ICDC: ICD-China
10-19-2018
ICDC: ICD-China.
The ICD-China (ICDC) represents the representation of the Chinese version of the ICD standard (GB/T 14396).
Ling Wan)
OWL-DL
Vision Release: 1.0.01
Yongqun "Oliver" He (YH)
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
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
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
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
has curation status
PERSON:Alan Ruttenberg
PERSON:Bill Bug
PERSON:Melanie Courtot
OBI_0000281
has curation status
definition
definition
definition
textual 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
definition
textual 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>
editor note
term editor
Name of editor entering the term in the file. The term editor is a point of contact for information regarding the term. The term editor may be, but is not always, the author of the definition, which may have been worked upon by several people
20110707, MC: label update to term editor and definition modified accordingly. See https://github.com/information-artifact-ontology/IAO/issues/115.
PERSON:Daniel Schober
GROUP:OBI:<http://purl.obolibrary.org/obo/obi>
term editor
alternative term
An alternative name for a class or property which means the same thing as the preferred name (semantically equivalent)
PERSON:Daniel Schober
GROUP:OBI:<http://purl.obolibrary.org/obo/obi>
alternative term
definition source
formal citation, e.g. identifier in external database to indicate / attribute source(s) for the definition. Free text indicate / attribute source(s) for the definition. EXAMPLE: Author Name, URI, MeSH Term C04, PUBMED ID, Wiki uri on 31.01.2007
PERSON:Daniel Schober
Discussion on obo-discuss mailing-list, see http://bit.ly/hgm99w
GROUP:OBI:<http://purl.obolibrary.org/obo/obi>
definition source
curator note
An administrative note of use for a curator but of no use for a user
PERSON:Alan Ruttenberg
curator note
imported from
For external terms/classes, the ontology from which the term was imported
PERSON:Alan Ruttenberg
PERSON:Melanie Courtot
GROUP:OBI:<http://purl.obolibrary.org/obo/obi>
imported from
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
has associated axiom(nl)
Person:Alan Ruttenberg
Person:Alan Ruttenberg
An axiom associated with a term expressed using natural language
has associated axiom(nl)
has associated axiom(fol)
Person:Alan Ruttenberg
Person:Alan Ruttenberg
An axiom expressed in first order logic using CLIF syntax
has associated axiom(fol)
A property created to allow the source CDRH 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.
A10
Conceptual Entity
Has CDRH Parent
Has_CDRH_Parent
Has_CDRH_Parent
Has_CDRH_Parent
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
A property created to allow the source CTCAE 5.0 to assign a parent to each concept with the intent of creating a hierarchy that includes only terms in which CTCAE is the contributing source.
A15
Conceptual Entity
Has_CTCAE_5_Parent
Has_CTCAE_5_Parent
Has_CTCAE_5_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
Used to flag terms that are part of an FDA data standard manual, including Route of Administration, Dosage Form, Package Type and Potency.
P317
Conceptual Entity
FDA Table
FDA_Table
FDA_Table
FDA_Table
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
The morphologic, clinical, and genetic profile of a neoplastic growth that defines it as non-cancerous, cancerous, or of uncertain cancerous potential.
P363
Conceptual Entity
Neoplastic Status
Neoplastic_Status
FDA
Neoplastic_Status
Neoplastic_Status
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
Indicates whether or not a value set is ready for publication in the browser.
P372
Conceptual Entity
Publish_Value_Set
Publish_Value_Set
Publish_Value_Set
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 PATO_ID
has_14396_code
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
IEDB alternative term
An alternative term used by the IEDB.
PERSON:Randi Vita, Jason Greenbaum, Bjoern Peters
IEDB
IEDB alternative term
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
https://github.com/oborel/obo-relations/wiki/ROAndTime
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 property
logical macro assertion on a property
Used to annotate object properties to describe a logical meta-property or characteristic of the object property.
logical macro assertion on an object property
RO:0002604
quality
is_opposite_of
true
true
is_opposite_of
is opposite of
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.
An entity responsible for making contributions to the
content of the resource.
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
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_format_version
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
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 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
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 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
has part
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
[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
This document is about information artifacts and their representations
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
Disease_Has_Associated_Anatomic_Site
Disease_Has_Primary_Anatomic_Site
Disease_Has_Normal_Tissue_Origin
Disease_Has_Abnormal_Cell
Disease_Has_Finding
Disease_Excludes_Primary_Anatomic_Site
Anatomic_Structure_Has_Location
located in
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.
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.
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
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
objective_achieved_by
This relation obtains between a a 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
inheres in
this fragility inheres in this vase
this red color inheres in this apple
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
inheres in
bearer of
this apple is bearer of this red color
this vase is bearer of this fragility
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
is bearer of
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://www.obofoundry.org/ro/#OBO_REL:has_participant
has participant
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 journal article (a generically dependent continuant) is concretized as the quality (a specifically 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 generically dependent continuant and a specifically 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. A generically dependent continuant may be concretized as multiple specifically dependent continuants.
is concretized as
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.
concretizes
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 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
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
located in
fma
constitutional_part_of
constitutional_part_of
fma
part_of
part_of
fma
regional_part_of
regional_part_of
fma
systemic_part_of
systemic_part_of
An object property that represents a relation between a disease and a quality where the patient has the diseease that has a speciifc quality.
Oliver He, Eric Wan
has disease quality
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])
实体
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]
常体
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]
行体
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]
独立常体
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]
暂时域
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]
过程
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]
性质
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]
可感知实体
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]
特性
sdc
SpecificallyDependentContinuant
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]
特殊型依赖性常体
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]
角色
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]
基本型依赖性常体
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]
一维暂时域
material
MaterialEntity
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]
物质性实体
Anatomical structure which is the aggregate material substance of an individual member of the Homo sapiens species. Examples: There is only one human body.
fma
FMA:20394
人的身体
fma
FMA:224234
Wall of subdivision of external acoustic tube
fma
FMA:224236
Posterior wall of external acoustic tube
fma
FMA:224238
Posterior wall of right external acoustic tube
fma
FMA:224240
Posterior wall of left external acoustic tube
fma
FMA:224242
Anterior wall of external acoustic tube
fma
FMA:224244
Anterior wall of right external acoustic tube
fma
FMA:224246
Anterior wall of left external acoustic tube
Floor of external acoustic tube
fma
FMA:224377
Inferior wall of external acoustic tube
fma
FMA:224380
Inferior wall of right external acoustic tube
fma
FMA:224382
Inferior wall of left external acoustic tube
fma
FMA:228619
Right supratragic tubercle
fma
FMA:228621
Left supratragic tubercle
Head region
Head subdivision
Region of head
fma
FMA:24218
头部的其他部分
fma
FMA:256133
脊椎动物身体
Anatomical structure which is the aggregate material substance of an individual member of a species.
fma
FMA:256135
身体
fma
FMA:52780
耳
Auricular region
Auricular region of head
fma
FMA:52781
外耳
fma
FMA:53641
Right ear
fma
FMA:53642
Left ear
Right auricular region
fma
FMA:53643
Right external ear
Left auricular region
fma
FMA:53644
Left external ear
Face subdivision
Facial region
Region of face
fma
FMA:54393
脸部次要部分
Subdivision of head which consists of the neurocranium and all layers superficial to it including the cranial cavity and its contents. Examples: There is only one head proper.
fma
FMA:54545
正常的头部
fma
FMA:54546
右脸部
fma
FMA:54547
左脸部
Auricle
Auricle of ear
Auricle of external ear
Auricula (Auris externa)
Pinna of ear
fma
FMA:56580
耳廓
fma
FMA:56663
Right pinna
fma
FMA:56664
Left pinna
Head proper region
Head proper subdivision
fma
FMA:58817
正常头部的次要部分
Right lateral part of head
Right side of head proper
fma
FMA:58825
头的右侧耳颞部分
Left lateral part of head
Left side of head proper
fma
FMA:58826
头的左侧耳颞部分
Pinna subdivision
fma
FMA:60960
耳廓的其他部分
Auricular lobule
Ear lobe
Ear lobule
Lobe of ear
Lobule of auricle
Lobule of auricle of ear
Pinna lobule
fma
FMA:60984
耳廓小叶
Right ear lobe
Right pinna lobule
fma
FMA:60989
Lobule of right pinna
Left ear lobe
Left pinna lobule
fma
FMA:60991
Lobule of left pinna
Helical part of pinna
Helix (Auricula)
Helix of auricle of ear
Helix of ear
Helix of pinna
fma
FMA:60992
耳轮
Helical part of right pinna
Helix of auricle of right ear
Helix of right pinna
fma
FMA:60993
Right helix
Helical part of left pinna
Helix of auricle of left ear
Helix of left pinna
fma
FMA:60994
Left helix
Antihelical part of pinna
Antihelix (Auricula)
Antihelix of pinna
fma
FMA:60995
对耳轮
Antihelical part of right pinna
Antihelix of right pinna
fma
FMA:60996
Right antihelix
Antihelical part of left pinna
Antihelix of left pinna
fma
FMA:60997
Left antihelix
Tragal part of pinna
fma
FMA:60998
耳珠
Tragal part of right pinna
fma
FMA:60999
Right tragus
Tragal part of left pinna
fma
FMA:61000
Left tragus
Antitragal part of pinna
fma
FMA:61001
对耳屏
Antitragal part of right pinna
fma
FMA:61002
Right antitragus
Antitragal part of left pinna
fma
FMA:61003
Left antitragus
Concha
Concha of auricle
Concha of pinna
fma
FMA:61006
耳廓壳体
Concha of right pinna
fma
FMA:61008
Conchal part of right pinna
Concha of left pinna
fma
FMA:61009
Conchal part of left pinna
Subdivision of concha of auricle
Subdivision of concha of pinna
fma
FMA:61081
耳廓壳体的其他部分
Cymba conchae of auricle
fma
FMA:61082
Cymba conchae of pinna
Concha proper of auricle
fma
FMA:61083
Concha proper of pinna
Right cymba conchae
fma
FMA:61084
Cymba conchae of right pinna
Left cymba conchae
fma
FMA:61085
Cymba conchae of left pinna
fma
FMA:61086
Concha proper of right pinna
fma
FMA:61087
Concha proper of left pinna
Auricular tubercle
Darwin's tubercle
Pinna tubercle
fma
FMA:61151
耳廓结节
Right auricular tubercle
Right pinna tubercle
fma
FMA:61152
Tubercle of right pinna
Left auricular tubercle
Left pinna tubercle
fma
FMA:61153
Tubercle of left pinna
External acoustic tube subdivision
fma
FMA:61288
外耳道的其他部分
External acoustic tube isthmus
fma
FMA:61291
Isthmus of external acoustic tube
Right external acoustic meatus isthmus
fma
FMA:61292
Isthmus of right external acoustic meatus
Left external acoustic meatus isthmus
fma
FMA:61293
Isthmus of left external acoustic meatus
External part of external acoustic meatus
External part of external auditory meatus
External part of external auditory tube
Pars externa of external acoustic meatus
fma
FMA:61305
External part of external acoustic tube
Middle part of external acoustic meatus
Middle part of external auditory tube
Pars media of external acoustic meatus
fma
FMA:61306
Middle part of external acoustic tube
Inner part of external acoustic meatus
Inner part of external auditory tube
Pars interna of external acoustic meatus
fma
FMA:61307
Inner part of external acoustic tube
Inner part of right external acoustic meatus
fma
FMA:61308
Inner part of right external acoustic tube
Inner part of left external acoustic meatus
fma
FMA:61309
Inner part of left external acoustic tube
Middle part of right external acoustic meatus
Middle part of right external auditory meatus
fma
FMA:61310
Middle part of right external acoustic tube
Middle part of left external acoustic meatus
fma
FMA:61311
Middle part of left external acoustic tube
External part of right external acoustic meatus
External part of right external auditory tube
fma
FMA:61312
External part of right external acoustic tube
External part of left external acoustic meatus
External part of left external auditory meatus
fma
FMA:61313
External part of left external acoustic tube
External acoustic tube wall
fma
FMA:61319
Wall of external acoustic tube
Right external acoustic meatus wall
fma
FMA:61323
Wall of right external acoustic tube
Left external acoustic meatus wall
fma
FMA:61324
Wall of left external acoustic tube
fma
FMA:61328
Wall of external part of external acoustic tube
fma
FMA:61329
Wall of middle part of external acoustic tube
fma
FMA:61330
Wall of inner part of external acoustic tube
fma
FMA:61331
Wall of inner part of right external acoustic tube
fma
FMA:61332
Wall of inner part of left external acoustic tube
fma
FMA:61333
Wall of middle part of right external acoustic tube
fma
FMA:61334
Wall of middle part of left external acoustic tube
fma
FMA:61335
Wall of external part of right external acoustic tube
fma
FMA:61336
Wall of external part of left external acoustic tube
External ear subdivision
fma
FMA:61705
外耳的其他部分
Subdivision of head proper which consists of the temporal bone and all layers superficial to it, including the pinna. Examples: There are only two canonical instances, right and left auriculotemporal parts of head.
Lateral part of head
Side of head proper
fma
FMA:61707
头的耳颞部分
fma
FMA:61708
头耳颞部的其他部分
External acoustic meatus, Auditory canal
External auditory canal
External auditory meatus
External auditory tube
external canal
fma
FMA:61734
外耳道
Right external acoustic meatus
Right external auditory canal
Right external auditory meatus
fma
FMA:61735
Right external acoustic tube
Left external acoustic meatus
Left external auditory canal
Left external auditory meatus
Left external auditory tube
fma
FMA:61736
Left external acoustic tube
Anatomical entity which has three or fewer spatial dimensions. Examples: hemoglobin molecule, mitochondrion, hepatocyte, erythrocyte, heart, head, blood, urine, peritoneal cavity, diaphragmatic surface of heart, inferior margin of liver, apex of lung.
fma
FMA:61775
身体解剖学上的实体
Organismal continuant entity which is enclosed by the bona fide boundary of an organism or is an attribute of its structural organization. Examples: cell, heart, head, peritoneal cavity, apex of lung, anatomical term, sagittal plane.
fma
FMA:62955
解剖学上的实体
Material anatomical entity which is generated by coordinated expression of the organism's own genes that guide its morphogenesis; has inherent 3D shape; its parts are connected and spatially related to one another in patterns determined by coordinated gene expression. Examples: heart, right ventricle, mitral valve, myocardium, endothelium, lymphocyte, fibroblast, thorax, cardiovascular system, hemoglobin, T cell receptor.
Biological structure
fma
FMA:67135
解剖学结构
Physical anatomical entity which has mass. Examples: hemoglobin molecule, mitochondrion, hepatocyte, erythrocyte, heart, head, blood, urine.
fma
FMA:67165
物质性解剖学实体
Anatomical structure, which is a subdivision of a cardinal body part; it may exclude bones; is demarcated from other subdivisions of the same cardinal body part by anatomical surfaces or lines or topographical references; together with other contiguous subdivisions of the same cardinal body part, it constitutes a cardinal body part. Examples: thorax, perineum, back of neck, forearm, hand, phalanx, nose, auricle of ear, scrotum.
Principal body part subdivision
fma
FMA:67504
身体次要部分
fma
FMA:67811
男性的身体
fma
FMA:67812
女性的身体
Anatomical structure, which has as its direct parts instances of anatomical sets of organs and cardinal organ parts spatially associated with either the skull, vertebral column, or the skeleton of a limb; in their aggregate are surrounded by a part of the skin Examples: Head, body proper, right upper limb.
Body region
fma
FMA:7153
身体主要部分
Cardinal body part, which consists of a maximal set of diverse subclasses of organ and organ part spatially associated with the skull, it is partially surrounded by skin of head. Examples: There is only one head.
Head (volume)
fma
FMA:7154
头部
fma
FMA:77676
Supratragic tubercle
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
data item
Data items include counts of things, analyte concentrations, and statistical summaries.
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
数据项
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
信息内容实体
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
指令性信息实体
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
data about an ontology part is a data item about a part of an ontology, for example a term
Person:Alan Ruttenberg
本体类数据
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
Objective evidence of disease perceptible to the examining practitioner (sign) and subjective evidence of disease perceived by the patient (symptom).
C100104
Finding
Sign or Symptom
C0037088
CDISC
NICHD
Objective evidence of disease perceptible to the examiner (sign) and subjective evidence of disease perceived by the subject (symptom).
Sign or Symptom
CLINICAL FINDING
CLINICAL SIGNS
Clinical Finding
Clinical Signs
DESC
Sign or Symptom
Signs or Symptoms
Sign or Symptom
A category of diseases that involve muscles and bones.
C107377
Disease or Syndrome
Musculoskeletal System Disorder
C0026857
NICHD
Musculoskeletal System Disorder
Disorder of Musculoskeletal System
Musculoskeletal System Disorder
Musculoskeletal System Disorder
A human biological structure, fluid or other substance; excludes single molecular entities.
C12219
Classification
Anatomical Concepts
Anatomic Structure, System, or Substance
C1515976
NICHD
Anatomic_Structure_System_or_Substance
Anatomic Structure, System, or Substance
Anatomic Structure, System, or Substance
Anatomic Structures and Systems
test
Anatomic Structure, System, or Substance
Bone
Head and Neck
A congenital anatomic defect characterised by the absence of a normally present opening in an organ or tissue.
C124497
Disease or Syndrome
Atresia
C0243066
CDISC
Absence or closure of a normal body orifice or tubular organ. (Makris S, Solomon HM, Clark R, Shiota K, Barbellion S, Buschmann J, Ema M, Fujiwara M, Grote K, Hazelden KP, Hew KW, Horimoto M, Ooshima Y, Parkinson M, Wise LD. Terminology of developmental abnormalities in common laboratory mammals (Version 2). Part B. Birth Defects Res B Dev Reprod Toxicol. 2009 Aug;86(4):227-327.)
ATRESIA
Atresia
Atretic
闭锁
Skin
Soft Tissue
Infection
Integumentary System
Neoplastic Cell
Exocrine System
Connective and Soft Tissue
Material produced by living organisms; it can be a necessary constituent of, or product of an organismal process.
C13236
Body Substance
Body Fluid or Substance
CL427986
CDISC
NICHD
Liquid substances produced by the body.
Body_Fluid_or_Substance
Body Fluid or Substance
Body Fluid or Substance
Body Fluids and Substances
Body Fluids or Substances
FLUID
Body Fluid or Substance
C143163
Finding
CTCAE by Body System
CTCAE by Body System
Common Terminology Criteria for Adverse Events by Body System
CTCAE by Body System
C143171
Finding
Infections and Infestations, CTCAE
Infections and Infestations, CTCAE
Infections and Infestations, CTCAE
A disorder characterized by an infectious process involving the outer ear and ear canal. Contributory factors include excessive water exposure (swimmer's ear infection) and cuts in the ear canal. Symptoms include fullness, itching, swelling and marked discomfort in the ear and ear drainage.
C143719
Finding
Otitis Externa, CTCAE
CTCAE
A disorder characterized by an infectious process involving the outer ear and ear canal. Contributory factors include excessive water exposure (swimmer's ear infection) and cuts in the ear canal. Symptoms include fullness, itching, swelling and marked discomfort in the ear and ear drainage.
Otitis Externa, CTCAE
Otitis externa
Otitis Externa, CTCAE
A disorder characterized by an infectious process involving the middle ear.
C143720
Finding
Otitis Media, CTCAE
CTCAE
A disorder characterized by an infectious process involving the middle ear.
Otitis Media, CTCAE
Otitis media
Otitis Media, CTCAE
A cell death process that is morphologically characterized by a gain in cell volume (oncosis), swelling of organelles, plasma membrane rupture and subsequent loss of intracellular contents.
C16897
Pathologic Function
Necrotic Process
C0027540
Patient Code (Appendix B)
CDISC
CTRP
FDA
Death of a group of cells in an organ or tissue. (INHAND)
Refers to the death of tissues.
Necrosis
NECROSIS
Necrosis
Necrotic Process
necrosis
Necrotic Process
A biologic function or a process having an abnormal or deleterious effect at the subcellular, cellular, multicellular, or organismal level.
C16956
Phenomenon or Process
Pathologic Process
C0030660
Pathologic_Process
Pathologic Process
Pathologic Process
An activity occurring within an organism, between organisms or among organisms and the mechanisms underlying such events.
C17828
Biologic Function
Biological Process
C0031845
Biological_Process
Biological Function
Biological Process
Biological Process
A non-neoplastic disorder that affects the connective and soft tissue.
C26326
Disease or Syndrome
Non-Neoplastic Connective and Soft Tissue Disorder
C1335003
Non-Neoplastic_Connective_and_Soft_Tissue_Disorder
Non-Neoplastic Connective and Soft Tissue Disease
Non-Neoplastic Connective and Soft Tissue Diseases
Non-Neoplastic Connective and Soft Tissue Disorder
Non-Neoplastic Connective and Soft Tissue Disorders
Non-Neoplastic Connective and Soft Tissue Disorder
Inflammation of the dermis and subcutaneous tissues caused by a bacterial infection. Symptoms include erythema, edema, and pain to the affected area.
C26715
Disease or Syndrome
Cellulitis
C0007642
Patient Code (Appendix B)
FDA
MedDRA
NICHD
An acute, spreading infection of the deep tissues of the skin and muscle that causes the skin to become warm and tender and may also cause fever, chills, swollen lymph nodes, and blisters.
An infection of the skin and subcutaneous tissues with induration and erythema.
Cellulitis
Cellulitis
Cellulitis
cellulitis
蜂窝组织炎
A disorder resulting from the presence and activity of a microbial, viral, fungal, or parasitic agent. It can be transmitted by direct or indirect contact.
C26726
Disease or Syndrome
Infectious Disorder
Infectious Disorder
C0009450
Patient Code (Appendix B)
CDISC
CTRP
FDA
MedDRA
NICHD
A disorder resulting from the presence and activity of a microbial, viral, fungal, or parasitic agent. It can be transmitted by direct or indirect contact.
A disorder resulting from the presence and activity of a microbial, viral, or parasitic agent. It can be transmitted by direct or indirect contact. (NCI)
Invasion and multiplication of germs in the body. Infections can occur in any part of the body and can spread throughout the body. The germs may be bacteria, viruses, yeast, or fungi. They can cause a fever and other problems, depending on where the infection occurs. When the body's natural defense system is strong, it can often fight the germs and prevent infection. Some cancer treatments can weaken the natural defense system.
Infectious_Disorder
Infectious Disorder
Clinical Infection
ID
INFECTION
Infection
Infectious
Infectious Disease
Infectious Diseases and Manifestations
Infectious Disorder
infection
Infectious Disorder
A non-neoplastic or neoplastic disorder that affects the connective tissue.
C26729
Disease or Syndrome
Connective Tissue Disorder
C0009782
Patient Code (Appendix B)
FDA
NICHD
A disorder characterized by abnormalities in one or more of the elements of the connective tissues, typically associated with genetic defects.
Connective_Tissue_Disorder
Connective Tissue Disorder
Connective Tissue Disease
Connective Tissue Diseases
Connective Tissue Disorder
Connective Tissue Disorders
Disease, Connective Tissue
Disorder of Connective Tissue
Primary Disorder of Connective Tissue
Tissue Disease, Connective
Connective Tissue Disorder
A non-neoplastic or neoplastic disorder that affects the soft tissue.
C27042
Disease or Syndrome
Soft Tissue Disorder
C0263978
Soft_Tissue_Disorder
Soft Tissue Disease
Soft Tissue Diseases
Soft Tissue Disorder
Soft Tissue Disorders
Soft Tissue Disorder
A term that refers to the classification of a disorder according to the anatomic site that is involved in the pathologic process.
C27551
Disease or Syndrome
Disorder by Site
C1333305
Header_Concept
Disorder_by_Site
Disease by Site
Disorder by Site
Disorder by Site
A disorder involving lesions or eruptions of the skin, usually without inflammation.
C27554
Disease or Syndrome
Dermatosis
Dermatosis
CL448476
Dermatosis
Dermatosis
Dermatosis
C27555
Disease or Syndrome
Non-Neoplastic Skin Disorder
C1335042
Non-Neoplastic_Skin_Disorder
Non-Neoplastic Cutaneous Disorder
Non-Neoplastic Skin Disorder
Non-Neoplastic Skin Disorder
A non-neoplastic or neoplastic disorder that affects the anatomic structures of the head and neck region. This category includes inflammatory disorders, benign neoplasms, precancerous conditions, and malignant neoplasms.
C27571
Disease or Syndrome
Head and Neck Disorder
C1333941
Head_and_Neck_Disorder
Head and Neck Disorder
Head and Neck Disorder
A non-neoplastic disorder that affects the bone or articular cartilage.
C27572
Disease or Syndrome
Non-Neoplastic Bone Disorder
C1334997
Non-Neoplastic_Bone_Disorder
Non-Neoplastic Bone Disorder
Non-Neoplastic Bone Disorder
A non-neoplastic disorder that affects the soft tissue.
C27573
Disease or Syndrome
Non-Neoplastic Soft Tissue Disorder
C1335043
Non-Neoplastic_Soft_Tissue_Disorder
Non-Neoplastic Soft Tissue Disorder
Non-Neoplastic Soft Tissue Disorder
A non-neoplastic or neoplastic disorder that affects the connective and soft tissue.
C27574
Disease or Syndrome
Connective and Soft Tissue Disorder
C1333150
Connective_and_Soft_Tissue_Disorder
Connective and Soft Tissue Disease
Connective and Soft Tissue Diseases
Connective and Soft Tissue Disorder
Connective and Soft Tissue Disorder
C27583
Disease or Syndrome
Infectious Disorder by Site
C1334175
Header_Concept
Infectious_Disorder_by_Site
Infectious Disorder by Site
局部感染性疾患
A non-neoplastic disorder that affects the anatomic structures of the head and neck region.
C27663
Disease or Syndrome
Non-Neoplastic Head and Neck Disorder
C1335014
Non-Neoplastic_Head_and_Neck_Disorder
Non-Neoplastic Head and Neck Disease
Non-Neoplastic Head and Neck Disorder
Non-Neoplastic Head and Neck Disorder
Any abnormality, anatomical or biochemical, evident at birth or during the neonatal period.
C2849
Congenital Abnormality
Disease or Syndrome
Congenital Abnormality
C0000768
Patient Code (Appendix B)
CDISC
FDA
NICHD
A morphologic defect of an organ, part of an organ, or larger region of the body that results from an intrinsically abnormal developmental process during gestation.
Congenital_Abnormality
Congenital Malformation
Birth Defect
CONGENITAL DEFECT/DEFORMITY
Congenital Abnormality
Congenital Anatomic Abnormality
Congenital Anatomical Abnormality
Congenital Anomalies of Fetus
Congenital Anomaly
Congenital Anomaly or Birth Defect
Congenital Defect
Congenital Defect/Deformity
Congenital Deformity
Congenital Malformation
DEFECT/DEFORMITY, CONGENITAL
Defect/Deformity, Congenital
Deformity/Defect, Congenital
SCONG
Congenital Abnormality
An acute infectious disorder that is caused by gram positive or gram negative bacteria; representative examples include pneumococcal, streptococcal, salmonella, and meningeal infections.
C2890
Disease or Syndrome
Bacterial Infection
Bacterial Infection
C0004623
Patient Code (Appendix B)
CTRP
FDA
NICHD
An infection caused by a bacterium.
Bacterial_Infection
Bacterial Infection
Bacterial Disease
Bacterial Disorder
Bacterial Infection
Infection, Bacterial
细菌感染
A pathologic process characterized by the proliferation of keratinizing squamous epithelium resulting in the accumulation of keratin and cells in the middle ear and/or mastoid. It may be congenital or acquired. If left untreated, it may increase in size and destroy adjacent structures.
C2944
Disease or Syndrome
Cholesteatoma
C0008373
Cholesteatoma
Cholesteatoma
Cholesteatoma
A sac-like closed membranous structure that may be empty or contain fluid or amorphous material.
C2978
Finding
Cyst
C0010709
CDISC
NICHD
A sac or capsule in the body. It may be filled with fluid or other material.
A sac-like closed pocket of tissue that may be empty or may be filled with fluid, gas, semisolid, or amorphous material. It typically has an outer epithelial-lined capsule.
Cyst
Cyst
CYST
Cyst
cyst
Cyst
An inflammatory process affecting the skin. Signs include red rash, itching, and blister formation. Representative examples are contact dermatitis, atopic dermatitis, and seborrheic dermatitis.
C2983
Disease or Syndrome
Dermatitis
Dermatitis
C0011603
Patient Code (Appendix B)
FDA
Inflammation of the skin.
Dermatitis
Dermatitis
Inflammation Of Skin
Inflammation of Skin
Inflammation of the Skin
Skin Inflammation
dermatitis
Dermatitis
Any abnormal condition of the body or mind that causes discomfort, dysfunction, or distress to the person affected or those in contact with the person. The term is often used broadly to include injuries, disabilities, syndromes, symptoms, deviant behaviors, and atypical variations of structure and function.
C2991
Disease or Syndrome
Disease or Disorder
C0012634
CDISC-GLOSS
NICHD
Any deviation from or interruption of the normal structure or function of a part, organ, or system of the body as manifested by characteristic symptoms and signs. [Dorland's Medical Dictionary]
In medicine, a health problem with certain characteristics or symptoms.
Diseases_and_Disorders
Disease or Disorder
Disease
Disease or Disorder
Disease or Disorder, Non-Neoplastic
Diseases
Diseases and Disorders
Disorder
Disorders
Other Disease
condition
disease
disorder
Disease or Disorder
A form of dermatitis characterized by red, itchy, scaly, or crusty patches that can be chronic or intermittent.
C3001
Disease or Syndrome
Eczema
C0013595
MedDRA
NICHD
A form of dermatitis characterized by red, itchy, scaly, or crusty patches that can be chronic or intermittent.
A group of conditions in which the skin becomes inflamed, forms blisters, and becomes crusty, thick, and scaly. Eczema causes burning and itching, and may occur over a long period of time. Atopic dermatitis is the most common type of eczema.
Eczema
Eczema
Atopic Dermatitis
Eczema
Eczematous Dermatitis
eczema
湿疹
Non-neoplastic overgrowth of bone.
C3029
Disease or Syndrome
Exostosis
C1442903
A disorder characterized by non-neoplastic overgrowth of bone.
Exostosis
Exostosis
Exostosis
The formation of fibrous tissue.
C3044
Finding
Fibrosis
C0016059
Patient Code (Appendix B)
CDISC
FDA
Increase in collagen and low numbers of fibrocytes.
The formation of fibrous tissue; fibroid or fibrous degeneration.
The growth of fibrous tissue.
Fibrosis
FIBROSIS
Fibrosis
fibrosis
Fibrosis
Abnormal epithelial-lined communication between two anatomical structures.
C3045
Anatomical Abnormality
Disease or Syndrome
Fistula
Fistula
C0016169
Patient Code (Appendix B)
CDISC
CTRP
FDA
MedDRA
NICHD
Abnormal epithelial-lined communication between two structures.
Abnormal passage or communication between two normally unconnected structures, body cavities, or the surface of the body. (Makris S, Solomon HM, Clark R, Shiota K, Barbellion S, Buschmann J, Ema M, Fujiwara M, Grote K, Hazelden KP, Hew KW, Horimoto M, Ooshima Y, Parkinson M, Wise LD. Terminology of developmental abnormalities in common laboratory mammals (Version 2). Part B. Birth Defects Res B Dev Reprod Toxicol. 2009 Aug;86(4):227-327.)
An abnormal opening or passage between two organs or between an organ and the surface of the body. Fistulas may be caused by injury, infection, or inflammation, or may be created during surgery.
Fistula
Fistula
FISTULA
Fistula
Pathologic Fistula
fistula
瘘
An inflammatory reaction usually caused by infectious organisms, foreign bodies, or cholesterol deposits. It is characterized by the presence of epithelioid histiocytes and chronic inflammation.
C3064
Finding
Granuloma
C0018188
Patient Code (Appendix B)
CDISC
FDA
MedDRA
NICHD
A lesion characterized by the presence of epithelioid histiocytes and chronic inflammation.
An organized chronic inflammatory reaction characterized by the presence of epithelioid macrophages. Giant cells and/or necrosis can be observed.
Granuloma
Granuloma
GRANULOMA
Granuloma
Granulomatous Lesion
Granuloma
A localized protective response resulting from injury or destruction of tissues. Inflammation serves to destroy, dilute, or wall off both the injurious agent and the injured tissue. In the acute phase, inflammation is characterized by the signs of pain, heat, redness, swelling, and loss of function. Histologically, inflammation involves a complex series of events, including dilatation of arterioles, capillaries, and venules, with increased permeability and blood flow; exudation of fluids, including plasma proteins; and leukocyte migration into the site of inflammation.
C3137
Finding
Inflammation
C0021368
Patient Code (Appendix B)
CDISC
FDA
A response to an injury or abnormal stimuli characterized by inflammatory cell infiltration and varying degrees of vascular and tissue reactions (hyperemia, edema, fibrin, and/or fibrosis).
Redness, swelling, pain, and/or a feeling of heat in an area of the body. This is a protective reaction to injury, disease, or irritation of the tissues.
Inflammation
INFLAMMATION
Inflammation
inflammation
Inflammation
A soft yellow wax secreted by glands in the ear canal.
C32293
Body Substance
Cerumen
C0740486
CDISC
A wax secreted by glands in the ear canal.
Cerumen
CERUMEN
Cerumen
Earwax
Cerumen
A benign or malignant tissue growth resulting from uncontrolled cell proliferation. Benign neoplastic cells resemble normal cells without exhibiting significant cytologic atypia, while malignant cells exhibit overt signs such as dysplastic features, atypical mitotic figures, necrosis, nuclear pleomorphism, and anaplasia. Representative examples of benign neoplasms include papillomas, cystadenomas, and lipomas; malignant neoplasms include carcinomas, sarcomas, lymphomas, and leukemias.
C3262
Neoplastic Process
Neoplasm
C0375111
CTRP
NICHD
An abnormal mass of tissue that results when cells divide more than they should or do not die when they should. Neoplasms may be benign (not cancer), or malignant (cancer).
Undetermined
Neoplasm
Neoplasm
Yes
Neoplasia
Neoplasm
Neoplastic Disease
Neoplastic Growth
Other Neoplasm
neoplasia
neoplasm
tumor
Neoplasm
Hair
Clinical, laboratory or molecular evidence, or absence of evidence of disease.
C3367
Finding
Finding
C1285578
CDISC-GLOSS
NICHD
A meaningful interpretation of data or observations resulting from planned evaluations. Compare to conclusion, hypothesis.
Finding
Finding
Finding
Observable Entity
finding
Finding
Any deviation from the normal structure or function of the skin or subcutaneous tissue that is manifested by a characteristic set of symptoms and signs.
C3371
Disease or Syndrome
Skin Disorder
C0037274
NICHD
Skin_Disorder
Skin Disorder
Cutaneous Disorder
Disorder of Skin
Skin Diseases and Manifestations
Skin Disorder
Skin Disorder
Enlargement; expansion in size; sign of inflammation
C3399
Sign or Symptom
Swelling
C0038999
Patient Code (Appendix B)
FDA
Swelling
Swelling
Swelling
C34062
Body Substance
Exocrine Gland Fluid or Secretion
C1516992
Exocrine_Gland_Fluid_or_Secretion
Exocrine Gland Fluid or Secretion
Exocrine Gland Fluid or Secretion
A permanent mark left on the skin in the process of wound healing.
C34483
Finding
Scar
C2004491
Patient Code (Appendix B)
CDISC
FDA
MedDRA
NICHD
A mark left (usually on the skin) by the healing of injured tissue.
A permanent mark left on the skin in the process of wound healing.
Scar
Scar
SCAR
Scar
Scarring
Scar
A non-neoplastic or neoplastic disorder involving the hair. Representative examples include folliculitis, alopecia, tricholemmoma, and pilomatrical carcinoma.
C34656
Disease or Syndrome
Hair Disorder
C0018500
Hair_Disorder
Hair Disorder
Hair Disorder
The protrusion of part of an organ or fibroadipose tissue through an abnormal opening.
C34685
Anatomical Abnormality
Disease or Syndrome
Hernia
Hernia
C0019270
Patient Code (Appendix B)
CDISC
CTRP
FDA
NICHD
The bulging of an internal organ through a weak area or tear in the muscle or other tissue that holds it in place. Most hernias occur in the abdomen.
The protrusion of part of an organ or fibroadipose tissue through an abnormal opening. (NCI)
Hernia
Hernia
HERNIA
Hernia
hernia
疝
Excessive growth of keratin on the skin.
C34747
Finding
Keratosis
C0022593
Keratosis
Keratosis
Keratosis
infection by Staphylococcus.
C35038
Disease or Syndrome
Staphylococcal Infection
C0038160
Staphylococcal_Infection
Staphylococcal Infection
Staphylococcal Infection
A non-neoplastic disorder that affects the hair. Representative examples may include alopecia, male pattern baldness, hirsutism, and hair shaft disorders.
C35784
Disease or Syndrome
Non-Neoplastic Hair Disorder
C1335013
Non-Neoplastic_Hair_Disorder
Non-Neoplastic Hair Disorder
Non-Neoplastic Hair Disorder
A light microscopic finding that describes the cellular characteristics and architectural patterns of cell populations in a tissue sample.
C35867
Finding
Morphologic Finding
C0700329
Morphologic_Finding
Morphologic Finding
Morphologic Finding
A term that refers to the classification of a clinical or laboratory finding according to the anatomic site or system that is involved.
C36278
Finding
Finding by Site or System
C1333618
Header_Concept
Finding_by_Site_or_System
Finding by Site or System
Finding by Site or System
Symptoms, physical examination results, and/or laboratory test results related to the integumentary system.
C36281
Finding
Integumentary System Finding
C1291044
CDISC
NICHD
Symptoms, physical examination results, and/or laboratory test results related to the integumentary system. (NCI)
Integumentary_System_Finding
Integumentary System Finding
INTEGUMENTARY SYSTEM
Integumentary System Finding
Skin Finding
Integumentary System Finding
An anatomic abnormality that is either present at birth or appears later in life.
C36287
Anatomical Abnormality
Disease or Syndrome
Congenital or Acquired Anatomic Abnormality
C0302142
CDISC
NICHD
A permanent structural change that is likely to adversely affect the form, survival or health of the species under study. (Gupta, R. C. ed. (2011) Reproductive and Developmental Toxicology. London, UK: Elsevier, Inc.)
Congenital_or_Acquired_Anatomic_Abnormality
Congenital or Acquired Anatomic Abnormality
Anatomic Abnormality
Anatomical Abnormality
Congenital or Acquired Anatomic Abnormality
Congenital or Acquired Anatomical Abnormality
Deformity
MALFORMATION
Congenital or Acquired Anatomic Abnormality
C36291
Finding
Finding by Cause
C1333617
Header_Concept
Finding_by_Cause
Finding by Cause
Finding by Cause
C36295
Finding
Other Finding
C1335151
Header_Concept
Other_Finding
Other Finding
Other Finding
Cutaneous Involvement
Any unfavorable or unintended disease, sign, or symptom (including an abnormal laboratory finding) that is temporally associated with the use of a medical treatment or procedure, and that may or may not be considered related to the medical treatment or procedure. Such events can be related to the intervention, dose, route of administration, patient, or caused by an interaction with another drug(s) or procedure(s).
C41331
Finding
Adverse Event
C0877248
BRIDG
CDISC
CDISC-GLOSS
FDA
An unexpected medical problem that happens during treatment with a drug or other therapy. Adverse effects do not have to be caused by the drug or therapy, and they may be mild, moderate, or severe.
Any unfavorable and unintended sign, symptom, disease, or other medical occurrence with a temporal association with the use of a medical product, procedure or other therapy, or in conjunction with a research study, regardless of causal relationship. EXAMPLE(S): death, back pain, headache, pulmonary embolism, heart attack
Any unfavorable or unintended disease, sign, or symptom (including an abnormal laboratory finding) that is temporally associated with the use of a medical treatment or procedure, and that may or may not be considered related to the medical treatment or procedure. Such events can be related to the intervention, dose, route of administration, patient, or caused by an interaction with another drug(s) or procedure(s).
Any untoward medical occurrence in a patient or clinical investigation subject administered a pharmaceutical product and which does not necessarily have a causal relationship with this treatment. An adverse event (AE) can therefore be any unintended sign (including an abnormal laboratory finding), symptom, or disease temporally associated with the use of a medicinal (investigational) product, whether or not related to the medicinal (investigational) product. NOTE: For further information, see the ICH Guideline for Clinical Safety Data Management: Definitions and Standards for Expedited Reporting. [Modified from ICH E2A] Synonyms: side effect, adverse experience. See also serious adverse event, serious adverse experience. (CDISC glossary)
Any untoward medical occurrence in a patient or clinical investigation subject administered a pharmaceutical product and which does not necessarily have a causal relationship with this treatment. an adverse event (AE) can therefore be any unintended sign (including an abnormal laboratory finding), symptom, or disease temporally associated with the use of a medicinal (investigational) product, whether or not related to the medicinal (investigational) product. NOTE: For further information, see the ICH Guideline for Clinical safety Data Management: Definitions and standards for expedited Reporting. [After ICH E2A] See also serious adverse event, serious adverse experience.
Adverse_Event
ADVERSE EVENT
AE
Adverse Event
Adverse Experience
AdverseEvent
adverse event
adverse event (AE)
adverse experience
side effects
Adverse Event
Substance
A localized collection of blood, usually clotted, in an organ, space, or tissue, due to a break in the wall of a blood vessel.
C50579
Finding
Hematoma
C0018944
Patient Code (Appendix B)
CTCAE
FDA
MedDRA
NICHD
A disorder characterized by a localized collection of blood, usually clotted, in an organ, space, or tissue, due to a break in the wall of a blood vessel.
A localized collection of blood, usually clotted, in an organ, space, or tissue, due to a break in the wall of a blood vessel.
A localized collection of extra vascular blood.
A pool of clotted or partially clotted blood in an organ, tissue, or body space, usually caused by a broken blood vessel.
Hematoma
Hematoma
Hematoma
hematoma
Hematoma
Narrowing or stricture of a vessel, duct or canal.
C50754
Finding
Stenosis
C1261287
Patient Code (Appendix B)
FDA
MedDRA
NICHD
Narrowing of the luminal diameter in a tubular organ or structure.
Narrowing or stricture of a duct or canal.
Stenosis
Stenosis
Stenosis
Stricture
Stenosis
Objective evidence of disease perceptible to the examining healthcare provider.
C53458
Finding
Sign
C0311392
Sign
Sign
Sign
Any disorder other than abnormal tissue growth resulting from uncontrolled cell proliferation.
C53529
Disease or Syndrome
Non-Neoplastic Disorder
C1709246
CDISC
CTEP
Any disorder other than abnormal tissue growth resulting from uncontrolled cell proliferation. (NCI)
Non-Neoplastic_Disorder
NON-NEOPLASTIC
Non-Neoplastic Disease
Non-Neoplastic Disorder
Non-neoplastic Disorder
Non-neoplastic condition, NOS
Non-neoplastic disorder, NOS
Non-Neoplastic Disorder
C53531
Disease or Syndrome
Non-Neoplastic Disorder by Site
C1709247
Non-Neoplastic_Disorder_by_Site
Non-Neoplastic Disease by Site
Non-Neoplastic Disorder by Site
Non-Neoplastic Disorder by Site
C53547
Disease or Syndrome
Non-Neoplastic Disorder by Special Category
C1709248
Non-Neoplastic_Disorder_by_Special_Category
Non-Neoplastic Disease by Special Category
Non-Neoplastic Disorder by Special Category
Non-Neoplastic Disorder by Special Category
FDA Patient Problem Code Hierarchy
A condition that is relevant to human neoplasms and non-neoplastic disorders. This includes observations, test results, history and other concepts relevant to the characterization of human pathologic conditions.
C7057
Conceptual Entity
Disease, Disorder or Finding
C1511989
Diseases_Disorders_and_Findings
Disease, Disorder or Finding
Disease, Disorder or Finding
A bacterial infectious process affecting the soft tissues. A severe form caused by anaerobic or aerobic bacteria is associated with soft tissues necrosis and affects the subcutaneous adipose tissue, muscles, fascia, and the skin.
C79745
Disease or Syndrome
Soft Tissue Infection
C0149778
A disorder characterized by an infectious process involving soft tissues.
Soft_Tissue_Infection
Soft Tissue Infection
Soft tissue infection
软组织感染
A finding resulting from the examination of a tissue sample under light or electron microscopy.
C83490
Finding
Microscopic Finding
C2827068
Microscopic_Finding
Microscopic Finding
Microscopic Finding
Pediatric Disorder
Pediatric Terminology
An infectious or non infectious disorder characterized by signs and symptoms derived from focal or extensive tissue infiltration by acute (e.g., polymorphonuclear) or chronic (e.g., lymphocytic-plasmacytic) inflammatory cells. Representative examples of infectious disorders include viral infections, bacterial infections, and parasitic infections. Representative examples of non-infectious inflammatory disorders include inflammatory bowel disease and inflammatory polyps.
C93210
Disease or Syndrome
Inflammatory Disorder
C1290884
Inflammatory Disease
Inflammatory Disorder
Inflammatory Disorder
Inflammation of the hair follicles. Causes include excessive perspiration, skin infections, and skin wounds.
C94408
Disease or Syndrome
Folliculitis
C0016436
NICHD
Inflammation of a follicle (a sac or pouch-like cavity), usually a hair follicle.
Inflammation of the hair follicles.
Folliculitis
Folliculitis
folliculitis
Folliculitis
A cyst-like structure that lacks an epithelial lining.
C97117
Finding
Pseudocyst
C0333161
Pseudocyst
Pseudocyst
Bacterial infection of the hair follicle and the surrounding skin. It is caused by Staphylococcus aureus. It presents as a painful, erythematous and swollen skin lesion.
C99087
Disease or Syndrome
Furuncle
C0242301
Boil
Furuncle
疖
FMA:54832
颞下颌关节
特征
PATO:0002097
quality
恶性
quality
良性
quality
后天性
quality
先天性
quality
光化性
quality
化学性
PATO:0001513
quality
弥漫性
quality
阻塞性
PATO:0002105
quality
出血性
quality
感染性
PATO:0002125
quality
结节性
quality
非感染性
PATO:0001448
quality
骨化
H60.000
外耳脓肿
H60.001
外耳疖
H60.002
外耳痈
H60.100
外耳蜂窝组织炎
H60.200
恶性外耳炎
H60.300
感染性外耳炎,其他的
H60.301
出血性外耳炎
H60.302
弥漫性外耳炎
H60.303
游泳者耳病
H60.400
外耳胆脂瘤
H60.401
外耳肉芽肿
H60.402
外耳阻塞性角化病
H60.403
外耳道肉芽肿
H60.500
急性外耳炎,非感染性
H60.501
外耳湿疹
H60.502
急性光化性外耳炎
H60.503
急性化学性外耳炎
H60.800
外耳炎,其他特指的
H60.801
慢性外耳炎
H60.900
外耳炎
H60.901
外耳道炎
H61.000
外耳软骨膜炎
H61.001
慢性结节性耳轮软骨皮炎
H61.002
耳廓瘢痕
H61.100
耳廓非感染性疾患
H61.101
后天性外耳畸形
H61.102
耳廓瘘
H61.103
耳廓假性囊肿
H61.104
耳后血肿骨化
H61.105
耳廓肿物
H61.200
耵聍栓塞
H61.300
后天性外耳道狭窄
H61.800
外耳其他特指的疾患
H61.801
颞下颌关节外耳道疝
H61.802
外耳道外生骨疣
H61.803
外耳瘘
H61.804
外耳道角化症
H61.805
外耳道坏死
H61.806
外耳道囊肿
H61.900
外耳异常
H61.901
外耳道肿物
H61.902
后天性外耳道闭锁
disease quality
疾病特性
栓塞性
修饰
其他的
其他特指的
空间位置
在 的后面
在 的前面
在 的上面
在 的下面
外耳疾患
外耳道疾患
病理
carbuncle
carbuncle
An infection of cutaneous and subcutaneous tissue that consists of a cluster of boils. Commonly, the causative agent is staphylococcus aureus. Carbuncles produce fever, leukocytosis, extreme pain, and prostration. [database_cross_reference: MESH:D002270]
DOID:2176; ICD9:680.9; ICD9:680.8; EFO:1000674; UMLS:C0007078; SCTID:416893007; MESH:D002270
carbuncle and furuncle of leg except foot; carbuncle and furuncle of gluteal region; carbuncle and furuncle of neck; carbuncle and furuncle of hand; carbuncle and furuncle of face; carbuncle and furuncle of buttock; carbuncle and furuncle of trunk; carbuncle and furuncle of upper arm and forearm; carbuncle and furuncle of foot; carbuncle and furuncle of any part of face except eye
痈
planned process
planned process
Injecting mice with a vaccine in order to test its efficacy
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)
计划性过程
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.
评估性角色
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
企图
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
A dependent entity that inheres in a bearer by virtue of how the bearer is related to other entities
PATO:0000072
trait
quality
PATO:0000001
特性
A quality of a process inhering in a bearer by virtue of the bearer's having a sudden onset, sharp rise, and short course.
quality
PATO:0000389
急性
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.
过程特性
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
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.
对象的物理特性
A process quality inhering in a bearer by virtue of the bearer's magnitude of the temporal extent between the starting and ending point.
PATO:0000081
period
quality
time
PATO:0001309
时限
A duration quality of a process inhering in a bearer by virtue of the bearer's having slow progressive course of indefinite duration.
quality
PATO:0001863
慢性
george
2009-06-05T09:16:46Z
quality
PATO:0002062
物理的过程特性
A quality of a single process inhering in a bearer by virtue of the bearer's having an onset and time course between acute and chronic.
george
2009-10-05T11:31:35Z
quality
PATO:0002091
亚急性
疾病
example to be eventually removed
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
term created to ease viewing/sort terms for development purpose, and will not be included in a release
PERSON:Alan Ruttenberg
organizational term
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
Class is being worked on; however, the metadata (including definition) are not complete or sufficiently clear to the branch editors.
metadata incomplete
Nothing done yet beyond assigning a unique class ID and proposing a preferred term.
uncurated
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
Terms with this status should eventually replaced with a term from another ontology.
Alan Ruttenberg
group:OBI
to be replaced with external ontology term
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
## 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
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
Philip Lord
Philippe Rocca-Serra
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/
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.
2018-08-27
24:07:2008 15:29
fma
1.2
this is an ALPHA version of the FMA2.0 in obo. Conversion based on http://www.bioontology.org/wiki/index.php/FMAInOwl
07:02:2018 10:27
quality
1.2
segerdel
OBO-Edit 2.3.1
OBO Relations Ontology
The OBO Relations Ontology (RO) is a collection of OWL relations (ObjectProperties) intended for use across a wide variety of biological ontologies.
Includes Ontology(OntologyID(Anonymous-21)) [Axioms: 26 Logical Axioms: 0]
https://github.com/oborel/obo-relations/
Includes Ontology(OntologyID(Anonymous-21)) [Axioms: 32 Logical Axioms: 0]