White Caribbean
White Caribbean
Denotes a person having origins in any of the countries of Western Europe such as Spain, Portugal, or France.
C77817
Population Group
Western European
C0239312
A person having origins in any of the original peoples of Western Europe.
Western_European
WESTERN EUROPEAN
Western European
Western European
Denotes a person of European ancestral origins whose family settled in a South or Central American country such as Argentina, Brazil, or Mexico.
C77818
Population Group
White South or Central American
C2700274
White_South_or_Central_American
White South or Central American
White South or Central American
Denotes a person having origins in any of the countries of Eastern Europe such as Czechoslovakia, Poland, Croatia, Hungary, Slovenia, Former Soviet Union, or Finland. It also includes persons who call themselves Gypsies from this region.
C77819
Population Group
Eastern European
C0239309
A person having origins in any of the original peoples of Eastern Europe.
Eastern_European
EASTERN EUROPEAN
Eastern European
Eastern European
Denotes a person having origins in the region of southwest Asia, between the India subcontinent and Europe, including Kuwait, Turkey, Lebanon, Israel, Iraq, Iran, Jordan, Saudi Arabia, lands east of Pakistan or the other countries of the Arabian Peninsula. Also includes people of Jewish ethnicity including Sephardic and Ashkenazic.
C77820
Population Group
Middle Eastern
C2698217
A person having origins in any of the original peoples of the Middle East.
Middle_Eastern
MIDDLE EASTERN
Middle Eastern
Middle Eastern
The weight of a subject.
C81328
Conceptual Entity
Body Weight
C0005910
CDISC
NCPDP
NICHD
The weight of a subject. (NCI)
Weight_of_Body
Body Weight
BW
Body Weight
Body Weight
A person's total income before taxes, exclusions, and deductions.
C85406
Group Attribute
Gross Income
C2827632
Gross Income
Gross Income
A general term for a group of culturally similar indigenous peoples inhabiting the Arctic regions of Canada, Greenland, Russia and the United States. In Alaska, the term Eskimo is commonly used, because it includes both Yupik and Inupiat, while Inuit is not accepted as a collective term. In Canada and Greenland, the term Eskimo has fallen out of favor, as it is considered pejorative by the natives and has been replaced by the term Inuit.
C86558
Population Group
Inuit
C0086484
Inuit
Inuit
The systolic and diastolic blood pressure of the newborn upon examination; the normal range of the systolic blood pressure is 60 - 90, while the normal range of the diastolic blood pressure is 20-60.
C87105
Clinical Attribute
Newborn Blood Pressure
C2828171
NICHD
Newborn Blood Pressure
Newborn Blood Pressure
Newborn Blood Pressure
The weight of a subject at a specified end point.
C90464
Quantitative Concept
Terminal Body Weight
C2983672
CDISC
The weight of a subject at a specified end point. (NCI)
TERMBW
Terminal Body Weight
Terminal Body Weight
The height of a person while standing.
C94488
Conceptual Entity
Stature
C0424639
The height of a person while standing.
Stature
stature
Stature
standing height
a pathological bodily process that occurs after a medical intervention. An adverse event is likely caused by the medical intervention; however, such a causal association is not required to be an adverse event.
Melanie Courtot and YH: More work is needed on how to restrict the scope of a term to be an 'adverse event', notably regarding temporal association. When is an appropirate time interval between a medical intervention and an adverse event observed? One week, one month, one year, or a lifetime? For some well-studied medical interventions (e.g., administration of many vaccines or drugs), we probably have a general idea. For many new interventions, we don't know much. In OAE, this issue is associated with defining the 'adverse event incubation time'.
YH: An adverse event is a process that has specified output of some adverse medical outcome (e.g., symptom, sign or accident) after a medical intervention (or process) (e.g., administration of drug or vaccine). The medical intervention can be an administration of a drug, a vaccine (i.e., vaccination), or a special nutritional product (for example, dietary supplement, infant formula, medical food), surgery, or usage of a medical device.
YH: An adverse event is possibly induced by the medical intervention. It can be caused by the medical intervention, or may not be caused by the medical intervention. One ultimate goal (or the goal in clinics) of study adverse events is to assess if the adverse event outcome is due to the medical intervention.
YH: In development of OAE, we initially use vaccine adverse event as our use case. A vaccine adverse event is associated with a vaccination (i.e. a medical intervention), regardless of whether it is considered vaccine-related, and includes any side effect, injury, toxicity, or sensitivity reaction or significant failure of immunization (i.e., a pharmacologic action).
Ref: Baylor NW and Midthum K. Regulation and testing of vaccines. In: Vaccines (Editors: Plotkin S, Orenstein W, and Offit P). 2008. p1623.
YH: The current term 'adverse event' is different from the term definition shown in our paper: He Y, Xiang Z, Sarntivijai S, Toldo L, Ceusters W. OAE: a realism-based biomedical ontology for the representation of adverse events. Adverse Event Representation Workshop, International Conference on Biomedical Ontologies (ICBO), University at Buffalo, NY, July 26-30, 2011. Full lenghth conference proceeding paper.
We made the name changing in order to make OAE cover the broader sense of the 'adverse event' which does not assume definite causal effect between an adverse event and a medical intervention. In current definition, the adverse event emphasizes the time association and assumes a likelihood of such a causal association. This term 'adverse event' is stil under the OGMS:pathological bodily process.
The 'adverse event' defined in the above paper has now been changed to a new term: 'causal adverse event'. See more information in the new publication: Yongqun He Y, Sirarat Sarntivijai, Yu Lin, Zuoshuang Xiang, Abra Guo, Shelley Zhang, Desikan Jagannathan, Luca Toldo, Cui Tao and Barry Smith. OAE: The Ontology of Adverse Events. Journal of Biomedical Semantics. 2014, 5:29 doi:10.1186/2041-1480-5-29. PMID: 25093068.PMCID: PMC4120740.
YH: The main scope of OAE includes: (1) represent terms and relations in the area of adverse events, (2) assess possible associations between an adverse event and a medical intervention, particularly, identify any causal effect of a medical intervention to an adverse event; and (2) understand the mechanism (including molecular mechanisms) of causal adverse events.
YH: There has been discussion regarding whether the term 'side effect' is an alternative term for 'adverse event'. In AERO, the term 'AERO:adverse event' represents a subset of those adverse events for which causality has been established. In OAE, an adverse event for which causality has been established is called 'causal adverse event'.
Yongqun He
AE
adverse reaction
WEB: http://en.wikipedia.org/wiki/Adverse_event
WEB: http://www.fda.gov/Safety/MedWatch/HowToReport/ucm053087.htm
WEB: http://www.ncbi.nlm.nih.gov/pubmed/25093068
The OAE official website is: http://www.oae-ontology.org/.
adverse event
medical intervention is a planned process that has the goal of diagnosing, preventing or relieving illness or injury.
The act of intervening, interfering or interceding with the intent of modifying the outcome. In medicine, an intervention is usually undertaken to help treat or cure a condition. For example, "Acupuncture as a therapeutic intervention is widely practiced in the United States,"
Reference:
http://www.medterms.com/script/main/art.asp?articlekey=34214 . Some interventions can be used for diagnosis.
YH
WEB: http://wiki.answers.com/Q/What_is_medical_intervention
medical intervention
a medical intervention where a patient is administered with a drug
YH
drug administration
an adverse event that has an outcome of abnormal sign in a musculoskeletal or connective tissue.
YH, RR, JX
musculoskeletal and connective tissue disorder AE
WEB: http://www.cdc.gov/niosh/programs/msd/
10028395
A musculoskeletal disorder is an injury or disorder of the muscles, nerves, tendons, joints, cartilage, or supporting structures of the upper or lower limbs, neck, or lower back that are caused, precipitated, or exacerbated by sudden exertion or prolonged exposure to physical factors such as repetition, force, vibration, or awkward posture
musculoskeletal or connective tissue AE
CTCAE: E13872
an adverse event that shows a complication that occurs after a medical procedure and is directly related to the precedure itself.
SS, YH
post-procedural AE
procedural disorder AE
procedure AE
procedural complication AE
a procedure complication AE that occurs after a surgery.
YH
surgery adverse event
surgical procedure AE
The key difference between a surgery and a procedure is the need for an incision. Making an incision, or cutting into the skin to gain access to the body’s deeper tissues or organs, is a defining characteristic of surgery. Technically speaking, a surgery is a specific type of procedure. A procedure is a broad general term that refers to any series of pre-defined steps that should be followed to achieve a desired result. Therefore, a “surgical procedure” is synonymous with a “surgery.” See more: http://www.wisegeekhealth.com/what-is-the-difference-between-a-surgery-and-a-procedure.htm.
surgery AE
Surgery is a medical procedure that uses operative manual and instrumental techniques on a patient to investigate and/or treat a pathological condition such as disease or injury, to help improve bodily function or appearance. The key difference between a surgery and a general procedure is the need for an incision. Making an incision, or cutting into the skin to gain access to the body’s deeper tissues or organs, is a defining characteristic of surgery.
YH, SS
surgical procedure
WEB: http://en.wikipedia.org/wiki/Surgery
WEB: http://www.wisegeekhealth.com/what-is-the-difference-between-a-surgery-and-a-procedure.htm
10042609
surgery
a musculoskeletal and connective tissue AE that displays an outcome of fistula, a permanent abnormal passageway between two organs in the body or between an organ and the exterior of the body.
WEB: http://medical-dictionary.thefreedictionary.com/fistula
10067143
YH, SS
fistula AE
HPO: HP_0010294
SIDER: C0016169
a serious AE that is due to an allergic brochospasm, which causes a serious problem with breathing and requires treatment in an emergency room.
YH, JX
URL: http://www.fda.gov/Safety/MedWatch/HowToReport/ucm053087.htm
URL: https://en.wikipedia.org/wiki/Bronchospasm
allergic brochospasm AE that requires treatment in emergency
a sensory capability AE that has an outcome of pain in a patient
YH, MW
10033371
pain AE
CTCAE: E11167
HPO: HP_0010833
NCIt: C3303
SIDER: C0030193
a sudden death AE that occurs to an infant.
According to the Vaccine Adverse Event Reporting System (VAERS), 'sudden infant death' is an adverse event that was mentioned in 808 VAERS reports (0.6%) during1991-2001 (Reference: PMID: 12825543).
YH
sudden infant death AE
an AE that occurs in cardiovascular system.
YH
cardiovascular disorder AE
10007649
cardiovascular AE
HPO: HP_0001626
SIDER: C0007222
an adverse event that has an outcome of an abnormal behavior and neurological phenotype.
YH, JX
behavior AE
behavioral AE
behavioral disorder AE
disruptive behavioral disorder AE
WEB: http://www.psychguides.com/guides/behavioral-disorder-symptoms-causes-and-effects/
any anomaly in the actions, reactions, or performance of an organism in response to external or internal stimuli compared to controls
behavioral and neurological AE
MP: MP_0004924
a behavior and neurological AE that has an outcome of inability or altered ability to respond to a sensory stimulus
sensory capability AE
MP: MP_0002067
a urinary system AE that results in the presence of blood in the urine
YH, SJ, MW
UMLS CUI: C0018965 (hematuria AND haematuria); UMLS CUI: C0947999 (blood urine presence)
blood urine
blood urine presence
haematuria AE
WEB: http://kidney.niddk.nih.gov/kudiseases/pubs/hematuria/
10018867
10018870
10019450
hematuria
Hematuria AE can be caused by menstruation, vigorous exercise, sexual activity, viral illness, trauma, or infection, such as a urinary tract infection (UTI), along with more serious disorders such as cancer, disease, and clotting.
hematuria AE
CTCAE: E13000
MP: MP_0005161
NCIt: C3090
an adverse event that has an outcome of urinary system AE is a functional anomaly of any of the organs involved in the production or excretion of urine
YH
urinary system AE
MP: MP_0005502
serious adverse event is an adverse event that requires in-patient hospitalization, or prolongation of existing hospitalization, or that causes congenital malformation, or that results in persistent or significant disability or incapacity, or that is life threatening or results in death.
YH, MC
serious adverse event
severe adverse event
WEB: http://en.wikipedia.org/wiki/Serious_adverse_event
WEB: http://www.fda.gov/Safety/MedWatch/HowToReport/ucm053087.htm
WEB: http://www.google.ca/url?sa=t&source=web&ct=res&cd=1&ved=0CA4QFjAA&url=http%3A%2F%2Fwww.irrd.ca%2Fethics%2Fimages%2FAdverse-event-definition.doc&ei=eqFMS-yFNZSoswOt6siKAQ&usg=AFQjCNGnQcwI8OXH7dqxwo4RgZEEn8X6lg&sig2=UNngkCdO5ZTFvbIB1pKuaA
serious adverse event
a serious adverse event that has an outcome of death.
YH
WEB: http://www.fda.gov/Safety/MedWatch/HowToReport/ucm053087.htm
10011906
10011914
death
death AE
CTCAE: E11080
HPO: HP_0001645
NCIt: C28554
SIDER: C1306577
a serious AE that is suspected to put the patient at substantial risk of dying at the time of the adverse event, or that the use or continued use of the device or other medical product might have resulted in the death of the patient.
DJ, SS, YH, JX
apparent life threatening event AE
WEB: http://www.fda.gov/Safety/MedWatch/HowToReport/ucm053087.htm
10065044
life-threating AE
a serious adverse event that leads to hospitalization. Such an adverse event resulted in an admission to the hospital or prolongation of hospitalization.
YH, JX
adverse event leading to hospitalization
WEB: http://www.fda.gov/Safety/MedWatch/HowToReport/ucm053087.htm
hospitalization AE
a serious adverse event that leads to disability or permanent damage. Such an adverse event results in a substantial disruption of a person's ability to conduct normal life functions, i.e., the adverse event resulted in a significant, persistent or permanent change, impairment, damage or disruption in the patient's body function/structure, physical activities and/or quality of life.
YH, JX
adverse event leading to disability
WEB: http://www.fda.gov/Safety/MedWatch/HowToReport/ucm053087.htm
disability or permanent damage AE
a serious adverse event that resulted in congenital anomaly and bith defect, leading to suspicions that an exposure to a medical product prior to conception or during pregnancy resulted in an adverse outcome in the child.
YH, JX
adverse event leading to congenital anomaly
WEB: http://www.fda.gov/Safety/MedWatch/HowToReport/ucm053087.htm
WEB: http://www.thefreedictionary.com/birth+defect
10010356
congenital anomaly or birth defect AE
a serious adverse event which is an adverse event that requires intervention to prevent permanent impairment or damage leads to suspicions that the use of a medical product may result in a condition which requires a medical or surgical intervention to preclude permanent impairment or damage to a patient.
YH, JX
WEB: http://www.fda.gov/Safety/MedWatch/HowToReport/ucm053087.htm
adverse event that requires intervention to prevent permanent impairment or damage
an cardiovascular adverse event that is a collection of blood outside the blood vessels, generally the result of hemorrhage, or more specifically, internal bleeding. It is commonly called a bruise.
YH: MedDRA ID: 10018852 is for "haematoma"; MedDRA ID: 10019428 is for "hematoma".
SS, YH
bruise AE
bruising AE
ecchymoses AE
haematoma AE
WEB: http://en.wikipedia.org/wiki/Hematoma
10006504
10018852
10019428
hematoma AE
CTCAE: E13775 (hematoma); CTCAE: E11666 (brruising)
HPO: HP_0001892
NCIt: C37921 (Bruising); NCIt: C50579 (Hematoma)
SIDER: C0018944
an adverse event that has an outcome of disease in the biological tissue that supports, binds together and protects organs
DJ, SS, YH
WEB: http://medical-dictionary.thefreedictionary.com/connective+tissue+disease
10061087
connective tissue disorder AE
HPO: HP_0003549
SIDER: C0009782
a connective tissue disorder AE that occurs in the non-skeletal tissue, usually subcutaneous and muscle tissue
SZ, SS, YH
WEB: http://www.reference.md/files/D018/mD018461.html
10062255
soft tissue infection
soft tissue infection AE
CTCAE: E11579
HPO: HP_0002719
NCIt: C79745
SIDER: C0149778
a death AE that has an outcome of unexpected death, 1 to 24 hours after the onset of symptoms
SZ, SS, YH
WEB: http://medical-dictionary.thefreedictionary.com/sudden+death
10042434
10042435
sudden death AE
CTCAE: E11171
HPO: HP_0001645
NCIt: C50911
SIDER: C0011071
a process quality that represents the level of severity of an adverse event.
YH, SS
AE severity
severity of adverse event
a severity of AE that shows sign and symptom within normal limits.
YH, SS
AE severity Grade 0
Web: http://ncicb.nci.nih.gov/xml/owl/EVS/ctcae.owl#Grade_0_Adverse_Event
Note the AE severity Grade 0 equals to CTCAE G0 AE severity.
AE severity G0
CTCAE4: E10004 (Grade 0 Adverse Event)
a severity of AE that shows asymptomatic, or involves mild or minor symptoms, or is of marginal clinical relevance, or consists of clinical or diagnostic observations alone, or where intervention is not indicated, or where only non-prescription intervention is indicated.
YH, SS
AE severity Grade 1
Web: http://ncicb.nci.nih.gov/xml/owl/EVS/ctcae.owl#Grade_1_Adverse_Event
Note the AE severity Grade 1 equals to CTCAE G1 AE severity.
AE severity G1
CTCAE4: E10005 (Grade 1 Adverse Event)
a severity of AE for which only minimal, local, or noninvasive intervention (e.g. packing, cautery) is indicated, or that limits instrumental activities of daily living (ADLs, e.g., shopping, laundry, transportation, or ability to conduct finances).
YH, SS
AE severity Grade 2
Web: http://ncicb.nci.nih.gov/xml/owl/EVS/ctcae.owl#Grade_2_Adverse_Event
Note the AE severity Grade 2 equals to CTCAE G2 AE severity.
AE severity G2
CTCAE4: E10006 (Grade 2 Adverse Event)
a severity of AE that shows an outcome which is medically significant but not life-threatening; or for which inpatient care or prolongation of hospitalization are indicated; or that is an important medical event that does not result in hospitalization, but may jeopardize the patient or may require intervention either to prevent hospitalization, to prevent the AE from becoming life-threatening or causing death; or that is disabling; or that results in persistent or significant disability, incapacity, or limitation of self care activities of daily living (ADLs, getting in and out of bed, dressing, eating, getting around inside, bathing, or using the toilet).
YH, SS
AE severity Grade 3
Web: http://ncicb.nci.nih.gov/xml/owl/EVS/ctcae.owl#Grade_3_Adverse_Event
Note the AE severity Grade 3 equals to CTCAE G3 AE severity.
AE severity G3
CTCAE4: E10007 (Grade 3 Adverse Event)
a severity of AE that has life-threatening consequences, for which urgent intervention is indicated, that puts the patient is at risk of death at the time of the event if immediate intervention is not undertaken, or that causes blindness or deafness (need to decide if unilateral or bilateral).
YH, SS
AE severity Grade 4
Web: http://ncicb.nci.nih.gov/xml/owl/EVS/ctcae.owl#Grade_4_Adverse_Event
Note the AE severity Grade 4 equals to CTCAE G4 AE severity.
AE severity G4
CTCAE4: E10008 (Grade 4 Adverse Event)
a severity of AE that results in death.
YH, SS
AE severity Grade 5
Web: http://ncicb.nci.nih.gov/xml/owl/EVS/ctcae.owl#Grade_5_Adverse_Event
Note the AE severity Grade 5 equals to CTCAE G5 AE severity.
AE severity G5
CTCAE4: E10009 (Grade 5 Adverse Event)
a hospitalization AE that leads to an intial hospitalization.
YH, JX
WEB: http://www.fda.gov/Safety/MedWatch/HowToReport/ucm053087.htm
initial hospitalization AE
a hospitalization AE that leads to a prolonged hospitalization.
YH, JX
WEB: http://www.fda.gov/Safety/MedWatch/HowToReport/ucm053087.htm
prolonged hospitalization AE
an adverse event that shows a result of injury or procedural complication.
JX, YH
injury and procedural complication AE
injury or procedural complication AE
a pain AE that has marked discomfort sensation on the lateral side of the body in the region below the ribs and above the hip.
MW, YH
10016750
flank pain
flank pain AE
CTCAE: E12414
NCIt: C34615
a death AE that has death in utero; failure of the product of conception to show evidence of respiration, heartbeat, or definite movement of a voluntary muscle after expulsion from the uterus, without possibility of resuscitation.
MW, YH
10016479
fetal death AE
CTCAE: E12855
NCIt: C50620
a medical intervention that refers to any series of pre-defined steps that should be followed to achieve a desired result.
YH, SS
WEB: http://www.wisegeekhealth.com/what-is-the-difference-between-a-surgery-and-a-procedure.htm
medical procedure
YH, JX
a behavioral quality where the behavior in an organism is abnormal.
WEB: https://en.wikipedia.org/wiki/Abnormality_(behavior)
behavior abnormal quality
a death AE that has cessation of life occurring during the first 28 days of life.
MW, YH
10011912
death neonatal AE
CTCAE: E11078
NCIt: C80082
An adverse event of hematoma in the subcapsular space of the kidney. This event occurs after a medical intervention, and may be caused by a tumor, trauma, vasculitis, renal infarction, or other disease process.
YH, EO
https://medical-dictionary.thefreedictionary.com/subcapsular+hematoma
subcapsular hematoma
subcapsular hematoma AE
An adverse event of hematoma occurring around the kidney.
YH, EO
perinephric hematoma
perinephric hematoma AE
YH, EO
arteriovenous fistulae
arteriovenous fistula
arteriovenous fistula AE
An adverse event of surgery that leads to the puncturing of an adjacent organ. For example, a needle to the kidney may puncture the adjacent organs.
Jennifer Schaub, Oliver He
puncturing of adjacent organs
https://www.ncbi.nlm.nih.gov/books/NBK493205/
puncturing of adjacent organ AE
A date of specimen collection for the first collection of blood from a donor.
Person: Chris Stoeckert, Helena Ellis, Jie Zheng
OBIB
NCI BBRB
first blood draw date
A date of specimen collection for the first collection of a tissue from a donor.
Person: Chris Stoeckert, Helena Ellis, Jie Zheng
OBIB
NCI BBRB
first tissue removed date
A date of specimen collection on which the surgery was performed during which the specimen was collected.
Person: Chris Stoeckert, Helena Ellis, Jie Zheng
NCI BBRB, OBIB
NCI BBRB
date of surgical removal of specimen
A data item that indicates the time when the collection of a specimen occurred.
Alice Nzinga
Mathias Brochhausen
date of specimen preparation
It is denoted by Date in ISO-standard (8601) time format.
date of specimen collection
planned process
planned process
Injecting mice with a vaccine in order to test its efficacy
A process that realizes a plan which is the concretization of a plan specification.
A processual entity that realizes a plan which is the concretization of a plan specification.
'Plan' includes a future direction sense. That can be problematic if plans are changed during their execution. There are however implicit contingencies for protocols that an agent has in his mind that can be considered part of the plan, even if the agent didn't have them in mind before. Therefore, a planned process can diverge from what the agent would have said the plan was before executing it, by adjusting to problems encountered during execution (e.g. choosing another reagent with equivalent properties, if the originally planned one has run out.)
We are only considering successfully completed planned processes. A plan may be modified, and details added during execution. For a given planned process, the associated realized plan specification is the one encompassing all changes made during execution. This means that all processes in which an agent acts towards achieving some
objectives is a planned process.
Bjoern Peters
branch derived
6/11/9: Edited at workshop. Used to include: is initiated by an agent
This class merges the previously separated objective driven process and planned process, as they the separation proved hard to maintain. (1/22/09, branch call)
http://purl.obolibrary.org/obo/obi.owl
planned process
planned process
clinical research coordinator role
a worker role comprised of handling the administrative duties of a trial or study.
Person:Jennifer Fostel
clinical research coordinator
clinical research coordinator role
processed material
Examples include gel matrices, filter paper, parafilm and buffer solutions, mass spectrometer, tissue samples
Is a material entity that is created or changed during material processing.
PERSON: Alan Ruttenberg
processed material
investigation
Lung cancer investigation using expression profiling, a stem cell transplant investigation, biobanking is not an investigation, though it may be part of an investigation
a planned process that consists of parts: planning, study design execution, documentation and which produce conclusion(s).
Bjoern Peters
OBI branch derived
Could add specific objective specification
Following OBI call November 2012,26th: it was decided there was no need for adding "achieves objective of drawing conclusion" as existing relations were providing equivalent ability. this note closes the issue and validates the class definition to be part of the OBI core
editor = PRS
study
investigation
evaluant role
When a specimen of blood is assayed for glucose concentration, the blood has the evaluant role. When measuring the mass of a mouse, the evaluant is the mouse. When measuring the time of DNA replication, the evaluant is the DNA. When measuring the intensity of light on a surface, the evaluant is the light source.
a role that inheres in a material entity that is realized in an assay in which data is generated about the bearer of the evaluant role
Role call - 17nov-08: JF and MC think an evaluant role is always specified input of a process. Even in the case where we have an assay taking blood as evaluant and outputting blood, the blood is not the specified output at the end of the assay (the concentration of glucose in the blood is)
examples of features that could be described in an evaluant: quality.... e.g. "contains 10 pg/ml IL2", or "no glucose detected")
GROUP: Role Branch
OBI
Feb 10, 2009. changes after discussion at OBI Consortium Workshop Feb 2-6, 2009. accepted as core term.
evaluant role
assay
Assay the wavelength of light emitted by excited Neon atoms. Count of geese flying over a house.
A planned process with the objective to produce information about the material entity that is the evaluant, by physically examining it or its proxies.
12/3/12: BP: the reference to the 'physical examination' is included to point out that a prediction is not an assay, as that does not require physical examiniation.
PlanAndPlannedProcess Branch
measuring
scientific observation
OBI branch derived
study assay
any method
assay
sample preparation for assay
A sample_preparation_for_assay is a protocol_application including material_enrollments and biomaterial_transformations. definition_source: OBI.
PlanAndPlannedProcess Branch
study
OBI branch derived
sample preparation for assay
diagnosis textual entity
diagnosis is an assessment of a disease or injury, its likely prognosis and treatment.
Jennifer Fostel
diagnosis textual entity
culture medium
A growth medium or culture medium is a substance in which microorganisms or cells can grow. Wikipedia, growth medium, Feb 29, 2008
a processed material that provides the needed nourishment for microorganisms or cells grown in vitro.
changed from a role to a processed material based on on Aug 22, 2011 dev call. Details see the tracker item: http://sourceforge.net/tracker/?func=detail&aid=3325270&group_id=177891&atid=886178
Modification made by JZ.
Person: Jennifer Fostel, Jie Zheng
OBI
culture medium
reagent role
Buffer, dye, a catalyst, a solvating agent.
A role inhering in a biological or chemical entity that is intended to be applied in a scientific technique to participate (or have molecular components that participate) in a chemical reaction that facilitates the generation of data about some entity distinct from the bearer, or the generation of some specified material output distinct from the bearer.
PERSON:Matthew Brush
reagent
PERSON:Matthew Brush
Feb 10, 2009. changes after discussion at OBI Consortium Workshop Feb 2-6, 2009. accepted as core term.
May 28 2013. Updated definition taken from ReO based on discussions initiated in Philly 2011 workshop. Former defnition described a narrower view of reagents in chemistry that restricts bearers of the role to be chemical entities ("a role played by a molecular entity used to produce a chemical reaction to detect, measure, or produce other substances"). Updated definition allows for broader view of reagents in the domain of biomedical research to include larger materials that have parts that participate chemically in a molecular reaction or interaction.
(copied from ReO)
Reagents are distinguished from instruments or devices that also participate in scientific techniques by the fact that reagents are chemical or biological in nature and necessarily participate in or have parts that participate in some chemical interaction or reaction during their intended participation in some technique. By contrast, instruments do not participate in a chemical reaction/interaction during the technique.
Reagents are distinguished from study subjects/evaluants in that study subjects and evaluants are that about which conclusions are drawn and knowledge is sought in an investigation - while reagents, by definition, are not. It should be noted, however, that reagent and study subject/evaluant roles can be borne by instances of the same type of material entity - but a given instance will realize only one of these roles in the execution of a given assay or technique. For example, taq polymerase can bear a reagent role or an evaluant role. In a DNA sequencing assay aimed at generating sequence data about some plasmid, the reagent role of the taq polymerase is realized. In an assay to evaluate the quality of the taq polymerase itself, the evaluant/study subject role of the taq is realized, but not the reagent role since the taq is the subject about which data is generated.
In regard to the statement that reagents are 'distinct' from the specified outputs of a technique, note that a reagent may be incorporated into a material output of a technique, as long as the IDENTITY of this output is distinct from that of the bearer of the reagent role. For example, dNTPs input into a PCR are reagents that become part of the material output of this technique, but this output has a new identity (ie that of a 'nucleic acid molecule') that is distinct from the identity of the dNTPs that comprise it. Similarly, a biotin molecule input into a cell labeling technique are reagents that become part of the specified output, but the identity of the output is that of some modified cell specimen which shares identity with the input unmodified cell specimen, and not with the biotin label. Thus, we see that an important criteria of 'reagent-ness' is that it is a facilitator, and not the primary focus of an investigation or material processing technique (ie not the specified subject/evaluant about which knowledge is sought, or the specified output material of the technique).
reagent role
material processing
A cell lysis, production of a cloning vector, creating a buffer.
A planned process which results in physical changes in a specified input material
PERSON: Bjoern Peters
PERSON: Frank Gibson
PERSON: Jennifer Fostel
PERSON: Melanie Courtot
PERSON: Philippe Rocca Serra
material transformation
OBI branch derived
material processing
study subject role
Human subjects in a clinical trial, rats in a toxicogenomics study, tissue cutlures subjected to drug tests, fish observed in an ecotoxicology study.
Parasite example: people are infected with a parasite which is then extracted; the particpant under investigation could be the parasite, the people, or a population of which the people are members, depending on the nature of the study.
Lake example: a lake could realize this role in an investigation that assays pollution levels in samples of water taken from the lake.
A role that is realized through the execution of a study design in which the bearer of the role participates and in which data about that bearer is collected.
A participant can realize both "specimen role" and "participant under investigation role" at the same time. However "participant under investigation role" is distinct from "specimen role", since a specimen could somehow be involved in an investigation without being the thing that is under investigation.
GROUP: Role Branch
OBI
Following OBI call November 2012,26th:
1. it was decided there was no need for moving the children class and making them siblings of study subject role.
2. it also settles the disambiguation about 'study subject'. This is about the individual participating in the investigation/study, Not the 'topic' (as in 'toxicity study') of the investigation/study
This note closes the issue and validates the class definition to be part of the OBI core
editor = PRS
participant under investigation role
responsible party role
he THERAPIST has the ability to print a separate statement for the patient and each responsible party. http://www.beaverlog.com/therapist/ez_support/billing/responsible_party_statements.htm
a study personnel role played by a party who is accountable for the execution of a study component and can make decisions about the conduct of the study
Person: Jennifer Fostel
responsible party
OBI
responsible party role
specimen role
liver section; a portion of a culture of cells; a nemotode or other animal once no longer a subject (generally killed); portion of blood from a patient.
a role borne by a material entity that is gained during a specimen collection process and that can be realized by use of the specimen in an investigation
22Jun09. The definition includes whole organisms, and can include a human. The link between specimen role and study subject role has been removed. A specimen taken as part of a case study is not considered to be a population representative, while a specimen taken as representing a population, e.g. person taken from a cohort, blood specimen taken from an animal) would be considered a population representative and would also bear material sample role.
Note: definition is in specimen creation objective which is defined as an objective to obtain and store a material entity for potential use as an input during an investigation.
blood taken from animal: animal continues in study, whereas blood has role specimen.
something taken from study subject, leaves the study and becomes the specimen.
parasite example
- when parasite in people we study people, people are subjects and parasites are specimen
- when parasite extracted, they become subject in the following study
specimen can later be subject.
GROUP: Role Branch
OBI
specimen role
worker role
Public sector workers in states that run their own OSHA programs are covered by those states. http://www.osha.gov/as/opa/worker/index.html
a personnel role played by a party who executes a component of the study plan; this can occur before, during, after or outside the study timeline
"executes the study plan" includes the suppliers and manufacturers of reagents and other materials used in the study
Person:Jennifer Fostel
worker
OBI
worker role
population
PMID12564891. Environ Sci Technol. 2003 Jan 15;37(2):223-8. Effects of historic PCB exposures on the reproductive success of the Hudson River striped bass population.
a population is a collection of individuals from the same taxonomic class living, counted or sampled at a particular site or in a particular area
1/28/2013, BP, on the call it was raised that we may want to switch to an external ontology for all populatin terms:
http://code.google.com/p/popcomm-ontology/
PERSON: Philippe Rocca-Serra
adapted from Oxford English Dictionnary
rem1: collection somehow always involve a selection process
population
investigation agent role
The person perform microarray experiments and submit microarray results (including raw data, processed data) with experiment description to ArrayExpress.
A role borne by an entity and that is realized in a process that is part of an investigation in which an objective is achieved. These processes include, among others: planning, overseeing, funding, reviewing.
Implementing a study means carrying out or performing the study and providing reagents or other materials used in the study and other tasks without which the study would not happen.
Philly2013: Historically, this role would have been borne only by humans or organizations. However, we now also want to enable representing investigations run by robot scientists such as ADAM (King et al, Science, 2009)
GROUP: Role Branch
investigator
OBI
Feb 10, 2009. changes after discussion at OBI Consortium Workshop Feb 2-6, 2009. accepted as core term.
study person role
Philly2013: Historically, this role would have been borne only by humans or organizations. However, we now also want to enable investigations run by robot scientists such as ADAM (King et al, Science, 2009)
investigation agent role
sponsor role
a responsible party role involved with any of the following activities: initiating, managing and funding a study
Person: Jennifer Fostel
sponsor
CDISC definition: sponsor. 1. An individual, company, institution, or organization that takes responsibility for the initiation, management, and/or financing of a clinical trial. 2. A corporation or agency whose employees conduct the investigation is considered a sponsor; employees are considered investigators
sponsor role
organization
PMID: 16353909.AAPS J. 2005 Sep 22;7(2):E274-80. Review. The joint food and agriculture organization of the United Nations/World Health Organization Expert Committee on Food Additives and its role in the evaluation of the safety of veterinary drug residues in foods.
An entity that can bear roles, has members, and has a set of organization rules. Members of organizations are either organizations themselves or individual people. Members can bear specific organization member roles that are determined in the organization rules. The organization rules also determine how decisions are made on behalf of the organization by the organization members.
An organization is a continuant entity which can play roles, has members, and has a set of organization rules. Members of organizations are either organizations themselves or individual people. Members can bear specific organization member roles that are determined in the organization rules. The organization rules also determine how decisions are made on behalf of the organization by the organization members.
BP: The definition summarizes long email discussions on the OBI developer, roles, biomaterial and denrie branches. It leaves open if an organization is a material entity or a dependent continuant, as no consensus was reached on that. The current placement as material is therefore temporary, in order to move forward with development. Here is the entire email summary, on which the definition is based:
1) there are organization_member_roles (president, treasurer, branch
editor), with individual persons as bearers
2) there are organization_roles (employer, owner, vendor, patent holder)
3) an organization has a charter / rules / bylaws, which specify what roles
there are, how they should be realized, and how to modify the
charter/rules/bylaws themselves.
It is debatable what the organization itself is (some kind of dependent
continuant or an aggregate of people). This also determines who/what the
bearer of organization_roles' are. My personal favorite is still to define
organization as a kind of 'legal entity', but thinking it through leads to
all kinds of questions that are clearly outside the scope of OBI.
Interestingly enough, it does not seem to matter much where we place
organization itself, as long as we can subclass it (University, Corporation,
Government Agency, Hospital), instantiate it (Affymetrix, NCBI, NIH, ISO,
W3C, University of Oklahoma), and have it play roles.
This leads to my proposal: We define organization through the statements 1 -
3 above, but without an 'is a' statement for now. We can leave it in its
current place in the is_a hierarchy (material entity) or move it up to
'continuant'. We leave further clarifications to BFO, and close this issue
for now.
PERSON: Alan Ruttenberg
PERSON: Bjoern Peters
PERSON: Philippe Rocca-Serra
PERSON: Susanna Sansone
GROUP: OBI
organization
protocol
PCR protocol, has objective specification, amplify DNA fragment of interest, and has action specification describes the amounts of experimental reagents used (e..g. buffers, dNTPS, enzyme), and the temperature and cycle time settings for running the PCR.
A plan specification which has sufficient level of detail and quantitative information to communicate it between investigation agents, so that different investigation agents will reliably be able to independently reproduce the process.
PlanAndPlannedProcess Branch
OBI branch derived + wikipedia (http://en.wikipedia.org/wiki/Protocol_%28natural_sciences%29)
study protocol
protocol
analyte role
Glucose in blood (measured in an assay to determine the concentration of glucose).
A measurand role borne by a molecular entity or an atom and realized in an analyte assay which achieves the objective to measure the magnitude/concentration/amount of the analyte in the entity bearing evaluant role.
interestingly, an analyte is still an analyte even if it is not detected. for this reason it does not bear a specified input role
pH (technically the inverse log of [H+]) may be considered a quality; this remains to be tested.
qualities such as weight, color are not assayed but measured, so they do not fall into this category.
GROUP: Role Branch
OBI
Feb 10, 2009. changes after discussion at OBI Consortium Workshop Feb 2-6, 2009. accepted as core term.
analyte role
interpreting data
Concluding that a gene is upregulated in a tissue sample based on the band intensity in a western blot. Concluding that a patient has a infection based on measurement of an elevated body temperature and reported headache. Concluding that there were problems in an investigation because data from PCR and microarray are conflicting. Concluding that 'defects in gene XYZ cause cancer due to improper DNA repair' based on data from experiments in that study that gene XYZ is involved in DNA repair, and the conclusion of a previous study that cancer patients have an increased number of mutations in this gene.
A planned process in which data gathered in an investigation is evaluated in the context of existing knowledge with the objective to generate more general conclusions or to conclude that the data does not allow one to draw general conclusion
PERSON: Bjoern Peters
PERSON: Jennifer Fostel
Bjoern Peters
drawing a conclusion based on data
planning
The process of a scientist thinking about and deciding what reagents to use as part of a protocol for an experiment. Note that the scientist could be human or a "robot scientist" executing software.
a process of creating or modifying a plan specification
7/18/2011 BP: planning used to itself be a planned process. Barry Smith pointed out that this would lead to an infinite regression, as there would have to be a plan to conduct a planning process, which in itself would be the result of planning etc. Therefore, the restrictions on 'planning' were loosened to allow for informal processes that result in an 'ad hoc plan '. This required changing from 'has_specified_output some plan specifiction' to 'has_participant some plan specification'.
Bjoern Peters
Bjoern Peters
Plans and Planned Processes Branch
planning
hypothesis driven investigation
is an investigation with the goal to test one or more hypothesis
PlanAndPlannedProcess Branch
OBI branch derived
hypothesis driven investigation
hypothesis generating investigation
is an investigation in which data is generated and analyzed with the purpose of generating new hypothesis
PlanAndPlannedProcess Branch
OBI branch derived
hypothesis generating investigation
transfer function
A transfer function is a function to displace a material from one location to another.
Bill Bug
Daniel Schober
Frank Gibson
Melanie Courtot
transfer function
extract
Up-regulation of inflammatory signalings by areca nut extract and role of cyclooxygenase-2 -1195G>a polymorphism reveal risk of oral cancer. Cancer Res. 2008 Oct 15;68(20):8489-98. PMID: 18922923
an extract is a material entity which results from an extraction process
PERSON: Philippe Rocca-Serra
extracted material
GROUP: OBI Biomatrial Branch
extract
needle
Ovarian carcinoma presenting with axillary lymph node metastasis: A case diagnosed by fine-needle aspiration and brief review of the literature. Diagn Cytopathol. 2008 Oct 16. PMID: 18925569
A needle is a sharp, hollow device used to penetrate tissue or soft material. When attached to a syringe. it allows delivery of a specific volume of liquid or gaseous mixture.
Philippe Rocca-Serra
OBI Instrument
needle
analyte measurement objective
The objective to measure the concentration of glucose in a blood sample
an assay objective to determine the presence or concentration of an analyte in the evaluant
PERSON: Bjoern Peters
PPPB branch
analyte measurement objective
assay objective
the objective to determine the weight of a mouse.
an objective specification to determine a specified type of information about an evaluated entity (the material entity bearing evaluant role)
PPPB branch
PPPB branch
assay objective
analyte assay
example of usage: In lab test for blood glucose, the test is the assay, the blood bears evaluant_role and glucose bears the analyte role. The evaluant is considered an input to the assay and the information entity that records the measurement of glucose concentration the output
An assay with the objective to capture information about the presence, concentration, or amount of an analyte in an evaluant.
Alan Ruttenberg
Bjoern Peters
Helen Parkinson
Philippe Rocca-Serra
Alan Ruttenberg
Bjoern Peters
Helen Parkinson
OBI Planned process branch
Philippe Rocca-Serra
analyte assay
measure function
A glucometer measures blood glucose concentration, the glucometer has a measure function.
Measure function is a function that is borne by a processed material and realized in a process in which information about some entity is expressed relative to some reference.
PERSON: Daniel Schober
PERSON: Helen Parkinson
PERSON: Melanie Courtot
PERSON:Frank Gibson
measure function
material transformation objective
The objective to create a mouse infected with LCM virus. The objective to create a defined solution of PBS.
an objective specifiction that creates an specific output object from input materials.
PERSON: Bjoern Peters
PERSON: Frank Gibson
PERSON: Jennifer Fostel
PERSON: Melanie Courtot
PERSON: Philippe Rocca-Serra
artifact creation objective
GROUP: OBI PlanAndPlannedProcess Branch
material transformation objective
study design execution
injecting a mouse with PBS solution, weighing it, and recording the weight according to a study design.
a planned process that carries out a study design
removed axiom has_part some (assay or 'data transformation') per discussion on protocol application mailing list to improve reasoner performance. The axiom is still desired.
branch derived
6/11/9: edited at workshop. Used to be: study design execution is a process with the objective to generate data according to a concretized study design. The execution of a study design is part of an investigation, and minimally consists of an assay or data transformation.
study design execution
clinical chemistry assay
Influence of hydroxyethyl starch (6% HES 130/0.4) administration on hematology and clinical chemistry parameters.
An analyte assay which uses analytical methods to produce measurements and data on the concentration of chemical parameters (analytes) present in a bodily fluid collected from an organism.
Philippe Rocca-Serra
chemical pathology
detection of analyte in blood sample
url:https://en.wikipedia.org/wiki/Clinical_chemistry
clinical chemistry assay
scattered molecular aggregate
the sodium and chloride ions in a glass of salt water
A scattered molecular aggregate is a material entity that consists of all the molecules of a specific type that are located in some bounded region and which is part of a more massive material entity that has parts that are other such aggregates
a material entity that consists of all the molecules of a specific type that are located in some bounded region and which is part of a more massive material entity that has parts that are other such aggregates
PERSON: Alan Ruttenberg
Collective
Discussion in Karslruhe with, among others, Alan Rector, Stefan Schulz, Marijke Keet, Melanie Courtot, and Alan Ruttenberg. With inspiration from the paper Granularity, scale and collectivity: When size does and does not matter, Alan Recto, Jeremy Rogers, Thomas Bittner, Journal of Biomedical Informatics 39 (2006) 333-349
scattered molecular aggregate
material separation objective
The objective to obtain multiple aliquots of an enzyme preparation. The objective to obtain cells contained in a sample of blood.
is an objective to transform a material entity into spatially separated components.
PPPB branch
PPPB branch
material separation objective
specimen collection process
drawing blood from a patient for analysis, collecting a piece of a plant for depositing in a herbarium, buying meat from a butcher in order to measure its protein content in an investigation
A planned process with the objective of collecting a specimen.
Note: definition is in specimen creation objective which is defined as an objective to obtain and store a material entity for potential use as an input during an investigation.
Philly2013: A specimen collection can have as part a material entity acquisition, such as ordering from a bank. The distinction is that specimen collection necessarily involves the creation of a specimen role. However ordering cell lines cells from ATCC for use in an investigation is NOT a specimen collection, because the cell lines already have a specimen role.
Philly2013: The specimen_role for the specimen is created during the specimen collection process.
label changed to 'specimen collection process' on 10/27/2014, details see tracker:
http://sourceforge.net/p/obi/obi-terms/716/
Bjoern Peters
specimen collection
5/31/2012: This process is not necessarily an acquisition, as specimens may be collected from materials already in posession
6/9/09: used at workshop
specimen collection process
enzyme-linked immunosorbent assay
1) Detection of IL-2 (analyte) in a cell supernatant (evaluant), using plate bound anti IL-2 antibodies, and a reporter enzyme-linked reporter antibody. 2) Measurement of IgG antibody (analyte) titer in a serum sample (evaluant) using plate bound antigen and a reporter anti-IgG antibody.
An analyte assay where binding of an enzyme linked antibody to a material entity that is immobilized on solid support is detected utilizing a chemiluminescent reaction. Depending on the setup, the enzyme-linked antibody could be binding directly to the analyte, or it serves as a secondary antibody detecting binding of the primary antibody to the analyte.
IEDB
ELISA
IEDB
enzyme-linked immunosorbent assay
sample from organism
a material obtained from an organism in order to be a representative of the whole
5/29: This is a helper class for now
we need to work on this: Is taking a urine sample a material separation process? If not, we will need to specify what 'taking a sample from organism' entails. We can argue that the objective to obtain a urine sample from a patient is enough to call it a material separation process, but it could dilute what material separation was supposed to be about.
sample from organism
portioning objective
The objective to obtain multiple aliquots of an enzyme preparation.
A material separation objective aiming to separate material into multiple portions, each of which contains a similar composition of the input material.
portioning objective
separation into different composition objective
The objective to obtain cells contained in a sample of blood.
A material separation objective aiming to separate a material entity that has parts of different types, and end with at least one output that is a material with parts of fewer types (modulo impurities).
We should be using has the grain relations or concentrations to distinguish the portioning and other sub-objectives
separation into different composition objective
specimen collection objective
The objective to collect bits of excrement in the rainforest. The objective to obtain a blood sample from a patient.
A objective specification to obtain a material entity for potential use as an input during an investigation.
Bjoern Peters
Bjoern Peters
specimen collection objective
material sample role
a role borne by a portion of blood taken to represent all the blood in an organism; the role borne by a population of humans with HIV enrolled in a study taken to represent patients with HIV in general.
A material sample role is a specimen role borne by a material entity that is the output of a material sampling process.
7/13/09: Note that this is a relational role: between the sample taken and the 'sampled' material of which the sample is thought to be representative off.
material sample role
material sample
blood drawn from patient to measure his systemic glucose level. A population of humans with HIV enrolled in a study taken to represent patients with HIV in general.
A material entity that has the material sample role
OBI: workshop
sample population
sample
material sample
material maintenance objective
An objective specification maintains some or all of the qualities of a material over time.
PERSON: Bjoern Peters
PERSON: Bjoern Peters
material maintenance objective
informed consent process
A planned process in which a person or their legal representative is informed about key facts about potential risks and benefits of a process and makes a documented decision as to whether the person in question will participate.
09/28/2009 Alan Ruttenberg: This is made a subclass of the higher level processual entity in BFO because I don't want to take a stand on whether it is a process aggregate. Analogous to the situation with Material entity.
Person:Alan Ruttenberg
http://clinicaltrials.gov/ct2/info/glossary#informed
2009/09/28 Alan Ruttenberg. Fucoidan-use-case
informed consent process
measurement device
A ruler, a microarray scanner, a Geiger counter.
A device in which a measure function inheres.
GROUP:OBI Philly workshop
OBI
measurement device
material maintenance
a process with that achieves the objective to maintain some or all of the characteristics of an input material over time
material maintenance
categorical measurement datum
A measurement datum that is reported on a categorical scale
Bjoern Peters
nominal mesurement datum
Bjoern Peters
categorical measurement datum
service consumer role
A biologist who uses a sequencing services fulfills the role of a service consumer
a role which inheres in a person who uses a service
Person:Helen Parkinson
OBI
service consumer role
service provider role
Jackson Lab provides experimental animals, EBI provides training on databases, a core facility provides access to a DNA sequencer.
is a role which inheres in a person or organization and is realized in in a planned process which provides access to training, materials or execution of protocols for an organization or person
PERSON:Helen Parkinson
service provider role
processed specimen
A tissue sample that has been sliced and stained for a histology study.
A blood specimen that has been centrifuged to obtain the white blood cells.
A specimen that has been intentionally physically modified.
Bjoern Peters
Bjoern Peters
A tissue sample that has been sliced and stained for a histology study.
processed specimen
device
A voltmeter is a measurement device which is intended to perform some measure function.
An autoclave is a device that sterlizes instruments or contaminated waste by applying high temperature and pressure.
A material entity that is designed to perform a function in a scientific investigation, but is not a reagent.
2012-12-17 JAO: In common lab usage, there is a distinction made between devices and reagents that is difficult to model. Therefore we have chosen to specifically exclude reagents from the definition of "device", and are enumerating the types of roles that a reagent can perform.
2013-6-5 MHB: The following clarifications are outcomes of the May 2013 Philly Workshop. Reagents are distinguished from devices that also participate in scientific techniques by the fact that reagents are chemical or biological in nature and necessarily participate in some chemical interaction or reaction during the realization of their experimental role. By contrast, devices do not participate in such chemical reactions/interactions. Note that there are cases where devices use reagent components during their operation, where the reagent-device distinction is less clear. For example:
(1) An HPLC machine is considered a device, but has a column that holds a stationary phase resin as an operational component. This resin qualifies as a device if it participates purely in size exclusion, but bears a reagent role that is realized in the running of a column if it interacts electrostatically or chemically with the evaluant. The container the resin is in (“the column”) considered alone is a device. So the entire column as well as the entire HPLC machine are devices that have a reagent as an operating part.
(2) A pH meter is a device, but its electrode component bears a reagent role in virtue of its interacting directly with the evaluant in execution of an assay.
(3) A gel running box is a device that has a metallic lead as a component that participates in a chemical reaction with the running buffer when a charge is passed through it. This metallic lead is considered to have a reagent role as a component of this device realized in the running of a gel.
In the examples above, a reagent is an operational component of a device, but the device itself does not realize a reagent role (as bearing a reagent role is not transitive across the part_of relation). In this way, the asserted disjointness between a reagent and device holds, as both roles are never realized in the same bearer during execution of an assay.
PERSON: Helen Parkinson
instrument
OBI development call 2012-12-17.
device
sequence data
example of usage: the representation of a nucleotide sequence in FASTA format used for a sequence similarity search.
A measurement datum that representing the primary structure of a macromolecule(it's sequence) sometimes associated with an indicator of confidence of that measurement.
Person:Chris Stoeckert
GROUP: OBI
sequence data
dose
An organism has been injected 1ml of vaccine
A measurement datum that measures the quantity of something that may be administered to an organism or that an organism may be exposed to. Quantities of nutrients, drugs, vaccines and toxins are referred to as doses.
dose
nucleic acid extract
An extract that is the output of an extraction process in which nucleic acid molecules are isolated from a specimen.
PERSON: Jie Zheng
UPenn Group
nucleic acid extract
nucleic acid sequencer
An device that is used to determine the order of nucleotides in nucleic acid sequences.
PERSON: Erik Segerdell
PERSON: Erik Segerdell
nucleic acid sequencer
protein sequencer
An device that is used to determine the order of amino acids in protein sequences.
PERSON: Erik Segerdell
PERSON: Erik Segerdell
protein sequencer
service
providing a training course for UCSD employees how to run a DNA sequencer; sequencing a DNA sample provided by a service consumer restricted to non-human samples; giving access to tissue samples in a biobank within OHSU; JAX shipping mice from their colony
A planned process in which a service provider performs a task (i.e. a planned process) for a service consumer.
Carlo; Matt
OBI workshop San Diego 2011
service
specimen from organism
A specimen that derives from an anatomical part or substance arising from an organism. Examples of tissue specimen include tissue, organ, physiological system, blood, or body location (arm).
PERSON: Chris Stoeckert, Jie Zheng
tissue specimen
MO_954 organism_part
specimen from organism
material maintenance service
model organism colony maintanance
A material processing service in which a service provider makes physical modifications to a specified input material, such that at least one of the specified outputs of this process is a modified version of a specified input material.
PERSON: Carlo Torniai
PERSON: Matthew Brush
PERSON: Matthew Brush
Here we need to go back to the defintoin of storage process. It has object specification which is material maintenance. Not necessareley a material maintenance is needed in a storage process.
material maintenance service
material service
A service performing DNA sequencing, a service preforming cell analysis. A service performing cell line immortalization
A service which has a material entity as specified input and/or specified output.
PERSON: Carlo Torniai
PERSON: Matthew Brush
PERSON: Carlo Torniai
material service
material analysis service
Services performing DNA sequencing or Cell Analysis
A service in which a service consumer provides some input material and a service provider performs some analysis of this material to generate data that is returned to the service consumer.
PERSON: Carlo Torniai
PERSON: Matthew Brush
PERSON: Matthew Brush
material analysis service
material storage service
A service that offers liquid nitrogen stroage.
A storage service in which a service consumer provides some material as input which a service provider stores and returns as output.
PERSON: Carlo Torniai
PERSON: Matthew Brush
PERSON: Matthew Brush
material storage service
specimen identifier
A CRID symbol denotes a specimen and used to distinguish one specimen from another in an investigation.
Person: Chris Stoeckert, Jie Zheng
specimen ID
NIAID GSCID-BRC metadata working group
Specimen ID
NIAID GSCID-BRC
specimen identifier
selection criterion
rats should be aged between 6 and 8 weeks and weight between 180-250grams
A directive information entity which defines and states a principle of standard by which selection process may take place.
Person: Philippe Rocca-Serra
selection rule
OBI discussion summarized under the following tracker item : http://sourceforge.net/p/obi/obi-terms/678/
selection criterion
specimen repository organization
An organization that provides a service to store and distribute specimens
PERSON: Chris Stoeckert, Jie Zheng
NIAID GSCID-BRC metadata working group
Specimen Repository
NIAID GSCID-BRC
specimen repository organization
sequencing facility organization
An organization that provides sequence determination service
PERSON: Chris Stoeckert, Jie Zheng
NIAID GSCID-BRC metadata working group
Sequencing Facility
NIAID GSCID-BRC
sequencing facility organization
comment on investigation
A textual entity that is about any of the aspects of an investigation worth noting
PERSON: Chris Stoeckert, Jie Zheng
NIAID GSCID-BRC metadata working group
Comments
NIAID GSCID-BRC
comment on investigation
specimen identifier assigned by specimen repository
A specimen identifier which is assigned by a specimen repository
PERSON: Chris Stoeckert, Jie Zheng
NIAID GSCID-BRC metadata working group
Specimen Repository Sample ID
NIAID GSCID-BRC
specimen identifier assigned by specimen repository
specimen identifier assigned by sequencing facility
A specimen identifier which is assigned by a sequencing facility
PERSON: Chris Stoeckert, Jie Zheng
NIAID GSCID-BRC metadata working group
Sample ID - Sequencing Facility
NIAID GSCID-BRC
specimen identifier assigned by sequencing facility
sequencing service
A service provides sequencing service which is the realization of some sequencing such as RNA and DNA sequencing in which the service provider role is realized.
Person: Jie Zheng
Adpated from 'DNA sequencing service'
NIAID GSCID-BRC
sequencing service
conclusion based on data
The conclusion that a gene is upregulated in a tissue sample based on the band intensity in a western blot. The conclusion that a patient has a infection based on measurement of an elevated body temperature and reported headache. The conclusion that there were problems in an investigation because data from PCR and microarray are conflicting.
The following are NOT conclusions based on data: data themselves; results from pure mathematics, e.g. "13 is prime".
An information content entity that is inferred from data.
In the Philly 2013 workshop, we recognized the limitations of "conclusion textual entity", and we introduced this as more general. The need for the 'textual entity' term going forward is up for future debate.
Group:2013 Philly Workshop group
Group:2013 Philly Workshop group
conclusion based on data
cell freezing medium
A processed material that serves as a liquid vehicle for freezing cells for long term quiescent stroage, which contains chemicls needed to sustain cell viability across freeze-thaw cycles.
PERSON: Matthew Brush
cell freezing medium
selection
PMID: 24023800. In this study, a set of eleven genes (VATP16, 60 S, UQCC, SMD3, EF1α, UBQ, SAND, GAPDH, ACT, PsaB, PTB2) was evaluated to identify reference genes during the first hours of interaction (6, 12, 18 and 24 hpi) between two V. vinifera genotypes and P. viticola. Two analyses were used for the selection of reference genes: direct comparison of susceptible, Trincadeira, and resistant, Regent, V. vinifera cultivars at 0 h, 6, 12, 18 and 24 hours post inoculation with P. viticola (genotype effect); and comparison of each genotype with mock inoculated samples during inoculation time-course (biotic stress effect). Three statistical methods were used, GeNorm, NormFinder, and BestKeeper, allowing to identify UBQ, EF1α and GAPDH as the most stable genes for the genotype effect.
A planned process which results in the creation of group of entity from a larger group by the application of predefined criteria.
this term refers to a planned process and therefore is distinct from the notion of 'natural selection', a process covering the operation of natural causes by which those individuals of a species that are best adapted to the environment tend to be preserved and to transmit their characters, while those less adapted die out, so that in the course of generations the degree of adaptation to the environment tends progressively to increase. (as defined by Oxford English Dictionary)
Person: Philippe Rocca-Serra
selection process
OBI
selection
categorical value specification
A value specification that is specifies one category out of a fixed number of nominal categories
PERSON:Bjoern Peters
categorical value specification
value specification
The value of 'positive' in a classification scheme of "positive or negative"; the value of '20g' on the quantitative scale of mass.
An information content entity that specifies a value within a classification scheme or on a quantitative scale.
This term is currently a descendant of 'information content entity', which requires that it 'is about' something. A value specification of '20g' for a measurement data item of the mass of a particular mouse 'is about' the mass of that mouse. However there are cases where a value specification is not clearly about any particular. In the future we may change 'value specification' to remove the 'is about' requirement.
PERSON:Bjoern Peters
value specification
molecular analysis facility organization
An analysis facility that includes analysis of molecular metabolites, as well as the various DNAs and RNAs.
An organization that provides molecular analysis service.
Chris Stoeckert, Helena Ellis
MAF
NCI BBRB, OBIB
NCI BBRB
molecular analysis facility organization
age of majority inclusion criterion
An inclusion criterion that uses the age of majority for a state or institution, where one is generally considered to be an adult, which if met, makes an individual suitable for a given task or participation in a given process.
Chris Stoeckert, Helena Ellis
NCI BBRB, OBIB
NCI BBRB
age of majority inclusion criterion
chemotherapy treatment exclusion criterion
An exclusion criterion that defines whether chemotherapy was received or is being received for a previous or current cancer, which when met, makes an individual unsuitable for a given task or participation in a given process
Chris Stoeckert, Helena Ellis
NCI BBRB, OBIB
NCI BBRB
chemotherapy treatment exclusion criterion
radiation treatment exclusion criteria
An exclusion criterion that defines whether radiation was received or is being received for a previous or current cancer, which when met, makes an individual unsuitable for a given task or participation in a given process
Chris Stoeckert, Helena Ellis
NCI BBRB, OBIB
NCI BBRB
radiation treatment exclusion criteria
chemotherapy treatment within the recent past exclusion criterion
An exclusion criterion defined by the pathologist is defined as whether the individual received chemotherapy within the last two years.
An exclusion criterion that defines whether chemotherapy was received within a certain timeframe, which when met, makes an individual unsuitable for a given task or participation in a given process.
Chris Stoeckert, Helena Ellis
NCI BBRB, OBIB
NCI BBRB
chemotherapy treatment within the recent past exclusion criterion
radiation treatment within the recent past exclusion criterion
An exclusion criterion defined by the pathologist is defined as whether the individual received radiation therapy within the last two years.
An exclusion criterion that defines whether radiation was received within a certain timeframe, which when met, makes an individual unsuitable for a given task or participation in a given process.
Chris Stoeckert, Helena Ellis
NCI BBRB, OBIB
NCI BBRB
radiation treatment within the recent past exclusion criterion
BMI range inclusion criterion
An important inclusion criterion is for for the individual to have a BMI between 18.5 and 35.0
An inclusion criterion that defines and states a Body Mass Index range, which if met, makes an individual suitable for a given task or participation in a given process.
Chris Stoeckert, Helena Ellis
NCI BBRB, OBIB
NCI BBRB
BMI range inclusion criterion
blood transfusion exclusion criterion
An exclusion criterion that is defined by whether the specimen donor received a whole blood transfusion within 48 hours prior to death.
An exclusion criterion that is defined by whether the specimen donor received a whole blood transfusion within a specified time frame prior to death, which if met, makes a specimen donor unsuitable for a given task or participation in a given process.
Chris Stoeckert, Helena Ellis
NCI BBRB, OBIB
NCI BBRB
blood transfusion exclusion criterion
history of metastatic cancer exclusion criterion
An exclusion criterion defined as whether an individual has ever been diagnosed with metastatic cancer (cancer that spread beyond the initial site such as to other organs like brain bone or liver), which if met, makes the individual unsuitable for a given task or participation in a given process.
Chris Stoeckert, Helena Ellis
NCI BBRB, OBIB
NCI BBRB
history of metastatic cancer exclusion criterion
intravenous drug use exclusion criterion
Donor eligibility based on history of intravenous drug abuse in the last 5 years.
An exclusion criterion defined as when an individual has a history of intravenous drug abuse for a specific timeframe, which if met, makes the individual unsuitable for a given task or participation in a given process.
Chris Stoeckert, Helena Ellis
NCI BBRB, OBIB
NCI BBRB
intravenous drug use exclusion criterion
history of sex with someone with a history of blood borne infection exclusion criterion
Donor eligibility based on whether the donor has a history of sex with someone who has been diagnosed or at risk for HIV/AIDS and/or HCV and/or HBV in the last 5 years.
An exclusion criterion defined as whether an individual has a history of sex with someone who has been diagnosed or at risk for a blood borne infections disease in a specified time frame, which if met, makes the individual unsuitable for a given task or participation in a given process.
Chris Stoeckert, Helena Ellis
NCI BBRB, OBIB
NCI BBRB
history of sex with someone with a history of blood borne infection exclusion criterion
history of sex with someone with a history of intravenous drugs exclusion criterion
Donor eligibility based on whether the donor has a history of sex with someone who has used intravenous drugs in the last 5 years.
An exclusion criterion defined as whether an individual has a history of sex with someone who has used intravenous drugs in a specified time frame, which if met, makes the individual unsuitable for a given task or participation in a given process.
Chris Stoeckert, Helena Ellis
NCI BBRB, OBIB
NCI BBRB
history of sex with someone with a history of intravenous drugs exclusion criterion
HIV exclusion criterion
An exclusion criterion defined as whether an individual has a history of repeatedly reactive screening assays for HIV-1 or HIV-2 antibody regardless of the results of supplemental assays, which if met, makes the individual unsuitable for a given task or participation in a given process.
Chris Stoeckert, Helena Ellis
NCI BBRB, OBIB
NCI BBRB
HIV exclusion criterion
exposure to blood borne infectious disease exclusion criterion
Donor eligibility based on whether the donor has been exposed to HIV/AIDS.
An exclusion criterion defined as whether an individual has been exposed to a blood borne infections disease through needle sticks and/or contact with non-intact skin and/or contact with open wounds and/or contact with mucous membranes, which if met, makes the individual unsuitable for a given task or participation in a given process.
Chris Stoeckert, Helena Ellis
NCI BBRB, OBIB
NCI BBRB
exposure to blood borne infectious disease exclusion criterion
measurand role
A role borne by a material entity and realized in an assay which achieves the objective to measure the magnitude/concentration/amount of the measurand in the entity bearing evaluant role.
Person: Alan Ruttenberg, Jie Zheng
https://en.wiktionary.org/wiki/measurand
https://github.com/obi-ontology/obi/issues/778
measurand role
health status inclusion criterion
‘diagnosed with Type 2 diabetes mellitus’, ‘E11.4’, ’not finding of hypertension'
An inclusion criterion that defines and states one or more clinically significant bodily components, dispositions, and/or bodily processes of an entity that are inferred from relevant clinical findings or self-reported, which, if met, makes the entity suitable for a given task or participation in a given process.
Mathias Brochhausen
MIABIS2.0
health status inclusion criterion
clinically relevant lifestyle inclusion criterion
'smoking behavior’
An inclusion criterion that defines and states one or more clinically relevant planned processes that a human being actively participates in , which, if met, makes the human being suitable for a given task or participation in a given process.
Mathias Brochhausen
MIABIS2.0
clinically relevant lifestyle inclusion criterion
clinically relevant exposure inclusion criterion
'exposure to cigarette smoke’, ‘exposure to lead through drinking water'
An inclusion criterion that defines and states one or more clinically relevant histories of exposure of an entity, which, if met, makes the entity suitable for a given task or participation in a given process.
Mathias Brochhausen
MIABIS2.0
clinically relevant exposure inclusion criterion
gravidity inclusion criterion
'pregnant’, ‘not pregnant'
An inclusion criterion that defines and states one or more gravidity statuses of an organism, which, if met, makes the entity suitable for a given task or participation in a given process.
Mathias Brochhausen
MIABIS2.0
gravidity inclusion criterion
defined population inclusion criterion
inclusion based on age, sex, and living region (rural area or specified city).
An inclusion criterion that is based on fitting within the defined characteristics of a population based study design.
Chris Stoeckert, Mathias Brochhausen
MIABIS 2.0
920
MIABIS 2.0
defined population inclusion criterion
age group inclusion criterion
"18-33 years old"
An inclusion criterion that defines and states an age bracket which, if met, makes an entity suitable for a given task or participation in a given process.
Mathias Brochhausen
#839
age group inclusion criterion
minimum age value specification
A value specifcation that specifies the youngest age when specifying an age range.
Mathias Brochhausen
minimum age value specification
maximum age value specification
A value specifcation that specifies the oldest age when specifying an age range.
Mathias Brochhausen
maximum age value specification
use of medication inclusion criterion
"received at least 2 days of vancomycin"
An inclusion criterion that defines and states a a set of medications, which, if used by an entity, makes that entity suitable for a given task or participation in a given process.
Mathias Brochhausen
#840
use of medication inclusion criterion
hospital patient inclusion criterion
"included hospital patients"
An inclusion criterion defines that a human being has to be a hospital patient to be suitable for a given task or participation in a given process.
Mathias Brochhausen
hospital patient inclusion criterion
family status inclusion criterion
"included married and unmarried patients", "included divorced individuals"
An inclusion criterion that defines and states one or more family statuses, which, if met, makes a human being suitable for a given task or participation in a given process.
Mathias Brochhausen
family status inclusion criterion
sex inclusion criterion
"included males and females", "included male patients"
An inclusion criterion that defines and states one or more sexes which, if met, makes an entity suitable for a given task or participation in a given process.
Mathias Brochhausen
sex inclusion criterion
country of residence inclusion criteria
"include US residents"
An inclusion criterion that defines and states one or more countries of residence which, if met, makes a human being suitable for a given task or participation in a given process.
Mathias Brochhausen
country of residence inclusion criteria
ethnicity inclusion criterion
"include only Hispanic individuals"
An inclusion criteria that defines and states one or more ethnicities which, if met, makes an entity suitable for a given task or participation in a given process.
Mathias Brochhausen
ethnicity inclusion criterion
organism
animal
fungus
plant
virus
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.
10/21/09: This is a placeholder term, that should ideally be imported from the NCBI taxonomy, but the high level hierarchy there does not suit our needs (includes plasmids and 'other organisms')
13-02-2009:
OBI doesn't take position as to when an organism starts or ends being an organism - e.g. sperm, foetus.
This issue is outside the scope of OBI.
GROUP: OBI Biomaterial Branch
WEB: http://en.wikipedia.org/wiki/Organism
http://purl.obolibrary.org/obo/obi.owl
organism
specimen
Biobanking of blood taken and stored in a freezer for potential future investigations stores specimen.
A material entity that has the specimen role.
Note: definition is in specimen creation objective which is defined as an objective to obtain and store a material entity for potential use as an input during an investigation.
PERSON: James Malone
PERSON: Philippe Rocca-Serra
GROUP: OBI Biomaterial Branch
specimen
cultured cell population
A cultured cell population applied in an experiment: "293 cells expressing TrkA were serum-starved for 18 hours and then neurotrophins were added for 10 min before cell harvest." (Lee, Ramee, et al. "Regulation of cell survival by secreted proneurotrophins." Science 294.5548 (2001): 1945-1948).
A cultured cell population maintained in vitro: "Rat cortical neurons from 15 day embryos are grown in dissociated cell culture and maintained in vitro for 8–12 weeks" (Dichter, Marc A. "Rat cortical neurons in cell culture: culture methods, cell morphology, electrophysiology, and synapse formation." Brain Research 149.2 (1978): 279-293).
A processed material comprised of a collection of cultured cells that has been continuously maintained together in culture and shares a common propagation history.
2013-6-5 MHB: This OBI class was formerly called 'cell culture', but label changed and definition updated following CLO alignment efforts in spring 2013, during which the intent of this class was clarified to refer to portions of a culture or line rather than a complete cell culture or line.
PERSON:Matthew Brush
cell culture sample
PERSON:Matthew Brush
The extent of a 'cultured cell population' is restricted only in that all cell members must share a propagation history (ie be derived through a common lineage of passages from an initial culture). In being defined in this way, this class can be used to refer to the populations that researchers actually use in the practice of science - ie are the inputs to culturing, experimentation, and sharing. The cells in such populations will be a relatively uniform population as they have experienced similar selective pressures due to their continuous co-propagation. And this population will also have a single passage number, again owing to their common passaging history. Cultured cell populations represent only a collection of cells (ie do not include media, culture dishes, etc), and include populations of cultured unicellular organisms or cultured multicellular organism cells. They can exist under active culture, stored in a quiescent state for future use, or applied experimentally.
cultured cell population
extraction
nucleic acid extraction using phenol chloroform
A material separation in which a desired component of an input material is separated from the remainder
Current the output of material processing defined as the molecular entity, main component in the output material entity, rather than the material entity that have grain molecular entity.
'nucleic acid extract' is the output of 'nucleic acid extraction' and has grain 'nucleic acid'. However, the output of 'nucleic acid extraction' is 'nucleic acid' rather than 'nucleic acid extract'. We are aware of this issue and will work it out in the future.
Person:Bjoern Peters
Philippe Rocca-Serra
extraction
storage
PMID: 18550121.Total Prostate Specific Antigen Stability Confirmed After Long-Term Storage of Serum at -80C. J Urol. 2008 Jun 10.
A maintenance process by which material entities that are not actively metabolizing are placed in well identified location and possibly under controlled environment in ad-hoc devices/structures in order to preserve and protect them from decay/alteration and maintain availability
Philippe Rocca-Serra
OBI-Branch
storage
DNA sequencer
ABI 377 DNA Sequencer, ABI 310 DNA Sequencer
A DNA sequencer is an instrument that determines the order of deoxynucleotides in deoxyribonucleic acid sequences.
Trish Whetzel
MO
DNA sequencer
study design
a matched pairs study design describes criteria by which subjects are identified as pairs which then undergo the same protocols, and the data generated is analyzed by comparing the differences between the paired subjects, which constitute the results of the executed study design.
A plan specification comprised of protocols (which may specify how and what kinds of data will be gathered) that are executed as part of an investigation and is realized during a study design execution.
Editor note: there is at least an implicit restriction on the kind of data transformations that can be done based on the measured data available.
PERSON: Chris Stoeckert
experimental design
rediscussed at length (MC/JF/BP). 12/9/08). The definition was clarified to differentiate it from protocol.
study design
eligibility criterion
PMID: 17579629 -Eligibility criteria included: untreated ED-SCLC; age >/=70 and performance status 0-2, or age <70 and PS 3.
an eligibility criterion (rule) is_a selection criterion which
defines and states the requirements (positive or negative) for an entity to be considered as suitable for a given task or participation in a process.
Person: Philippe Rocca-Serra
eligibility rule
Adapted from Clinical Research Glossary Version 4.0 CDICS glossary group
eligibility criterion
inclusion criterion
PMID: 23979341-The major inclusion criterion was patients in whom severe cerebral embolism was diagnosed at age 75 or younger (more than 9 in the NIHSS score on day 7 after the onset of stroke) .
an inclusion criterion (rule) is_a *eligibility criterion* which defines and states a condition which, if met, makes an entity suitable for a given task or participation in a given process. For instance, in a study protocol, inclusion criteria indicate the conditions that prospective subjects MUST meet to be eligible for participation in a study.
Person: Philippe Rocca-Serra
inclusion condition
inclusion rule
Adapted from Clinical Research Glossary Version 4.0 CDICS glossary group
inclusion criterion
exclusion rule
PMID: 17600285-Exclusion criteria included the use of any topical ophthalmic or topical oral medication and/or history of ocular or oral surgery within the past six months.
an exclusion criterion (rule) is_a *eligibility criterion* which defines and states a condition which, if met, makes an entity unsuitable for a given task or participation in a given process. For instance, in a study protocol, exclusion criteria indicate the conditions that prospective subjects SHOULD NOT meet to be eligible for participation in a study
Person: Philippe Rocca-Serra
Adapted from Clinical Research Glossary Version 4.0 CDICS glossary group
exclusion criterion
human subject enrollment
enlisting familiy members of HIV patients into a study
A planned process with the objective to obtain a population of human subjects to participate in an investigation by determining eligibility of subjects and obtaining informed consent.
As with group assignment, should the specified output here be an organism which bears a role
Bjoern Peters
IEDB
criteria come from plan / clinical trial branch
human subject enrollment
collecting specimen from organism
taking a sputum sample from a cancer patient, taking the spleen from a killed mouse, collecting a urine sample from a patient
a process with the objective to obtain a material entity that was part of an organism for potential future use in an investigation
PERSON:Bjoern Peters
IEDB
collecting specimen from organism
material component separation
Using a cell sorter to separate a mixture of T cells into two fractions; one with surface receptor CD8 and the other lacking the receptor, or purification
a material processing in which components of an input material become segregated in space
Bjoern Peters
IEDB
material component separation
maintaining cell culture
When harvesting blood from a human, isolating T cells, and then limited dilution cloning of the cells, the maintaining_cell_culture step comprises all steps after the initial dilution and plating of the cells into culture, e.g. placing the culture into an incubator, changing or adding media, and splitting a cell culture
a protocol application in which cells are kept alive in a defined environment outside of an organism. part of cell_culturing
PlanAndPlannedProcess Branch
OBI branch derived
maintaining cell culture
'establishing cell culture'
a process through which a new type of cell culture or cell line is created, either through the isolation and culture of one or more cells from a fresh source, or the deliberate experimental modification of an existing cell culture (e.g passaging a primary culture to become a secondary culture or line, or the immortalization or stable genetic modification of an existing culture or line).
PERSON:Matthew Brush
PERSON:Matthew Brush
A 'cell culture' as used here referes to a new lineage of cells in culture deriving from a single biological source.. New cultures are established through the initial isolation and culturing of cells from an organismal source, or through changes in an existing cell culture or line that result in a new culture with unique characteristics. This can occur through the passaging/selection of a primary culture into a secondary culture or line, or experimental modifications of an existing cell culture or line such as an immortalization process or other stable genetic modification. This class covers establishment of cultures of either multicellular organism cells or unicellular organisms.
establishing cell culture
sequencing assay
The use of the Sanger method of DNA sequencing to determine the order of the nucleotides in a DNA template
An assay the uses chemical or biochemical means to infer the sequence of a biomaterial
PlanAndPlannedProcess Branch
OBI branch derived
sequencing assay
nucleic acid extraction
Phenol / chlorophorm extraction disolvation of protein content folllowed by ethanol precipitation of the nucleic acid fraction over night in the fridge followed by centrifugation to obtain a nucleic acid pellet.
a material separation to recover the nucleic acid fraction of an input material
PlanAndPlannedProcess Branch
OBI branch derived
requested by Helen Parkinson for MO. Could be defined class
nucleic acid extraction
adaptive immune receptor
is a receptor produced by cells of the adaptive immune system with the purpose of binding epitopes.
IEDB
IEDB
adaptive immune receptor
bodily fluid specimen
A specimen that is derived from some bodily fluid
Christian Stoeckert ORCID:0000-0002-5714-991X
Mark A. Miller ORCID:0000-0001-9076-6066
Christian Stoeckert ORCID:0000-0002-5714-991X
Mark A. Miller ORCID:0000-0001-9076-6066
bodily fluid specimen
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 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
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
TODO: Define.
Albert Goldfain
http://code.google.com/p/ogms/issues/detail?id=26
creation date: 2009-11-24T04:51:11Z
physical examination finding
A planned process whose completion is hypothesized by a health care provider to eliminate, prevent, or alleviate a disorder, the signs and symptoms of a disorder, or a pathological process
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
http://purl.obolibrary.org/obo/ogms.owl
treatment
A planned process with the objective to improve the health status of a patient that directly involves the treatment, diagnosis, or prevention of disease or injury of a patient
Albert Goldfain
Sagar Jain
http://groups.google.com/group/ogms-discuss/browse_thread/thread/a2dbc2ed1dff99d6
creation date: 2011-02-21T09:57:44Z
editor date: 2017-04-18
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
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'.
Albert Goldfain
http://groups.google.com/group/ogms-discuss/browse_thread/thread/ca0ad373f27774c5
creation date: 2011-09-20T09:57:44Z
http://purl.obolibrary.org/obo/ogms.owl
injury
A health care process that involves the interpretation of a clinical picture from a given patient (input) and the assertion to the effect that the patient has a disease, disorder, or syndrome of a certain type, or none of these (output).
Albert Goldfain
http://groups.google.com/group/ogms-discuss/browse_thread/thread/2a7008f311fac766/e7de486c94dfd82e
creation date: 2011-09-20T09:57:44Z
diagnostic process
A data item that is about a patient and is the specified output of a health care process assay or diagnostic process
creation date: 2018-11-27
clinical data item
Social Security Number(SSN) is a Centrally Registered IDentifier that is a nine-digit number issued to U.S. citizens, permanent residents, and temporary (working) residents under section 205(c) of the Social Security Act, codified as 42 U.S.C. § 405(c). The number is issued to an individual by the Social Security Administration, an independent agency of the United States government. Its primary purpose is to track individuals for Social Security purposes.
SSN
http://en.wikipedia.org/wiki/Social_Security_number
Cheng Chen(cxchen1@ualr.edu)
social security number
A social role inhering in a human being.
Mathias Brochhausen
William R. Hogan
human social role
party to a legal entity
party to a legal proceeding
party to a legal agreement
party to a marriage contract
party to a power of attorney
A human social role borne by a human being being realized in behaviour which is considered socially appropriate for individuals of a specific sex in the context of a specific culture.
Mathias Brochhausen
http://en.wikipedia.org/wiki/Gender_role
gender role
A gender role borne by a human being that is realized in behaviour which is considered socially appropriate for individuals of the male sex in the context of the culture in question.
Mathias Brochhausen
male gender
male gender role
A gender role borne by a human being that is realized in behaviour which is considered socially appropriate for individuals of the female sex in the context of the culture in question.
Mathias Brochhausen
female gender
female gender role
A role in human social processes that is realized by health care processes such as seeking or providing treatment for disease and injury, diagnosing disease and injury, or undergoing diagnosis.
William R. Hogan
health care role
Mathias Brochhausen
human health care role
A role borne by an organism and that is realized by presenting to a health care provider in a clinical encounter.
Amanda Hicks
Mathias Brochhausen
patient
CAFE domain expert working group.
In order to avoid the presumption of the formal structures and institutions of Western civilization, bearing a patient role does not entail that the organism presents at an official place of business, with an organization formally and legally registered with various gov't entities, with a person endowed by the gov't with certain certifications.
patient role
A human health care role inhering in an organization or human being that is realized by a process of providing health care services to an organism.
Mathias Brochhausen
William R. Hogan
health care provider role
A health care role borne by a human being and realized by promoting, maintaining or restoring human health through the study, diagnosis, and treatment of disease, injury and other physical and mental impairments.
Mathias Brochhausen
physician
http://en.wikipedia.org/wiki/Physician
physician role
A health care role borne by a human being and realized by the care of individuals, families, and communities so they may attain, maintain, or recover optimal health and quality of life.
Mathias Brochhausen
nurse
based on: http://en.wikipedia.org/wiki/Nursing
nurse role
Definition needed, but the idea is that we want to differentiate between provider and payer organizations. Some organizaitons have both roles (e.g., UPMC has a Hospital Division, a Physician Divison, and an Insurance Division).
health care provider organization role
person health care provider role
2
A health care provider organization role that inheres in an organization consisting of two or more physicians.
Amanda Hicks
physician practice
A health care provider organization role that inheres in an organization that is comprised of other organizations.
Amanda Hicks
integrated delivery network
An object aggregate of organisms.
Any arbitrary collection of organisms. They need not be of the same taxonomic class.
collection of organisms
An object aggregate all of whose components are human beings.
collection of humans
A role inhering in an entity realized by social interactions in human society.
Mathias Brochhausen
Previous definition: A role played by an entity in human social processes.
role in human social processes
A role in human social processes that inheres in an organization.
William R. Hogan
Defined class that we will ultimately move to an application ontology. We are leaving here for now until we determine which application ontology: it is likely going to be an ontology that does not currently (2012-06-05) exist.
Ditto for its current descendants.
organization social role
A role in human social processes that inheres in an organism.
William R. Hogan
Mathias Brochhausen
Defined class that we will ultimately move to an application ontology. We are leaving here for now until we determine which application ontology: it is likely going to be an ontology that does not currently (2012-06-05) exist.
Ditto for its current descendants.
Includes animals as well as humans. For example, pet, assistance animal, animal grown for food, work animal, domesticated animal, K-9, etc. Human roles include gender role, party to legal entities, health care provider roles like doctor, nurse, etc.
Previous definition: A role in human social processes played by an organism.
organism social role
An organization social role that is realized by a health care process.
Previous definition: An organization social role played by an organization in health care processes.
organization health care role
A patient role that inheres in a human being.
human patient role
2
An object aggregate that is not itself an organization and whose members are only organizations that have some feature in common
William R. Hogan
Amanda Hicks
It is often convenient to group organizations together that otherwise might not even interact with one another.
aggregate of organizations
A role borne by a human individual or by a collection of humans regarded as possessing rights and duties enforeable at law.
Mathias Brochhausen
Malcolm N. Shaw: International Law. Cambridge University Press, Cambridge, 2008.
We are aware of the fact that Wikipedia's definition differs from ours by saying that "Legal personality (...) is the characteristic of a non-living entity regarded by law to have the status of personhood" (http://en.wikipedia.org/wiki/Legal_personality)
However, Shaw explicates:
"In any legal system, certain entities, whether they be individuals or companies, will be regarded as possessing rights and duties enforceable at law. Thus an individual may prosecute or be prosecuted for assault and a company can sue for breach of contract. They are able to do this because the law recognises them as 'legal persons' possessing the capacity to have and to maintain certain rights, and being subject to perform specific duties. (...) In municipal law individuals, limited companies and public corporations are recognized as each possessing a distinct legal personality, the terms of which are circumscribed by the relevant legislation" (Shaw MN: International Law. Sixth Edition. Cambridge University Press, Cambridge, 2008). We hold that Shaw's position is ontological more prolific since it not only allows to explain how groups of individuals become recognized as unities at law, but also how different individuals can hold different legal personality roles (always against the context of one legal system). The latter will proof useful when dealing with the representing comatous patients or minorsat law in ontologies.
legal person role
A role that inheres in an organism and is realized by habitually smoking tobacco products.
smoker role
material entity role
A healthcare provider role that inheres in an organization and is realized by providing inpatient and outpatient care.
Mathias Brochhausen
hospital role
An organization social role that inheres in an organization and is realized by providing formal education to students.
Mathias Brochhausen
school role
An organization that is the bearer of a school role.
Mathias Brochhausen
school organization
A human social role that is realized by the process of formal education that the bearer undergoes.
Mathias Brochhausen
student role
Mathias Brochhausen
nursery school role
Mathias Brochhausen
primary school role
Mathias Brochhausen
secondary school role
A trauma patient role that inheres in a homo sapiens who is under the age of 15 years.
Amanda Hicks
pediatric trauma patient
The following definition for 'pediatric trauma patient' was approved by the CAFE team of domain experts (experts in trauma care) May 29, 2015.
"A trauma patient who is under the age of 15 years."
pediatric trauma patient role
A patient role that inheres an organism suffering one or more injuries.
Amanda Hicks
injured patient
The following definition for 'injured patient' was approved by the CAFE team of domain experts (experts in trauma care) May 29, 2015.
A patient suffering one or more injuries.
injured patient role
A patient role that inheres in an organism suffering a thermal, electrical, chemical or radiation burn.
Amanda Hicks
The following definition for 'burn patient' was approved by the CAFE team of domain experts (experts in trauma care) May 29, 2015.
A patient suffering a thermal, electrical, chemical or radiation burn.
burn patient
burn patient role
A physician role that is created by training and certification in rehabilitation/physical medicine and that is realized by the provision of or supervising of the provision of rehabilitation or physical therapy to a patient.
Amanda Hicks
physiatrist
The following definition for 'physiatrist' was approved by the CAFE team of domain experts (experts in trauma care) May 29, 2015.
A physician with training and certification in rehabilitation/physical medicine.
Definition updated May 5, 2016. Original definitions was, a health care role borne by a human being and realized by training and certification in rehabilitation medicine.
physiatrist role
A patient role that inheres in an organism with some non-superficial traumatic injury. The role is realized by admision to a hospital, transfer from one hospital to another for the purpose of trauma care, or has death as a result of the traumatic injury.
Amanda Hicks
trauma patient
The following definition for 'trauma patient' was approved by the CAFE team of domain experts (experts in trauma care) May 29, 2015.
A patient sustaining an injury who has been admitted to the hospital, transferred from one hospital to another for the purpose of trauma care, or has died as a result of the traumatic injury.
trauma patient role
A function that inheres in a material entity and, if realized, is realized by protecting persons and their possessions from weather and by some person or group of persons habitually sleeping in at least one site that is contained by that material entity.
Amanda Hicks
residence function
A human or collection of humans that occupies a housing unit by storing their possessions there and habitually sleeping there thereby participating in the realization of its residence function.
Amanda Hicks
household
Amanda hicks
employee
employee role
A US cenus reference person role is a human social role that inheres in a Homo sapiens who is a member of a household and is realized by other persons in the household being recorded in the US census in relation to that person.
Amanda Hicks
http://www.census.gov/cps/about/cpsdef.html
last accessed June 30, 2015
US Census reference person role
A role that concretizes a socio-lega generically dependent continuant
Amanda Hicks
socio-legal human social role
A socio-legal human social role that concretizes a socio-legally generically dependent continuat that was created by a declaration performed by an organization.
Amanda Hicks
human role within an organization
employer role
payer role
party to an insurance policy
Amanda Hicks
A US Census unemployed role is a human social role that inheres in a human who is legally eligible to work, is conferred by the U.S. Census Bureau, and is realized by the bearer not working and either making active efforts to find employment in the four weeks prior to the reference week or waiting to be recalled from temporary layoff.
US Census unemployed role
A human health care provider role that inheres in a human being that is created by state licensing and that is realized by taking patient histories, performing physical exams, diagnosing illnesses, developing treatment plans, ordering lab tests, prescribing medications, counselling and educating patients, suturing wounds, and assisting in surgery under the supervision of a physician or a surgeon.
US physician assistant role
A physician role that inheres a human being and, if it is realized, is realized either by administering medication for the temporary general or local suppression of sensory or motor nerve function during some health care encounter or by making decisions independently of a supervising physician regarding the adminstration of such medication.
anesthesiologist role
surgeon role
A surgeon role realized by its bearer using performing neurosurgery.
neurosurgereon role
A role that inheres in an organism and is realized by habitually smoking 10 or more tobacco cigerettes a day or the equivalent in other tobacco products.
heavy smoker role
A role that inheres in an organism and is realized by habitually smoking 1>10 tobacco cigerettes a day or the equivalent in other tobacco products.
light smoker role
employment data
income data
government assistance health care plan data
health care plan data
government assistance income data
WIC data
socio-economic data
A planned process that achieves the planned objective of precision medicine objective. Specifically, it is a medical process that includes the customization of healthcare, with medical decisions, treatments, practices, or products being tailored to the individual patient.
Oliver He, Jie Zheng
https://en.wikipedia.org/wiki/Precision_medicine
precision medicine process
An investigation that is targeted for precision medicine
https://en.wikipedia.org/wiki/Precision_medicine
precision medicine investigation
the number of people living together supported jointly by an household income
https://www.healthcare.gov/income-and-household-information/household-size/
We may use IRS's definition: https://www.healthcare.gov/income-and-household-information/household-size/
household size
more than 5.5 pounds (2500 grams) birth weight
less than 5.5 pounds (2500 grams) birth weight
unknown birth weight
birth weight declined to answer
individual plan insurance (paid by the member)
group plan insurance through employee union
USA government health plan insurance
no insurance status
body temperature measured orally
body temprature by ear (tempanic, aural)
body temprature by forhead
arterial line body temperature
What is other?
body temprature by other measurement
An education level that indicates a grade of higher than 7th but lower than 12 as the highest level of educational achievement.
higher than 7th but less than 12th Grade education level
direct serum bilirubin level
precision medicine objective
An education level that indicates the 7th grade complete or less as the highest level of educational achievement.
less than 8th Grade education level
An education level that indicates that the highest level of education achievement for a person is a high school completion, GED, or equivalent
high school completion, GED or equivalent
An information content entity that is the answer to a specific question
Fred Dowd, Oliver He
answer to question
An answer to question where the answer is Yes.
Oliver He, Fred Dowd
yes answer to question
An answer to question where the answer is No.
Fred Dowd, Oliver He
no answer to question
An answer to question that indicates the response to the specified question is unknown.
Fred Dowd, Oliver He, Edison Ong
do not know answer to question
unknown answer to question
A do not know answer to question that is answered due to data unavailable
Fred Dowd, Oliver He
do not know due to data unavailable answer to question
An answer to question where one declines to answer the specified question.
Fred Dowd, Oliver He
decline to answer
declined to provide
refuse to answer
refused to answer
declined to answer to question
An answer to question that is not enumerated in the list and then may be entered with free text in a separate text box
Oliver He, Fred Dowd
other answer to question
An answer to question that is not listed in the whole list of response options
Oliver He, Fred Dowd
none answer to question
A textual entity that is a question presented in text
Fred Dowd, Oliver He
textual question
medical history form
A form with questions that is used to assess a person's eligibility to participate in a specific study (e.g., kidney precision medicine project).
Fred Down, Oliver He
eligibility assessment form
A form with questions that includes statistical data related to particular groups within a population where a person belongs to
Fred Dowd, Oliver He
demographics form
https://www.investopedia.com/terms/d/demographics.asp
demographic information form
physical measurement form
A textual question that includes a list of enumerated answers
Fred Dowd, Oliver He
question with enumerated responses
A question that has two primary and definitive answers: Yes and No, and there may be other given options like Don't know or Decline to answer.
Fred Dowd, Oliver He
question with yes and no responses
A question with enumerated responses where one can only choose one answer.
Fred Dowd, Oliver He
question with enumerated responses where only one answer chosen
A question with enumerated responses where one can choose multiple answers.
Fred Dowd, Oliver He
question with enumerated responses where multiple answers may be chosen
A case report form (or CRF) is a paper or electronic questionnaire specifically used in clinical trial research
Oliver He, Edison Ong, Fred Dowd, Hong Yu
CRF
https://en.wikipedia.org/wiki/Case_report_form
https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4170533/
case report form
Fred Down, Oliver He
laboratory result form
Fred Down, Oliver He
new patient form
Fred Down, Oliver He
biopsy procedure form
kidney biopsy procedure form
Fred Down, Oliver He
consent form
Fred Down, Oliver He
paper form
Medical records release form is usually required to be a paper form that should be signed by the patient who agrees to have his/her medical records released.
Fred Dowd, Oliver He
paper form with signature required
A public health process that involves clean drinking water and adequate treatment and disposal of human and animal excreta and sewage.
https://en.wikipedia.org/wiki/Sanitation
sanitation
A form that includes the information of contact for a person
Edison Ong, Oliver He
contact information form
biosample collection form
clinic reception form
medications form
participant study status form
hospitalization form
personal history form
AKI hospitalization form
CKD hospitalization form
Fred Dowd, Oliver He
This should be a paper form
participant reported outcome measures form
health literacy questionnaire form
biopsy safety checklist form
post biopsy form
A clinical report form that covers the information about the tracking of biopsied tissue
tissue tracking form
pathology images upload form
Dx core - .jpg images QC form
diagnostic core .jpg images QC form
Dx core - disease categories form
diagnostic core - disease categories form
central path quality metrics assessment Dx core form
central path quality metrics assessment interrogation core form
post-biopsy patient experience survey form
adverse event entry form
month of year
The first month of the year in the Gregorian calendar
https://en.wikipedia.org/wiki/Gregorian_calendar
January
The second month of the year in the Gregorian calendar.
https://en.wikipedia.org/wiki/Gregorian_calendar
February
The third month of the year in the Gregorian calendar.
https://en.wikipedia.org/wiki/Gregorian_calendar
March
The4th month of the year in the Gregorian calendar
https://en.wikipedia.org/wiki/Gregorian_calendar
April
The 5th month of the year in the Gregorian calendar
https://en.wikipedia.org/wiki/Gregorian_calendar
May
The 6th month of the year in the Gregorian calendar
https://en.wikipedia.org/wiki/Gregorian_calendar
June
The 7th month of the year in the Gregorian calendar
https://en.wikipedia.org/wiki/Gregorian_calendar
July
The 8th month of the year in the Gregorian calendar
https://en.wikipedia.org/wiki/Gregorian_calendar
August
The 9th month of the year in the Gregorian calendar
https://en.wikipedia.org/wiki/Gregorian_calendar
September
The 10th month of the year in the Gregorian calendar
https://en.wikipedia.org/wiki/Gregorian_calendar
October
The 11th month of the year in the Gregorian calendar
https://en.wikipedia.org/wiki/Gregorian_calendar
November
The 12th month of the year in the Gregorian calendar
https://en.wikipedia.org/wiki/Gregorian_calendar
December
A day of a calendar week that includes covers 24 hours each day.
https://en.wikipedia.org/wiki/Week
day of week
The first day of the week.
https://en.wikipedia.org/wiki/Week
Monday
The second day of the week.
https://en.wikipedia.org/wiki/Week
Tuesday
The third day of the week.
https://en.wikipedia.org/wiki/Week
Wednesday
The fourth day of the week.
https://en.wikipedia.org/wiki/Week
Thursday
The fifth day of the week.
https://en.wikipedia.org/wiki/Week
Friday
The 6th day of the week.
https://en.wikipedia.org/wiki/Week
Saturday
The 7th day of the week.
https://en.wikipedia.org/wiki/Week
Sunday
A day when an organism (e.g., a human) is born.
Oliver He, Long Tran
birth date
https://www.ohdsi.org/web/wiki/doku.php?id=documentation:cdm:person
day of birth
the anniversary of the birth of a person
Oliver He
https://en.wikipedia.org/wiki/Birthday
There is a difference between birthday and birthdate: The former, such as February 29, occurs each year, while the latter is the exact date a person was born (e.g., January 15, 2001).
birthday
information associated with an individual
Oliver He
https://www.oic.qld.gov.au/guidelines/for-government/access-and-amendment/introduction-to-the-acts/what-is-personal-information
personal information
A name of a person, which can have different types
human name
https://en.wikipedia.org/wiki/Personal_name
person name
Christian name
forename
given name
https://en.wikipedia.org/wiki/Personal_name
person first name
family name
surname
https://en.wikipedia.org/wiki/Personal_name
person last name
https://en.wikipedia.org/wiki/Personal_name
person middle name
患者本人在公安户籍管理部门正式登记注册的姓氏和名称
Suyuan Peng, Hong Yu, Yongqun He
https://en.wikipedia.org/wiki/Personal_name
《电子病历基本数据集 第10部分:住院病案首页》WS 445.10-2014
person full name
A person name that identifies a person for legal, administrative and other official purposes
Oliver He
legal name
https://en.wikipedia.org/wiki/Legal_name
person legal name
A person name that is given at birth
birth name
A person name that is used for a person to access a computer system.
person login username
A woman's surname before marriage
Edison Ong, Oliver He
https://en.wikipedia.org/wiki/Maiden_and_married_names
maiden name
A person name that is fictitious and generated for a person to perform a particular social role.
pseudonym
Personal information that indicates a person's status in marriage
https://en.wikipedia.org/wiki/Marital_status
marital status
civil status
married
https://en.wikipedia.org/wiki/Marital_status
married marital status
single marrital status
divorced marrital status
A marital status that indicates no marriage status due to the death of his/her spouse and no remarriage.
Oliver He
https://en.wikipedia.org/wiki/Widow
widowed marrital status
legally separated marital status
not married marital status
An education level that indicates that the highest level of education achievement for a person.
Oliver He, Edison Ong
highest degree of education completed
highest degree of education received
highest degree of school completed
education level
A telephone number is a sequence of digits assigned to a fixed-line telephone subscriber station connected to a telephone line or to a wireless electronic telephony device, such as a radio telephone or a mobile telephone, or to other devices for data transmission via the public switched telephone network (PSTN) or other public and private networks.
Oliver He
phone number
https://en.wikipedia.org/wiki/Telephone_number
telephone number
A telephone number used for a phone at home
Oliver He
home phone number
home telephone number
A telephone number used for a phone at work
Oliver He
work phone number
work telephone number
A telephone number that is used in a cellular device
Oliver He
cell phone number
cellular phone number
cellular telephone number
The status of actively looking for employment, but not being currently employed.
joblessness
unemployment
https://en.wikipedia.org/wiki/Unemployment
NCIT_C75563
C0041674
unemployment status
home postal address
work postal address
A series of letters or digits or both, sometimes including spaces or punctuation, included in a postal address for the purpose of sorting mail.
Oliver He
post code
postcode
https://en.wikipedia.org/wiki/Postal_code
postal code
A ZIP Code is a postal code used by the United States Postal Service (USPS). The term ZIP is an acronym for Zone Improvement Plan.
Oliver He, Fred Dowd
https://en.wikipedia.org/wiki/ZIP_Code
ZIP code
The personal information that indicates an individual's or his/her family's economic and social position in relation to others, based on income, education, and occupation.
Oliver He
https://en.wikipedia.org/wiki/Socioeconomic_status
socioeconomic status
An socioeconomic status that indicates the status of being employed in an occupation to perform an activity or service for wage or salary. It is the status of a worker in a company or institute on the basis of the contract of work or duration of work done.
Oliver He
https://definitions.uslegal.com/e/employment-status/
https://en.wikipedia.org/wiki/Employment
NCIT_C25172
C0014003
employment status
A state of employment in which a person works for a minimum number of hours defined as full-time by their employer.
https://en.wikipedia.org/wiki/Full-time
NCIT_C52658
C0682295
full time employment status
a status of employment that carries fewer hours per week than a full-time job.
part-time contract
part-time employment
https://en.wikipedia.org/wiki/Part-time_contract
NCIT_C75562
C0682294
part time employment status
an employment status where the work is arranged and paid on a hourly basis.
NCIT_C116002
C0681101
hourly employment status
The state of working for oneself rather than an employer.
https://en.wikipedia.org/wiki/Self-employment
NCIT_C116000
C0425092
self-employment status
An employment situation where the working arrangement is limited to a certain period of time based on the needs of the employing organization.
odd job
temporary work
https://en.wikipedia.org/wiki/Temporary_work
temporary employment status
An education level that indicates that the highest level of education achievement for a person is a Master's degree.
M.S. degree education level
MS degree completed
Master's degree education level
An education level that indicates that the highest level of education achievement for a person is an academic Doctorate degree
Ph.D. degree education level
PhD degree completed
academic Doctorate degree education level
An education level that indicates that a person does not have formal school education.
no formal school education level
An education level that indicates that the highest level of education achievement for a person is a high school completion.
high school education level
An education level that indicates that the highest level of education achievement for a person is a Bachelor's degree
B.S. degree completed
B.S. degree education level
Bacholar's degree completed
Bachelor's degree education level
An education level that indicates that a person has obtained a degree allowing them to practice a profession, such as law, medicine, music, or ministry.
NCIT_C70558
C2347690
professional doctorate degree education level
M.D. completion education level
Pharmacy complete education level
An education level that indicates that the highest level of education achievement for a person is kindergarten completion.
kindergarten completion education level
An education level that indicates that the highest level of education achievement for a person is preschool.
preschool completion education level
An education level that indicates that the highest level of education achievement for a person is the pass of a General Education Development (GED) tests. The GED tests are a group of four subject tests which, when passed, provide certification that the test taker has United States or Canadian high school-level academic skills.
general equivalency diploma completion
https://en.wikipedia.org/wiki/General_Educational_Development
GED education level
An education level that indicates that the highest level of education achievement for a person is the 1st Grade elementary school completion.
1st Grade education level
An education level that indicates that the highest level of education achievement for a person is the second Grade elementary school completion.
2nd Grade education level
An education level that indicates that the highest level of education achievement for a person is the third Grade elementary school completion.
3rd Grade education level
An education level that indicates that the highest level of education achievement for a person is the 4th Grade elementary school completion.
4th Grade education level
An education level that indicates that the highest level of education achievement for a person is the 5th Grade elementary school completion.
5th Grade education level
An education level that indicates that the highest level of education achievement for a person is the 6th Grade elementary school completion.
6th Grade education level
An education level that indicates that the highest level of education achievement for a person is the 7th Grade elementary school completion.
7th Grade education level
An education level that indicates that the highest level of education achievement for a person is the 8th Grade elementary school completion.
8th Grade education level
An education level that indicates that the highest level of education achievement for a person is the 9th Grade elementary school completion.
9th Grade education level
An education level that indicates that the highest level of education achievement for a person is the 10th Grade elementary school completion.
10th Grade education level
An education level that indicates that the highest level of education achievement for a person is the 11th Grade elementary school completion.
11th Grade education level
An education level that indicates that the highest level of education achievement for a person is the 12th Grade elementary school completion.
12th Grade education level
An education level that indicates that the highest level of education achievement for a person is a degree from a 2 year college program.
NCIT_C19752
C1879750
associate academic degree education level
An education level that indicates that the highest level of education achievement for a person is a degree from an occupational, technical, or vocational program
NCIT_C67141
C1883542
vocational program completion education level
The code in the specific coding system for the payment method of the expenses incurred in a single hospitalization of the patient
患者单次住院诊疗所发生费用的支付方式的特定编码体系中的代码
Suyuan Peng, Hong Yu, Yongqun He
《电子病历基本数据集 第10部分:住院病案首页》WS 445.10-2014
NCIT_C16745
C0021672
医疗付费方式
health insurance plan
A joint federal and state program that helps with medical costs for some people with limited income and resources.
https://en.wikipedia.org/wiki/Medicaid
Medicaid
Medicare is a national health insurance program in the United States, begun in 1966 under the Social Security Administration and now administered by the Centers for Medicare and Medicaid Services (CMS).
https://en.wikipedia.org/wiki/Medicare_(United_States)
Medicare
private health insurance plan
worker compensation insurance plan
body weight
A body weight that is obtained immediately after birth
Oliver He, Edison Ong
NCIT_C76325
birth weight
emergency contact phone number
care provider
1st care provider
primary care provider
a centrally registered identifier symobol that refers to a specific study
Oliver He, Edison Ong
study ID
centrally registered study identifier symbol
2nd care provider
secondary care provider
3rd care provider
tertiary care provider
An email address that is used secondary after the de fault first email address.
2nd email address
A textual question about age
Fred Dowd, Oliver he
age question
A textual question that asks whether a person's age is less than 18 years old
Fred Dowd, Oliver He
Whether age less than 18 years old
An eligibility assessment form that is designed and used by the Kidney Precision Medicine Project (KPMP; http://kpmp.org) organization.
Oliver He, Edison Ong, Fred Dowd
KPMP eligibility assessment form
BMI question
Whether BMI greater than 40 kg/m2
Whether BMI greater than 40 kg per m2
BMI greater than 40 kg per m2
question about blood transfusion
Edison Ong, Oliver He
Whether unwilling to receive blood transfusion
pregnancy question
A pregnancy question that asks whether a person is pregnant at the moment of being questioned
Fred Dowd, Oliver He
Whether pregnancy occurs now
Whether pregnant
transplant question
A transplant question that asks whether a person has received some transplant (includes solid transplant and bone marrow). Example transplants are kidney transplant and heart transplant.
Fred Dowd, Oliver He
Whether transplant recipient
A transplant question that asks whether a person has received a kidney transplant.
Fred Dowd, Oliver He
Whether kidney transplant recipient
KPMP clinical report form
A biopsy procedure form that is designed and used by the Kidney Precision Medicine Project (KPMP) organization.
Oliver He, Fred Dowd, Edison Ong
KPMP biopsy procedure form
A biosample collection form that is designed and used by the Kidney Precision Medicine Project (KPMP) organization.
KPMP biosample collection form
An adverse event entry form that is designed and used by the Kidney Precision Medicine Project (KPMP) organization.
KPMP adverse event entry form
A biopsy safety checklist form that is designed and used by the Kidney Precision Medicine Project (KPMP) organization.
Oliver He, Fred Dowd, Edison Ong
KPMP biopsy safety checklist form
A clinic reception form that is designed and used by the Kidney Precision Medicine Project (KPMP) organization.
Oliver He, Edison Ong, Fred Dowd
KPMP clinic reception form
A contact information form that is designed and used by the Kidney Precision Medicine Project (KPMP) organization.
KPMP contact information form
KPMP demographic information form
KPMP health literacy questionnaire form
A textual question that is about eligibility of a person to participate in a project.
Edison Ong, Oliver He
eligibility question
KPMP AKI hospitalization form
KPMP CKD hospitalization form
KPMP laboratory result form
KPMP medical history form
Fred Dowd, Oliver He
This form is the end of a successful screening process
KPMP consent form
KPMP medications form
KPMP new patient form
KPMP participant reported outcome measures form
KPMP participant study status form
KPMP pathology images upload form
KPMP patient experience survey form
KPMP personal history form
KPMP physical measurement form
KPMP post biopsy form
KPMP tissue tracking form
KPMP Dx core - .jpg images QC form
KPMP Dx core - disease categories form
KPMP central path quality metrics assessment Dx core form
KPMP central path quality metrics assessment interrogation core form
The last four digits of a social security number, which is often asked in a survey form.
Oliver He
last 4 digits of SSN
http://en.wikipedia.org/wiki/Social_Security_number
last four digits of social security number
A question in a survey form may ask whether a provided email address belongs to self
The self is an individual person as the object of his or her own reflective consciousness.
Oliver He
human self
https://en.wikipedia.org/wiki/Self
self
A textual question about age
Fred Dowd, Oliver he
email question
An email question that asks the exact email address
What email address
An email question that asks whether the email address provided belongs to the person being surveyed.
Whether self owns email address
An email question that asks whether the email address provided belongs to the person being surveyed.
Who owns email address
A textual question that asks the birthday of the person being surveyed
What is your birthday
The textual name of the contact person or organization
contact name
The textual name of the contact person or organization that will be contacted during emergency
emergency contact name
Who owns the 2nd email address
Who owns the 3rd email address
physician information
physician specialty information
Health care or healthcare is the maintenance or improvement of health via the prevention, diagnosis, and treatment of disease, illness, injury, and other physical and mental impairments in human beings.
Oliver He
healthcare
https://en.wikipedia.org/wiki/Health_care
health care
A health care rendered for the benefit of a patient.
C0017313
C15239
patient care
Primary care refers to the work of health professionals who act as a first point of consultation for all patients within the health care system
Oliver He
https://en.wikipedia.org/wiki/Health_care#Primary_care
C94340
C0033137
primary care
Secondary care includes acute care: necessary treatment for a short period of time for a brief but serious illness, injury, or other health condition. This care is often found in a hospital emergency department. Secondary care also includes skilled attendance during childbirth, intensive care, and medical imaging services.
Oliver He
https://en.wikipedia.org/wiki/Health_care#Secondary_care
secondary care
Tertiary care is specialized consultative health care, usually for inpatients and on referral from a primary or secondary health professional, in a facility that has personnel and facilities for advanced medical investigation and treatment, such as a tertiary referral hospital.
Oliver He
https://en.wikipedia.org/wiki/Health_care#Tertiary_care
tertiary care
The term quaternary care is sometimes used as an extension of tertiary care in reference to advanced levels of medicine which are highly specialized and not widely accessed.
Oliver He
https://en.wikipedia.org/wiki/Health_care#Quaternary_care
quaternary care
A patient care that is provided in hospital.
Oliver He
https://en.wikipedia.org/wiki/Health_care#Secondary_care
It is sometimes the synonym of secondary care. However, many secondary care providers, such as psychiatrists, clinical psychologists, occupational therapists, most dental specialties or physiotherapists do not necessarily work in hospitals. Some primary care services are delivered within hospitals. Depending on the organization and policies of the national health system, patients may be required to see a primary care provider for a referral before they can access secondary care.
hospital care
nephrology care
endocrinology care
physician question
What is the physician's specialty?
What physician's specialty
hospital question
What is name of clinic or hospital
what name of hospital
postal address question
address question
What street name
What is the city name?
What city
What state
What Zip code
What street number and name
What apartment number
What apartment
Which country?
What country
Do you have physician who provides your usual medical care?
Whether have physician for usual medical care
nephrologist care provider
nephrology care provider
patient condition question
Whether diabetic kidney disease (DKD)
Whether hypertensive CKD (H-CKD)
Whether diabetic nephropathy resisters percutaneous biopsy
Whether AKI percutaneous biopsy
Whether AKI open biopsy
Whether biopsy
CRF filled up by patient
What postal code
CRF filled up by research coordinator
CRF filled up by biopsy operator
biopsy-related CRF
post biopsy hospitlization form
A clinical report form that is related to the processing and analysis of tissue of diseased patient.
pathology CRF
screening and patient tracking CRF
enrollment CRF
A eligibility question that asks whether a patient is eligible to consent to participate in a project.
Oliver He, Edison Ong
Whether patient eligible to consent
HIPAA release
Whether patient signed HIPPA release form
When HIPAA release form signed
Whether scanned HIPAA release form uploaded
A chronic kidney disease that is accompanied with elevated blood pressure or hypertension
Oliver He
H-CKD
https://www.nejm.org/doi/full/10.1056/NEJMoa0910975
Oliver note: This term is not shown in MONDO or DOID. May request an addition.
hypertensive chronic kidney disease
a process that obtains a tissue from a living body in order to discover the presence, cause, or extent of a disease, or perform further biomeidcal investigation
Oliver He, Hong Yu
https://en.oxforddictionaries.com/definition/biopsy
https://en.wikipedia.org/wiki/Biopsy
biopsy
A systematized collection of patient and population electronically-stored health information in a digital format
Oliver He, Edison Ong
EHR
EMR
electronic medical record
https://en.wikipedia.org/wiki/Electronic_health_record
NCIT_C142529
NCIT definition: A digital version of a patient's medical history. [def-source: NCI]
electronic health record
A biopsy that takes a small piece of tissue out of a living body through the skin, using only a tiny incision
Oliver He, Hong Yu
http://www.wales.nhs.uk/sitesplus/documents/866/PIU433%284%29%28ABUHB%29%28Active%29%28JAN%2017%29.pdf
percutaneous biopsy
AKi percutaneous biopsy
A biopsy process in which a surgical incision (cut) is made through the skin to expose and remove tissues
Oliver He, Hong Yu
https://en.wikipedia.org/wiki/Open_biopsy
open biopsy
AKI open biopsy
diabetic nephropathy resisters percutaneous biopsy
The state of being free from illness or injury
Oliver He, Edison Ong
health state
https://en.oxforddictionaries.com/definition/health
https://en.wikipedia.org/wiki/Health
https://www.healthknowledge.org.uk/public-health-textbook/research-methods/1c-health-care-evaluation-health-care-assessment/measures-health-status
health status
The medical state or condition of a patient
Oliver He, Edison Ong
medical state
https://en.wikipedia.org/wiki/Medical_state
medical condition
Whether diseased
Whether kidney diseased
the date or time on which a visit occurs
Oliver He
clinical visit date
visit time
NCIT_C83031
C1320303
visit temporal region
a machine-readable centrally registered identifier that is represented in a visual format on a surface
bar code
https://en.wikipedia.org/wiki/Barcode
barcode
a barcode that represents a specific specimen
specimen barcode
A planned process that tracks the tissue specimen including tissue vial number, storage location, time of vial arrival to storage, storage temperature, etc.
Oliver He, Edison Ong
tissue tracking
A centrally registered identifier that is assigned for a specific clinical trial registered in the ClinicalTrials.gov. The format for the ClinicalTrials.gov registry number is “NCT” followed by an 8-digit number, e.g.: NCT00000419.
Qingliang Leon Li, Asiyah Yu Lin, Oliver He
NCT identifier
NCT number
National Clinical Trial identifier
https://clinicaltrials.gov/ct2/about-site/link-to
https://www.nlm.nih.gov/bsd/policy/clin_trials.html
USA National Clinical Trial identifier
A textual entity that is the title of a clinical trial
https://prsinfo.clinicaltrials.gov/definitions.html
title of clinical trial
A title of clinical trial that is recorded as official
https://prsinfo.clinicaltrials.gov/definitions.html
official title of clinical trial
A title of clinical trial that is meant for lay people understanding
https://prsinfo.clinicaltrials.gov/definitions.html
lay title of clinical trial
A person who performs an investigation task and takes the role of an investigator role.
Leon Li, Oliver He, Asiyah Lin
https://prsinfo.clinicaltrials.gov/definitions.html
investigator
An investigator who is involved in a clinical trial and is responsible for ensuring that an investigation is conducted according to the signed investigator statement, the investigational plan, and applicable regulations; for protecting the rights, safety, and welfare of subjects under the investigator's care; and for the control of drugs under investigation.
Oliver He
https://en.wikipedia.org/wiki/Clinical_investigator
clinical investigator
The date on which a study starts
study start date
The (estimated) date on which the clinical study is open for recruitment of participants, or the actual date on which the first participant is enrolled.
https://prsinfo.clinicaltrials.gov/definitions.html
clinical trial start date
The date on which a study completes
Oliver He
study completion date
The date the final participant was examined or received an intervention for purposes of final collection of data for the primary and secondary outcome measures and adverse events (for example, last participant’s last visit), whether the clinical study concluded according to the pre-specified protocol or was terminated.
https://prsinfo.clinicaltrials.gov/definitions.html
clinical trial study completion date
The date that the final participant was examined or received an intervention for the purposes of final collection of data for the primary outcome, whether the clinical study concluded according to the pre-specified protocol or was terminated. In the case of clinical studies with more than one primary outcome measure with different completion dates, this term refers to the date on which data collection is completed for all of the primary outcomes.
https://prsinfo.clinicaltrials.gov/definitions.html
clinical trial primary completion date
The main objective of the intervention(s) being evaluated by the clinical trial.
primary purpose of clinical trial
https://prsinfo.clinicaltrials.gov/definitions.html
clinical trial primary purpose specification
a date when a registration occurs
date of registration
A primary outcome measure used to describe patterns of diseases or traits or associations with exposures, risk factors or treatment.
primary outcome
https://prsinfo.clinicaltrials.gov/definitions.html
primary health outcome measurement datum
The current stage of a clinical study and whether it is or will be open for enrollment
Oliver He
https://clinicaltrials.gov/ct2/help/glossary/recruitment-status
recruitment status
A case report form that is presented in an electronic format
Fred Dowd, Oliver He
eCRF
https://en.wikipedia.org/wiki/Case_report_form#eCRF
electronic case report form
A human being who is a candidate to participant in a clinical study
Fred Dowd, Oliver He
clinical study participant candidate
answering textual question
a date of the present date
Oliver He, Edison Ong
today's date
CRF filled up by participant candidate
Fred Dowd, Edison Ong, Oliver He
pregnancy test positive
Fred Dowd, Edison Ong, Oliver He
hemoglobin test finding
Fred Dowd, Edison Ong, Oliver He
In KPMP, the hemoglobin < 9 g/dl is considered as hemoblobin test positive.
hemoglobin test positive with result < 9 g/dl
a date when a test is performed at the first time
Oliver He, Edison Ong
date of first test
a date when a test is performed
Oliver He, Edison Ong
date of test
a date when a test is performed at the second time
Oliver He, Edison Ong
date of second test
A person name that includes both the first and last name
Edison Ong, Oliver He
first and last name
human first and last name
person first and last name
A date when a document is signed
Oliver He, Edison Ong
sign date
Oliver He, Edison Ong
status
The current stage of a clinical study and whether it is or will be open for enrollment
Oliver He
https://clinicaltrials.gov/ct2/help/glossary/recruitment-status
study status
Oliver He, Edison Ong
patient status
a selection criterion (rule) which defines and states the exclusion condition for an entity to be considered as suitable for a given task or participation in a process.
Oliver He, Edison Ong
https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6044655/
Replace by a corresponding OBI term
exclusion criterion - obsolete
An exclusion criterion that relates to the process of bleeding
Oliver He, Edison Ong
bleeding exclusion criteria
A case report form of PROMIS: Patient-Reported Outcomes Measurement Information System. PROMIS is a set of person-centered measures that evaluates and monitors physical, mental, and social health in adults and children. It can be used with the general population and with individuals living with chronic conditions.
Fred Dowd, Edison Ong, Oliver He
Patient-Reported Outcome Measures form
http://www.healthmeasures.net/explore-measurement-systems/promis
PROMIS form
kit identifier
A centrally registered identifier that is for a kit used in biopsy
Fred Dowd, Edison Ong, Oliver He
biopsy kit identifier
A PROMIS form that is designed and used by the KPMP project (http://kpmp.org).
Oliver He
KPMP PROMIS form
A biopsy attempt
Fred Dowd, Edison Ong, Oliver He
biopsy pass
A biopsy that uses needle
Fred Dowd, Edison Ong, Oliver He
needle biopsy
A textual question about health condition
Oliver He, Edison Ong
health status question
A health status question that asks about the condition of a person's heath, which can be a selection from different options such as Excellent, Very good, Good, Fair, or Poor.
Oliver He, Edison Ong
what health status
excellent health status
very good health status
good health status
fair health status
poor health status
quality of life
excellent quality of life
very good quality of life
good quality of life
fair quality of life
poor quality of life
consent status
A consent status that indicates a participant unwilling to receive a procedure of blood transfusion
Edison Ong, Oliver He
unwilling to receive a blood transfusion
A consent status that indicates a participate willing to receive a procedure of blood transfusion
Edison Ong, Oliver He
willing to receive a blood transfusion
year
A textual quesition thta is about medical history of a person
medical history question
What birth weight
Qingliang Leon Li, Asiyah Yu Lin, Oliver He
https://pubchem.ncbi.nlm.nih.gov/source/NIPH%20Clinical%20Trials%20Search%20of%20Japan
https://rctportal.niph.go.jp/en/
Japan clinical trial identifier
A Japan clinical trial identifier provided by the University Hospital Medical Information Network Center (UMIN-CTR)
Qingliang Leon Li, Asiyah Yu Lin, Oliver He
https://rctportal.niph.go.jp/en/
UMIN-CTR clinical trial identifier
Qingliang Leon Li, Asiyah Yu Lin, Oliver He
https://rctportal.niph.go.jp/en/
JAPIC clinical trial identifier
Qingliang Leon Li, Asiyah Yu Lin, Oliver He
https://rctportal.niph.go.jp/en/
JMACCT clinical trial identifier
EudraCT Number: 2007-002422-29
Qingliang Leon Li, Asiyah Yu Lin, Oliver He
EudraCT identifier
https://en.wikipedia.org/wiki/EudraCT
https://www.clinicaltrialsregister.eu/ctr-search/search
https://www.clinicaltrialsregister.eu/ctr-search/search?query=eudract
European clinical trial registry identifier
A clinical trial that covers both Phase 1 and 2
Leon Li, Asiyah Lin, Oliver He
https://en.wikipedia.org/wiki/Clinical_trial
Phase I/II clinical trial
Leon Li, Asiyah Lin, Oliver He
combinational intervention
The quality of a clinical trial that studies a drug or biological product. The phase is based on the study's objective, the number of participants, and other characteristics. According to USA FDA, there are five phases: Early Phase 1 (formerly listed as Phase 0), Phase 1, Phase 2, Phase 3, and Phase 4.
Leon Li, Asiyah Lin, Oliver He
clinical trial stage
https://www.clinicaltrials.gov/ct2/help/glossary/phase
clinical trial phase
A clinical trial phase that represents the first-in-man trial, which tests within a small group of people (typically 20-80) to evaluate safety, determine safe dosage ranges, and begin to identify side effects. A drug's side effects could be subtle or long term, or may only happen with a few people, so phase 1 trials are not expected to identify all side effects.
Leon Li, Asiyah Lin, Oliver He
Phase 1
Phase I
http://purl.obolibrary.org/obo/NCIT_C15600
https://en.wikipedia.org/wiki/Clinical_trial
C0920321
C15600
clinical trial phase 1
A clinical trial phase that is designed to study a biomedical or behavioral intervention in a larger group of people (several hundred), to evaluate the drug's effectiveness for a particular indication in patients with the disease or condition under study, and to determine the common short-term side effects and risks associated with the intervention. [def-source: NCI]
Leon Li, Asiyah Lin, Oliver He
Phase II
http://purl.obolibrary.org/obo/NCIT_C15601
https://en.wikipedia.org/wiki/Clinical_trial
C0282460
C15601
clinical trial phase 2
A clinical trial phase that is designed to investigate the efficacy of the biomedical or behavioral intervention in large groups of human subjects (from several hundred to several thousand), to confirm efficacy, to monitor adverse reactions to the new medication or treatment regimen with respect to long-term use and by comparing the intervention to other standard or experimental interventions as well as to a placebo. [def-source: NCI]
Leon Li, Asiyah Lin, Oliver He
Phase III
http://purl.obolibrary.org/obo/NCIT_C15602
https://en.wikipedia.org/wiki/Clinical_trial
C0282461
C15602
clinical trial phase 3
A clinical trial phase that is designed for a randomized, controlled trial to evaluate the long-term safety and efficacy of a drug for a given indication. Often they are designed to study side effects that may have become apparent after the phase III study was completed. [def-source: NCI]
Leon Li, Asiyah Lin, Oliver He
Phase IV
https://en.wikipedia.org/wiki/Clinical_trial
C0282462
C15603
clinical trial phase 4
A clinical trial phase that is designed to use an investigational agent that is available only in very limited quantities and which has never previously given to humans or for which there is extremely limited human experience. Phase 0 clinical trials are intended to enable researchers to understand the path of the drug in the body and its efficacy. Adverse event reporting in Phase 0 trials is expedited. [def-source: NCI]
Leon Li, Asiyah Lin, Oliver He
Early Phase 1
Pre-Clinical Phase
clinical trial phase 0
http://purl.obolibrary.org/obo/NCIT_C54721
https://en.wikipedia.org/wiki/Clinical_trial
C1882358
C54721
clinical trial early phase 1
A clinical trial that covers both Phase 2 and 3
Leon Li, Asiyah Lin, Oliver He
https://en.wikipedia.org/wiki/Clinical_trial
Phase II/III clinical trial
Leon Li, Asiyah Lin, Oliver He
radiation procedure
radiation
Leon Li, Asiyah Lin, Oliver He
genetic intervention
A medical intervention that involves a behavioral process to control, prevent, or treat a behavior problem.
Leon Li, Asiyah Lin, Oliver He
https://www.understood.org/en/learning-attention-issues/treatments-approaches/educational-strategies/behavior-intervention-plans-what-you-need-to-know
behavioral intervention
ImmPort study accession: SDY269
Edison Ong, Oliver He
study accession
study accession identifier
Edison Ong, Oliver He
title of investigation
title of study
A livinging individual who is or becomes a participant in research, either as a recipient of a test article or as a control. A subject may be either a healthy human or a patient. Based on the NIH definition, a living individual about whom an investigator (whether professional or student) conducting the following research: (1) Obtains information or biospecimens through intervention or interaction with the individual, and uses, studies, or analyzes the information or biospecimens; or (2) Obtains, uses, studies, analyzes, or generates identifiable private information or identifiable biospecimens.
Oliver He, Anthony Huffman
https://grants.nih.gov/policy/humansubjects/research.htm
https://irb.research.chop.edu/who-human-subject
https://nexus.od.nih.gov/all/2018/08/07/human-subjects-and-clinical-trial-glossary-updates/
human subject
In clinicaltrials.gov, contact information character limits:
First Name: 62 characters
Last Name: 62 characters
Degree: 30 characters
Phone: 30 characters
Phone Ext: 14 characters
Email: 254 characters
Citation: https://prsinfo.clinicaltrials.gov/definitions.html#StudyOfficials
A person who serves as a contact role and has disclosed specified information to be reached. Usually the contact information, such as email and phone number, is provided.,
Leon, Asiyah, Oliver: Since each contact needs to provide some contact information, we may need to define the contact information.
Leon Li, Asiyah Lin, Oliver He
https://prsinfo.clinicaltrials.gov/definitions.html#StudyOfficials
contact person
A contact person for each facility participating in a study.
Leon Li, Asiyah Lin, Oliver He
https://prsinfo.clinicaltrials.gov/definitions.html
facility contact
biosample identifier
GSM identiifier
ImmPort biosample identifier
Person to contact if Facility Contact is not available (that is, a second contact person).
Leon Li, Asiyah Lin, Oliver He
https://prsinfo.clinicaltrials.gov/definitions.html#StudyOfficials
facility contact backup
Leon Li, Asiyah Lin, Oliver He
https://prsinfo.clinicaltrials.gov/definitions.html#StudyOfficials
contact of scientific queries
An investigation agent role that is taken by a human individual
Leon Li, Asiyah Lin, Oliver He
human investigator role
investigator role
a role taken by a person who serves as a contact for some process.
Leon Li, Asiyah Lin, Oliver He
contact person role
Topical ocular hypotensive eye drops
Leon Li, Asiyah Lin, Oliver He
https://prsinfo.clinicaltrials.gov/definitions.html#StudyOfficials
contact for public queries
A person who is responsible for the overall scientific leadership of the protocol, including study principal investigator
Leon Li, Asiyah Lin, Oliver He
https://prsinfo.clinicaltrials.gov/definitions.html#StudyOfficials
overall study official
A person to whom questions concerning enrollment at any location of the study can be addressed.
Leon Li, Asiyah Lin, Oliver He
central contact person
https://prsinfo.clinicaltrials.gov/definitions.html
central contact person of study
A person to contact if Central Contact is not available.
Leon Li, Asiyah Lin, Oliver He
central contact person
https://prsinfo.clinicaltrials.gov/definitions.html
central contact backup of study
information content entity about a contact person
Leon Li, Asiyah Lin, Oliver He
contact person information
A sponsor role taken by an individual, organization, group or other legal entity which takes responsibility for initiating, managing and/or financing a study. The Primary Sponsor is responsible for ensuring that the trial is properly registered. The Primary Sponsor may or may not be the main funder.
Leon Li, Asiyah Lin, Oliver He
https://www.who.int/ictrp/network/trds/en/
primary sponsor role
A sponsor role taken by an additional individual, organization or another legal person, if any, that has agreed with the primary sponsor to take on responsibilities of sponsorship.
Leon Li, Asiyah Lin, Oliver He
collaborator role
https://www.who.int/ictrp/network/trds/en/
A secondary sponsor may have agreed to:
- take on all the responsibilities of sponsorship jointly with the primary sponsor; or
- form a group with the Primary Sponsor in which the responsibilities of sponsorship are allocated among the members of the group; or
- act as the Primary Sponsor’s legal representative in relation to some or all of the trial sites.
by WHO (https://www.who.int/ictrp/network/trds/en/)
In clinicaltrials.gov, the secondary sponsor role can be taken by a project collaborator (Reference: https://prsinfo.clinicaltrials.gov/trainTrainer/WHO-ICMJE-ClinTrialsgov-Cross-Ref.pdf). However, a secondary sponsor may serve as a collaborator role, but a collaborator may not serve as a secondary sponsor role.
secondary sponsor role
An investigator role taken by an individual who is designated as responsible party by the sponsor
Leon Li, Asiyah Lin, Oliver He
https://prsinfo.clinicaltrials.gov/definitions.html
principal investigator role
An investigator role taken by an individual who both initiates and conducts the study
Leon Li, Asiyah Lin, Oliver He
https://prsinfo.clinicaltrials.gov/definitions.html
sponsor investigator role
An investigation agent role taken by an agent (an individual, organization, group or another legal entity) who provides support to an investigation. The support may include funding, design, implementation, data analysis or reporting. The responsible party is responsible for confirming all collaborators before listing them.
Leon Li, Asiyah Li, Oliver He
collaborator role
https://prsinfo.clinicaltrials.gov/definitions.html#Collaborators
https://www.who.int/ictrp/network/trds/en/
A secondary sponsor may serve as a collaborator role. However, a collaborator may not serve as a secondary sponsor role.
investigation collaborator role
a selection criterion (rule) which defines and states the inclusion condition for an entity to be considered as suitable for a given task or participation in a process.
Oliver He, Edison Ong, Leon Li, Asiyah Lin
https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6044655/
Replace by a corresponding OBI term
inclusion criterion - obsolete
A centrally registered unique identifier assigned by the primary registry to a study including a clinical trial.
Qingliang Leon Li, Asiyah Yu Lin, Oliver He
https://www.who.int/ictrp/network/trds/en/
primary registry identifier
An individual, organization, group or other legal entity that involves with any of the following activities: initiating, managing and funding a study
Leon Li, Asiyah Lin, Oliver He
https://www.who.int/ictrp/network/trds/en/
NCIT_C48355
sponsor
investigation agent
The individual, organization, group or other legal entity which takes responsibility for initiating, managing and/or financing a study. In clinical trial, the Primary Sponsor is responsible for ensuring that the trial is properly registered. The Primary Sponsor may or may not be the main funder.
Leon Li, Asiyah Lin, Oliver He
https://www.who.int/ictrp/network/trds/en/
primary sponsor
An additional individual, organization or another legal person, if any, that has agreed with the primary sponsor to take on responsibilities of sponsorship.
Leon Li, Asiyah Lin, Oliver He
https://www.who.int/ictrp/network/trds/en/
A secondary sponsor may have agreed to:
- take on all the responsibilities of sponsorship jointly with the primary sponsor; or
- form a group with the Primary Sponsor in which the responsibilities of sponsorship are allocated among the members of the group; or
- act as the Primary Sponsor’s legal representative in relation to some or all of the trial sites.
Reference: https://www.who.int/ictrp/network/trds/en/
secondary sponsor
A centrally registered unique identifier besides the primary registry identifier allocated by the Primary Registry, if any.
Qingliang Leon Li, Asiyah Yu Lin, Oliver He
https://www.who.int/ictrp/network/trds/en/
secondary registry identifier
An agent (an individual, organization, group or another legal entity) who provides support to an investigation. The support may include funding, design, implementation, data analysis or reporting. The responsible party is responsible for confirming all collaborators before listing them.
Leon Li, Asiyah Li, Oliver He
investigation collaborator
https://prsinfo.clinicaltrials.gov/definitions.html#Collaborators
https://www.who.int/ictrp/network/trds/en/
collaborator
An investigator who is designated as responsible party by the sponsor
Leon Li, Asiyah Lin, Oliver He
https://prsinfo.clinicaltrials.gov/definitions.html
principal investigator
An investigator role taken by an individual who both initiates and conducts the study
Leon Li, Asiyah Lin, Oliver He
https://prsinfo.clinicaltrials.gov/definitions.html
sponsor investigator
A role taken by a string (which may have mixed integer and text) that serves as a unique record.
Leon Li, Asiyah Lin, Oliver He
identifier role
obsolete class
An identifier role that inheres in a unique record which provides an identifier secondary to the primary registry identifier.
Qingliang Leon Li, Asiyah Yu Lin, Oliver He
https://www.who.int/ictrp/network/trds/en/
secondary registry identifier role
An identifier role that is assigned by a primary registry and provides a unique record.
Qingliang Leon Li, Asiyah Yu Lin, Oliver He
https://www.who.int/ictrp/network/trds/en/
primary registry identifier role
a human who is a recipient of a health care service performed by healthcare professionals.
human patient
https://en.wikipedia.org/wiki/Patient
Hong Yu, Oliver He
patient
A systematic, scientific investigation that can be either interventional or observational and involves human beings as research subjects. Human subject research can be either medical (clinical) research or non-medical (e.g., social science) research.
Oliver He
human investigation
human study
https://en.wikipedia.org/wiki/Human_subject_research
human subject study
A collection of humans who share a defining characteristic, typically those who are collectively experiencing a common event (e.g., a clincal trial study) in a selected period.
Anthony Huffman, Oliver He
https://en.wikipedia.org/wiki/Cohort_study
human cohort
A material entity that is composed of organic structure and is capable of self-replication (with or without host support). Various types of self-replicating organic structures can be found at: https://en.wikipedia.org/wiki/Template:Self-replicating_organic_structures.
Oliver He
organic self-replicating system
https://en.wikipedia.org/wiki/Self-replication
https://en.wikipedia.org/wiki/Template:Self-replicating_organic_structures
https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5496545/
self-replicating organic structure
A self-replicating organic structure that is composed of one cell or multiple cells and embodies the properties of life.
Oliver He
cellular self-replicating organic structure
organism
https://en.wikipedia.org/wiki/Organism
cellular organism
A self-replicating organic structure that does not have the unit of cell but it may use the cells to replicate.
Oliver He
non-cellular self-replicating organic structure
non-organism self-replicating organic structure
https://en.wikipedia.org/wiki/Self-replication
acellular self-replicating organic structure
An non-organism infectious agent that is composed solely of a short strand of circular, single-stranded RNA and has no protein coating.
Oliver He
https://en.wikipedia.org/wiki/Mobile_genetic_elements
https://en.wikipedia.org/wiki/Viroid
viroid
A process of a dynamic system that produces an identiical or similar copy of itself.
Oliver He
https://en.wikipedia.org/wiki/Self-replication
self-replication
organic chemical entity
A measurement datum that is about the age of human subject
Oliver He, Jie Zheng, Anthony Huffman
https://nexus.od.nih.gov/all/2018/08/07/human-subjects-and-clinical-trial-glossary-updates/
human subject age data
For the purposes of the NIH Policy and Guidelines on the Inclusion of Individuals Across the Lifespan as Participants in Research Involving Human Subjects, a child is defined as an individual under the age of 18 years.
Oliver He, Jie Zheng, Anthony Huffman
child human subject
https://nexus.od.nih.gov/all/2018/08/07/human-subjects-and-clinical-trial-glossary-updates/
child age data of human subject (by NIH)
The regular aged adult group is defined here as an individual over 18 years of age.
Oliver He, Jie Zheng, Anthony Huffman
adult human subject
https://nexus.od.nih.gov/all/2018/08/07/human-subjects-and-clinical-trial-glossary-updates/
adult age data of human subject
For the purposes of the NIH Policy and Guidelines on the Inclusion of Individuals Across the Lifespan as Participants in Research Involving Human Subjects, an older adult is defined as an individual 65 years of age or older.
Oliver He, Jie Zheng, Anthony Huffman
older adult human subject
https://nexus.od.nih.gov/all/2018/08/07/human-subjects-and-clinical-trial-glossary-updates/
older adult data of human subject (by NIH)
The representation of a positive conclusion of a diagnostic process, which indicates that the patient is diagnozed as positive for a hypothetic disease.
Oliver He
阳性诊断
positive diagnosis
The representation of a negative conclusion of a diagnostic process, which indicates that the patient is diagnozed as negative for a hypothetic disease.
Oliver He
阴性诊断
negative diagnosis
The representation of a presumptive positive conclusion of a diagnostic process, which indicates that the patient is diagnozed as presumptive positive for a hypothetic disease.
Oliver He
假定阳性诊断
疑是诊断
presumptive positive diagnosis
A human subject classified as adult, which is defined by NIH as an individual under the age of 18 years. For the purposes of the NIH Policy and Guidelines on the Inclusion of Individuals Across the Lifespan as Participants in Research Involving Human Subjects, a child is defined as an individual under the age of 18 years.
Oliver He
https://nexus.od.nih.gov/all/2018/08/07/human-subjects-and-clinical-trial-glossary-updates/
child human subject
A human subject classified as adult, which is defined by NIH as an individual 65 years of age or older. For the purposes of the NIH Policy and Guidelines on the Inclusion of Individuals Across the Lifespan as Participants in Research Involving Human Subjects, an older adult is defined as an individual 65 years of age or older.
Oliver He
https://nexus.od.nih.gov/all/2018/08/07/human-subjects-and-clinical-trial-glossary-updates/
older adult human subject
A human subject classified as adult, which is defined by NIH as an individual over 18 years of age.
Oliver He
https://nexus.od.nih.gov/all/2018/08/07/human-subjects-and-clinical-trial-glossary-updates/
adult human subject
Yingtong Liu, Anthony Huffman, Oliver He
biomarker role
Anthony Huffman, Oliver He
immune signature role
Anthony Huffman, Oliver He
cytokine signature role
Anthony Huffman, Oliver He
inflammatory cytokine signature role
A material entity that has a measurable quality or process profile(s), which can be used as an indicator of an underlying biological state or identity.
The NIH Biomarkers and Surrogate Endpoint Working Group defined a biomarker as “A characteristic that is objectively measured and evaluated as an indicator of normal biological processes, pathogenic processes, or pharmacological responses to a therapeutic intervention” (https://pubmed.ncbi.nlm.nih.gov/11240971/). However, the definition of 'characteriistc' is unclear, so we do not use the exact definintion in the ontology.
Yingtong Liu, Anthony Huffman, Oliver He
https://en.wikipedia.org/wiki/Biomarker
https://en.wikipedia.org/wiki/Biomarker_(cell)
https://en.wikipedia.org/wiki/Biomarker_(medicine)
biomarker
Anthony Huffman, Oliver He
A biomarker that is indicative of an immune response
https://pubmed.ncbi.nlm.nih.gov/22072636/
https://pubmed.ncbi.nlm.nih.gov/32286245/
immune biomarker
Anthony Huffman, Oliver He
cytokine biomarker
Anthony Huffman, Oliver He
inflammatory cytokine biomarker
Yingtong Liu, Anthony Huffman, Oliver He
disease biomarker role
A biomarker that is indicative of a disease
Yingtong Liu, Anthony Huffman, Oliver He
https://en.wikipedia.org/wiki/Biomarker_(medicine)
disease biomarker
A biomarker that is an indicator of a cell lineage or cell type
Yingtong Liu, Anthony Huffman, Oliver He
cell marker
cell type marker
https://en.wikipedia.org/wiki/Biomarker_(medicine)
cell lineage biomarker
Oliver He, Yingtong Liu
https://en.wikipedia.org/wiki/Biomarker_(cell)#Molecular_Biomarkers
molecular biomarker
Cellular biomarkers are marked cells that can be isolated, sorted, quantified and characterized by their morphology and physiology, and used in both clinical and laboratory settings for different biomarker applications. An example of a cellular biomarker sorting technique is Fluorescent-activated cell sorting.
Oliver He, Yingtong Liu
https://en.wikipedia.org/wiki/Biomarker
https://en.wikipedia.org/wiki/Biomarker_(cell)#Cellular_Biomarkers
cellular biomarker
Oliver He, Yingtong Liu
https://en.wikipedia.org/wiki/Biomarker
https://en.wikipedia.org/wiki/Biomarker_(cell)#Imaging_Biomarkers
imaging biomarker
A biomarker that can predict clincal outcome.
Oliver He, Yingtong Liu
https://en.wikipedia.org/wiki/Biomarker
predictive biomarker
A biomarker that provides information about the patient's overall outcome, regardless of therapy.
Oliver He, Yingtong Liu
https://en.wikipedia.org/wiki/Biomarker
prognostic biomarker
A biomarker that can serve a role in narrowing down diagnosis, which can lead to diagnosis that is significantly more specific to individual patients.
Oliver He, Yingtong Liu
https://en.wikipedia.org/wiki/Biomarker
diagnostic biomarker
A molecular biomarker at the DNA gene level
Oliver He, Yingtong Liu
genomic biomarker
https://en.wikipedia.org/wiki/Biomarker_(cell)#Molecular_Biomarkers
DNA biomarker
A molecular biomarker at the RNA level
Oliver He, Yingtong Liu
transcriptomic biomarker
https://en.wikipedia.org/wiki/Biomarker_(cell)#Molecular_Biomarkers
RNA biomarker
A molecular biomarker at the protein level
Oliver He, Yingtong Liu
proteomic biomarker
https://en.wikipedia.org/wiki/Biomarker_(cell)#Molecular_Biomarkers
protein biomarker
A biomarker that is indicative of a disease and achieved through imaging.
https://en.wikipedia.org/wiki/Biomarker_(medicine)#Imaging_disease_biomarkers_by_magnetic_resonance_imaging_(MRI)
imaging disease biomarker
A disposition that a material entity (e.g., gene or protein) is susceptible to be up or down-regulated in an organism or virus.
Oliver He, Anthony Huffman
susceptibility to biological regulation
Oliver He
imaging disease biomarkers by magnetic resonance imaging
https://en.wikipedia.org/wiki/Biomarker_(medicine)#Imaging_disease_biomarkers_by_magnetic_resonance_imaging_(MRI)
imaging disease biomarkers by MRI
Oliver He
A biomarker that is indicative of the presence of cancer in the body
https://en.wikipedia.org/wiki/Cancer_biomarker
cancer marker
A disposition that a material entity (e.g., gene or protein) is susceptible to be up-regulated in an organism or virus.
Oliver He, Anthony Huffman
susceptibility to biological up-regulation
A disposition that a material entity (e.g., gene or protein) is susceptible to be down-regulated in an organism or virus.
Oliver He, Anthony Huffman
susceptibility to biological down-regulation
A Unified Social Credit Identifier is issued to registered companies and other types of organization by the Chinese government.
Suyuan Peng, Hong Yu, Oliver He
https://en.wikipedia.org/wiki/Unified_Social_Credit_Identifier
组织机构代码
Unified Social Credit Identifier
Suyuan Peng, Hong Yu, Oliver He
health care organization
https://www.sciencedirect.com/topics/nursing-and-health-professions/health-care-organization
医疗机构
healthcare organization
A centrality registered identifier for a medical record.
Suyuan Peng, Hong Yu, Oliver He
medical record ID
https://en.wikipedia.org/wiki/Medical_record
病案号
medical record number
A centrally registered identifier that is uniquely assigned to a person.
Oliver He, Long Tran
https://www.ohdsi.org/web/wiki/doku.php?id=documentation:cdm:person
person ID
指患者在本医疗机构住院诊治的次数
Suyuan Peng, Hong Yu, Oliver He
《卫生部关于修订住院病案首页的通知》卫医政发〔2011〕84号
住院次数
number of hospital admissions
A time measurement datum that is about a human being who bears a patient role and specifies the date of the patient's admission to a hospital
指患者实际入病房的接诊时间
Suyuan Peng, Hong Yu, Oliver He
http://purl.obolibrary.org/obo/EUPATH_0000319
《住院病案首页数据填写质量规范(暂行)》国卫办医发〔2016〕24号
入院时间
date of hospital admission
A year when an organism (e.g., a human) is born.
Oliver He, Long Tran
https://www.ohdsi.org/web/wiki/doku.php?id=documentation:cdm:person
year of birth
A month when an organism (e.g., a human) is born.
Oliver He, Long Tran
https://www.ohdsi.org/web/wiki/doku.php?id=documentation:cdm:person
month of birth
The date and time of birth of a person.
Oliver He, Long Tran
https://www.ohdsi.org/web/wiki/doku.php?id=documentation:cdm:person
https://www.ohdsi.org/web/wiki/doku.php?id=documentation:cdm:single-page
This term is generated to be equivalent to the "birth_datetime" in OMOP. Also note: in OMOP v6.0, DATETIME fields were made mandatory and date fields were made optional. Reference: https://ohdsi.github.io/CommonDataModel/cdm60.html#PERSON
birth datetime
A time measurement datum that is about a human being who bears a patient role and specifies the date of the patient's discharge from a hospital
出院时间是指患者治疗结束或终止治疗离开病房的时间,其中死亡患者是指其死亡时间;记录时间应当精确到分钟
Suyuan Peng, Hong Yu, Oliver He
http://purl.obolibrary.org/obo/EUPATH_0000320
《住院病案首页数据填写质量规范(暂行)》国卫办医发〔2016〕24号
入院时间
date of hospital discharge
The number of health card for residents of the People's Republic of China
在已统一发放“中华人民共和国居民健康卡”的地区填写健康卡号码,尚未发放“健康卡”的地区填写“-”
Suyuan Peng, Hong Yu, Yongqun He
《卫生部关于修订住院病案首页的通知》卫医政发〔2011〕84号
健康卡号
residents health card number
time that is related to the birth
Oliver He, Long Tran
time of birth
birth-related time
A care site is a uniquely identified institutional (physical or organizational) unit where healthcare delivery is practiced, for example, office, ward, hospital, clinic, etc.
Long Tran, Oliver He
http://ohdsi.github.io/CommonDataModel/cdm54.html#CARE_SITE
http://ohdsi.github.io/CommonDataModel/cdm54.html#PERSON
https://en.wikipedia.org/wiki/Health_care
According to OMOP, care site does not consider the provider (human) information such a specialty. Instead, care site is considered at the institutional level.
care site
A centrally registered identifier that refers to where the care provider typically provides the primary care.
Oliver He, Long Tran
care site id
http://ohdsi.github.io/CommonDataModel/cdm54.html#CARE_SITE
http://ohdsi.github.io/CommonDataModel/cdm54.html#PERSON
care site identifier
A medical occurrence where a person engages with the healthcare system for a duration of time.
Oliver He, Long Tran
visit occurrence
http://ohdsi.github.io/CommonDataModel/cdm54.html#VISIT_OCCURRENCE
medical visit
A centrally registered identifier that refers to a specific visit occurrence. This identifier identifies a unique interaction between a person and the health care system.
Oliver He, Long Tran
visit occurrence id
http://ohdsi.github.io/CommonDataModel/cdm54.html#VISIT_OCCURRENCE
visit occurrence identifier
A vist ocurrence in which the patient's condition requires admission to a hospital.
Oliver He, Long Tran
inpatient visit occurrence
http://ohdsi.github.io/CommonDataModel/cdm54.html#VISIT_OCCURRENCE
https://en.wikipedia.org/wiki/Inpatient_care
inpatient visit
A vist ocurrence in which a patient attends an outpatient clinic with no plan to stay beyond the duration of the visit.
Oliver He, Long Tran
outpatient visit occurrence
http://ohdsi.github.io/CommonDataModel/cdm54.html#VISIT_OCCURRENCE
https://en.wikipedia.org/wiki/Patient#Outpatients_and_inpatients
outpatient visit
A vist ocurrence in which a patient attends an outpatient clinic with no plan to stay beyond the duration of the visit.
Oliver He, Long Tran
ER visit
http://ohdsi.github.io/CommonDataModel/cdm54.html#VISIT_OCCURRENCE
https://en.wikipedia.org/wiki/Patient#Outpatients_and_inpatients
emergency room visit
The date on which a visit starts. In the case of an inpatient visit this should be the date the patient was admitted to the hospital or institution. In all other cases this should be the date of the patient-provider interaction.
Oliver He, Long Tran
clinical visit start date
http://ohdsi.github.io/CommonDataModel/cdm54.html#VISIT_OCCURRENCE
visit start date
The date on which a visit ends. For inpatient visits the end date is typically the discharge date. If a Person is still an inpatient in the hospital at the time of the data extract and does not have a visit_end_date, then set the visit_end_date to the date of the data pull.
Oliver He, Long Tran
clinical visit end date
http://ohdsi.github.io/CommonDataModel/cdm54.html#VISIT_OCCURRENCE
visit end date
A temporal region that covers the time period from the visit start time to the visit end time.
Oliver He, Long Tran
visit duration
The date and time on which a visit starts. In the case of an inpatient visit this should be the date the patient was admitted to the hospital or institution. In all other cases this should be the date of the patient-provider interaction.
Oliver He, Long Tran
clinical visit start datetime
http://ohdsi.github.io/CommonDataModel/cdm54.html#VISIT_OCCURRENCE
visit start datetime
The date and time on which a visit ends. For inpatient visits the end date is typically the discharge date. If a Person is still an inpatient in the hospital at the time of the data extract and does not have a visit_end_date, then set the visit_end_date to the date of the data pull.
Oliver He, Long Tran
clinical visit end datetime
http://ohdsi.github.io/CommonDataModel/cdm54.html#VISIT_OCCURRENCE
visit end datetime
A visit occurrence that occurs for the person prior to the given visit. There could be a few days or a few years in between.
Oliver He, Long Tran
preceding visit
preceding visit occurrence
http://ohdsi.github.io/CommonDataModel/cdm54.html#VISIT_OCCURRENCE
preceding medical visit
A vist ocurrence that includes a visit to the emergency room followed by a subsequent inpatient visit.
Oliver He, Long Tran
http://ohdsi.github.io/CommonDataModel/cdm54.html#VISIT_OCCURRENCE
https://en.wikipedia.org/wiki/Patient#Outpatients_and_inpatients
emergency room and inpatient visit
A visit to a dedicated institution for reasons of poor health, at a Care Site, long-term or permanently, with no physician but possibly other Providers permanently available to deliver service around the clock
Oliver He, Long Tran
http://ohdsi.github.io/CommonDataModel/cdm54.html#VISIT_OCCURRENCE
https://en.wikipedia.org/wiki/Patient#Outpatients_and_inpatients
non-hospital institution visit
A visit where a provider visits a person, without a care site, within one day, delivering service
Oliver He, Long Tran
home visit
http://ohdsi.github.io/CommonDataModel/cdm54.html#VISIT_OCCURRENCE
https://en.wikipedia.org/wiki/Patient#Outpatients_and_inpatients
home medical visit
A visit in which a patient engages with a Provider through communication media. A patient can use digital information and communication technologies, such as computers and mobile devices, to access health care services remotely and manage their health care.
Oliver He, Long Tran
http://ohdsi.github.io/CommonDataModel/cdm54.html#VISIT_OCCURRENCE
https://en.wikipedia.org/wiki/Patient#Outpatients_and_inpatients
telehealth visit
A visit to the pharmacy for dispensing of drug, at a care site, within one day
Oliver He, Long Tran
http://ohdsi.github.io/CommonDataModel/cdm54.html#VISIT_OCCURRENCE
https://en.wikipedia.org/wiki/Patient#Outpatients_and_inpatients
pharmacy visit
A visit to a dedicated institution, at a care site, within one day, for the purpose of a measurement. The visit is carried out in a medical laboratory or clinical laboratory where tests are carried out on clinical specimens to obtain information about the health of a patient to aid in diagnosis, treatment, and prevention of disease
Oliver He, Long Tran
laboratory clinical visit
laboratory visit
http://ohdsi.github.io/CommonDataModel/cdm54.html#VISIT_OCCURRENCE
https://en.wikipedia.org/wiki/Patient#Outpatients_and_inpatients
laboratory medical visit
A medical visit occurrence that involves an interaction with the healthcare system, without a care site, within a day, with no providers involved, for the administrative purpose of patient case management.
Oliver He, Long Tran
http://ohdsi.github.io/CommonDataModel/cdm54.html#VISIT_OCCURRENCE
https://en.wikipedia.org/wiki/Patient#Outpatients_and_inpatients
case management visit
A site that is used as a permanent or semi-permanent residence for one or many humans.
Long Tran, Oliver He
https://en.wikipedia.org/wiki/Home
home
A centrally registered identifier that refers to the National Provider Number issued to health care providers in the US by the Centers for Medicare and Medicaid Services (CMS). NPI is assigned for use in all administrative and financial transactions specified by HIPAA.
Oliver He, Long Tran
National Providier Number
http://ohdsi.github.io/CommonDataModel/cdm54.html#PERSON
http://purl.obolibrary.org/obo/NCIT_C54633
National Provider Identifier
A centrally registered identifier that is issued by the Drug Enforcement Administration (DEA), a US federal agency, that allows a provider to write prescriptions for controlled substances.
Oliver He, Long Tran
http://ohdsi.github.io/CommonDataModel/cdm54.html#PERSON
https://en.wikipedia.org/wiki/Drug_Enforcement_Administration
DEA identifier
A medicl occurrence that is ordered by, or carried out by, a healthcare provider on a patient with a diagnostic or therapeutic purpose.
Oliver He, Long Tran
procedure occurrence
https://ohdsi.github.io/CommonDataModel/cdm54.html#PROCEDURE_OCCURRENCE
medical procedure occurrence
A centrally registered identifier that refers to a procedure occurrence, which is an activity or process that is ordered by, or carried out by, a healthcare provider on a patient with a diagnostic or therapeutic purpose.
Oliver He, Long Tran
procedure occurrence ID
https://ohdsi.github.io/CommonDataModel/cdm54.html#PROCEDURE_OCCURRENCE
procedure occurrence identifier
A temporal region that is associated with a procedure
Long Tran, Oliver He
procedure time
http://ohdsi.github.io/CommonDataModel/cdm54.html#PROCEDURE_OCCURRENCE
procedure temporal region
The date when a procedure starts
Long Tran, Oliver He
procedure date
http://ohdsi.github.io/CommonDataModel/cdm54.html#PROCEDURE_OCCURRENCE
procedure start date
The date and time when a procedure starts
Long Tran, Oliver He
procedure date
http://ohdsi.github.io/CommonDataModel/cdm54.html#PROCEDURE_OCCURRENCE
procedure start datetime
The date when a procedure ends
Long Tran, Oliver He
procedure date
http://ohdsi.github.io/CommonDataModel/cdm54.html#PROCEDURE_OCCURRENCE
procedure end date
The date and time when a procedure ends
Long Tran, Oliver He
procedure date
http://ohdsi.github.io/CommonDataModel/cdm54.html#PROCEDURE_OCCURRENCE
procedure end datetime
The information content entity that represents the origin of record such as the clinical form as the origin record of death.
Oliver He, Long Tran
type concept
https://github.com/OHDSI/Vocabulary-v5.0/wiki/Vocab.-TYPE_CONCEPT
provenance of record
As part of the OMOP CDM, PROCEDURE TYPE CONCEPT best represents the provenance of the record, for example whether it came from an EHR record or billing claim. If a procedure is recorded as an EHR encounter, the PROCEDURE_TYPE_CONCEPT would be ‘EHR encounter record’.
A provenance of record that determines the provenance of the Procedure record, as in whether the procedure was from an EHR system, insurance claim, registry, or other sources.
Long Tran, Oliver He
Procedure Type Concept
https://ohdsi.github.io/CommonDataModel/cdm54.html#PROCEDURE_OCCURRENCE
provenance of procedure record
The status of being diagnosed as death
Oliver He, Long Tran
death diagnosis
https://athena.ohdsi.org/search-terms/terms/32895
https://athena.ohdsi.org/search-terms/terms?domain=Condition+Status
death diagnosis status
OMOP4976965
A provenance of record that designates the source (provenance) of the cost data.
Long Tran, Oliver He
Cost Type Concept
https://ohdsi.github.io/CommonDataModel/cdm54.html#COST
provenance of cost record
As part of the OMOP CDM, use the type concept that be reflects the source of the death record. It is possible that an administrative claims database would source death information from a government file so do not assume the Death Type is the same as the Visit Type, etc.
A provenance of record that determines the provenance of the death record, i.e., where it came from.
Long Tran, Oliver He
Death Type Concept
https://ohdsi.github.io/CommonDataModel/cdm54.html#DEATH
provenance of death record
A provenance of record that determines the provenance of the record, as in whether the record is from administrative claims or EHR.
Long Tran, Oliver He
Device Exposure Type Concept
Device Type Concept
https://ohdsi.github.io/CommonDataModel/cdm54.html#DEVICE_EXPOSURE
provenance of device record
As part of the OMOP CDM, choose the drug_type_concept_id that best represents the provenance of the record, for example whether it came from a record of a prescription written or physician administered drug.
A provenance of record that determines the provenance of a drug prescription, which delineates prescriptions written, prescriptions dispensed, medication history, patient-reported exposure, etc.
Long Tran, Oliver He
Drug Type Concept
https://ohdsi.github.io/CommonDataModel/cdm54.html#DRUG_EXPOSURE
provenance of drug record
A provenance of record that determines the provenance of the Episode record, as in whether the procedure was from an EHR system, insurance claim, registry, or other sources.
Long Tran, Oliver He
Procedure Type Concept
https://ohdsi.github.io/CommonDataModel/cdm54.html#EPISODE
provenance of episode record
A provenance of record that determines the provenance of the Measurement record, as in whether the procedure was from an EHR system, insurance claim, registry, or other sources.
Long Tran, Oliver He
Measurement Type Concept
https://ohdsi.github.io/CommonDataModel/cdm54.html#MEASUREMENT
provenance of measurement record
As part of the OMOP CDM, the provenance of the notes most likely will be EHR.
A provenance of record that determines the provenance of the note.
Long Tran, Oliver He
Note Type Concept
https://ohdsi.github.io/CommonDataModel/cdm54.html#NOTE
provenance of note record
A provenance of record that determines the provenance of the Observation record, as in whether the measurement was from an EHR system, insurance claim, registry, or other sources.
Long Tran, Oliver He
Observation Period Type Concept
Observation Type Concept
https://ohdsi.github.io/CommonDataModel/cdm54.html#OBSERVATION
provenance of observation record
A provenance of record that determines the source of the specimen record, as in an EHR system.
Long Tran, Oliver He
Specimen Type Concept
https://ohdsi.github.io/CommonDataModel/cdm54.html#SPECIMEN
provenance of specimen record
As part of the OMOP CDM, populate this field based on the provenance of the visit record, as in whether it came from an EHR record or billing claim.
A provenance of record that determines the provenance of the visit record, or where the record comes from.
Long Tran, Oliver He
Visit Type Concept
https://ohdsi.github.io/CommonDataModel/cdm54.html#PROCEDURE_OCCURRENCE
provenance of visit record
A provenance of record that determines the provenance of the Condition record, as in whether the condition was from an EHR system, insurance claim, registry, or other sources.
Long Tran, Oliver He
Condition Occurrence Type Concept
https://ohdsi.github.io/CommonDataModel/cdm54.html#CONDITION_OCCURRENCE
provenance of condition occurrence record
The primary diagnosis refers to the patient condition that demands the most provider resources during the patient’s stay.
Oliver He, Long Tran
primary diagnosis
https://athena.ohdsi.org/search-terms/terms/32902
https://athena.ohdsi.org/search-terms/terms?domain=Condition+Status
https://www.definitivehc.com/resources/glossary/primary-diagnosis
There is often confusion surrounding primary and principal diagnoses and, consequently, the terms are commonly used interchangeably. While these can be (and frequently are) the same diagnosis in practice, their definitions are distinct. While a principal diagnosis is the underlying cause of patient symptoms, the primary diagnosis is used for healthcare billing purposes. Reference: https://www.definitivehc.com/resources/glossary/primary-diagnosis
primary diagnosis status
OMOP4976972
A medicl occurrence where a person presents a disease or medical condition stated as a diagnosis, a sign, or a symptom, which is either observed by a Provider or reported by the patient.
Oliver He, Long Tran
condition occurrence
medical condition occurrence
https://ohdsi.github.io/CommonDataModel/cdm54.html#CONDITION_OCCURRENCE
medical condition occurrence
the date or time on which a condition occurs
Oliver He, Long Tran
clinical condition date
condition time
https://ohdsi.github.io/CommonDataModel/cdm54.html#CONDITION_OCCURRENCE
condition temporal region
The date on which a condition ends.
Oliver He, Long Tran
clinical condition end date
https://ohdsi.github.io/CommonDataModel/cdm54.html#CONDITION_OCCURRENCE
condition end date
The date and time on which a clinical condition ends.
Oliver He, Long Tran
clinical condition end datetime
https://ohdsi.github.io/CommonDataModel/cdm54.html#CONDITION_OCCURRENCE
condition end datetime
The date on which a condition starts.
Oliver He, Long Tran
clinical condition start date
https://ohdsi.github.io/CommonDataModel/cdm54.html#CONDITION_OCCURRENCE
condition start date
The date and time on which a condition starts.
Oliver He, Long Tran
clinical condition start datetime
https://ohdsi.github.io/CommonDataModel/cdm54.html#CONDITION_OCCURRENCE
In OMOP CDM, most often data sources do not have the idea of a start date for a condition. Rather, if a source only has one date associated with a condition record it is acceptable to use that date for both the CONDITION_START_DATE and the CONDITION_END_DATE. Reference: https://ohdsi.github.io/CommonDataModel/cdm54.html#CONDITION_OCCURRENCE
condition start datetime
The state or status at the point during the visit the diagnosis was given (admitting diagnosis, final diagnosis), whether the diagnosis was determined due to laboratory findings, if the diagnosis was exclusionary, or if it was a preliminary diagnosis, among others.
Oliver He, Long Tran
diagnosis status
https://athena.ohdsi.org/search-terms/terms?domain=Condition+Status
https://build.fhir.org/ig/HL7/UTG/CodeSystem-condition-clinical.html
https://ohdsi.github.io/CommonDataModel/cdm54.html#CONDITION_OCCURRENCE
In OPMI, we treated medical condition status as a status, which is a realizable entitry. One major section of the branch is various diagnosis condition status. There are basically two types of diagnosis: one type diagnosis is treated as a condition status, the other is diagnosis (OGMS_0000073) as a type of clinical data item. One good example to illustrate the difference is the difference between primary and principal diagnoses. While these can be (and frequently are) the same diagnosis in practice, their definitions are distinct. While a principal diagnosis is the underlying cause of patient symptoms, the primary diagnosis is used for healthcare billing purposes and is a type of medical condition status. Reference: https://www.definitivehc.com/resources/glossary/primary-diagnosis
medical condition status
An action specification that indicates why a Condition is no longer valid with respect to the purpose specified within the source data.
Oliver He, Long Tran
https://ohdsi.github.io/CommonDataModel/cdm54.html#CONDITION_OCCURRENCE
In OMOP CDM, a Stop Reason does not necessarily imply that the condition is no longer occurring.
medical condition stop reason specification
The status of have the primary admission diagnosis
Oliver He, Long Tran
primary admission diagnosis
https://athena.ohdsi.org/search-terms/terms/32901
https://athena.ohdsi.org/search-terms/terms?domain=Condition+Status
primary admission diagnosis status
OMOP4976971
Oliver He, Long Tran
https://athena.ohdsi.org/search-terms/terms?domain=Condition+Status
confirmed diagnosis status
OMOP4976963
Principal diagnosis describes the underlying cause behind a patient’s initial hospital admission and is assigned only after a physician has completed necessary tests and examinations.
Oliver He, Long Tran
https://www.definitivehc.com/resources/glossary/principal-diagnosis
principal diagnosis
A discharge diagnosis is a final diagnosis given a patient before release from the hospital after all testing, surgery, and workup are complete.
Oliver He, Long Tran
https://athena.ohdsi.org/search-terms/terms?domain=Condition+Status
https://medical-dictionary.thefreedictionary.com/discharge+diagnosis
discharge diagnosis status
OMOP4976966
A postoperative diagnosis is a diagnosis or diagnoses discovered or confirmed during the surgery. Often it is the same as the preoperative diagnosis.
Oliver He, Long Tran
primary admission diagnosis
https://athena.ohdsi.org/search-terms/terms?domain=Condition+Status
https://ushik.ahrq.gov/ViewItemDetails?system=mdr&itemKey=85779000#:~:text=Definition%3A,same%20as%20the%20Preoperative%20Diagnosis.
postoperative diagnosis status
OMOP4976968
Oliver He, Long Tran
https://athena.ohdsi.org/search-terms/terms?domain=Condition+Status
preliminary diagnosis status
OMOP4976969
A preoperative diagnosis is a surgical diagnosis or diagnoses that are assigned to the patient before the surgical procedure, and is the reason for the surgery. A preoperative diagnosis is, in the opinion of the surgeon, the diagnosis that will be confirmed during surgery.
Oliver He, Long Tran
https://athena.ohdsi.org/search-terms/terms?domain=Condition+Status
https://ushik.ahrq.gov/ViewItemDetails?system=mdr&itemKey=85778000#:~:text=Definition%3A,will%20be%20confirmed%20during%20surgery.
preoperative diagnosis status
OMOP4976970
An admitting diagnosis is defined as the initial working diagnosis documented by the patient's admitting or attending physician who determined that inpatient care was necessary.
Oliver He, Long Tran
admission diagnosis
https://athena.ohdsi.org/search-terms/terms?domain=Condition+Status
https://manual.jointcommission.org/releases/TJC2016B/DataElem0540.html#:~:text=Definition%3A&text=The%20admitting%20diagnosis%20is%20defined,that%20inpatient%20care%20was%20necessary.
admission diagnosis status
OMOP4976960
A cause of death is an official determination of conditions resulting in a human's death, which may be recorded on a death certificate. A cause of death is determined by a medical examiner.
Oliver He, Long Tran
cause of death
https://athena.ohdsi.org/search-terms/terms?domain=Condition+Status
https://en.wikipedia.org/wiki/Cause_of_death
https://www.cdc.gov/nchs/data/misc/hb_cod.pdf
cause of death status
OMOP4976961
Oliver He, Long Tran
https://athena.ohdsi.org/search-terms/terms?domain=Condition+Status
primary referral diagnosis status
OMOP4976974
A referral is a written request from one health professional to another health professional or health service, asking them to diagnose or treat you for a particular condition.
Oliver He, Long Tran
https://athena.ohdsi.org/search-terms/terms?domain=Condition+Status
https://www.healthdirect.gov.au/what-is-a-referral#:~:text=A%20referral%20is%20a%20written,you%20for%20a%20particular%20condition.
referral diagnosis status
OMOP4976975
A secondary diagnosis is a condition that coexists at the time of admission, that develops subsequently, or that affects the treatment received and/or length of stay.
Oliver He, Long Tran
https://athena.ohdsi.org/search-terms/terms?domain=Condition+Status
https://medcom.uiowa.edu/theloop/announcements/understanding-principal-and-secondary-conditions-2
secondary diagnosis status
OMOP4976978
Oliver He, Long Tran
https://athena.ohdsi.org/search-terms/terms?domain=Condition+Status
secondary discharge diagnosis status
OMOP4976979
Oliver He, Long Tran
https://athena.ohdsi.org/search-terms/terms?domain=Condition+Status
secondary referral diagnosis status
OMOP4976980
The status of have the primary admission diagnosis
Oliver He, Long Tran
https://athena.ohdsi.org/search-terms/terms/32901
https://athena.ohdsi.org/search-terms/terms?domain=Condition+Status
preliminary admission diagnosis status
OMOP4976971
The status of have the primary admission diagnosis
Oliver He, Long Tran
https://athena.ohdsi.org/search-terms/terms/32901
https://athena.ohdsi.org/search-terms/terms?domain=Condition+Status
preliminary discharge diagnosis status
OMOP4976971
Oliver He, Long Tran
https://athena.ohdsi.org/search-terms/terms?domain=Condition+Status
condition to be diagnosed by procedure status
OMOP4976962
A contributory cause of death is a significant condition that unfavourably influences the course of the morbid process and thus contributes to the fatal outcome, but which is not related to the disease or condition directly causing death.
Oliver He, Long Tran
https://athena.ohdsi.org/search-terms/terms?domain=Condition+Status
https://stats.oecd.org/glossary/detail.asp?ID=444
contributory cause of death status
OMOP4976964
An immediate cause of death is a final disease, injury, or complication directly causing the death
Oliver He, Long Tran
https://athena.ohdsi.org/search-terms/terms?domain=Condition+Status
https://www.cdc.gov/nchs/data/misc/hb_cod.pdf
immediate cause of death status
OMOP4976967
A process of a person’s exposure to a foreign physical object or instrument which is used for diagnostic or therapeutic purposes through a mechanism beyond chemical action. Devices include implantable objects (e.g. pacemakers, stents, artificial joints), medical equipment and supplies (e.g. bandages, crutches, syringes), other instruments used in medical procedures (e.g. sutures, defibrillators) and material used in clinical care (e.g. adhesives, body material, dental material, surgical material).
Oliver He, Long Tran
device exposure
https://ohdsi.github.io/CommonDataModel/cdm54.html#DEVICE_EXPOSURE
medical device exposure
http://purl.obolibrary.org/obo/NCIT_C102617
Oliver He, Long Tran
https://athena.ohdsi.org/search-terms/terms?domain=Condition+Status
primary discharge diagnosis status
OMOP4976973
the date or time on which a device exposure occurs
Oliver He, Long Tran
http://ohdsi.github.io/CommonDataModel/cdm54.html#DEVICE_EXPOSURE
device exposure temporal region
The date on which a device exposure ends.
Oliver He, Long Tran
http://ohdsi.github.io/CommonDataModel/cdm54.html#DEVICE_EXPOSURE
"Put the end date or discontinuation date as it appears from the source data or leave blank if unavailable." http://ohdsi.github.io/CommonDataModel/cdm54.html#DEVICE_EXPOSURE
device exposure end date
The date and time on which a device exposure ends.
Oliver He, Long Tran
http://ohdsi.github.io/CommonDataModel/cdm54.html#DEVICE_EXPOSURE
"If a source does not specify datetime the convention is to set the time to midnight (00:00:0000)." http://ohdsi.github.io/CommonDataModel/cdm54.html#DEVICE_EXPOSURE
device exposure end datetime
Oliver He, Long Tran
https://athena.ohdsi.org/search-terms/terms?domain=Condition+Status
secondary admission diagnosis status
OMOP4976977
A medical condition status in which the subject is not presently experiencing the condition or situation and there is a negligible perceived risk of the condition or situation returning.
Oliver He, Long Tran
https://athena.ohdsi.org/search-terms/terms/32906
https://athena.ohdsi.org/search-terms/terms?domain=Condition+Status
https://build.fhir.org/ig/HL7/UTG/CodeSystem-condition-clinical.html
resolved condition status
OMOP4976976
The underlying cause of death refers to the disease or injury that initiated the train of morbid events leading directly to death or the circumstances of the accident or violence that produced the injury.
Oliver He, Long Tran
https://athena.ohdsi.org/search-terms/terms?domain=Condition+Status
https://stats.oecd.org/glossary/detail.asp?ID=2790
https://www.cdc.gov/nchs/data/misc/hb_cod.pdf
underlying cause of death status
OMOP4976981
The date on which a device exposure starts.
Oliver He, Long Tran
http://ohdsi.github.io/CommonDataModel/cdm54.html#DEVICE_EXPOSURE
"Valid entries include a start date of a procedure to implant a device, the date of a prescription for a device, or the date of device administration." http://ohdsi.github.io/CommonDataModel/cdm54.html#DEVICE_EXPOSURE
device exposure start date
The date and time on which a device exposure starts.
Oliver He, Long Tran
http://ohdsi.github.io/CommonDataModel/cdm54.html#DEVICE_EXPOSURE
"This is not required, though it is in v6. If a source does not specify datetime the convention is to set the time to midnight (00:00:0000)." http://ohdsi.github.io/CommonDataModel/cdm54.html#DEVICE_EXPOSURE
device exposure start datetime
the date or time on which a drug exposure occurs in a patient
Oliver He, Long Tran
http://ohdsi.github.io/CommonDataModel/cdm54.html#DRUG_EXPOSURE
drug exposure temporal region
The date on which a drug exposure starts.
Oliver He, Long Tran
http://ohdsi.github.io/CommonDataModel/cdm54.html#DRUG_EXPOSURE
"Valid entries include a start date of a prescription, the date a prescription was filled, or the date on which a Drug administration was recorded. It is a valid ETL choice to use the date the drug was ordered as the DRUG_EXPOSURE_START_DATE." http://ohdsi.github.io/CommonDataModel/cdm54.html#DRUG_EXPOSURE
drug exposure start date
The date and time on which a drug exposure starts.
Oliver He, Long Tran
http://ohdsi.github.io/CommonDataModel/cdm54.html#DRUG_EXPOSURE
"This is not required, though it is in v6. If a source does not specify datetime the convention is to set the time to midnight (00:00:0000)." http://ohdsi.github.io/CommonDataModel/cdm54.html#DRUG_EXPOSURE
drug exposure start datetime
The date on which a drug exposure ends for a patient.
Oliver He, Long Tran
http://ohdsi.github.io/CommonDataModel/cdm54.html#DRUG_EXPOSURE
drug exposure end date
The date and time on which a drug exposure ends for a patient.
Oliver He, Long Tran
http://ohdsi.github.io/CommonDataModel/cdm54.html#DRUG_EXPOSURE
"This is not required, though it is in v6. If a source does not specify datetime the convention is to set the time to midnight (00:00:0000)". http://ohdsi.github.io/CommonDataModel/cdm54.html#DRUG_EXPOSURE
drug exposure end datetime
The reason a person stopped a medication as it is represented in the source. Reasons include regimen completed, changed, removed, etc.
Oliver He, Long Tran
http://ohdsi.github.io/CommonDataModel/cdm54.html#DRUG_EXPOSURE
This information is often not populated in source data and it is a valid etl choice to leave it blank if the information does not exist. This field will be retired in v6.0 of the OMOP CDM, .
http://ohdsi.github.io/CommonDataModel/cdm54.html#DRUG_EXPOSURE
drug exposure stop reason specification
An action specification that represents the intended refills at time of the prescription.
Oliver He, Long Tran
drug refills specification from prescription
http://ohdsi.github.io/CommonDataModel/cdm54.html#DRUG_EXPOSURE
This is only filled in when the record is coming from a prescription.
http://ohdsi.github.io/CommonDataModel/cdm54.html#DRUG_EXPOSURE
drug refills specification
The end date of a drug exposure as it appears in the source data
Oliver He, Long Tran
http://ohdsi.github.io/CommonDataModel/cdm54.html#DRUG_EXPOSURE
drug exposure verbatim end date
An exposure or contact of a person to a drug. The drug exposure includes drug dispensing or administration for a person.
http://ohdsi.github.io/CommonDataModel/cdm54.html#DRUG_EXPOSURE
This term is used in OMOP CDM. This term appears similar to 'drug administration'. However, drug exposure also covers involuntary, but drug administration usually means voluntary. More discussion is needed.
http://purl.obolibrary.org/obo/NCIT_C41362
drug exposure
In drug exposure, the quantity refers to number of pieces, e.g. tablets.
In the example: 20
Ingredient dose= quantity x amount_value [amount_unit_concept_id]
Acetaminophen dose = 20 x 500mg = 10,000mg
Daily dose = Acetaminophen dose/drug duration
The quantity of drug exposure refers to the number of drug pieces, e.g. tablets, that are exposed to a person.
Long Tran, Oliver He
http://ohdsi.github.io/CommonDataModel/cdm54.html#DRUG_EXPOSURE
https://ohdsi.github.io/CommonDataModel/drug_dose.html
quantity of drug exposure
This days of the supply of a drug that is given on the prescription.
Long Tran, Oliver He
days supply of drug
http://ohdsi.github.io/CommonDataModel/cdm54.html#DRUG_EXPOSURE
days of drug supply
A period time when an observation is conducted.
Oliver He, Long Tran
participant observation duration time
https://ohdsi.github.io/CommonDataModel/cdm60.html#OBSERVATION_PERIOD
In OMOP, the observation table contains records that defines spans of time during which two conditions are expected to hold: (i) Clinical Events that happened to the Person are recorded in the Event tables, and (ii) absense of records indicate such Events did not occur during this span of time.
observation period
EUPATH_0000138
A temporal region that is associated with an observation
Long Tran, Oliver He
https://ohdsi.github.io/CommonDataModel/cdm60.html#OBSERVATION_PERIOD
observation temporal region
A date when an observation starts.
Long Tran, Oliver He
https://ohdsi.github.io/CommonDataModel/cdm60.html#OBSERVATION_PERIOD
observation period start date
A date when an observation ends.
Long Tran, Oliver He
https://ohdsi.github.io/CommonDataModel/cdm60.html#OBSERVATION_PERIOD
observation period end date
A time when a measurement is conducted.
Long Tran, Oliver He
https://ohdsi.github.io/CommonDataModel/cdm54.html#MEASUREMENT
measurement time
A date when a measurement is conducted.
Long Tran, Oliver He
https://ohdsi.github.io/CommonDataModel/cdm54.html#MEASUREMENT
measurement date
A datetime when a measurement is conducted.
Long Tran, Oliver He
https://ohdsi.github.io/CommonDataModel/cdm54.html#MEASUREMENT
measurement datetime
A unique key given to a Measurement record for a Person. Such record can be used in the ETL for how duplicate Measurements during the same Visit were handled.
Oliver He, Long Tran
measurement ID
http://ohdsi.github.io/CommonDataModel/cdm54.html#MEASUREMENT
clnical measurement identifier
Payer plan is a plan specification that captures the details of the period of time that a person is continuously enrolled under a specific health Plan benefit structure from a given payer. Each person receiving healthcare is typically covered by a health benefit plan, which pays for (fully or partially), or directly provides, the care. These benefit plans are provided by payers, such as health insurances or state or government agencies.
Long Tran, Oliver He
http://ohdsi.github.io/CommonDataModel/cdm54.html#PAYER_PLAN_PERIOD
payer plan
A temporal region that is associated with the payment process defined in a payer plan
Long Tran, Oliver He
http://ohdsi.github.io/CommonDataModel/cdm54.html#PAYER_PLAN_PERIOD
payer plan temporal region
A period time of the payment that is covered by a payer plan for a person.
Long Tran, Oliver He
http://ohdsi.github.io/CommonDataModel/cdm54.html#PAYER_PLAN_PERIOD
payer plan period
A date when a payer plan period starts.
Long Tran, Oliver He
http://ohdsi.github.io/CommonDataModel/cdm54.html#PAYER_PLAN_PERIOD
payer plan period start date
A date when a payer plan period ends.
Long Tran, Oliver He
http://ohdsi.github.io/CommonDataModel/cdm54.html#PAYER_PLAN_PERIOD
payer plan period end date
A process that a patient experiences over a period of time.
Oliver He, Long Tran
https://ohdsi.github.io/CommonDataModel/cdm54.html
medical occurrence
An electronic health record that records the information of medical condition.
Long Tran, Oliver He
Condition Occurrence Type Concept
https://ohdsi.github.io/CommonDataModel/cdm54.html#CONDITION_OCCURRENCE
condition occurrence record
An electronic health record that records the information of medical cost.
Long Tran, Oliver He
Cost Type Concept
https://ohdsi.github.io/CommonDataModel/cdm54.html#COST
electronic health cost record
As part of the OMOP CDM, use the type concept that be reflects the source of the death record. It is possible that an administrative claims database would source death information from a government file so do not assume the Death Type is the same as the Visit Type, etc.
An electronic health record that records the information of the death record of a person.
Long Tran, Oliver He
Death Type Concept
https://ohdsi.github.io/CommonDataModel/cdm54.html#DEATH
electronic death record
An electronic health record that records the information of medical device usage.
Long Tran, Oliver He
Device Exposure Type Concept
Device Type Concept
https://ohdsi.github.io/CommonDataModel/cdm54.html#DEVICE_EXPOSURE
electronic device record
As part of the OMOP CDM, choose the drug_type_concept_id that best represents the provenance of the record, for example whether it came from a record of a prescription written or physician administered drug.
An electronic health record that records the information of drug usage including drug prescriptions written, prescriptions dispensed, medication history, patient-reported exposure, etc.
Long Tran, Oliver He
Drug Type Concept
https://ohdsi.github.io/CommonDataModel/cdm54.html#DRUG_EXPOSURE
electronic drug record
A data item that captures clinical facts about a patient obtained in the context of examination, questioning or a procedure.
Long Tran, Oliver He
medical observation
observation
http://ohdsi.github.io/CommonDataModel/cdm54.html#OBSERVATION
This term is dervied from OMOP:Observation term. Observations differ from Measurements in that they do not require a standardized test or some other activity to generate clinical fact. Typical observations are medical history, family history, the stated need for certain treatment, social circumstances, lifestyle choices, healthcare utilization patterns, etc.
medical observation data
An electronic health record that records the information of medical Episode record.
Long Tran, Oliver He
Procedure Type Concept
https://ohdsi.github.io/CommonDataModel/cdm54.html#EPISODE
electronic episode record
An electronic health record that records the information of medical measurement record.
Long Tran, Oliver He
Measurement Type Concept
https://ohdsi.github.io/CommonDataModel/cdm54.html#MEASUREMENT
electronic measurement record
As part of the OMOP CDM, the provenance of the notes most likely will be EHR.
An electronic health record that records the information of medical notes.
Long Tran, Oliver He
Note Type Concept
https://ohdsi.github.io/CommonDataModel/cdm54.html#NOTE
electronic health note record
An electronic health record that records the information of medical observational record.
Long Tran, Oliver He
Observation Period Type Concept
Observation Type Concept
https://ohdsi.github.io/CommonDataModel/cdm54.html#OBSERVATION
electronic health observation record
As part of the OMOP CDM, PROCEDURE TYPE CONCEPT best represents the provenance of the record, for example whether it came from an EHR record or billing claim. If a procedure is recorded as an EHR encounter, the PROCEDURE_TYPE_CONCEPT would be ‘EHR encounter record’.
An electronic health record that records the information of Procedure record.
Long Tran, Oliver He
Procedure Type Concept
https://ohdsi.github.io/CommonDataModel/cdm54.html#PROCEDURE_OCCURRENCE
electronic health procedure record
An electronic health record that records the information of the specimen record.
Long Tran, Oliver He
Specimen Type Concept
https://ohdsi.github.io/CommonDataModel/cdm54.html#SPECIMEN
electronic specimen record
As part of the OMOP CDM, populate this field based on the provenance of the visit record, as in whether it came from an EHR record or billing claim.
An electronic health record that records the information of medical visit.
Long Tran, Oliver He
Visit Type Concept
https://ohdsi.github.io/CommonDataModel/cdm54.html#PROCEDURE_OCCURRENCE
electronic medical visit record
Oliver He, Long Tran
https://athena.ohdsi.org/search-terms/terms?domain=Condition+Status
preliminary diagnosis
OMOP4976969
Oliver He, Long Tran
https://athena.ohdsi.org/search-terms/terms/32901
https://athena.ohdsi.org/search-terms/terms?domain=Condition+Status
preliminary admission diagnosis
OMOP4976971
Oliver He, Long Tran
https://athena.ohdsi.org/search-terms/terms/32901
https://athena.ohdsi.org/search-terms/terms?domain=Condition+Status
preliminary discharge diagnosis
OMOP4976971
The primary diagnosis is a diagnosis of the patient condition that demands the most provider resources during the patient’s stay.
Oliver He, Long Tran
primary diagnosis
https://athena.ohdsi.org/search-terms/terms/32902
https://athena.ohdsi.org/search-terms/terms?domain=Condition+Status
https://www.definitivehc.com/resources/glossary/primary-diagnosis
There is often confusion surrounding primary and principal diagnoses and, consequently, the terms are commonly used interchangeably. While these can be (and frequently are) the same diagnosis in practice, their definitions are distinct. While a principal diagnosis is the underlying cause of patient symptoms, the primary diagnosis is used for healthcare billing purposes. Reference: https://www.definitivehc.com/resources/glossary/primary-diagnosis
primary diagnosis
OMOP4976972
Oliver He, Long Tran
primary admission diagnosis
https://athena.ohdsi.org/search-terms/terms/32901
https://athena.ohdsi.org/search-terms/terms?domain=Condition+Status
primary admission diagnosis
OMOP4976971
Oliver He, Long Tran
https://athena.ohdsi.org/search-terms/terms?domain=Condition+Status
primary discharge diagnosis
OMOP4976973
Oliver He, Long Tran
https://athena.ohdsi.org/search-terms/terms?domain=Condition+Status
primary referral diagnosis
OMOP4976974
A secondary diagnosis is a diagnosis made at the time of admission, that develops subsequently, or that affects the treatment received and/or length of stay.
Oliver He, Long Tran
https://athena.ohdsi.org/search-terms/terms?domain=Condition+Status
https://medcom.uiowa.edu/theloop/announcements/understanding-principal-and-secondary-conditions-2
secondary diagnosis
OMOP4976978
Oliver He, Long Tran
https://athena.ohdsi.org/search-terms/terms?domain=Condition+Status
secondary admission diagnosis
OMOP4976977
Oliver He, Long Tran
https://athena.ohdsi.org/search-terms/terms?domain=Condition+Status
secondary discharge diagnosis
OMOP4976979
Oliver He, Long Tran
https://athena.ohdsi.org/search-terms/terms?domain=Condition+Status
secondary referral diagnosis
OMOP4976980
An admitting diagnosis is defined as the initial working diagnosis documented by the patient's admitting or attending physician who determined that inpatient care was necessary.
Oliver He, Long Tran
admission diagnosis
https://athena.ohdsi.org/search-terms/terms?domain=Condition+Status
https://manual.jointcommission.org/releases/TJC2016B/DataElem0540.html#:~:text=Definition%3A&text=The%20admitting%20diagnosis%20is%20defined,that%20inpatient%20care%20was%20necessary.
admission diagnosis
OMOP4976960
Oliver He, Long Tran
https://athena.ohdsi.org/search-terms/terms?domain=Condition+Status
confirmed diagnosis
OMOP4976963
The diagnosis of the death of a person
Oliver He, Long Tran
death diagnosis
https://athena.ohdsi.org/search-terms/terms/32895
https://athena.ohdsi.org/search-terms/terms?domain=Condition+Status
death diagnosis
OMOP4976965
A discharge diagnosis is a final diagnosis given a patient before release from the hospital after all testing, surgery, and workup are complete.
Oliver He, Long Tran
https://athena.ohdsi.org/search-terms/terms?domain=Condition+Status
https://medical-dictionary.thefreedictionary.com/discharge+diagnosis
discharge diagnosis
OMOP4976966
A postoperative diagnosis is a diagnosis or diagnoses discovered or confirmed during the surgery. Often it is the same as the preoperative diagnosis.
Oliver He, Long Tran
primary admission diagnosis
https://athena.ohdsi.org/search-terms/terms?domain=Condition+Status
https://ushik.ahrq.gov/ViewItemDetails?system=mdr&itemKey=85779000#:~:text=Definition%3A,same%20as%20the%20Preoperative%20Diagnosis.
postoperative diagnosis
OMOP4976968
A medical occurrence in which a patience is exposed to a medical related material entity such as drug or medical device. Medical exposure refers primarily to exposure incurred by patients for the purpose of medical diagnosis or treatment.
Oliver He, Long Tran
https://www.sciencedirect.com/topics/engineering/medical-exposure
medical exposure
A preoperative diagnosis is a surgical diagnosis or diagnoses that are assigned to the patient before the surgical procedure, and is the reason for the surgery. A preoperative diagnosis is, in the opinion of the surgeon, the diagnosis that will be confirmed during surgery.
Oliver He, Long Tran
https://athena.ohdsi.org/search-terms/terms?domain=Condition+Status
https://ushik.ahrq.gov/ViewItemDetails?system=mdr&itemKey=85778000#:~:text=Definition%3A,will%20be%20confirmed%20during%20surgery.
preoperative diagnosis
OMOP4976970
A referral is a written request from one health professional to another health professional or health service, asking them to diagnose or treat you for a particular condition.
Oliver He, Long Tran
https://athena.ohdsi.org/search-terms/terms?domain=Condition+Status
https://www.healthdirect.gov.au/what-is-a-referral#:~:text=A%20referral%20is%20a%20written,you%20for%20a%20particular%20condition.
referral diagnosis
OMOP4976975
An acellular self-replicating organic structure that is composed of nucleic acid
Oliver He
https://en.wikipedia.org/wiki/Template:Self-replicating_organic_structures
self-replicating nucleic acid
A self-replicating nucleic acid that can move around within a genome, or that can be transferred from one species or replicon to another.
Oliver He
https://en.wikipedia.org/wiki/Mobile_genetic_elements
https://en.wikipedia.org/wiki/Template:Self-replicating_organic_structures
mobile genetic element
A mobile genetic element that is composed of a generally circular extrachromosomal DNA molecule and is able to replicate and be transmitted independent of chromosomal DNA.
Oliver He
https://en.wikipedia.org/wiki/Mobile_genetic_elements
https://en.wikipedia.org/wiki/Template:Self-replicating_organic_structures
plasmid
A mobile genetic element that is composed of a DNA sequence and can move and replicate in different parts of a cell's genome.
Oliver He
https://en.wikipedia.org/wiki/Mobile_genetic_elements
https://en.wikipedia.org/wiki/Template:Self-replicating_organic_structures
transposon
17
A age quality that is measured by the value of less than 18 years old
Fred Dowd, Oliver He
age less than 18 years old
age less than 18 years
GFR 30-59 mL/min/1.73m2
eGFR >=60 mL/min/1.73m2 with urine albumin excretion >= 30 mg/g creatinine
eGFR >= 60 mL/min/1.73m2 with urine protein excretion >= 150 mg/g creatinine
A role of a person (e.g., a study participant, participant's family member, or participant's physician) who provides the medical history information.
Edison Ong, Oliver He
medical history information provider role
A role of a person who is a family member of a participant in an investigation study.
Edison Ong, Oliver He
study participant's family member role
a role of a physician who takes care of a study participant
Edison Ong, Oliver He
study participant's physician role
An age when a disease is first diagnosed
age at diagnosis of disease
age at diagnosis of kidney disease
Whether chronic kidney disease
Whether acute kidney injury
time of biopsy
year of kidney biopsy
time of kidney biopsy
month of kidney biopsy
age at the start of kidney stone
An age when a disease started in a patient
age at the start of disease
Whether diabetes
age at diagosis of diabetes
What disease
What type of diabetes
treatment question
medicatoin treatment question
surgical treatment question
Whether taking medication for diabetes
An age when a medication is first used
age at the start of medication
age at the start of taking medication for diabetes
What medication
What medication taken for diabetes
Whether insulin taken for diabetes
Whether diabetes during pregnancy
a clinical trial is a medical interventional study where participants are assigned prospectively to an intervention or interventions according to a protocol to evaluate the safety and efficacy of the intervention(s) on biomedical or other health related outcomes. The Interventions include but are not restricted to drugs, cells and other biological products, surgical procedures, radiologic procedures, devices, behavioral treatments, process-of-care changes, preventive care, etc.
Oliver He, Asiyah Yu Lin, Qingliang Li
interventional trial
https://clinicaltrials.gov/ct2/search/map
https://en.wikipedia.org/wiki/Clinical_trial
https://prsinfo.clinicaltrials.gov/definitions.html
https://www.who.int/ictrp/en/
clinical trial
A clinical trial that is at Early Phase 1 or Phase 0
A clinical trial that is at an Early Phase i or Phase 0, which is designed to use an investigational agent that is available only in very limited quantities and which has never previously given to humans or for which there is extremely limited human experience. Phase 0 clinical trials are intended to enable researchers to understand the path of the drug in the body and its efficacy. Adverse event reporting in Phase 0 trials is expedited. [def-source: NCI]
Leon Li, Asiyah Lin, Oliver He
Phase 0 clinical trial
Phase 0 trial
Pre-Clinical Trial
http://purl.obolibrary.org/obo/NCIT_C54721
https://en.wikipedia.org/wiki/Clinical_trial
Early Phase 1 clinical trial
A clinical trial that is at Phase 1, which is often the first-in-man trial, and it tests within a small group of people (typically 20-80) to evaluate safety, determine safe dosage ranges, and begin to identify side effects. A drug's side effects could be subtle or long term, or may only happen with a few people, so phase 1 trials are not expected to identify all side effects.
Leon Li, Asiyah Lin, Oliver He
Phase 1 trial
Phase I clinical trial
clinical trial for safety screening
http://purl.obolibrary.org/obo/NCIT_C15600
https://en.wikipedia.org/wiki/Clinical_trial
C0920321
C15600
Phase 1 clinical trial
A clinical trial that is at Phase 2, which is designed to study a biomedical or behavioral intervention in a larger group of people (several hundred), to evaluate the drug's effectiveness for a particular indication in patients with the disease or condition under study, and to determine the common short-term side effects and risks associated with the intervention. [def-source: NCI]
Leon Li, Asiyah Lin, Oliver He
Phase 2 trial
Phase II clinical trial
Phase II trial
http://purl.obolibrary.org/obo/NCIT_C15601
https://en.wikipedia.org/wiki/Clinical_trial
C0282460
C15601
Phase 2 clinical trial
A clinical trial that is at Phase 3
A clinical trial that is at Phase 3, which is designed to investigate the efficacy of the biomedical or behavioral intervention in large groups of human subjects (from several hundred to several thousand), to confirm efficacy, to monitor adverse reactions to the new medication or treatment regimen with respect to long-term use and by comparing the intervention to other standard or experimental interventions as well as to a placebo. [def-source: NCI]
Leon Li, Asiyah Lin, Oliver He
Phase III trial
https://en.wikipedia.org/wiki/Clinical_trial
C0282461
C15602
Phase 3 clinical trial
A clinical trial that is at Phase 4
Leon Li, Asiyah Lin, Oliver He
https://en.wikipedia.org/wiki/Clinical_trial
C0282462
C15603
Phase 4 clinical trial
A dependent entity that inheres in a bearer by virtue of how the bearer is related to other entities
quality (PATO)
trait
quality
A time quality inhering in a bearer by virtue of how long the bearer has existed.
quality
PATO:0000011
age
An organismal quality inhering in a bearer by virtue of the bearer's ability to undergo sexual reproduction in order to differentiate the individuals or types involved.
患者生理性别在特定编码体系中的代码
Suyuan Peng, Hong Yu, Yongqun He
《电子病历基本数据集 第10部分:住院病案首页》WS 445.10-2014
quality
PATO:0000047
biological sex
A 1-D extent quality inhering in a bearer by virtue of the bearer's vertical dimension of extension.
quality
PATO:0000119
height
A physical quality inhering in a bearer that has mass near a gravitational body.
quality
PATO:0000128
weight
A spatial quality inhering in a bearer by virtue of the bearer's spatial location relative to other objects in the vicinity.
location
placement
relational spatial quality
position
An organismal quality inhering in a bearer by virtue of the bearer's behavior aggregate of the responses or reactions or movements in a given situation.
PATO:0001722
behavioural quality
quality
PATO:0000186
behavioral quality
A biological sex quality inhering in an individual or a population that only produces gametes that can be fertilised by male gametes.
quality
PATO:0000383
female
A biological sex quality inhering in an individual or a population whose sex organs contain only male gametes.
quality
PATO:0000384
male
A quality of a physical entity that exists through action of continuants at the physical level of organisation in relation to other entities.
PATO:0002079
Wikipedia:Physical_property
relational physical quality
quality
PATO:0001018
physical quality
A quality which inheres in an process.
PATO:0001239
PATO:0001240
quality of a process
quality of occurrent
quality of process
relational quality of occurrent
quality
PATO:0001236
See comments of relational quality of a physical entity.
process quality
A quality which inheres in a continuant.
PATO:0001237
PATO:0001238
snap:Quality
monadic quality of a continuant
multiply inhering quality of a physical entity
multiply inhering quality of a physical entity
quality of a continuant
quality of a single physical entity
quality of an object
quality of continuant
monadic quality of an object
monadic quality of continuant
quality
PATO:0001241
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.
physical object quality
An organismal quality inhering in a bearer by virtue of the bearer's physical expression of sexual characteristics.
quality
PATO:0001894
phenotypic sex
A quality that inheres in an entire organism or part of an organism.
quality
PATO:0001995
organismal quality
A positional quality inhering in a bearer by virtue the bearer's being changed in position.
displaced
A material entity that consists of two or more organisms, viruses, or viroids.
A material entity that consists of two or more organisms, viruses, or viroids.
collection of organisms
collection of organisms
A community of at least two different species, living in a particular area. Must have at least two populations of different species as members.
envoPolar
ecological community
A collection of organisms of the same species whose members are all either genealogically related to each other or have mated with each other.
community
A collection of organisms that consists of two or more organisms from at least two species.
multi-species collection of organisms
A material entity that is one or more organisms, viruses or viroids.
organismal entity
An anatomical entity that is or was part of a plant.
entidad anatómica vegetal (Spanish, exact)
植物 解剖学(形態)的実体 (Japanese, exact)
plant anatomical entity
protein
antithrombin III is a protein
An amino acid chain that is produced de novo by ribosome-mediated translation of a genetically-encoded mRNA, and any derivatives thereof.
protein
A material entity consisting of multiple components that are causally integrated.
May be replaced by a BFO class, as discussed in http://www.jbiomedsem.com/content/4/1/43
Chris Mungall
http://www.jbiomedsem.com/content/4/1/43
system
region
A sequence_feature with an extent greater than zero. A nucleotide region is composed of bases and a polypeptide region is composed of amino acids.
primary structure of sequence macromolecule
sequence
region
Any portion of the organ that covers that body and consists of a layer of epidermis and a layer of dermis.
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
(...) 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]
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
EHDAA2:0001844
EHDAA:6530
EMAPA:17525
EV:0100152
FMA:86166
GAID:933
MA:0000151
MAT:0000284
MESH:D012867
MIAA:0000284
OpenCyc:Mx4rvVjX3ZwpEbGdrcN5Y29ycA
VHOG:0000860
portion of skin
region of skin
skin
skin region
skin zone
uberon
UBERON:0000014
zone of skin
A non-material anatomical entity of two dimensions. Anatomical boundaries are contiguous structures.
AEO:0000192
CARO:0000010
FMA:50705
uberon
UBERON:0000015
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.
anatomical boundary
Any hollow cylindrical anatomical structure containing a lumen through which substances are transported.
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)
tubular
galen:Tube
anatomical tube
duct
uberon
UBERON:0000025
tube
Major subdivision of an organism that protrudes from the body[DOS, CARO].
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].
Organ or organ part that is attached to the body of an organism. For example a limb[GO, modified][GO:0048736].
appendicular
this is currently a subtype of organism subdivision - which would exclude feathers
AEO:0000193
BILA:0000018
BTO:0001492
CARO:0010003
EFO:0000799
EHDAA2:0003193
EV:0100155
FBbt:00007000
HAO:0000144
MAT:0000023
MESH:D005121
MIAA:0000023
OpenCyc:Mx4rvViC-JwpEbGdrcN5Y29ycA
UMLS:C0598782
VSAO:0000075
XAO:0000218
uberon
appendages
extremitaet
extremity
limbs/digits/tail
UBERON:0000026
appendage
The head is the anterior-most division of the body [GO].
Organism subdivision that is the part of the body consisting of the cranial and pharyngeal regions.[AAO]
Organism subdivision which is the part of the body which consists of the cranial and pharygeal regions.[TAO]
Vertebrate evolution has been characterized by a fresh and vast array of cranial structures that collectively form the head.[well established][VHOG]
AAO:0010335
AEO:0000106
BILA:0000115
BTO:0000282
CALOHA:TS-0436
EFO:0000964
EHDAA2:0003106
EMAPA:31858
FBbt:00000004
FMA:7154
GAID:61
HAO:0000397
MA:0000023
MAT:0000294
MESH:D006257
MIAA:0000294
OpenCyc:Mx4rEOLm4rgPEdmAAAACs6hRjg
OpenCyc:Mx4rvVi6YJwpEbGdrcN5Y29ycA
SPD:0000016
TAO:0001114
TGMA:0000002
UMLS:C0018670
VHOG:0001644
WBbt:0005739
XAO:0003024
ZFA:0001114
galen:Head
head (volume)
adult head
uberon
cephalic area
UBERON:0000033
head
multi-tissue structure that is comprised of a secretory epithelial layer (mesothelium) and a connective tissue layer.
A multi-tissue structure that is comprised of a secretory epithelial layer and a connective tissue layer.[TAO]
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]
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.
FMA:9581
GAID:19
MESH:D012704
TAO:0005425
UMLS:C0036760
ZFA:0005425
tunica serosa
wall of serous sac
uberon
serosa
UBERON:0000042
serous membrane
A tubular structure that contains, conveys body fluid, such as blood or lymph.
uberon
UBERON:0000055
vessel
A tubular structure that transports secreted or excreted substances.
A tube shaped portion of tissue lined with epithelial cells that collects secretions and routes them to their destination[ZFA:0005171].
Most ducts, but not all, are exocrine gland ducts. Some ontologies classify structures such as the oviduct here.
AAO:0011123
FBbt:00100314
FMA:30320
TAO:0005171
UMLS:C0687028
XAO:0004000
ZFA:0005171
galen:Duct
anatomical duct
exocrine duct
exocrine gland duct
uberon
ducts
UBERON:0000058
duct
Organ component adjacent to an organ cavity and which consists of a maximal aggregate of organ component layers.
in FMA, serosa is a wall
UBERON:0009915
wall
EMAPA:25036
FMA:82482
galen:Wall
wall of organ
uberon
organ wall
UBERON:0000060
anatomical wall
Material anatomical entity that is a single connected structure with inherent 3D shape generated by coordinated expression of the organism's own genome.
AAO:0010825
AEO:0000003
BILA:0000003
CARO:0000003
EHDAA2:0003003
EMAPA:0
FBbt:00007001
FMA:67135
GAID:781
HAO:0000003
MA:0003000
MESH:D000825
TAO:0000037
TGMA:0001823
VHOG:0001759
WBbt:0000100
XAO:0003000
ZFA:0000037
biological structure
connected biological structure
uberon
UBERON:0000061
anatomical structure
Anatomical structure that performs a specific function or group of functions [WP].
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.
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
CARO:0020004
EFO:0000634
EMAPA:35949
ENVO:01000162
FMA:67498
MA:0003001
OpenCyc:Mx4rv5XMb5wpEbGdrcN5Y29ycA
OpenCyc:Mx4rwP3iWpwpEbGdrcN5Y29ycA
UMLS:C0178784
WBbt:0003760
uberon
anatomical unit
body organ
element
UBERON:0000062
organ
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.
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
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.
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.
FMA:86140
uberon
organ region with fixed fiat boundary
organ segment
segment of organ
UBERON:0000063
organ subunit
A multicellular structure that is a part of an organ.
currently defined in a very broad sense, may be replaced by more specific classes in the future
AAO:0011124
EFO:0000635
FMA:82472
cardinal organ part
uberon
regional part of organ
UBERON:0000064
organ part
The stage of development at which the animal is fully formed, including immaturity and maturity. Includes both sexually immature stage, and adult stage.
adult stage
BTO:0001043
BilaDO:0000004
EFO:0001272
FBdv:00005369
WBls:0000041
XtroDO:0000084
fully formed animal stage
juvenile-adult stage
uberon
UBERON:0000066
fully formed stage
A stage that is part of the embryo stage.
embryonic stage part
uberon
UBERON:0000067
embryo stage part
A life cycle stage that starts with fertilization and ends with the fully formed embryo.
BilaDO:0000002
EV:0300001
FBdv:00005289
FMA:72652
HsapDv:0000002
MmusDv:0000002
OGES:000000
OGES:000022
WBls:0000003
WBls:0000092
WBls:0000102
XAO:1000012
embryonic stage
uberon
embryogenesis
UBERON:0000068
embryo stage
End of the life of an organism.
ncit:Death is an outcome
XAO:0000437
XtroDO:0000085
uberon
death
UBERON:0000071
death stage
Anatomical cluster consisting of the skeletal elements and articular elements that are part of an individual subdivision of the organism.
UBERON:0010322
FMA:85544
UMLS:C1519343
galen:ComplexSkeletalStructure
skeletal system subdivision
uberon
skeletal system part
UBERON:0000075
subdivision of skeletal system
The surface (external) layer of ectoderm which begins to proliferate shortly after separation from the neuroectoderm.
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)
(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
EHDAA2:0001968
EHDAA:1494
EHDAA:350
EHDAA:4784
EHDAA:4790
EHDAA:4796
EHDAA:7860
EMAPA:16096
FMA:87656
UMLS:C1515087
surface (external) ectoderm
surface ectoderm
uberon
UBERON:0000076
external ectoderm
stage succeeding embryo, including mature structure
In birds, the postnatal stage begins when the beak penetrates the shell (i.e., external pipping) (Brown et al. 1997)
BilaDO:0000003
OGES:000010
OGES:000014
OGES:000024
WBls:0000022
WBls:0000093
WBls:0000103
postembryonic stage
post-hatching stage
uberon
postembryonic
UBERON:0000092
post-embryonic stage
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]
cjm
2009-07-30T05:19:13Z
membrane
FMA:7145
membrane of organ
uberon
UBERON:0000094
membrane organ
An entire span of an organism's life, commencing with the zygote stage and ending in the death of the organism.
FBdv:00000000
HsapDv:0000001
MmusDv:0000001
OGES:000011
ncithesaurus:Life
entire life cycle
entire lifespan
life
lifespan
uberon
UBERON:0000104
life cycle
A spatiotemporal region encompassing some part of the life cycle of an organism.
this class represents a proper part of the life cycle of an organism. The class 'life cycle' should not be placed here
the WBls class 'all stages' belongs here as it is the superclass of other WBls stages
we map the ZFS unknown stage here as it is logically equivalent to saying *some* life cycle stage
BILS:0000105
EFO:0000399
FBdv:00007012
FMA:24120
HsapDv:0000000
MmusDv:0000000
OlatDv:0000010
PdumDv:0000090
WBls:0000002
XAO:1000000
ZFS:0000000
ZFS:0100000
ncithesaurus:Developmental_Stage
developmental stage
stage
uberon
UBERON:0000105
life cycle stage
A stage at which the organism is a single cell produced by means of sexual reproduction.
As in all metazoans, eumetazoan development begins with a fertilized egg, or zygote.[well established][VHOG]
BILS:0000106
BilaDO:0000005
EFO:0001322
EHDAA:27
EMAPA:16033
FBdv:00005288
PdumDv:0000100
VHOG:0000745
XAO:1000001
ZFS:0000001
1-cell stage
fertilized egg stage
one cell stage
uberon
fertilized egg stage
one-cell stage
zygote
zygotum
UBERON:0000106
zygote stage
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.
BILS:0000107
BilaDO:0000006
EFO:0001290
FBdv:00000054
MESH:A16.254.270
MmusDv:0000004
OGES:000015
OGES:000020
PdumDv:0000200
XAO:1000004
ZFS:0000046
uberon
UBERON:0000107
cleavage 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.
consider adding a preceding stage 'morula stage' as part of cleavage
BILS:0000108
BilaDO:0000007
EFO:0001282
HsapDv:0000006
MmusDv:0000007
OGES:000003
OGES:000016
OGES:000021
OpenCyc:Mx4rEetFnKP2EdqAAAACs4vPlg
WBls:0000005
XAO:1000003
ZFS:0000045
uberon
UBERON:0000108
blastula stage
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.
BILS:0000109
BilaDO:0000008
EFO:0001296
FBdv:00005317
HsapDv:0000010
MmusDv:0000013
OGES:000004
OGES:000019
WBls:0000010
XAO:1000005
ZFS:0000047
uberon
blastocystis trilaminaris stage
trilaminar blastocyst stage
trilaminar blastoderm stage
trilaminar disk stage
trilaminar germ stage
trilaminar stage
UBERON:0000109
gastrula stage
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.
BILS:0000110
BilaDO:0000009
HsapDv:0000012
MmusDv:0000017
XAO:1000006
uberon
UBERON:0000110
neurula stage
A stage at which the ectoderm, endoderm, and mesoderm develop into the internal organs of the organism.
BILS:0000111
BilaDO:0000010
HsapDv:0000015
MmusDv:0000018
OGES:000005
OGES:000032
uberon
segmentation stage
UBERON:0000111
organogenesis stage
The stage of being a sexually immature adult animal[XAO:1000010].
In mammals this would include infant (nourishment from lactation) and juvenile (prepubertal no longer dependent on mother)
BILS:0000112
BTO:0002168
EFO:0001300
EV:0300051
MmusDv:0000043
OGES:000009
XAO:1000010
XtroDO:0000083
ZFS:0000051
immature stage
juvenile stage
uberon
subadult stage
UBERON:0000112
sexually immature stage
uberon
UBERON:0000153
anterior region of body
uberon
UBERON:0000154
posterior region of body
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).
Cavity in which food is initially ingested and generally contains teeth, tongue and glands.[AAO]
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]
oral
some AOs place this as developing from the stomodeum but we weaken this to developmental contribution, as the mouth includes non-ectodermal derivatives
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
AAO:0010355
BTO:0001090
BTO:0004698
CALOHA:TS-1315
EFO:0000825
EHDAA2:0001326
EHDAA:542
EMAPA:16262
FBbt:00003126
FMA:49184
GAID:75
MA:0000341
MA:0002474
MAT:0000038
MESH:D009055
MIAA:0000038
OpenCyc:Mx4rvVidh5wpEbGdrcN5Y29ycA
TADS:0000040
TAO:0000547
TAO:0000590
TGMA:0000131
VHOG:0000280
VHOG:0000812
XAO:0003029
ZFA:0000547
ZFA:0000590
galen:Mouth
regio oralis
adult mouth
uberon
cavital oralis
cavitas oris
cavum oris
mouth cavity
oral region
oral vestibule
rima oris
stoma
stomatodaeum
trophic apparatus
vestibule of mouth
vestibulum oris
UBERON:0000165
mouth
A fluid that is composed of blood plasma and erythrocytes.
This class excludes blood analogues, such as the insect analog of blood. See UBERON:0000179 haemolymphatic fluid.
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]
Highly specialized circulating tissue consisting of several types of cells suspended in a fluid medium known as plasma.[AAO]
relationship loss: subclass specialized connective tissue (AAO:0000571)[AAO]
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]
AAO:0000046
BTO:0000089
CALOHA:TS-0079
EFO:0000296
EHDAA2:0000176
EHDAA:418
EMAPA:16332
ENVO:02000027
EV:0100047
FMA:9670
GAID:965
MA:0000059
MESH:D001769
MIAA:0000315
OpenCyc:Mx4rvVjI8JwpEbGdrcN5Y29ycA
TAO:0000007
UMLS:C0005767
VHOG:0000224
XAO:0000124
ZFA:0000007
galen:Blood
portion of blood
vertebrate blood
uberon
whole blood
UBERON:0000178
blood
Circulating fluid that is part of the hemolymphoid system. Blood, lymph, interstitial fluid or its analogs.
cjm
2009-04-08T04:38:19Z
CARO:0000081
uberon
blood or blood analog
circulating fluid
UBERON:0000179
haemolymphatic fluid
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.
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
UBERON:0007011
BILA:0000059
BTO:0000128
GAID:1294
MESH:A16.254.270.274
OGEM:000006
OpenCyc:Mx4rEetFnKP2EdqAAAACs4vPlg
blastula embryo
uberon
blastosphere
UBERON:0000307
blastula
The subdivision of the musculoskeletal system that consists of all the muscles of the body[VSAO, modified].
consider whether this should be restricted to skeletal musculature. See https://github.com/obophenotype/uberon/issues/77
Anatomical system that consists of the muscles of the body.[VSAO]
we place the MA term musculature here, rather than under uberon:musculature, as this seems more appropriate given the structure of MA
AAO:0000307
BILA:0000088
BTO:0001369
BTO:0001485
EFO:0000801
EMAPA:35578
FBbt:00005069
FMA:72954
MA:0002888
MAT:0000025
MIAA:0000025
VSAO:0000033
XAO:0004042
muscle system
muscle system of body
muscular system
musculature system
set of all muscles
set of muscles of body
vertebrate muscular system
uberon
muskelsystem
UBERON:0000383
musculature of body
A gland in which the principal secretory cells are serous secreting cells.
glands that secrete watery albuminous material that often contains enzymes[MP:0008052].
BTO:0001837
FMA:62889
uberon
UBERON:0000409
serous gland
A portion of organism substance that is produced by exocrine glands.
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
UBERON:0006540
secretion
AEO:0001005
BTO:0002977
BTO:0002979
EMAPA:36535
FMA:9675
MA:0002504
MESH:D012634
UMLS:C1516992
galen:Secretion
exocrine gland fluid/secretion
secreted substance
uberon
exocrine gland fluid
exocrine gland fluid or secretion
exocrine gland secretion
external secretion
UBERON:0000456
bodily secretion
organism substance
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.
AAO:0010839
AEO:0000004
BILA:0000004
CALOHA:TS-2101
CARO:0000004
EHDAA2:0003004
EMAPA:35178
FBbt:00007019
FMA:9669
HAO:0000004
MA:0002450
SPD:0000008
TAO:0001487
TGMA:0001824
VHOG:0001726
XAO:0004001
ZFA:0001487
galen:BodySubstance
body fluid or substance
body substance
organism substance
portion of body substance
portion of organism substance
uberon
UBERON:0000463
organism substance
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.
lumen
space
AAO:0010110
AEO:0000005
BILA:0000005
CARO:0000005
EHDAA2:0003005
FBbt:00007017
FMA:5897
HAO:0000005
TAO:0001668
TGMA:0001825
UMLS:C0524461
VHOG:0001728
XAO:0003190
ZFA:0001643
lumen space
uberon
anatomical spaces
UBERON:0000464
anatomical space
material anatomical entity
Anatomical entity that has mass.
AAO:0010264
AEO:0000006
BILA:0000006
CARO:0000006
EHDAA2:0003006
FBbt:00007016
FMA:67165
HAO:0000006
TAO:0001836
TGMA:0001826
VHOG:0001721
uberon
UBERON:0000465
material anatomical entity
Anatomical entity that has no mass.
AAO:0010265
AEO:0000007
BILA:0000007
CARO:0000007
EHDAA2:0003007
FBbt:00007015
FMA:67112
HAO:0000007
TAO:0001835
TGMA:0001827
VHOG:0001727
immaterial physical anatomical entity
uberon
UBERON:0000466
immaterial anatomical entity
Multicellular, connected anatomical structure that has multiple organs as parts and whose parts work together to achieve some shared function.
system
AAO:0000007
AEO:0000011
BILA:0000011
BSA:0000049
CALOHA:TS-2088
CARO:0000011
EHDAA2:0003011
EHDAA:392
EMAPA:16103
EV:0100000
FBbt:00004856
FMA:7149
HAO:0000011
MA:0000003
OpenCyc:Mx4rCWM0QCtDEdyAAADggVbxzQ
TAO:0001439
TGMA:0001831
UMLS:C0460002
VHOG:0001725
WBbt:0005746
WBbt:0005763
XAO:0003002
ZFA:0001439
galen:AnatomicalSystem
body system
connected anatomical system
organ system
uberon
anatomical systems
UBERON:0000467
anatomical system
Anatomical structure that is an individual member of a species and consists of more than one cell.
TODO - split body and mc organism? body continues after death stage
organismal
AAO:0010026
AEO:0000191
BILA:0000012
BSA:0000038
BTO:0000042
CARO:0000012
EFO:0002906
EHDAA2:0003103
EHDAA2:0003191
EHDAA:1
EHDAA:9178
EMAPA:25765
EV:0100016
FBbt:00000001
FMA:256135
HAO:0000012
TADS:0000001
TAO:0001094
TGMA:0001832
VHOG:0000671
WBbt:0007833
XAO:0003004
ZFA:0001094
galen:Organism
ncithesaurus:Whole_Organism
multi-cellular organism
organism
whole organism
animal
uberon
Koerper
body
whole body
UBERON:0000468
multicellular organism
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.
Reflects CARO2. todo - check the inclusion of FMA 'cardinal body part here', and check child terms for consistency
AAO:0010053
AEO:0000032
BILA:0000032
CALOHA:TS-2084
CARO:0000032
EFO:0000808
EHDAA2:0003032
EMAPA:36031
FBbt:00007009
FMA:7153
HAO:0000032
MA:0002433
MAT:0000293
MESH:D001829
MIAA:0000293
OpenCyc:Mx4rvViAHJwpEbGdrcN5Y29ycA
TAO:0001308
TGMA:0001840
UMLS:C0229962
VHOG:0001758
XAO:0003013
ZFA:0001308
galen:BodyPart
anatomic region
uberon
body part
body region
cardinal body part
UBERON:0000475
organism subdivision
Anatomical structure that consists of cell parts and cell substances and together does not constitute a cell or a tissue.
AAO:0010268
AEO:0000040
BILA:0000040
CARO:0000040
EHDAA2:0003040
FBbt:00007013
FMA:63863
HAO:0000040
TAO:0000382
TGMA:0001841
XAO:0003162
ZFA:0000382
uberon
acellular anatomical structures
UBERON:0000476
acellular anatomical structure
anatomical cluster
Anatomical group that has its parts adjacent to one another.
Will be obsoleted in CARO v2 [https://github.com/obophenotype/caro/issues/3]
AAO:0010009
AEO:0000041
BILA:0000041
CARO:0000041
EHDAA2:0003041
FBbt:00007277
FMA:49443
HAO:0000041
TADS:0000605
TAO:0001478
TGMA:0001842
VHOG:0001737
XAO:0003160
ZFA:0001478
uberon
UBERON:0000477
anatomical cluster
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.
changed label and definition to reflect CARO2
AAO:0000607
AAO:0010054
AEO:0000043
BILA:0000043
CALOHA:TS-2090
CARO:0000043
EHDAA2:0003043
EMAPA:35868
FBbt:00007003
FMA:9637
HAO:0000043
MA:0003002
MESH:D014024
TAO:0001477
TGMA:0001844
UMLS:C0040300
VHOG:0001757
WBbt:0005729
XAO:0003040
ZFA:0001477
galen:Tissue
portion of tissue
tissue portion
simple tissue
uberon
UBERON:0000479
tissue
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.
AAO:0010048
AEO:0000055
BILA:0000055
CARO:0000055
EHDAA2:0003055
FBbt:00007010
HAO:0000055
TAO:0001488
TGMA:0001847
VHOG:0001762
XAO:0003037
ZFA:0001488
uberon
multi-tissue structures
UBERON:0000481
multi-tissue structure
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].
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]
epithelial
AAO:0000144
AAO:0010055
AEO:0000066
BILA:0000066
BTO:0000416
CALOHA:TS-0288
CARO:0000066
EHDAA2:0003066
EMAPA:32738
FBbt:00007005
FMA:9639
GAID:402
HAO:0000066
MA:0003060
MESH:D004848
TAO:0001486
UMLS:C0014609
VHOG:0000387
XAO:0003045
ZFA:0001486
epithelial tissue
portion of epithelium
uberon
UBERON:0000483
epithelium
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]
Epithelium that consists of more than one layer of epithelial cells.[CARO]
AAO:0010059
AEO:0000069
BILA:0000069
BTO:0002074
CARO:0000069
EHDAA2:0003069
FMA:45562
HAO:0000069
TAO:0001494
UMLS:C0682575
XAO:0004006
ZFA:0001494
stratified epithelium
uberon
laminated epithelium
UBERON:0000486
multilaminar epithelium
Unilaminar epithelium which consists of a single layer of squamous cells. Examples: pulmonary alveolar epithelium, endothelium.[FMA]
Unilaminar epithelium that consists of a single layer of squamous cells.[CARO]
AAO:0010066
AEO:0000070
BILA:0000070
BTO:0002073
CARO:0000070
EHDAA2:0003070
FMA:45565
HAO:0000070
TAO:0001498
UMLS:C0836133
XAO:0004010
ZFA:0001498
epithelium simplex squamosum
uberon
simple squamous epithelia
UBERON:0000487
simple squamous epithelium
Epithelium which consists of a single layer of epithelial cells. Examples: endothelium, mesothelium, glandular squamous epithelium.[FMA]
consider adding disjointness axiom between unilaminar and multilaminar - but note that this will render EHDAA2:0003244 (chorionic trophoblast) unsatisfiable
Epithelium that consists of a single layer of epithelial cells.[CARO]
AAO:0010062
AEO:0000073
BILA:0000073
BTO:0002073
CARO:0000073
EHDAA2:0003073
FMA:45561
HAO:0000073
TAO:0001495
UMLS:C0682574
XAO:0004007
ZFA:0001495
simple epithelium
uberon
unilaminar epithelia
UBERON:0000490
unilaminar epithelium
Subdivision of trunk that lies between the head and the abdomen.
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
EMAPA:35862
FMA:259209
MA:0000022
thorax
uberon
anterior subdivision of trunk
upper body
upper trunk
UBERON:0000915
thoracic segment of trunk
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.
embryonic
Obsoleted in ZFA. Note that embryo is not classified as an embryonic structure - an embryonic structure is only the parts of an embryo
AAO:0011035
AEO:0000169
BILA:0000056
BSA:0000039
BTO:0000379
CALOHA:TS-0229
EFO:0001367
EHDAA2:0000002
EHDAA2_RETIRED:0003236
EHDAA:38
EMAPA:16039
FBbt:00000052
FMA:69068
GAID:963
MAT:0000226
MESH:D004622
MIAA:0000019
OGEM:000001
OpenCyc:Mx4rwP1ceZwpEbGdrcN5Y29ycA
UMLS:C0013935
VHOG:0001766
XAO:0000113
ZFA:0000103
embryonic organism
uberon
developing organism
developmental tissue
UBERON:0000922
embryo
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.
The Bilateria are triploblastic (with true endoderm, mesoderm, and ectoderm) (...).[well established][VHOG]
embryonic tissue
AAO:0000480
BILA:0000035
BTO:0000556
EMAPA:36033
FBbt:00000110
FMA:69069
GAID:1303
MESH:A16.254.425
TAO:0001122
UMLS:C0920502
UMLS:C1708239
VHOG:0001223
XAO:0003011
ZFA:0001122
germinal layer
primary germ layer
uberon
embryonic germ layer
embryonic germ layers
UBERON:0000923
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]
germ layer
Primary germ layer that is the outer of the embryo's three germ layers and gives rise to epidermis and neural tissue.
Primary germ layer that is the outer of the embryonic germ layers and gives rise to epidermis and neural tissue.[AAO]
The Bilateria are triploblastic (with true endoderm, mesoderm, and ectoderm) (...).[well established][VHOG]
ectodermal
AAO:0000137
BILA:0000036
BTO:0000315
CALOHA:TS-0216
EFO:0000414
EHDAA2:0000428
EMAPA:16069
EV:0100003
FBbt:00000111
FMA:69070
GAID:1304
MAT:0000155
MAT:0000173
MESH:A16.254.425.273
MIAA:0000173
TAO:0000016
UMLS:C0013574
VHOG:0000153
XAO:0000001
ZFA:0000016
embryonic ectoderm
uberon
UBERON:0000924
ectoderm
Primary germ layer that lies remote from the surface of the embryo and gives rise to internal tissues such as gut.
The Bilateria are triploblastic (with true endoderm, mesoderm, and ectoderm) (...).[well established][VHOG]
endodermal
AAO:0000139
BILA:0000038
BTO:0000800
CALOHA:TS-0273
EFO:0002545
EHDAA2:0000436
EMAPA:16062
EV:0100005
FBbt:00000125
FMA:69071
GAID:1305
MAT:0000175
MESH:A16.254.425.407
MIAA:0000175
TAO:0000017
UMLS:C0014144
VHOG:0000154
XAO:0000090
ZFA:0000017
uberon
entoderm
UBERON:0000925
endoderm
The middle germ layer of the embryo, between the endoderm and ectoderm.
Primary germ layer that is the middle of the embryonic germ layers.[AAO]
The Bilateria are triploblastic (with true endoderm, mesoderm, and ectoderm) (...).[well established][VHOG]
mesodermal
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
UBERON:0003263
AAO:0000304
BILA:0000037
BTO:0000839
CALOHA:TS-0623
EFO:0001981
EHDAA2:0001128
EHDAA:124
EHDAA:160
EHDAA:168
EHDAA:183
EMAPA:16083
EV:0100006
FBbt:00000126
FMA:69072
GAID:522
MAT:0000174
MESH:A16.254.425.660
MIAA:0000174
TAO:0000041
UMLS:C0025485
VHOG:0000152
XAO:0000050
ZFA:0000041
uberon
embryonic mesoderm
entire mesoderm
mesodermal mantle
UBERON:0000926
mesoderm
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.
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
Anterior part of the embryonic alimentary canal formed as an invagination of the ectoderm; the future mouth.[TAO]
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
stomodeal
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.
stomodeal-hypophyseal primordium
BTO:0004224
EHDAA2:0001929
EMAPA:16263
FBbt:00000439
FMA:295846
TAO:0001290
TGMA:0000135
UMLS:C1514977
XAO:0000269
ZFA:0001290
mouth primordium
primitive oral cavity
stomatodeum
stomodaeum
uberon
mouth pit
oral ectoderm
oral pit
UBERON:0000930
stomodeum
A myogenic muscular circulatory organ found in the vertebrate cardiovascular system composed of chambers of cardiac muscle. It is the primary circulatory organ.
Blood pumping organ composed of four chambers: sinus venosus, atrium, cardiac ventricle and bulbus arteriosus.[TAO]
Part of the circulatory system responsible for pumping blood; composed of three chambers--two atria and one ventricle.[AAO]
relationship type change: differentiates_from lateral plate mesoderm (AAO:0010574) CHANGED TO: develops_from lateral plate mesoderm (UBERON:0003081)[AAO]
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]
cardiac
AAO:0010210
BILA:0000020
BTO:0000562
CALOHA:TS-0445
EFO:0000815
EHDAA2:0000738
EHDAA:420
EMAPA:16105
EV:0100018
FMA:7088
GAID:174
MA:0000072
MAT:0000036
MESH:D006321
MIAA:0000036
OpenCyc:Mx4rvVjvDpwpEbGdrcN5Y29ycA
TAO:0000114
UMLS:C0018787
VHOG:0000276
XAO:0000064
ZFA:0000114
galen:Heart
chambered heart
vertebrate heart
branchial heart
uberon
Herz@de
cardium
UBERON:0000948
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)" http://dx.doi.org/10.1101/gad.1485706
heart
Anatomical cluster that consists of two or more adjacent skeletal structures, which may be interconnected by various types of tissue[VSAO].
Anatomical cluster that consists of two or more adjacent bones or cartilages, which may be interconnected by various types of tissue.[VSAO]
Anatomical cluster which consists of two or more adjacent bones or cartilages, which may be interconnected by various types of tissue.[TAO]
articulation
joint
AEO:0000182
BTO:0001686
CALOHA:TS-2023
EFO:0000948
EMAPA:35456
FMA:7490
GAID:102
MA:0000319
MAT:0000188
MESH:D007596
MIAA:0000188
OpenCyc:Mx4rvVjjdpwpEbGdrcN5Y29ycA
RETIRED_EHDAA2:0003182
TAO:0000367
UMLS:C0022417
VHOG:0001276
VSAO:0000101
XAO:0000171
ZFA:0001596
galen:Joint
uberon
articular joint
joints
UBERON:0000982
skeletal joint
The outer epithelial layer of the skin that is superficial to the dermis.
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]
The outer epithelial layer of the external integument of the body that is derived from the embryonic epiblast.[AAO]
relationship loss: subclass external integument structures (AAO:0000961)[AAO]
(...) 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]
epidermal
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).
epidermis
skin
AAO:0000143
BTO:0000404
CALOHA:TS-0283
EFO:0000954
EMAPA:17528
EV:0100153
FMA:70596
GAID:932
MA:0000153
MAT:0000154
MESH:D004817
MIAA:0000154
TAO:0000105
UMLS:C0014520
VHOG:0000077
XAO:0000028
ZFA:0000105
vertebrate epidermis
uberon
UBERON:0001003
skin epidermis
Functional system which consists of structures involved in respiration.
The anatomical system in which the exchange of oxygen and carbon dioxide between the organism and its environment.[AAO]
There is no doubt that the primitive pattern of vertebrate air-breathing is the buccal pulse pump found in actinopterygian fishes.[well established][VHOG]
AAO:0000541
BTO:0000203
CALOHA:TS-1319
EFO:0000804
EHDAA2:0001604
EHDAA:2203
EMAPA:16727
EV:0100036
FMA:7158
GAID:78
MA:0000327
MAT:0000030
MESH:D012137
MIAA:0000030
OpenCyc:Mx4rvVjzFJwpEbGdrcN5Y29ycA
TAO:0000272
UMLS:C0035237
VHOG:0000202
XAO:0000117
ZFA:0000272
apparatus respiratorius
respiratory system
uberon
Atmungssystem
apparatus respiratorius
systema respiratorium
UBERON:0001004
respiratory system
Anatomical system that has as its parts the organs devoted to the ingestion, digestion, and assimilation of food and the discharge of residual wastes.
An anatomical system consisting of the alimentary canal and digestive glands responsible for intake, absorption, digestion and excretion of food.[AAO]
digestive
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
AAO:0000129
BILA:0000082
BTO:0000058
CALOHA:TS-1293
EFO:0000793
EV:0100056
FBbt:00005055
FMA:7152
GAID:278
MA:0002431
MAT:0000018
MESH:D004064
MIAA:0000018
TADS:0000170
TAO:0000339
WBbt:0005748
XAO:0000125
ZFA:0000339
galen:DigestiveSystem
ncithesaurus:Digestive_System
uberon
alimentary system
alimentary tract
gastrointestinal system
gut
UBERON:0001007
digestive system
The renal system in an anatomical system that maintains fluid balance and contributes to electrolyte balance, acid/base balance, and disposal of nitrogenous waste products..
In various sources such as Encyclopedia Britannica, the excretory and urinary systems are indeed the same system (see wikipedia talk page); we merge two BTO classes here
An anatomical system which consists of organs and tissues which produce, store, and excrete urine.[AAO]
Evolution of vertebrate renal anatomy appears quite conservative when compared, for example, to evolution of respiratory and cardiovascular systems in vertebrates. Major anatomical changes in vertebrates kidneys separate those of birds and mammals from kidneys of lower vertebrates. General increase in animal size from fish to mammals is reflected by an increase in total number of nephrons per kidney, rather than by constant change in tubular dimensions.[well established][VHOG]
In humans, the renal system comprises a pair of kidneys, a pair of ureters, urinary bladder, urethra, sphincter muscle and associated blood vessels
This definition is inclusive of the organs of the vertebrate renal system, as well as the Malpighian tubules of insects, and allows for future incorporation of structures such as the antennal glands of crustaceans
AAO:0010257
BILA:0000015
BTO:0001244
BTO:0003092
CALOHA:TS-1323
EFO:0000803
EHDAA2:0001601
EHDAA:5901
EMAPA:17366
EV:0100095
FBbt:00005056
FMA:7159
GAID:391
MA:0000325
MAT:0000027
MESH:D014551
MIAA:0000027
TADS:0000162
TAO:0000163
UMLS:C1508753
VHOG:0000723
WBbt:0005736
XAO:0000143
ZFA:0000163
galen:UrinaryTract
excretory system
renal system
systema urinaria
systema urinarium
urinary system
urinary tract
uberon
renal or urinary system
renal/urinary system
UBERON:0001008
renal system
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].
the cardiovascular system and the lymphatic system are parts of the circulatory system
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]
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]
AAO:0000959
CALOHA:TS-2103
FBbt:00005057
OpenCyc:Mx4rvVjzG5wpEbGdrcN5Y29ycA
VHOG:0001248
uberon
systema cardiovasculare
UBERON:0001009
circulatory system
Portion of connective tissue composed of adipocytes enmeshed in areolar tissue
Connective tissue in which fat is stored.[TAO]
Tissue that contains adipocytes, used for cushioning, thermal insulation, lubrication (primarily in the pericardium) and energy storage.[AAO]
relationship loss: subclass connective tissue proper (AAO:0000099)[AAO]
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]
adipose
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.
in FMA this is dense irregular connective tissue
AAO:0000001
AEO:000020
BTO:0001487
CALOHA:TS-0013
EFO:0000790
EHDAA2:0003120
EMAPA:35112
EV:0100381
FMA:20110
GAID:920
MA:0000009
MAT:0000015
MESH:D000273
MIAA:0000015
OpenCyc:Mx4rvVjc_ZwpEbGdrcN5Y29ycA
TAO:0002134
UMLS:C0001527
VHOG:0001284
XAO:0003049
ZFA:0005345
galen:FattyTissue
fat
fat tissue
fatty tissue
uberon
adipose
bodyfat
fatty depot
UBERON:0001013
adipose tissue
A subdivision of the muscular system corresponding to a subdisivision of an organism.
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.
AAO:0011066
BTO:0000887
EFO:0001949
EMAPA:32715
EMAPA:35577
FMA:32558
MA:0000165
OpenCyc:Mx4rvVjmr5wpEbGdrcN5Y29ycA
TAO:0000548
UMLS:C0026845
VSAO:0005038
WBbt:0005737
ZFA:0000548
muscle group
muscles set
musculature
musculi
set of muscles
set of skeletal muscles
uberon
muscle system
muscles
musculature system
UBERON:0001015
musculature
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].
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]
Anatomical system consisting of nerve bodies and nerve fibers which regulate the response of the body to external and internal stimuli.[AAO]
Nervous systems evolved in the ancestor of Eumetazoa.[well established][VHOG]
nervous
neural
AAO:0000324
BILA:0000079
BTO:0001484
CALOHA:TS-1313
EFO:0000802
EHDAA2:0001246
EHDAA:826
EMAPA:16469
EV:0100162
FBbt:00005093
FMA:7157
GAID:466
MA:0000016
MAT:0000026
MESH:D009420
MIAA:0000026
OpenCyc:Mx4rvViT_pwpEbGdrcN5Y29ycA
TAO:0000396
UMLS:C0027763
VHOG:0000402
WBbt:0005735
XAO:0000177
ZFA:0000396
neurological system
nerve net
uberon
systema nervosum
UBERON:0001016
nervous system
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.
Part of the nervous system which includes the brain and spinal cord.[AAO]
The brain and spinal cord. Kimmel et al, 1995.[TAO]
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).
(...) 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]
AAO:0000090
BAMS:CNS
BILA:0000080
BTO:0000227
CALOHA:TS-0150
EFO:0000908
EHDAA2:0000225
EHDAA:828
EMAPA:16470
EMAPA:16754
EV:0100163
FBbt:00005094
FMA:55675
GAID:570
MA:0000167
MAT:0000457
MESH:D002490
OpenCyc:Mx4rvzYt3pwpEbGdrcN5Y29ycA
TAO:0000012
UMLS:C0927232
VHOG:0000293
XAO:0000215
ZFA:0000012
CNS
systema nervosum centrale
cerebrospinal axis
uberon
neuraxis
UBERON:0001017
central nervous system
Primordia are populations of contiguous cells that are morphologically distinct and already correspond in extent to a later organ/tissue[FBbt, Hartenstein, V. (2004)].
AEO:0000171
BTO:0001886
EFO:0001652
EHDAA2:0003171
FBbt:00005495
FMA:86589
MAT:0000482
UMLS:C0678727
XAO:0003043
uberon
bud
future organ
placode
primordia
rudiment
UBERON:0001048
primordium
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].
Hollow epithelial tube on dorsal side of the embryo that develops into the central nervous system.[AAO]
The dorsal tubular structure in the vertebrate embryo that develops into the brain and spinal cord. [TFD][VHOG]
(...) 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]
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
AAO:0010617
BTO:0001057
CALOHA:TS-2371
DHBA:10154
EHDAA2:0001254
EHDAA:2869
EHDAA:908
EMAPA:16164
EMAPA:16530
EMAPA:16757
FMA:293882
MAT:0000069
MIAA:0000069
TAO:0001135
UMLS:C0231024
VHOG:0000307
XAO:0003204
ZFA:0001135
uberon
neural primordium
presumptive central nervous system
tubus neuralis
UBERON:0001049
neural tube
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.
AAO:0010841
AEO:0000000
BILA:0000000
CARO:0000000
EHDAA2:0002229
FBbt:10000000
FBbt_root:00000000
FMA:62955
HAO:0000000
MA:0000001
TAO:0100000
TGMA:0001822
UMLS:C1515976
XAO:0000000
ZFA:0100000
uberon
UBERON:0001062
anatomical entity
Transudate contained in the synovial cavity of joints, and in the cavity of tendon sheaths and bursae.
Portion of organism substance that is a clear fluid that occupies the space in synovial joints.[TAO]
BTO:0001339
CALOHA:TS-0996
ENVO:02000039
FMA:12277
GAID:265
MA:0002544
MESH:D013582
TAO:0005154
UMLS:C0039097
ZFA:0005154
galen:SynovialFluid
joint fluid
uberon
UBERON:0001090
synovial fluid
Simple squamous epithelium of mesodermal origin which lines serous membranes. Examples: mesothelium of pleura, mesothelium of peritoneum[FMA]. http://en.wikipedia.org/wiki/ 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).
AEO:0000111
BTO:0002422
CALOHA:TS-1183
EHDAA2_RETIRED:0003111
EHDAA:2331
EHDAA:2349
EHDAA:295
EHDAA:6073
EHDAA:640
EHDAA:646
EMAPA:32856
FMA:14074
MA:0000565
UMLS:C0086610
uberon
UBERON:0001136
mesothelium
Anatomical system that is a multi-element, multi-tissue anatomical cluster that consists of the skeleton and the articular system.
Anatomical system consisting of multiple elements and tissues that provides physical support.[TAO]
Anatomical system that is a multi-element, multi-tissue anatomical cluster that consists of the skeleton and the articular system.[VSAO]
System that provides physical support to the organism.[AAO]
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]
skeletal
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
AAO:0000566
BTO:0001486
CALOHA:TS-1320
EFO:0000806
EHDAA2:0003168
EMAPA:35773
FMA:23881
MA:0000018
OpenCyc:Mx4rvVi1rpwpEbGdrcN5Y29ycA
TAO:0000434
UMLS:C0037253
VHOG:0001254
VSAO:0000027
XAO:0003060
ZFA:0000434
skeleton system
set of all bones and joints
uberon
Skelettsystem
UBERON:0001434
skeletal system
https://github.com/obophenotype/uberon/wiki/The-skeletal-system
Skeletal element that is composed of bone tissue.
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]
Portion of tissue which is calcified connective tissue making up the structural elements of the skeletal system.[TAO]
Skeletal element that is composed of bone tissue.[VSAO]
relationship loss: subclass specialized connective tissue (AAO:0000571)[AAO]
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]
AAO:0000047
AEO:0000082
BTO:0000140
CALOHA:TS-0088
EFO:0000298
EHDAA2:0003082
EMAPA:32782
ENVO:00002039
EV:0100140
FMA:30317
FMA:5018
GAID:92
MA:0001459
MAT:0000299
MIAA:0000299
OpenCyc:Mx4rvViDlpwpEbGdrcN5Y29ycA
OpenCyc:Mx4rvVkCG5wpEbGdrcN5Y29ycA
TAO:0001514
UMLS:C0262950
VHOG:0001190
VSAO:0000057
XAO:0000169
ZFA:0001514
galen:Bone
bone element
bone organ
uberon
bone
bones
UBERON:0001474
bone element
An articular capsule (or joint capsule) is an envelope surrounding a synovial joint. [WP,unvetted].
check ncita
FMA:34836
GAID:263
MA:0001519
MESH:D017746
UMLS:C0206207
galen:JointCapsule
capsula articularis
fibrous capsule of joint
joint capsule
joint fibrous capsule
uberon
capsulae articulares
UBERON:0001484
articular capsule
A tube extending from the mouth to the anus.
The alimentary or digestive tract, and associated organs.[TAO]
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]
FMA also has a term 'gastrointestinal tract', but this includes the liver.
we place the MA and EMAPA class here, although the intent is probably a smaller region. See https://github.com/obophenotype/uberon/issues/509
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
gut
AAO:0010023
BILA:0000083
BTO:0000511
BTO:0000545
EHDAA2:0000726
EHDAA:518
EMAPA:16247
FBbt:00003125
FMA:45615
MA:0000917
OpenCyc:Mx4rvVi0GpwpEbGdrcN5Y29ycA
TAO:0000112
TGMA:0001819
UMLS:C0017189
VHOG:0000309
WBbt:0005743
ZFA:0000112
galen:AlimentaryTract
digestive tube
enteric tract
alimentary canal
alimentary tract
uberon
digestive canal
gut tube
UBERON:0001555
digestive tract
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].
Portion of tissue composed of contractile fibers.[TAO]
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]
muscular
muscle
AAO:0011066
EMAPA:32715
EV:0100146
FMA:5022
GAID:131
MA:0000015
OpenCyc:Mx4rv2kf-5wpEbGdrcN5Y29ycA
TAO:0005145
VHOG:0001245
XAO:0000172
ZFA:0005145
galen:Muscle
uberon
UBERON:0001630
muscle organ
The liquid component of blood, in which erythrocytes are suspended.
plasma
portion of plasma
BTO:0000131
CALOHA:TS-0800
EFO:0001905
EMAPA:35690
FMA:62970
GAID:1178
MA:0002501
MAT:0000052
MESH:D010949
MIAA:0000052
OpenCyc:Mx4rEg4ZYrIbEduAAAAOpmP6tw
UMLS:C0032105
blood plasm
portion of blood plasma
uberon
UBERON:0001969
blood plasma
A vessel through which blood circulates in the body.
consider adopting the EMAPA superclass 'vascular element', which includes microvasculature (e.g. capillaries), vascular plexus
Any of the vessels through which blood circulates in the body. [XAO:0001011_][VHOG]
Any of the vessels through which blood circulates in the body.[AAO]
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]
annelids have blood vessels, but this class is not applicable to annelids.
FMA:63183 Blood vessel is categorized as 'general anatomical term'. Suggestion to map to region of vascular tree from Terry H at JAX
vascular element
AAO:0011004
AEO:0000207
BTO:0001102
CALOHA:TS-0080
EFO:0000817
EHDAA2:0003252
EHDAA:240
EMAPA:32743
EMAPA:35993
FMA:50722
FMA:63183
GAID:169
MA:0000060
MAT:0000393
MESH:D001808
OpenCyc:Mx4rvVjxlpwpEbGdrcN5Y29ycA
TAO:0002137
UMLS:C0005847
VHOG:0001250
XAO:0001011
ZFA:0005314
region of vascular tree organ
vascular tree organ region
uberon
vas sanguineum
UBERON:0001981
blood vessel
An interconnected tubular multi-tissue structure contains fluid that is actively transported around the organism[ZFA]. Examples: vasculature of lung, vasculature of face.
see also: vascular system. Consider merging?
vascular
BTO:0003718
FMA:69050
TAO:0005249
ZFA:0005249
vascular network
uberon
UBERON:0002049
vasculature
Anatomical structure that is part of an embryo.
Anatomical structure that is part of the embryo and is comprised of portions of tissue or cells.[AAO]
Anatomical structure that is part of the embryo and is comprised of portions of tissue or cells.[TAO]
Anatomical structure that is part of the embryo and is comprised of portions of tissue or cells.[VSAO]
in FMA embryo is_a embryonic structure
AAO:0000138
BILA:0000034
BTO:0000174
CALOHA:TS-2110
EFO:0000461
FBbt:00004208
FMA:69067
GAID:407
MESH:D004628
RETIRED_EHDAA2:0003169
TAO:0001105
UMLS:C0013948
VSAO:0000178
XAO:0003042
ZFA:0001105
developing embryonic structure
embryonic anatomical structure
uberon
developing structure
embryonale Struktur
embryonic structures
UBERON:0002050
embryonic structure
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].
Consider adding a layer-of-skin grouping class for all skin layers
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]
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]
dermal
AAO:0000128
BTO:0000294
CALOHA:TS-2076
EFO:0000953
EMAPA:17527
EV:0100154
FMA:70323
GAID:1321
MA:0000152
MAT:0000153
MESH:D020405
MIAA:0000153
TAO:0001119
UMLS:C0011646
VHOG:0000108
XAO:0000217
ZFA:0001119
vertebrate dermis
uberon
corium
cutis
UBERON:0002067
dermis
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].
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]
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].
hypodermal
subcutaneous
subcutaneus
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.
BTO:0001314
CALOHA:TS-2366
FMA:70544
TAO:0001136
UMLS:C0278403
ZFA:0001136
hypoderm
vertebrate hypodermis
uberon
sub-tegumental tissue
subcutaneous tissue
subcutis
subtegumental tissue
superficial fascia
tela subcutanea
UBERON:0002072
hypodermis
The post-cranial 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].
Skeletal subdivision of the central body axis including vertebrae, notochord, ribs, and sternum.[VSAO]
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]
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]
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]
axial skeleton
AAO:0000034
EFO:0000942
EHDAA2:0000161
EHDAA:5049
EMAPA:17214
FMA:71221
MA:0002986
MAT:0000148
MIAA:0000148
TAO:0000317
VHOG:0000317
VSAO:0000093
XAO:0003073
ZFA:0000317
post-cranial axial skeleton
uberon
UBERON:0002090
previous some AOs had used the term 'axial skeleton' to include the skull. This is being resolved (see tracker items above). Status: MA - fixed.
postcranial axial skeleton
http://purl.obolibrary.org/obo/uberon/docs/The-axial-skeleton
The organ covering the body that consists of the dermis and epidermis.
consider 'integumentary system' for invertebrates
MA uses the term skin to refer to what is called here: zone of skin
BTO:0001253
CALOHA:TS-0934
EFO:0000962
EHDAA2:0001844
EMAPA:17525
FMA:7163
MESH:D012867
MFMO:0000099
OpenCyc:Mx4rvVjX3ZwpEbGdrcN5Y29ycA
UMLS:C1123023
XAO:0000023
galen:Skin
entire skin
skin organ
uberon
entire integument
integument
integumental organ
pelt
skin
UBERON:0002097
skin of body
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.
Organism subdivision that is the part of the body posterior to the head and anterior to the tail.[AAO]
Organism subdivision which is the part of the body posterior to the head and anterior to the tail.[TAO]
AAO:0010339
BILA:0000116
BTO:0001493
CALOHA:TS-1071
EFO:0000966
EMAPA:31857
FMA:7181
MA:0000004
MAT:0000296
MIAA:0000296
OpenCyc:Mx4rvVkJjpwpEbGdrcN5Y29ycA
TAO:0001115
UMLS:C0460005
XAO:0000054
XAO:0003025
ZFA:0001115
galen:Trunk
thoracolumbar region
torso
trunk region
uberon
Rumpf
UBERON:0002100
trunk
Anatomical cluster consisting of the hematopoietic system and the lymphoid system, or its analogs.
CALOHA:TS-2018
EHDAA2:0004615
EMAPA:18765
FMA:74562
MA:0000013
hematolymphoid system
lymphomyeloid complex
uberon
haemolymphoid system
UBERON:0002193
hemolymphoid system
The dermis, epidermis and hypodermis.
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.
Anatomical system that protects the body from damage, comprising the skin and its appendages.[AAO]
Surface structure that is the outer protective covering of the body.[VSAO]
The outer protective barrier that separates the animal from its aquatic environment. Le Guellec et al, 2004.[TAO]
integumental
integumentary
AAO:0000239
BTO:0000634
FMA:74657
TAO:0000368
VSAO:0000029
ZFA:0000368
galen:Integument
dermis plus epidermis plus hypodermis
integumentum commune
skin and subcutaneous tissue
skin plus hypodermis
the integument
uberon
Hautsystem@de
dermal system
dermoid system
skin
tegument
vertebrate integument
UBERON:0002199
integument
Anatomical system that consists of the muscular and skeletal systems.
Anatomical system that provides locomotion and physical support to the organism.[AAO]
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]
musculoskeletal
AAO:0010546
CALOHA:TS-1311
EMAPA:32714
EV:0100139
FMA:7482
GAID:98
MA:0002418
MESH:D009141
OpenCyc:Mx4rQRpVNgAKEdyHxgDggVfs8g
UMLS:C0026860
VHOG:0001275
VSAO:0000031
XAO:0000168
musculo-skeletal system
uberon
UBERON:0002204
musculoskeletal system
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]
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]
AEO:0000183
CALOHA:TS-2138
EHDAA2:0003183
FMA:7501
MA:0000322
OpenCyc:Mx4rv2bBV5wpEbGdrcN5Y29ycA
TAO:0005153
ZFA:0005153
galen:SynovialJoint
articulatio synoviale
diarthroses
diarthrosis
diarthrosis joint
uberon
diarthrodial joints
UBERON:0002217
synovial joint
The part of the coelemic cavity lumen that is enclosed by the walls of the thorax.
In many species, the diaphragm separates thoracic and abdominal cavities
EMAPA:36497
FMA:7565
GAID:93
MA:0000032
MESH:A01.911.800
OpenCyc:Mx4rmvyleLfEEduAAAACs6hRXg
OpenCyc:Mx4rvhU_TpwpEbGdrcN5Y29ycA
UMLS:C0230139
cavitas thoracis
cavity of chest
cavity of thorax
chest cavity
pectoral cavity
space of thoracic compartment
thoracic lumen
uberon
UBERON:0002224
thoracic cavity
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.
check the FMA placement here; ncit placement of body cavity here probably not correct
Anatomical space, part of the trunk that contains the pericardial and pleuroperitoneal cavities[ZFA].
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].
In mammals it forms the peritoneal, pleural, and pericardial cavities
UBERON:0000169
body cavity
AEO:0000186
BTO:0001707
EHDAA2:0000267
FBbt:00005060
FMA:85006
RETIRED_EHDAA2:0003186
TAO:0001438
UMLS:C0333343
ZFA:0001438
galen:BodyCavity
coelomic cavity
coelomic cavity lumen
main body cavity
space of body compartment
ventral body cavity
uberon
celom
coelom
coelome
hemocoel
UBERON:0002323
coelemic cavity lumen
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.
Avascular multi-tissue structure composed of large vacuolated epithelial cells (chordablasts) and perichordal fibrous tissue.[VSAO]
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]
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]
relationship type change: differentiates_from mesoderm (AAO:0000304) CHANGED TO: develops_from mesoderm (UBERON:0000926)[AAO]
(...) 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]
notochordal
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.
AAO:0000327
BTO:0001768
CALOHA:TS-0690
EHDAA2:0001277
EHDAA:1241
EHDAA:6021
EMAPA:16191
EV:0100002
FMA:85521
GAID:1311
MAT:0000281
MESH:A16.254.610
TAO:0000135
UMLS:C0028439
VHOG:0000199
VSAO:0000032
XAO:0000055
ZFA:0000135
embryonic notocord
notocord
uberon
notochorda
UBERON:0002328
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]
notochord
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.
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
Post-cranial axial segments which form sclerotome and dermomyotome.[AAO]
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]
relationship loss: develops_from paraxial mesenchyme (TAO:0000942)[TAO]
relationship type change: OBO_REL:part_of trunk (TAO:0001115) CHANGED TO: develops_from trunk (UBERON:0002100)[TAO]
relationship type change: part_of paraxial mesoderm (AAO:0010568) CHANGED TO: develops_from paraxial mesoderm (UBERON:0003077)[AAO]
(...) 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]
somitic
mesodermal cluster
AAO:0010569
AEO:0001015
BTO:0001558
EHDAA2:0003436
EHDAA:366
EHDAA:699
EMAPA:31169
FMA:85522
GAID:1306
MAT:0000068
MESH:A16.254.425.660.750
MIAA:0000068
TAO:0000155
UMLS:C0376449
VHOG:0000191
XAO:0000058
ZFA:0000155
uberon
epimere
epimere mesoderm
epithelial somite
somites
somitic mesoderm
somitus
UBERON:0002329
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]
somite
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].
CALOHA:TS-2057
EHDAA2:0002225
EMAPA:35329
FMA:85539
MA:0002411
UMLS:C1516995
WikipediaCategory:Exocrine_system
exocrine glandular system
uberon
UBERON:0002330
exocrine system
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].
consider including subclasses for pre- and post- migratory (e.g. sheets/paths/streams).
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]
Migratory cell population which delaminates from neural tube, borders surface ectoderm and neural ectoderm, and gives rise to many different tissue types.[AAO]
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]
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]
AAO:0010578
BTO:0001764
CALOHA:TS-0676
EHDAA2:0004419
EMAPA:32737
FMA:86666
GAID:1310
MAT:0000066
MESH:A16.254.600
MIAA:0000066
TAO:0000045
UMLS:C0027789
VHOG:0000057
XAO:0000048
ZFA:0000045
NC
uberon
crista neuralis
neural crest material
UBERON:0002342
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.
neural crest
Embryonic ectoderm that gives rise to nervous tissue.
(...) the ability of ectoderm to produce neuronal cells is a general metazoan feature.[well established][VHOG]
neurectodermal
we prefer neurectoderm to neural ectoderm since placodal ectoderm is not classified here
AAO:0011074
BILA:0000039
CALOHA:TS-1212
EHDAA2:0001248
EHDAA:1498
EHDAA:255
EMAPA:16073
EV:0100004
FBbt:00001061
FMA:87657
MAT:0000176
MIAA:0000176
TAO:0001120
UMLS:C1518271
VHOG:0000150
XAO:0000042
ZFA:0001120
neural ectoderm
neuroectoderm
uberon
epithelium tubi neuralis; neuroectoderma
neuaral ectoderm
presumptive central nervous system
ventral neurogenic region
UBERON:0002346
neurectoderm
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
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
AEO:0000097
BTO:0000765
CALOHA:TS-2012
EHDAA2:0003097
EMAPA:35327
FMA:9596
GAID:34
MA:0002564
MESH:D005088
UMLS:C0015282
ducted gland
glandula exocrina
uberon
UBERON:0002365
exocrine gland
Tissue with cells that deposit non-polarized extracellular matrix including connective tissue fibers and ground substance.
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]
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]
Tissue with cells that deposit non-polarized extracellular matrix including connective tissue fibers and ground substance.[VSAO]
MA also has set of connective tissues
AAO:0000098
BTO:0000421
CALOHA:TS-2009
EFO:0000952
EMAPA:35251
FMA:9640
GAID:100
MA:0000011
MAT:0000301
MESH:D003238
MIAA:0000301
OpenCyc:Mx4rv-aBgZwpEbGdrcN5Y29ycA
TAO:0001641
UMLS:C0009780
VSAO:0000017
XAO:0001017
ZFA:0001632
galen:ConnectiveTissue
portion of connective tissue
textus connectivus
uberon
Bindegewebe
UBERON:0002384
connective tissue
Muscle tissue is a contractile tissue made up of actin and myosin fibers[GO].
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]
AAO:0000306
AEO:0000122
CALOHA:TS-0642
EHDAA2:0003122
EMAPA:32715
FMA:9641
MA:0002437
MESH:D009132
UMLS:C2328219
galen:MuscleTissue
muscular tissue
portion of muscle tissue
textus muscularis
uberon
UBERON:0002385
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.
muscle tissue
Anatomical system that is involved in the production of hematopoietic cells.
Anatomical system that consists of the blood and blood forming tissues.[AAO]
Zebrafish developmental hematopoiesis shows close correspondence to the development of the mammalian hematopoietic system and is regulated by conserved molecular pathways.[well established][VHOG]
hematopoietic
In humans this is primarily the bone marrow, spleen, tonsils, and lymph nodes
AAO:0011002
BTO:0000570
CALOHA:TS-0449
EFO:0000798
EMAPA:35402
EV:0100045
FMA:9667
GAID:1008
MA:0002434
MAT:0000022
MESH:D006413
MIAA:0000022
TAO:0005023
UMLS:C0018957
VHOG:0001624
XAO:0000122
ZFA:0005023
haematological system
haemopoietic system
organa haemopoietica
uberon
Blutbildungssystem
haematopoietic system
hematological system
hematolymphoid system
hemopoietic system
UBERON:0002390
hematopoietic system
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.
(...) 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]
UBERON:0007029
AEO:0000154
BILA:0000118
CALOHA:TS-1299
CARO:0002001
EFO:0000807
EHDAA2:0000836
EHDAA2_RETIRED:0003154
EHDAA:6520
EMAPA:17524
EV:0100151
FBbt:00004969
FMA:72979
HAO:0000421
MA:0000014
MAT:0000033
MESH:D034582
MIAA:0000033
TADS:0000108
UMLS:C0037267
VHOG:0000403
XAO:0000176
galen:Surface
integumentary system
uberon
body surface
dermal system
external covering of organism
integumentum commune
organism surface
surface
UBERON:0002416
integumental system
The abdominal segment of the torso.
EMAPA:35104
FMA:259211
MA:0000021
uberon
abdomen/pelvis/perineum
lower body
lower trunk
lumbar region
UBERON:0002417
abdominal segment of trunk
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.
see https://github.com/obophenotype/uberon/issues/27
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]
CALOHA:TS-2011
EMAPA:35179
FMA:224804
MA:0002780
MESH:D001842
UMLS:C0391978
VSAO:0000047
XAO:0004040
ZFA:0005621
galen:BoneTissue
calcium tissue
osseous tissue
osteogenic tissue
mineralized bone tissue
uberon
bone
portion of bone tissue
UBERON:0002481
bone tissue
an organ that functions as a secretory or excretory organ
glandular
UBERON:MIAA_0000021
AAO:0000212
AEO:0000096
BTO:0000522
EFO:0000797
EHDAA2:0003096
EHDAA:2161
EHDAA:4475
EHDAA:6522
EMAPA:18425
FBbt:00100317
FMA:7146
FMA:86294
HAO:0000375
MA:0003038
MAT:0000021
MIAA:0000021
OpenCyc:Mx4rwP3vyJwpEbGdrcN5Y29ycA
UMLS:C1285092
WikipediaCategory:Glands
galen:Gland
glandular organ
uberon
Druese
glandula
UBERON:0002530
gland
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]
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
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]
BTO:0004593
FMA:296704
MAT:0000067
MIAA:0000067
VHOG:0000243
epiblast
uberon
blastocyst
ectoblast
epiblastus
primitive ectoderm
UBERON:0002532
epiblast (generic)
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.
cavity
FMA:67552
MA:0002447
galen:Cavity
uberon
UBERON:0002553
anatomical cavity
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.
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]
relationship type change: OBO_REL:part_of ectoderm (TAO:0000016) CHANGED TO: develops_from ectoderm (UBERON:0000924)[TAO]
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]
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
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)
EHDAA2:0001846
EHDAA:6538
FMA:295662
TAO:0001185
UMLS:C1518973
VHOG:0001680
XAO:0000029
ZFA:0001185
skin periderm
uberon
EVL
epidermis epithelial layer
epidermis outer layer
epitrichium
periderm
UBERON:0003055
periderm
Unsegmented field of paraxial mesoderm present posterior to the most recently formed somite pair, from which somites will form.
Unsegmented field of paraxial mesoderm present posterior to the most recently formed somite pair, from which somites will form. Kimmel et al, 1995.[TAO]
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]
AAO:0011086
EFO:0001982
EMAPA:16189
EMAPA:16752
TAO:0000279
VHOG:0000559
XAO:0000057
ZFA:0000279
segmental plate
unsegmented paraxial mesoderm
uberon
PSM
presumptive somite mesoderm
somitogenic mesoderm
somitomeric mesoderm
unsegmented mesenchyme
UBERON:0003059
presomitic mesoderm
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].
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]
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]
relationship loss: part_of intermediate cell mass of mesoderm (TAO:0000033)[TAO]
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]
EHDAA2 distinguishes 3 types, but does not have a superclass. The VHOG class may refer to yolk sac
ventral lateral plate mesoderm
AAO:0011006
EFO:0003489
EHDAA:207
TAO:0000094
TE:E5.11.2.0.0.0.4
UMLS:C1511224
VHOG:0000085
XAO:0000067
ZFA:0000094
blood islands
uberon
VBI
caudal hematopoietic tissue
posterior ICM
posterior blood island
ventral blood island
UBERON:0003061
blood island
The axial mesoderm includes the prechordal mesoderm and the chordamesoderm. It gives rise to the prechordal plate and to the notochord.
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]
AAO:0011017
EFO:0003647
TAO:0001204
VHOG:0000107
XAO:0000205
ZFA:0001204
uberon
chordamesoderm
UBERON:0003068
axial mesoderm
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]
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]
(...) 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]
AAO:0011072
BTO:0001765
DHBA:10153
DMBA:15565
EHDAA:346
EHDAA:902
EMAPA:35593
FMA:293879
RETIRED_EHDAA2:0001252
TAO:0000132
UMLS:C0920623
VHOG:0000068
XAO:0000249
ZFA:0000132
uberon
lamina neuralis
presumptive central nervous system
UBERON:0003075
neural plate
The paraxial mesoderm is the mesoderm located bilaterally adjacent to the notochord and neural tube[GO]
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]
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]
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)
AAO:0010568
EFO:0003515
EMAPA:16183
EMAPA:16751
FMA:293145
TAO:0000255
UMLS:C1284009
VHOG:0000114
XAO:0000259
ZFA:0000255
paraxial mesenchyme
somitic mesoderm
uberon
mesoderma paraxiale
UBERON:0003077
paraxial mesoderm
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].
Portion of mesoderm traditionally thought to give rise to limb bones and parts of the girdles.[AAO]
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]
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]
subclass of mesoderm in ZFA.
UBERON:0006258
AAO:0010574
EHDAA2:0000919
EHDAA:379
EMAPA:16179
FMA:293149
TAO:0000121
UMLS:C1517749
VHOG:0000118
XAO:0000311
ZFA:0000121
LPM
lateral mesoderm
uberon
lateral plate
lateral plate mesenchyme
mesoderma laminae lateralis
UBERON:0003081
lateral plate mesoderm
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.
should probably be merged with heart rudiment.
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]
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]
relationship loss: develops_from lateral mesoderm (TAO:0001065)[TAO]
AAO:0011044
BTO:0001887
TAO:0000028
UMLS:C1514450
XAO:0000336
ZFA:0000028
uberon
cardiac field
fused heart primordium
UBERON:0003084
heart primordium
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].
Skeletogenic portion of somites.[AAO]
The vertebrate sclerotome has no equivalent in amphioxus and is a novelty linked with the evolution of the axial skeleton.[well established][VHOG]
part_of somite in XAO
AAO:0010571
AEO:0000212
EHDAA2:0003439
EMAPA:31159
FMA:295652
TAO:0001080
UMLS:C0183176
VHOG:0000680
XAO:0000397
ZFA:0001080
sclerotomes
uberon
sclerotomus
UBERON:0003089
sclerotome
Anatomical structure that overlaps the outer epithelial layer and is adjacent to the space surrounding the organism.
Organism subdivision which is the collection of anatomical structures on the body surface.[ZFA]
AAO:0010337
AEO_RETIRED:0000010
EHDAA2_RETIRED:0003010
TAO:0000292
VSAO:0000001
XAO:0003028
ZFA:0000292
galen:SurfaceRegion
anatomical surface feature
uberon
surface feature
surface region
surface structures
UBERON:0003102
surface structure
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.
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
AAO:0010015
AEO:0000024
BILA:0000024
CARO:0000024
EHDAA2:0003024
HAO:0000024
TADS:0000598
TAO:0000496
TGMA:0001837
VHOG:0001723
XAO:0003041
ZFA:0000496
uberon
organ
UBERON:0003103
compound organ
Portion of tissue consisting of loosely organized undifferentiated mesodermal cells that give rise to such structures as connective tissues, blood, lymphatics, bone, and cartilage[XAO]. A mesh-like cell arrangement, less compact than an epithelium[ZFA]. The part of the embryonic mesoderm, consisting of loosely packed, unspecialized cells set in a gelatinous ground substance, from which connective tissue, bone, cartilage, and the circulatory and lymphatic systems develop[BTO].
the relationship to mesoderm is weaker than develops_from in order to have classes such as 'head mesenchyme from mesoderm' make sense
A mesh-like cell arrangement, less compact than an epithelium. Kimmel et al, 1995.[TAO]
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]
mesenchymal
AAO:0010427
AEO:0000145
BTO:0001393
CALOHA:TS-0620
EHDAA2:0003145
EV:0100007
TAO:0000393
UMLS:C0162415
VHOG:0000170
XAO:0003046
ZFA:0000393
mesenchymal tissue
mesenchyme tissue
portion of mesenchymal tissue
portion of mesenchyme tissue
uberon
mesenchyma
UBERON:0003104
mesenchyme
Portion of tissue in the nervous system which consists of neurons and glial cells, and may also contain parts of the vasculature.
One of the four types of tissue in traditional classifications. Cells forming the brain, spinal cord and peripheral nervous system.[AAO]
FMA definition includes vasculature
AAO:0000325
AEO:0000123
EHDAA2:0003123
FMA:9642
GAID:609
MESH:D009417
OpenCyc:Mx4rVmfYCsQ_QdeM_bFAeS8NRQ
UMLS:C0027757
nerve tissue
nervous tissue
portion of neural tissue
uberon
UBERON:0003714
neural tissue
An anatomical cavity that has the potential to develop into a coelemic cavity lumen.
uberon
body cavity precursor
UBERON:0003886
future coelemic cavity lumen
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
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
(...) 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]
EHDAA:251
EMAPA:16088
UMLS:C1512940
VHOG:0000316
somatic coelom
uberon
UBERON:0003887
intraembryonic coelom
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.
contrast with a multi-tissue tube, which has as parts both epithelium, connective tissue, possibly muscle layers
AEO:0000114
EHDAA2:0003114
FBbt:00007474
epithelial or endothelial tube
uberon
UBERON:0003914
epithelial tube
A transitional population of migrating mesenchymal cells that derive from somites and that will become dermal cells.
Not to be confused with 'dermatome segment of skin'.
AAO:0011028
AEO:0001017
EHDAA2_RETIRED:0003428
EHDAA:1719
EHDAA:1725
EHDAA:1731
EHDAA:1737
EMAPA:32838
FMA:295656
UMLS:C0180383
XAO:0000220
cutis plate
dermatomal mesenchyme
uberon
epimere mesoderm
mesenchyma dermatomiale
UBERON:0004016
dermatome
2
2
Any tube, opening or passage that connects two distinct anatomical spaces.
FMA has both conduit and conduit space. In EHDAA2 this is a surface feature
AEO:0000080
EHDAA2:0003080
FMA:242873
foramen
foramina
uberon
opening
ostia
ostium
UBERON:0004111
anatomical conduit
An anatomical structure that develops (entirely or partially) from the mesoderm.
Grouping term for query purposes
uberon
UBERON:0004120
mesoderm-derived structure
An anatomical structure that develops (entirely or partially) from the ectoderm.
Grouping term for query purposes
uberon
UBERON:0004121
ectoderm-derived structure
The first recognizable structure derived from the heart field
TODO - check plate vs rudiment vs primordium vs endocardial tube. See XAO
(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]
EHDAA2:0000215
EMAPA:16106
VHOG:0000975
myocardial plate
uberon
cardiac crescent
cardiogenic crescent
heart rudiment
UBERON:0004139
cardiogenic plate
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.
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]
XAO:0004185
first heart field
primary heart field
uberon
FHF
PHF
heart field
UBERON:0004140
primary heart field
An epithelial tube that will give rise to the mature heart.
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.
AAO:0010411
EFO:0003526
EMAPA:32685
TAO:0000360
XAO:0000337
ZFA:0000360
embryonic heart tube
endocardial heart tube
endocardial tube
uberon
UBERON:0004141
heart tube
A cardiac chamber surrounds an enclosed cavity within the heart
FMA:7095
OpenCyc:Mx4rmexpjPdAEduAAAAOpmP6tw
chamber of heart
heart chamber
uberon
UBERON:0004151
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
cardiac chamber
Anatomical cluster that consists of all the skeletal elements (eg., bone, cartilage, and teeth) of the body.
Anatomical cluster that consists of all the skeletal elements (eg., bone, cartilage, and teeth) of the body.[VSAO]
skeletal
AEO:0000168
EHDAA2:0001843
EHDAA:5047
EMAPA:17213
FMA:23875
GAID:177
MA:0003006
MAT:0000032
MESH:D012863
MIAA:0000032
OpenCyc:Mx4rvVi1rpwpEbGdrcN5Y29ycA
VSAO:0000026
XAO:0004053
galen:Skeleton
set of all bones
set of bones of body
uberon
UBERON:0004288
skeleton
https://github.com/obophenotype/uberon/wiki/The-skeletal-system
The bilaminar epithelium formed from the myotome and dermatome.
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].
Epithelial sheet on the external surface of the somite that gives rise to trunk, muscle and dermis.[TAO]
Portion of somites that gives rise to dermis and muscles.[AAO]
all but the sclerotome of a mesodermal somite; the primordium of skeletal muscle and, perhaps, of the dermis.
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]
AAO:0010572
AEO:0000214
EHDAA2:0003259
EMAPA:31109
FMA:295654
TAO:0001513
UMLS:C1511786
VHOG:0000676
ZFA:0001513
uberon
dermamyotome
dermomyotomes
UBERON:0004290
dermomyotome
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.
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]
TAO:0000115
ZFA:0000115
heart cone
rudimentary heart
uberon
UBERON:0004291
heart rudiment
Anatomical system that has as its parts the heart and blood vessels.
we treat cardiovascular as part of circulatory system, with the latter including other kinds of circulation, including lymph.
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]
AAO:0011001
BILA:0000016
BTO:0000088
CALOHA:TS-1297
EFO:0000791
EHDAA2:0000216
EHDAA:394
EMAPA:16104
EMAPA:16370
EV:0100017
FMA:7161
GAID:467
MA:0000010
MAT:0000016
MESH:D002319
MIAA:0000016
OpenCyc:Mx4rvVjzG5wpEbGdrcN5Y29ycA
TAO:0000010
UMLS:C0007226
VHOG:0000302
WikipediaCategory:Cardiovascular_system
XAO:0000100
XAO:0001010
ZFA:0000010
uberon
CV system
Herz und Gefaesssystem
UBERON:0004535
cardiovascular system
A vascular network consisting of blood vessels.
TAO:0001079
ZFA:0001079
blood vascular network
set of blood vessels
uberon
blood system
blood vessel system
blood vessels
UBERON:0004537
blood vasculature
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].
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
AEO:0000194
BTO:0003834
EHDAA2:0000001
EHDAA2:0003235
EMAPA:36040
UMLS:C1516779
embryo plus adnexa
uberon
UBERON:0004716
conceptus
Organism at the gastrula stage.
We explicitly merge the NCITA terms here
UBERON:0007012
BILA:0000060
BTO:0001403
FBbt:00005317
FMA:293108
GAID:1302
MESH:A16.254.412
MIAA:0000179
UMLS:C0017199
UMLS:C1284022
gastrula embryo
uberon
blastocystis trilaminaris
tri-laminar disc
tri-laminar disk
trilaminar blastocyst
trilaminar blastoderm
trilaminar disc
trilaminar disk
trilaminar germ
UBERON:0004734
gastrula
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]
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]
MA:0003047
VSAO:0000015
XAO:0004038
ZFA:0005619
uberon
UBERON:0004755
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
skeletal tissue
Organ consisting of skeletal tissue. Encompasses whole bones, fused bones, cartilaginious elements, teeth, dermal denticles.
Organ entity that is typically involved in mechanical support and may have different skeletal tissue compositions at different stages.[VSAO]
Organ entity that may have different tissue compositions at different stages and is typically involved in mechanical support.[TAO]
AAO:0011129
TAO:0001890
VSAO:0000128
XAO:0004012
ZFA:0005494
galen:SkeletalStructure
uberon
UBERON:0004765
skeletal element
Anatomical system that consists of all the joints of the body.
EMAPA:35150
FMA:23878
MA:0003007
VSAO:0000181
joint system
set of all joints of body
uberon
set of all joints
set of joints of body
UBERON:0004770
articular system
Layer of lateral plate mesoderm that forms the circulatory system and future gut wall - overlies endoderm[WP].
We group the BILA class here. Considering adding more general class for metazoa grouping cardiogenic successors
visceral mesoderm
AAO:0011102
BILA:0000044
FMA:295568
XAO:0000276
inner layer of lateral plate mesoderm
uberon
splanchnic mesoderm
UBERON:0004872
splanchnic layer of lateral plate mesoderm
The central region of trunk mesoderm. This tissue forms the notochord
Notochord rudiment[ZFIN:ZDB-PUB-961014-576].
WP treats this as synonym of axial mesoderm. Induces neural tube. Gilbert: contains an anterior head process and the notochord.
AAO:0000478
EFO:0003426
TAO:0000091
ZFA:0000091
axial chorda mesoderm
chorda mesoderm
dorsal mesoderm
presumptive notochord
uberon
UBERON:0004880
chordamesoderm
Anatomical cluster that connects two or more adjacent skeletal elements or hardened body parts.
FBbt:00005811
joint
uberon
UBERON:0004905
articulation
A proximal-distal subdivision of the digestive tract.
intended to denote both embryonic and adult structures. Note the FMA grouping here is not quite correct.
FBbt:00100315
FMA:71131
uberon
alimentary system subdivision
intestinal tract
segment of intestinal tract
subdivision of alimentary system
UBERON:0004921
subdivision of digestive tract
A part of a wall of an organ that forms a layer.
FMA:82485
uberon
UBERON:0004923
organ component layer
The median dorsal longitudinal groove formed in the embryo by the neural plate after the appearance of the neural folds.
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].
AAO:0011071
EMAPA:35594
FMA:295624
UMLS:C0814992
XAO:0000248
uberon
UBERON:0005061
neural groove
One of the two elevated edges of the neural groove[GO,MP].
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].
EHDAA2:0001249
EMAPA:16142
EMAPA:16146
EMAPA:16151
EMAPA:16155
EMAPA:16159
EMAPA:16162
EMAPA:16288
EMAPA:16292
EMAPA:16295
EMAPA:16299
EMAPA:16303
EMAPA:16307
EMAPA:16528
FMA:295618
UMLS:C0814993
XAO:0004087
medullary fold
uberon
UBERON:0005062
neural fold
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].
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]
EFO:0003498
TAO:0000133
ZFA:0000133
uberon
neural tube rod
UBERON:0005068
neural rod
Muscle structures are contractile cells, tissues or organs that are found in multicellular organisms[GO].
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
EMAPA:32715
FBbt:00005073
FMA:30316
musculus
uberon
muscle
muscle element
UBERON:0005090
muscle structure
An epithelial sheet bent on a linear axis.
uberon
UBERON:0005157
epithelial fold
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.
MA:0000516
trunk organ
uberon
UBERON:0005177
trunk region element
An organ or element that is in the thoracic cavity. Examples: lung, heart, longus colli.
MA:0000557
thoracic cavity organ
uberon
UBERON:0005178
thoracic cavity element
An organ that part of the thoracic segment region. This region can be further subdividied chest and thoracic cavity regions.
MA:0000563
uberon
upper body organ
UBERON:0005181
thoracic segment organ
Mesenchyme that is part of a developing trunk.
EFO:0003485
EHDAA2:0002092
EHDAA:377
EMAPA:16177
TAO:0000081
VHOG:0000281
ZFA:0000081
uberon
trunk and cervical mesenchyme
UBERON:0005256
trunk mesenchyme
A portion of tissue that is part of an embryo.
CALOHA:TS-2100
portion of embryonic tissue
uberon
developing tissue
UBERON:0005291
embryonic tissue
AEO:0000125
CALOHA:TS-2122
EHDAA2:0003125
FBbt:00007006
FMA:292313
MIAA:0000019
uberon
developing structure
developmental structure
developmental tissue
UBERON:0005423
developing anatomical structure
Multi-tissue structure that arises from the heart rudiment and will become the heart tube.
EHDAA2:0001512
EHDAA:424
EHDAA:436
EMAPA:16208
EMAPA:16215
FMA:321916
TAO:0000149
ZFA:0000149
primitive heart tube
early primitive heart tube
uberon
UBERON:0005498
primitive heart tube
A acellular anatomical structure that is the bounding layer of a anatomical structure.
FMA:63871
uberon
UBERON:0005764
acellular membrane
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.
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.
AAO:0010596
FMA:63872
GAID:915
UMLS:C0004799
basement membrane of connective tissue
membrana basalis
uberon
basement membrane
UBERON:0005769
basement membrane of epithelium
A delimited region of dense mesenchyme within looser mesenchyme.
AEO:0000148
EHDAA2_RETIRED:0003148
EHDAA:8979
mesenchyme condensation
uberon
UBERON:0005856
developing mesenchymal condensation
Organ with organ cavity, which has as parts a serous membrane and a serous cavity . Examples: pleural sac, pericardial sac, tendon sheath, bursa.[FMA]
EMAPA:16060
FMA:9689
MA:0000005
uberon
UBERON:0005906
See notes for serous membrane
serous sac
Subdivision of skeleton which consists of cranial skeleton, set of all vertebrae, set of all ribs and sternum[FMA, modified].
Skeletal subdivision of the central body axis including the cranium, vertebrae, notochord, ribs, and sternum.[VSAO]
AAO:0000963
EMAPA:17214
EMAPA:18043
MA:0000308
UMLS:C0222645
VSAO:0000056
XAO:0004011
uberon
skeleton axiale
UBERON:0005944
axial skeleton plus cranial skeleton
http://purl.obolibrary.org/obo/uberon/docs/The-axial-skeleton
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.
TODO - check ordering; awaiting confirmation from JB
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]
EHDAA2:0001278
EHDAA:264
EMAPA:16101
UMLS:C1518429
VHOG:0001212
uberon
UBERON:0006267
notochordal plate
A midline cellular cord formed from the migration of mesenchymal cells from the primitive knot
EHDAA2:0001279
EHDAA:224
EMAPA:16102
FMA:293135
UMLS:C1518430
VHOG:0001213
uberon
chordamesoderm
presumptive notochord
UBERON:0006268
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.
notochordal process
bodily fluid
Liquid components of living organisms. includes fluids that are excreted or secreted from the body as well as body water that normally is not.
fluid
FMA:280556
GAID:266
MESH:D001826
galen:BodyFluid
body fluid
uberon
UBERON:0006314
bodily fluid
The pharynx is the part of the digestive system immediately posterior to the mouth[GO].
currently this is an extremely generic class, encompassing both protostomes and deuterostomes.
branchial
pharyngeal
FBbt:00005380
MAT:0000049
MIAA:0000049
uberon
anterior part of foregut
pharyngeal tube
UBERON:0006562
pharynx
Presumptive structure of the blastula that will develop into endoderm.
AAO:0000471
EFO:0003437
TAO:0000416
ZFA:0000416
uberon
UBERON:0006595
presumptive endoderm
AAO:0000468
EFO:0003439
TAO:0000568
ZFA:0000568
future blood
uberon
UBERON:0006596
presumptive blood
Portion of embryonic tissue determined by fate mapping to become a structure.
Consider merging with anlage
AAO:0000479
TAO:0001116
ZFA:0001116
future structure
presumptive structures
uberon
UBERON:0006598
presumptive structure
Presumptive structure of the blastula that will develop into ectoderm.
AAO:0000470
EFO:0003466
TAO:0001376
XAO:0004132
ZFA:0001376
uberon
presumptive epidermis
UBERON:0006601
presumptive ectoderm
Presumptive structure of the blastula that will develop into mesoderm.
AAO:0000476
EFO:0003467
TAO:0001377
ZFA:0001377
uberon
UBERON:0006603
presumptive mesoderm
An epithelium characterised by its most superficial layer consisting of squamous epithelial cells.
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
BTO:0002072
UMLS:C0221909
uberon
UBERON:0006914
squamous epithelium
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].
EFO:0003709
TAO:0005077
ZFA:0005077
uberon
UBERON:0006965
vascular cord
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
AAO:0010270
BILA:0000010
CARO:0001002
EHDAA2:0003192
FMA:24137
ID:0000000
UMLS:C1515977
ZFA:0005594
uberon
UBERON:0006984
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.
anatomical surface
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].
consider FBbt:00005541 ! cardiogenic mesoderm
review EHDAA2 placement
AAO:0011021
BILA:0000051
EFO:0000315
EHDAA2:0000214
EHDAA:385
FMA:293143
VHOG:0001641
XAO:0000235
uberon
cardiogenic mesoderm
cardiogenic region
heart primordia
UBERON:0007005
cardiac mesoderm
Organism at the cleavage stage.
BILA:0000058
uberon
UBERON:0007010
cleaving embryo
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
BILA:0000084
UMLS:C1514442
future digestive tract
future digestive tube
future gut
primitive gut
uberon
embryonic digestive tube
primordial digestive tube
primordial gut
UBERON:0007026
presumptive gut
A hollow, muscular organ, which, by contracting rhythmically, keeps up the circulation of the blood or analogs[GO,modified].
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
FBbt:00003154
SPD:0000130
TADS:0000147
dorsal tube
heart
uberon
adult heart
UBERON:0007100
Gene notes: Bmp, Nkx, Gata
primary circulatory organ
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.
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]
EFO:0003497
TAO:0000131
ZFA:0000131
uberon
presumptive central nervous system
UBERON:0007135
neural keel
Of or pertaining to the period of time immediately following birth, or to the newborn.
consider splitting infant/newborn
BTO:0001762
EV:0300037
HsapDv:0000082
MmusDv:0000096
NIF_Organism:birnlex_695
OGES:000025
neonatal stage
fledgling stage
hatchling
hatchling stage
infant stage
nestling stage
pouch stage
puggle
puggle stage
uberon
newborn stage
UBERON:0007221
neonate stage
A presumptive structure that has the potential to develop into a presomitic mesoderm.
EFO:0003421
TAO:0000053
ZFA:0000053
uberon
presumptive segmental plates
UBERON:0007282
presumptive segmental plate
A presumptive structure that has the potential to develop into a neural plate.
consider merging
Region of the gastrula which gives rise to the neural plate.[TAO]
EFO:0003424
TAO:0000063
ZFA:0000063
prospective neuroectoderm
prospective vegetal ectoderm
uberon
UBERON:0007284
presumptive neural plate
A presumptive structure that has the potential to develop into a paraxial mesoderm.
EFO:0003443
TAO:0000591
XAO:0004134
ZFA:0000591
future paraxial mesoderm
uberon
UBERON:0007285
presumptive paraxial mesoderm
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].
this grouping class exists primarily to align with GO - see GO:0008544.
BSA:0000073
BTO:0000313
FBbt:00004993
HAO:0000298
TADS:0000109
WBbt:0005733
epidermis
epidermis (sensu Metazoa)
outer epidermal layer
outer epithelial layer
uberon
hypoderm
hypodermis
UBERON:0007376
outer epithelium
Portion of the dermis characterized by a well-arranged, plywood-like, collagenous network.
Portion of the dermis characterized by a well-arranged, plywood-like, collagenous network. Le Guellec et al, 2004.[TAO]
relationship loss: develops_from collagenous dermal stroma (TAO:0001186)[TAO]
connective tissue in the skin is usually diffuse and irregular, although in some species collagen bundles are arranged in a distinct ordered layer in the dermis
AAO:0010600
TAO:0001182
ZFA:0001182
dermal deep region
uberon
UBERON:0007377
stratum compactum
Outermost layer of cells surrounding the embryo.
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]
relationship loss: develops_from superficial blastomere (TAO:0001484)[TAO]
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.
EFO:0003425
TAO:0000086
ZFA:0000086
EVL
enveloping layer
uberon
UBERON:0007383
enveloping layer of ectoderm
An epithelial tube open at both ends that allows fluid flow.
AEO_RETIRED:0000116
RETIRED_EHDAA2:0003116
uberon
UBERON:0007500
epithelial tube open at both ends
A closed epithelium with a lumen.
EHDAA2:0003119
AEO:0000119
EHDAA2:0003119
uberon
UBERON:0007503
epithelial vesicle
Mesenchyme with little extracellular matrix.
EHDAA2:0003146
AEO:0000146
EHDAA2:0003146
uberon
UBERON:0007524
dense mesenchyme tissue
Mesenchymal cells that are migrating.
this class will be an important part of the NC reorganization
EHDAA2:0003152
AEO:0000152
EHDAA2:0003152
uberon
UBERON:0007530
migrating mesenchyme population
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
CALOHA:TS-0998
FMA:66762
synovium
stratum synoviale
synovial layer
synovial membrane
uberon
synovial tissue
UBERON:0007616
layer of synovial tissue
An anatomical cavity that surrounded_by a synovial joint.
FMA:11356
articular cavity (synovial joint)
cavitas articularis (junctura synovialis)
cavity of synovial joint
uberon
joint cavity
synovial cavity
UBERON:0007617
synovial cavity of joint
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.
field
AEO:0000170
EFO:0001649
EHDAA2:0003170
FBbt:00005426
developmental field
uberon
future organ
organ field
UBERON:0007688
anlage
Any fluid produced by a serous gland.
the FMA def is Transudate contained in a serous sac
FMA:20932
serous gland fluid
uberon
UBERON:0007794
serous fluid
Anatomical system that consists of all blood and lymph vessels.
consider merging with vasculature
The cardiovascular and lymphatic systems, collectively[ncithesaurus:Vascular_System].
in both MA and BTO, the arterial system and venous sytem are subtypes of the vascular system
BTO:0001085
CALOHA:TS-2053
EHDAA2:0004520
EMAPA:35905
MA:0002718
UMLS:C0489903
uberon
Gefaesssystem@ge
UBERON:0007798
vascular system
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.
CALOHA:TS-2356
EV:0100009
FMA:280881
MA:0000006
UMLS:C0460004
WikipediaCategory:Head_and_neck
galen:HeadAndNeck
uberon
cephalic area
cephalic part of animal
cephalic region
head and neck
head or neck
UBERON:0007811
craniocervical region
Sum total of mesenchyme in the embryo.
consider adding new class (EMAPA:16097) for mesenchyme of embryo (some mesenchyme is extraembryonic - e.g. amnion mesoderm)
UBERON:0003313
EHDAA2:0001113
EHDAA:177
EMAPA:16097
uberon
UBERON:0009142
entire embryonic mesenchyme
FMA:25054
region of trunk
trunk subdivision
uberon
UBERON:0009569
subdivision of trunk
EHDAA2:0002094
trunk and cervical paraxial mesenchyme
uberon
trunk paraxial mesenchyme
UBERON:0009618
trunk paraxial mesoderm
The many-lobed berry cluster of cells that is the terminous of a gland where the secretion is produced is acinar in form.
acinar
acinus
FMA:55588
uberon
acini
UBERON:0009842
glandular acinus
EFO:0003704
TAO:0005041
ZFA:0005041
ALPM
uberon
UBERON:0009881
anterior lateral plate mesoderm
An anatomical structure that has more than one cell as a part.
CARO:0010000
FBbt:00100313
multicellular structure
uberon
UBERON:0010000
multicellular anatomical structure
Mesenchyme that has the potential to develop into a dermis.
check development
EHDAA2:0000598
uberon
UBERON:0010083
future dermis
An anatomical structure that has some part that develops from the neural crest.
Grouping term for query purposes
uberon
UBERON:0010314
structure with developmental contribution from neural crest
uberon
UBERON:0010316
germ layer / neural crest
Epithelium composed of cells that develops from the ectoderm[FMA,modified].
FMA:69064
ectoderm-derived epithelium
uberon
UBERON:0010371
ecto-epithelium
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.
Anatomical cluster consisting of the skeletal elements that are part of the skeleton.[VSAO]
FMA:23879
VSAO:0000042
skeletal subdivision
uberon
subdivision of skeleton (in vivo)
UBERON:0010912
subdivision of skeleton
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
solid joint
uberon
UBERON:0011134
nonsynovial joint
Subdivision of the skeletal system which consists of the axial skeleton plus associated joints.
FMA:7483
uberon
UBERON:0011137
axial skeletal system
http://purl.obolibrary.org/obo/uberon/docs/The-axial-skeleton
Subdivision of the skeletal system which consists of the post-cranial axial skeleton plus associated joints.
axial skeletal system
FMA:302077
uberon
UBERON:0011138
post-cranial axial skeletal system
http://purl.obolibrary.org/obo/uberon/docs/The-axial-skeleton
A subdivision of an anatomical system.
FBbt:00007330
FMA:67509
uberon
UBERON:0011216
organ system subdivision
compare with 'stratum basale of epidermis'. This class is the source for many adult structures - see WP2062. See also: 'enveloping layer of ectoderm'
EHDAA2:0001845
uberon
basal cell layer of skin
outer epithelium of body
UBERON:0011272
embryonic skin basal layer
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).
consider obsoleting, coordinate with VSAO
VSAO:0000006
XAO:0004021
uberon
UBERON:0011585
cell condensation
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.
Ideally this would be disjoint with analagous class for appendicular axes, but currently 'appendages' like antennae, horns cause a problem
axial subdivision of organism
uberon
body segment
main body segment
UBERON:0011676
subdivision of organism along main body axis
A cardiovascular system that is part of a conceptus.
EHDAA2:0000216
FMA:305965
conceptus cardiovascular system
uberon
embryonic circulatory system
fetal circulatory system
UBERON:0011695
embryonic cardiovascular system
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
uberon
UBERON:0011821
irregular connective tissue
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.
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]
FMA:20109
UMLS:C0738366
irregular dense connective tissue
typus irregularis (textus connectivus collagenosus compactus)
uberon
UBERON:0011822
dense irregular connective tissue
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
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.
Connective tissue in which the fibrous component predominates. The cells, ground substance, and tissue fluid represent a minor component[NCIT]
AAO:0000121
UMLS:C1511770
uberon
UBERON:0011823
dense connective tissue
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
UMLS:C1253917
textus connectivus collagenosus laxus
textus connectivus laxus
uberon
UBERON:0011825
loose connective tissue
An acinus that is part of a exocrine gland.
exocrine gland acinus
uberon
UBERON:0011858
acinus of exocrine gland
the FMA class specifically refers to ureter
FMA:63212
MESH:D024022
NIF_Subcellular:sao7547390221
uberon
UBERON:0011860
collection of collagen fibrils
The aggregate of the coelemic cavity lumen plus the membranes that line the lumen.
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.
coelomic
EHDAA2:0004731
enterocoelom
haemocoelom
schizocoelom
uberon
coelem
coelomic cavity
UBERON:0011997
coelom
Epithelium that derives from the mesoderm. [Automatically generated definition].
FMA:86452
mesoderm-derived epithelium
mesoepithelium
uberon
UBERON:0012275
meso-epithelium
The secretory unit of a serous gland. The acinar portion is composed of serous secreting cells.
FMA:86279
acinus of serous gland
uberon
UBERON:0013232
serous acinus
The space that surrounds an organism.
external to organism
outside of body
uberon
UBERON:0013514
space surrounding organism
uberon
UBERON:0013522
subdivision of tube
2
2
An anatomical space which is the lumen of some anatomical conduit and connects two or more spaces together[FMA,modified].
FMA:9338
foramen space
uberon
UBERON:0013686
anatomical conduit space
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.
uberon
UBERON:0013701
main body axis
The region of the organism associated with the visceral organs.
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].
AEO:0000103
BTO:0001489
EMAPA:36031
FMA:231424
uberon
body
whole body
UBERON:0013702
body proper
A organ component layer that is part of a integumental system.
layer of skin
skin layer
uberon
UBERON:0013754
integumentary system layer
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.
EHDAA2:0002013
FMA:77169
skeleton of thorax
thoracic part of axial skeleton
thoracic skeleton
uberon
UBERON:0014477
thoracic skeleton
A portion of tissue that will develop into vasculature.
EFO:0003708
TAO:0005076
ZFA:0005076
uberon
UBERON:0014903
primordial vasculature
Any structure that is placed on one side of the left-right axis of a bilaterian.
This class is primarily to implement taxon constraints. It may be removed in the future.
uberon
UBERON:0015212
lateral structure
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.
heart
SPD:0000130
cardiac pump
heart or heart like organ
circulatory vessel
uberon
cardiac structure
UBERON:0015228
circulatory organ
MA:0002449
heart/pericardium
uberon
UBERON:0015410
heart plus pericardium
Primordium that develops into the central nervous system
UBERON:3000469
future CNS
presumptive central nervous system
uberon
UBERON:0016879
future central nervous system
Primordium that develops into the nervous system
UBERON:3000477
AAO:0000477
presumptive nervous system
uberon
UBERON:0016880
future nervous system
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
EHDAA2:0000003
EMAPA:16042
extra-embryonic component
extraembryonic component
uberon
UBERON:0016887
entire extraembryonic component
An embryonic anatomical entity that will turn into one or more other anatomical entities, perhaps with other anatomical entities, later in development.
AEO:0000132
uberon
UBERON:0016888
transitional anatomical structure
A mesenchyme-derived anatomical entity undergoing a transtion to become another structure.
AEO:0001016
uberon
UBERON:0017650
developing mesenchymal structure
A mammalian developmental stage that covers the period from birth until weaning.
suckling stage
uberon
UBERON:0018685
nursing stage
Nursing stage that follows the neonate stage in mammals and ends at weaning.
uberon
UBERON:0034920
infant stage
An multicellular anatomical structure that has subparts of multiple organs as a part.
CARO:0020001
uberon
anatomical cluster
UBERON:0034921
multi organ part structure
A cluster of cells, largely surrounded by a morphological boundary.
CARO:0020002
FMA:62807
uberon
UBERON:0034922
cell cluster
A collection of anatomical structures that are alike in terms of their morphology or developmental origin.
resolve if this should be a subclass of disconnected anatomical group. Some collections (e.g. the skeleton or skull) are arguably connected
uberon
UBERON:0034925
anatomical collection
FMA:55268
organ sector
organ zonal region
organ zone
uberon
organ region with floating fiat boundary
UBERON:0034944
zone of organ
uberon
duct epithelium
ductal epithelium
UBERON:0034969
epithelial layer of duct
The primordial mouth region of the developing head.
FMA:293105
primitive mouth
primordial mouth
uberon
UBERON:0035804
future mouth
Structures of the dermis, epidermis, glands and pigment cells recognizable on the external surfaces of the integument.
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
amphibian_anatomy_curators
uberon/phenoscape-anatomy
external integument structure
time unit
A unit which is a standard measure of the dimension in which events occur in sequence.
time unit
A vaccine is a processed material with the function that when administered, it prevents or ameliorates a disorder in a target organism by inducing or modifying adaptive immune responses specific to the antigens in the vaccine.
vaccine
a medical intervention that involves in adding vaccine into a host (e.g., human, mouse) in vivo with the intent to invoke an adaptive immune response.
vaccination
GAZ
GAZ:00000464
Europe
Part of the landmass of Eurasia, with the western portion of the latter occupied by Europe, lying east of the Suez Canal, east of the Ural Mountains, and south of the Caucasus Mountains and the Caspian and Black Seas. It is bounded on the east by the Pacific Ocean, on the south by the Indian Ocean, and on the north by the Arctic Ocean.
GAZ
GAZ:00000465
Asia
GAZ
GAZ:00002471
East Asia
A sovereign island country located off the northwestern coast of mainland Europe comprising of the four constituent countries; England, Scotland, Wales and Northern Ireland. It comprises the island of Great Britain, the northeast part of the island of Ireland and many small islands. Apart from Northern Ireland the UK is surrounded by the Atlantic Ocean, the North Sea, the English Channel and the Irish Sea. The largest island, Great Britain, is linked to France by the Channel Tunnel.
ISO3166-1:826
ISO3166-1:GB
ISO3166-1:GBR
ISO3166-2:GB
Britain
G.B
GB
U.K. {abbrevation}
UK
United Kingdom of Great Britain and Northern Ireland
GAZ
GAZ:00002637
United Kingdom
An island country in East Asia. Located in the Pacific Ocean, it lies to the east of China, Korea and Russia, stretching from the Sea of Okhotsk in the north to the East China Sea in the south.
Nippon-koku
GAZ
GAZ:00002747
Japan
A large country in Northeast Asia. China borders 14 nations (counted clockwise from south): Vietnam, Laos, Burma, India, Bhutan, Nepal, Pakistan, Afghanistan, Tajikistan, Kyrgyzstan, Kazakhstan, Russia, Mongolia and North Korea. Additionally the border between PRC and ROC is located in territorial waters. The People's Republic of China has administrative control over twenty-two provinces and considers Taiwan to be its twenty-third province. There are also five autonomous regions, each with a designated minority group; four municipalities; and two Special Administrative Regions that enjoy considerable autonomy. The People's Republic of China administers 33 province-level regions, 333 prefecture-level regions, 2,862 county-level regions, 41,636 township-level regions, and several village-level regions.
People's Republic of China
Zhonghua Renmin Gongheguo
GAZ
GAZ:00002845
China
GAZ
GAZ:00002846
Northeast Asia
A group of islands off the northwest coast of continental Europe that include the islands of Great Britain and Ireland, and over six thousand smaller islands. There are two sovereign states located on the islands: the United Kingdom and the Republic of Ireland. The British Isles also include two dependencies of the United Kingdom: the Isle of Man and, by tradition, the Channel Islands, although the latter are not physically a part of the island group.
michaelashburner
2010-05-16T10:11:46Z
GAZ
GAZ:00281547
British Isles
example to be eventually removed
example to be eventually removed
metadata complete
Class has all its metadata, but is either not guaranteed to be in its final location in the asserted IS_A hierarchy or refers to another class that is not complete.
metadata complete
organizational term
Term created to ease viewing/sort terms for development purpose, and will not be included in a release
term created to ease viewing/sort terms for development purpose, and will not be included in a release
PERSON:Alan Ruttenberg
organizational term
ready for release
Class has undergone final review, is ready for use, and will be included in the next release. Any class lacking "ready_for_release" should be considered likely to change place in hierarchy, have its definition refined, or be obsoleted in the next release. Those classes deemed "ready_for_release" will also derived from a chain of ancestor classes that are also "ready_for_release."
ready for release
metadata incomplete
Class is being worked on; however, the metadata (including definition) are not complete or sufficiently clear to the branch editors.
metadata incomplete
uncurated
Nothing done yet beyond assigning a unique class ID and proposing a preferred term.
uncurated
pending final vetting
All definitions, placement in the asserted IS_A hierarchy and required minimal metadata are complete. The class is awaiting a final review by someone other than the term editor.
pending final vetting
to be replaced with external ontology term
Terms with this status should eventually replaced with a term from another ontology.
Alan Ruttenberg
group:OBI
to be replaced with external ontology term
requires discussion
A term that is metadata complete, has been reviewed, and problems have been identified that require discussion before release. Such a term requires editor note(s) to identify the outstanding issues.
Alan Ruttenberg
group:OBI
requires discussion
KPMP organization
participant candidate 1
participant candidate 2
participant candidate 3
filled CRF by candidate 1
filled CRF by candidate 2
filled CRF by candidate 3
European Union Drug Regulating Authorities Clinical Trials
https://en.wikipedia.org/wiki/EudraCT
EudraCT
ClinicalTrials.gov is a resource provided by the U.S. National Library of Medicine.
https://clinicaltrials.gov/
Clinicaltrials.gov
SDY269 study
SDY269
human subject SUB112829
## Elucidation
This is used when the statement/axiom is assumed to hold true 'eternally'
## How to interpret (informal)
First the "atemporal" FOL is derived from the OWL using the standard
interpretation. This axiom is temporalized by embedding the axiom
within a for-all-times quantified sentence. The t argument is added to
all instantiation predicates and predicates that use this relation.
## Example
Class: nucleus
SubClassOf: part_of some cell
forall t :
forall n :
instance_of(n,Nucleus,t)
implies
exists c :
instance_of(c,Cell,t)
part_of(n,c,t)
## Notes
This interpretation is *not* the same as an at-all-times relation
axiom holds for all times
en
Adam Goldstein
Alan Ruttenberg
Albert Goldfain
Barry Smith
Bjoern Peters
Carlo Torniai
Chris Mungall
Chris Stoeckert
Christian A. Boelling
Darren Natale
David Osumi-Sutherland
Gwen Frishkoff
Holger Stenzhorn
James A. Overton
James Malone
Jennifer Fostel
Jie Zheng
Jonathan Rees
Larisa Soldatova
Lawrence Hunter
Mathias Brochhausen
Matt Brush
Melanie Courtot
Michel Dumontier
Paolo Ciccarese
Pat Hayes
Philippe Rocca-Serra
Randy Dipert
Ron Rudnicki
Satya Sahoo
Sivaram Arabandi
Werner Ceusters
William Duncan
William Hogan
Yongqun (Oliver) He
http://creativecommons.org/licenses/by/4.0/
An information artifact is, loosely, a dependent continuant or its bearer that is created as the result of one or more intentional processes. Examples: uniprot, the english language, the contents of this document or a printout of it, the temperature measurements from a weather balloon. For more information, see the project home page at https://github.com/information-artifact-ontology/IAO
IDs allocated to related efforts: PNO: IAO_0020000-IAO_0020999, D_ACTS: IAO_0021000-IAO_0021999
IDs allocated to subdomains of IAO. pno.owl: IAO_0020000-IAO_0020999, d-acts.owl: IAO_0021000-IAO_0021999
The Information Artifact Ontology (IAO) is licensed under the Creative Commons Attribution License (CC-BY) version 4.0. You are free to share (copy and redistribute the material in any medium or format) and adapt (remix, transform, and build upon the material) for any purpose, even commercially. for any purpose, even commercially. The licensor cannot revoke these freedoms as long as you follow the license terms. You must give appropriate credit (by using the original ontology IRI for the whole ontology and original term IRIs for individual terms), provide a link to the license, and indicate if any changes were made. You may do so in any reasonable manner, but not in any way that suggests the licensor endorses you or your use. For more information see http://www.obofoundry.org/docs/Citation.html
This version of the ontology is the merge of all its imports and has added axioms inferred by an OWL reasoner
en
Ontology for Biomedical Investigations
Advisors for this project come from the IFOMIS group, Saarbruecken and from the Co-ODE group in Manchester
Alan Ruttenberg
Allyson Lister
Barry Smith
Bill Bug
Bjoern Peters
Carlo Torniai
Chris Mungall
Chris Stoeckert
Chris Taylor
Christian Bolling
Cristian Cocos
Daniel Rubin
Daniel Schober
Dawn Field
Dirk Derom
Elisabetta Manduchi
Eric Deutsch
Frank Gibson
Gilberto Fragoso
Helen C. Causton
Helen Parkinson
Holger Stenzhorn
James A. Overton
James Malone
Jay Greenbaum
Jeffrey Grethe
Jennifer Fostel
Jessica Turner
Jie Zheng
Joe White
John Westbrook
Kevin Clancy
Larisa Soldatova
Lawrence Hunter
Liju Fan
Luisa Montecchi
Matthew Brush
Matthew Pocock
Melanie Courtot
Melissa Haendel
Mervi Heiskanen
Monnie McGee
Norman Morrison
Philippe Rocca-Serra
Phillip Lord
Pierre Grenon
Richard Bruskiewich
Richard Scheuermann
Robert Stevens
Ryan R. Brinkman
Stefan Wiemann
Susanna-Assunta Sansone
Tanya Gray
Tina Hernandez-Boussard
Trish Whetzel
Yongqun He
2009-07-31
The Ontology for Biomedical Investigations (OBI) is build in a collaborative, international effort and will serve as a resource for annotating biomedical investigations, including the study design, protocols and instrumentation used, the data generated and the types of analysis performed on the data. This ontology arose from the Functional Genomics Investigation Ontology (FuGO) and will contain both terms that are common to all biomedical investigations, including functional genomics investigations and those that are more domain specific.
OWL-DL
An ontology for the annotation of biomedical and functional genomics experiments.
http://creativecommons.org/licenses/by/4.0/
Ontology for Biomedical Investigations
Please cite the OBI consortium http://purl.obolibrary.org/obo/obi where traditional citation is called for. However it is adequate that individual terms be attributed simply by use of the identifying PURL for the term, in projects that refer to them.
2022-01-03
GAZ:00000013
One of the large, unbroken masses of land into which the Earth's surface is divided.
FTT:540
TGN:21402
continent
GAZ
GeoNames:CONT
continental region
GAZ:00190836
CONTIN
continent {alternative name}
Continent {alternative name}
TGN:29000
GAZ:00000467
GAZ:00000448
A reference to a place on the Earth, by its name or by its geographical location.
GAZ
geographic location
geographic region {alternative name}
geographic location
GAZ:00000460
Eurasia
GAZ
The convention used in gaz.obo is that the Europe-Asia boundary follows the watershed of the Ural Mountains from near Kara, Russia on the Kara Sea to the source of the Ural River, then follows that river to the Caspian Sea. The border then follows the watershed of the Caucasus Mountains from the Caspian Sea to the Black Sea.
USA
GAZ:00002459
GAZ
ISO3166-1:US
ISO3166-1:840
A federal constitutional republic comprising fifty states and a federal district. The country is situated mostly in central North America, where its forty-eight contiguous states and Washington, DC, the capital district, lie between the Pacific and Atlantic Oceans, bordered by Canada to the north and Mexico to the south. The State of Alaska is in the northwest of the continent, with Canada to its east and Russia to the west across the Bering Strait, and the State of Hawaii is in the mid-Pacific. The United States also possesses several territories, or insular areas, that are scattered around the Caribbean and Pacific. The states are divided into smaller administrative regions, called counties in most states, exceptions being Alaska (parts of the state are organized into subdivisions called boroughs; the rest of the state's territory that is not included in any borough is divided into "census areas"), and Louisiana (which is divided into county-equivalents that are called parishes). There are also independent cities which are within particular states but not part of any particular county or consolidated city-counties. Another type of organization is where the city and county are unified and function as an independent city. There are thirty-nine independent cities in Virginia and other independent cities or city-counties are San Francisco, California, Baltimore, Maryland, St. Louis, Missouri, Denver, Colorado and Carson City, Nevada. Counties can include a number of cities, towns, villages, or hamlets, or sometimes just a part of a city. Counties have varying degrees of political and legal significance, but they are always administrative divisions of the state. Counties in many states are further subdivided into townships, which, by definition, are administrative divisions of a county. In some states, such as Michigan, a township can file a charter with the state government, making itself into a "charter township", which is a type of mixed municipal and township status (giving the township some of the rights of a city without all of the responsibilities), much in the way a metropolitan municipality is a mixed municipality and county.
United States of America
U.S.A
ISO3166-2:US
ISO3166-1:USA
An ontology of drugs.
Josh Hanna
William Hogan
DrOn contains content developed by the National Library of Medicine in RxNorm. In creating DrOn, we have used RxNorm content only with SAB = RXNORM.
https://creativecommons.org/licenses/by/3.0/
Eric Joseph
Mathias Brochhausen
When citing DrOn, use the permanent URL of the ontology: http://purl.obolibrary.org/obo/dron.owl. When referencing a specific component of the DrOn, such as a class, object property, annotation property, or individual, use the Uniform Resource Identifier (URI) of that component.
http://orcid.org/0000-0002-8343-612X
Includes Ontology(OntologyID(OntologyIRI(<http://purl.obolibrary.org/obo/envo/modules/entity_attribute.owl>) VersionIRI(<null>))) [Axioms: 114 Logical Axioms: 19]
Includes Ontology(OntologyID(OntologyIRI(<http://purl.obolibrary.org/obo/envo/modules/process_attribute.owl>) VersionIRI(<null>))) [Axioms: 21 Logical Axioms: 2]
Includes Ontology(OntologyID(OntologyIRI(<http://purl.obolibrary.org/obo/envo/modules/chemical_concentration.owl>) VersionIRI(<null>))) [Axioms: 186 Logical Axioms: 30]
Includes Ontology(OntologyID(OntologyIRI(<http://purl.obolibrary.org/obo/envo/modules/entity_quality_location.owl>) VersionIRI(<null>))) [Axioms: 40 Logical Axioms: 6]
http://orcid.org/0000-0002-4366-3088
http://orcid.org/0000-0002-6601-2165
http://orcid.org/0000-0003-1604-1512
Includes Ontology(OntologyID(OntologyIRI(<http://purl.obolibrary.org/obo/envo/modules/entity_attribute_location.owl>) VersionIRI(<null>))) [Axioms: 132 Logical Axioms: 23]
ENVO is an ontology which represents knowledge about environments,environmental processes, ecosystems, habitats, and related entities. It interoperates with other ontologies in the OBO Foundry and Library.
New terms or revisions can be requested at https://github.com/EnvironmentOntology/envo/issues/
Please see www.environmentontology.org for more information and citations.
https://orcid.org/0000-0002-6962-2807
Desikan Jagannathan
An ontology for the annotation of the adverse event domain.
Vision Release; 1.2.19
Elizabeth Blair
"Asiyah" Yu Lin
Abra Guo
Sydni Joubran
OWL-DL
Product version
Darrell R. Abernethy
Sirarat Sarntivijai
Ling Wan
Shelley Zhang
Rebecca Racz
Liwei Wang
Meiu Wong
The Ontology of Adverse Eventsy (OAE) is a biomedical ontology in the domain of adverse events. OAE aims to standardize adverse event annotation, integrate various adverse event data, and support computer-assisted reasoning. OAE is a community-based ontology. Its development follows the OBO Foundry principles. Vaccine adverse events have been used as an initial testing use case. OAE also studies adverse events associated with the administration of drug and nutritional products, the operation of surgeries, and the usage of medical devices, etc.
Kevin Mo
OAE: Ontology of Adverse Events
Yongqun "Oliver" He (YH)
Luca Toldo
Noemi Garg
Keith Burkhart
Edison Ong
Mathias Brochhausen
Izabela Birsanescu
Zuoshuang "Allen" Xiang
Barry Smith
Bingjian Yang
Qingping Liu
2019-2-21
Jiangan Xie
Sydni Joubran
Kelly Yang
David Ameriguian
Alice Nzinga
MIABIS_v2_accepted and UPenn Biobank ontology
Roxana Merino-Martinez
William R. Hogan
Sanela Kjellqvist
Loreana Norlin
The Ontology for Biobanking (OBIB) is an ontology for the annotation and modeling of the activities, contents, and administration of a biobank. Biobanks are facilities that store specimens, such as bodily fluids and tissues, typically along with specimen annotation and clinical data. OBIB is based on a subset of the Ontology for Biomedical Investigation (OBI), has the Basic Formal Ontology (BFO) as its upper ontology, and is developed following OBO Foundry principles. The first version of OBIB resulted from the merging of two existing biobank-related ontologies, OMIABIS and biobank ontology.
Jan-Eric Litton
Chris Stoeckert
development version
Ontology for BIoBanking (OBIB)
Jie Zheng
Mathias Brochhausen
Mikael Eriksson
Maria Anderberg
Martin N. Fransson
2021-11-12
Daniel Merico
Ontology for General Medical Science
Werner Ceusters
Brian Aevermann
Jie Zheng
Bill Hogan
Albert Goldfain
Alan Ruttenberg
The Ontology for General Medical Science (OGMS) is an ontology of entities involved in a clinical encounter. OGMS includes very general terms that are used across medical disciplines, including: 'disease', 'disorder', 'disease course', 'diagnosis', 'patient', and 'healthcare provider'. OGMS uses the Basic Formal Ontology (BFO) as an upper-level ontology. The scope of OGMS is restricted to humans, but many terms can be applied to a variety of organisms. OGMS provides a formal theory of disease that can be further elaborated by specific disease ontologies. This theory is implemented using OWL-DL and OBO Relation Ontology relations and is available in OWL and OBO formats.
OGMS is based on the papers Toward an Ontological Treatment of Disease and Diagnosis and On Carcinomas and Other Pathological Entities. The ontology attempts to address some of the issues raised at the Workshop on Ontology of Diseases (Dallas, TX) and the Signs, Symptoms, and Findings Workshop(Milan, Italy). OGMS was formerly called the clinical phenotype ontology. Terms from OGMS hang from the Basic Formal Ontology.
2021-08-19
Sivaram Arabandi
http://creativecommons.org/licenses/by/4.0/
Lindsay Cowell
2009-08-07
Richard Scheuermann
Cornelius Rosse
Anand Kumar
The Ontology for General Medical Science (OGMS) is based on the papers Toward an Ontological Treatment of Disease and Diagnosis and On Carcinomas and Other Pathological Entities. The ontology attempts to address some of the issues raised at the Workshop on Ontology of Diseases (Dallas, TX). OGMS was formerly called the clinical phenotype ontology. Terms from OGMS hang from the Basic Formal Ontology.
The latest version of OGMS is available at http://purl.obolibrary.org/obo/ogms.owl
The OGMS developer site is https://github.com/OGMS/ogms
If you are interested in participating in the development of OGMS, please send email to baeverma
Barry Smith
William Hogan
This ontology grew out of efforts to represent the reality underlying the demographic information required by the US federal government's "meaningful use" criteria for electronic medical records and a presentation by Dr. William Hogan at the Electronic Health Record of the Future conference in Buffalo, NY http://ontology.buffalo.edu/EHR/Demographics_Hogan_Buffalo_2010_09_22.ppt
2017-06-08
Amanda Hicks
Mathias Brochhausen
Swetha Garimalla
Daniel Welch
The Ontology of Medically Related Social Entities
Shariq Tariq