OGG-Bac: Ontology of Bacterial Genes and Genomes
type: Ontology
date: 5-15-2019
license: http://creativecommons.org/licenses/by/3.0/
description: OGG-Bac is a branch of the Ontology of Genes and Genomes (OGG) with the focus on bacteria.
version info: Vision Release: 1.0.01
subject: Ontology of Bacterial Genes and Genomes
creator: Yongqun "Oliver" He (YH)
creator: Meng Liu

BFO OWL specification label
type: AnnotationProperty
definition: 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.
curator note: Really of interest to developers only
sub property of: label

BFO CLIF specification label
type: AnnotationProperty
definition: Relates an entity in the ontology to the term that is used to represent it in the the CLIF specification of BFO2
definition source: Person:Alan Ruttenberg
curator note: Really of interest to developers only
sub property of: label

editor preferred term
type: AnnotationProperty
editor preferred term: editor preferred term
has curation status: IAO_0000122
definition: The concise, meaningful, and human-friendly name for a class or property preferred by the ontology developers. (US-English)
term editor: PERSON:Daniel Schober
definition source: GROUP:OBI:<http://purl.obolibrary.org/obo/obi>

example of usage
type: AnnotationProperty
editor preferred term: example
has curation status: IAO_0000122
definition: A phrase describing how a class name should be used. May also include other kinds of examples that facilitate immediate understanding of a class semantics, such as widely known prototypical subclasses or instances of the class. Although essential for high level terms, examples for low level terms (e.g., Affymetrix HU133 array) are not
term editor: PERSON:Daniel Schober
definition source: GROUP:OBI:<http://purl.obolibrary.org/obo/obi>

has curation status
type: AnnotationProperty
editor preferred term: has curation status
term editor: PERSON:Alan Ruttenberg
term editor: PERSON:Bill Bug
term editor: PERSON:Melanie Courtot
definition source: OBI_0000281

definition
type: AnnotationProperty
editor preferred term: definition
has curation status: IAO_0000122
definition: The official definition, explaining the meaning of a class or property. Shall be Aristotelian, formalized and normalized. Can be augmented with colloquial definitions.
term editor: PERSON:Daniel Schober
definition source: GROUP:OBI:<http://purl.obolibrary.org/obo/obi>

editor note
type: AnnotationProperty
editor preferred term: editor note
has curation status: IAO_0000122
definition: 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.
term editor: PERSON:Daniel Schober
definition source: GROUP:OBI:<http://purl.obfoundry.org/obo/obi>

term editor
type: AnnotationProperty
editor preferred term: term editor
has curation status: IAO_0000122
definition: 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
editor note: 20110707, MC: label update to term editor and definition modified accordingly. See http://code.google.com/p/information-artifact-ontology/issues/detail?id=115.
term editor: PERSON:Daniel Schober
definition source: GROUP:OBI:<http://purl.obolibrary.org/obo/obi>

alternative term
type: AnnotationProperty
has curation status: IAO_0000125

definition source
type: AnnotationProperty
editor preferred term: definition source
has curation status: IAO_0000122
definition: 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
term editor: PERSON:Daniel Schober
definition source: Discussion on obo-discuss mailing-list, see http://bit.ly/hgm99w
definition source: GROUP:OBI:<http://purl.obolibrary.org/obo/obi>

curator note
type: AnnotationProperty

imported from
type: AnnotationProperty

elucidation
type: AnnotationProperty

has associated axiom(nl)
type: AnnotationProperty

has associated axiom(fol)
type: AnnotationProperty

has axiom label
type: AnnotationProperty

symbol from nomenclature authority
type: AnnotationProperty
definition: the symbol assigned by the nomenclature authority
term editor: Oliver He, Yue Liu

full name from nomenclature authority
type: AnnotationProperty
definition: the full name assigned by the nomenclature authority
term editor: Oliver He, Yue Liu

NCBI GeneID
type: AnnotationProperty
definition: A GeneID in the NCBI Gene database
term editor: Oliver He, Yue Liu

NCBI LocusTag
type: AnnotationProperty
definition: the NCBI LocusTag name of a gene
term editor: Oliver He, Yue Liu

gene map location
type: AnnotationProperty
definition: the map location of a gene
term editor: Oliver He, Yue Liu

modification date
type: AnnotationProperty
definition: a date of content modification
term editor: Oliver He, Yue Liu

organism NCBITaxon ID
type: AnnotationProperty
definition: The NCBITaxon ontology ID of an organism.
term editor: Oliver He, Yue Liu

chromosome ID of gene
type: AnnotationProperty
definition: A chromosome ID where a gene is located.
term editor: Oliver He

type of gene
type: AnnotationProperty
definition: an annotation property that specifies the type of a gene
term editor: Oliver He

nomenclature status
type: AnnotationProperty
definition: an annotation property that specifies a nomenclature status
term editor: Oliver He

has GO association
type: AnnotationProperty
definition: an annotation property that shows the GO information associated with a specific gene.
term editor: Yongqun He
comment: YH: use the convention: GO_ID (EC: xx; Qualifier: xx; PMID: xxxxx;) where GO_ID is a GO ID, EC is the Evidence Code, Qualifier is a specific association type, and PMID is a PubMed ID of a paper that supports the gene-GO association.
domain: gene

has PubMed association
type: AnnotationProperty
definition: An annotation property that represents a gene's association with PubMed publication(s).
term editor: Yongqun He
comment: YH: use the format: PMID: pmid1, pmid2, ... where pmid1 and pmid2 are specfic PubMed IDs (PMIDs).

temporal interpretation
type: AnnotationProperty
definition: 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.
sub property of: RO_0002422

has_rank
type: AnnotationProperty
definition: A metadata relation between a class and its taxonomic rank (eg species, family)
has_obo_namespace: ncbi_taxonomy

has_alternative_id
type: AnnotationProperty

has_broad_synonym
type: AnnotationProperty

database_cross_reference
type: AnnotationProperty

has_exact_synonym
type: AnnotationProperty

has_obo_namespace
type: AnnotationProperty

has_related_synonym
type: AnnotationProperty

has part
type: ObjectProperty
type: TransitiveProperty
editor preferred term: has part
alternative term: has_part
imported from: OGG: Ontology of Genes and Genomes
imported from: ro.owl
temporal interpretation: RO_0001901

inheres in at all times
type: ObjectProperty
sub property of: specifically depends on at all times
domain: specifically dependent continuant
range: Class
  intersection of: independent continuant
  intersection of: Class
    complement of: spatial region
BFO OWL specification label: inheres-in_at
BFO CLIF specification label: inheresInAt
definition: b inheres_in c at t =Def. b is a dependent continuant & c is an independent continuant that is not a spatial region & b s-depends_on c at t. (axiom label in BFO2 Reference: [051-002])
editor note: Alan Ruttenberg: This is a binary version of a ternary time-indexed, instance-level, relation. The BFO reading of the binary relation 'inheres in at all times@en' is: forall(t) exists_at(x,t) -> exists_at(y,t) and 'inheres in@en(x,y,t)'.
editor note: BFO 2 Reference: Inherence is a subrelation of s-depends_on which holds between a dependent continuant and an independent continuant that is not a spatial region. Since dependent continuants cannot migrate from one independent continuant bearer to another, it follows that if b s-depends_on independent continuant c at some time, then b s-depends_on c at all times at which a exists. Inherence is in this sense redundantly time-indexed.For example, consider the particular instance of openness inhering in my mouth at t as I prepare to take a bite out of a donut, followed by a closedness at t+1 when I bite the donut and start chewing. The openness instance is then shortlived, and to say that it s-depends_on my mouth at all times at which this openness exists, means: at all times during this short life. Every time you make a fist, you make a new (instance of the universal) fist. (Every time your hand has the fist-shaped quality, there is created a new instance of the universal fist-shaped quality.)
editor note: BFO2 Reference: independent continuant that is not a spatial region
editor note: BFO2 Reference: specifically dependent continuant
imported from: OGG: Ontology of Genes and Genomes
has associated axiom(fol): (iff (inheresInAt a b t) (and (DependentContinuant a) (IndependentContinuant b) (not (SpatialRegion b)) (specificallyDependsOnAt a b t))) // axiom label in BFO2 CLIF: [051-002]

Axiom
annotated source: inheres in at all times
annotated property: definition
annotated target: b inheres_in c at t =Def. b is a dependent continuant & c is an independent continuant that is not a spatial region & b s-depends_on c at t. (axiom label in BFO2 Reference: [051-002])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/051-002

Axiom
annotated source: inheres in at all times
annotated property: has associated axiom(fol)
annotated target: (iff (inheresInAt a b t) (and (DependentContinuant a) (IndependentContinuant b) (not (SpatialRegion b)) (specificallyDependsOnAt a b t))) // axiom label in BFO2 CLIF: [051-002]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/051-002

bearer of at some time
type: ObjectProperty
sub property of: has specific dependent at some time
domain: Class
  intersection of: independent continuant
  intersection of: Class
    complement of: spatial region
range: specifically dependent continuant
BFO OWL specification label: bearer-of_st
BFO CLIF specification label: bearerOfAt
definition: b bearer_of c at t =Def. c s-depends_on b at t & b is an independent continuant that is not a spatial region. (axiom label in BFO2 Reference: [053-004])
editor note: Alan Ruttenberg: This is a binary version of a ternary time-indexed, instance level, relation. The BFO reading of the binary relation 'bearer of at some time@en' is: exists t, exists_at(x,t) & exists_at(y,t) & 'bearer of@en'(x,y,t)
editor note: BFO2 Reference: independent continuant that is not a spatial region
editor note: BFO2 Reference: specifically dependent continuant
has associated axiom(fol): (iff (bearerOfAt a b t) (and (specificallyDependsOnAt b a t) (IndependentContinuant a) (not (SpatialRegion a)) (existsAt b t))) // axiom label in BFO2 CLIF: [053-004]

Axiom
annotated source: bearer of at some time
annotated property: definition
annotated target: b bearer_of c at t =Def. c s-depends_on b at t & b is an independent continuant that is not a spatial region. (axiom label in BFO2 Reference: [053-004])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/053-004

Axiom
annotated source: bearer of at some time
annotated property: has associated axiom(fol)
annotated target: (iff (bearerOfAt a b t) (and (specificallyDependsOnAt b a t) (IndependentContinuant a) (not (SpatialRegion a)) (existsAt b t))) // axiom label in BFO2 CLIF: [053-004]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/053-004

realized in
type: ObjectProperty
inverse of: realizes
domain: realizable entity
range: process
BFO OWL specification label: realized-in
BFO CLIF specification label: realizedIn
elucidation: [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])
has associated axiom(nl): if a realizable entity b is realized in a process p, then p stands in the has_participant relation to the bearer of b. (axiom label in BFO2 Reference: [106-002])
has associated axiom(fol): (forall (x y z t) (if (and (RealizableEntity x) (Process y) (realizesAt y x t) (bearerOfAt z x t)) (hasParticipantAt y z t))) // axiom label in BFO2 CLIF: [106-002]

Axiom
annotated source: realized in
annotated property: has associated axiom(nl)
annotated target: if a realizable entity b is realized in a process p, then p stands in the has_participant relation to the bearer of b. (axiom label in BFO2 Reference: [106-002])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/106-002

Axiom
annotated source: realized in
annotated property: has associated axiom(fol)
annotated target: (forall (x y z t) (if (and (RealizableEntity x) (Process y) (realizesAt y x t) (bearerOfAt z x t)) (hasParticipantAt y z t))) // axiom label in BFO2 CLIF: [106-002]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/106-002

realizes
type: ObjectProperty
domain: process
range: realizable entity
BFO OWL specification label: realizes
BFO CLIF specification label: realizes
elucidation: 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])
has associated axiom(fol): (forall (x y t) (if (realizesAt x y t) (and (Process x) (or (Disposition y) (Role y)) (exists (z) (and (MaterialEntity z) (hasParticipantAt x z t) (bearerOfAt z y t)))))) // axiom label in BFO2 CLIF: [059-003]

Axiom
annotated source: realizes
annotated property: elucidation
annotated target: 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])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/059-003

Axiom
annotated source: realizes
annotated property: has associated axiom(fol)
annotated target: (forall (x y t) (if (realizesAt x y t) (and (Process x) (or (Disposition y) (Role y)) (exists (z) (and (MaterialEntity z) (hasParticipantAt x z t) (bearerOfAt z y t)))))) // axiom label in BFO2 CLIF: [059-003]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/059-003

participates in at some time
type: ObjectProperty
inverse of: has participant at some time
domain: Class
  intersection of: continuant
  intersection of: Class
    complement of: spatial region
range: process
BFO OWL specification label: participates-in_st
BFO CLIF specification label: participatesInAt
editor note: [copied from inverse property 'has participant at some time'] Alan Ruttenberg: This is a binary version of a ternary time-indexed, instance level, relation. The BFO reading of the binary relation 'has participant at some time@en' is: exists t, exists_at(x,t) & exists_at(y,t) & 'has participant@en'(x,y,t)
editor note: [copied from inverse property 'has participant at some time'] BFO 2 Reference: Spatial regions do not participate in processes.
editor note: [copied from inverse property 'has participant at some time'] BFO2 Reference: independent continuant that is not a spatial region, specifically dependent continuant, generically dependent continuant
editor note: [copied from inverse property 'has participant at some time'] BFO2 Reference: process
elucidation: [copied from inverse property 'has participant at some time'] has_participant is an instance-level relation between a process, a continuant, and a temporal region at which the continuant participates in some way in the process. (axiom label in BFO2 Reference: [086-003])

has participant at some time
type: ObjectProperty
domain: process
range: Class
  intersection of: continuant
  intersection of: Class
    complement of: spatial region
property chain axiom: realizes
property chain axiom: inheres in at all times
BFO OWL specification label: has-participant_st
BFO CLIF specification label: hasParticipantAt
editor note: Alan Ruttenberg: This is a binary version of a ternary time-indexed, instance level, relation. The BFO reading of the binary relation 'has participant at some time@en' is: exists t, exists_at(x,t) & exists_at(y,t) & 'has participant@en'(x,y,t)
editor note: BFO 2 Reference: Spatial regions do not participate in processes.
editor note: BFO2 Reference: independent continuant that is not a spatial region, specifically dependent continuant, generically dependent continuant
editor note: BFO2 Reference: process
elucidation: has_participant is an instance-level relation between a process, a continuant, and a temporal region at which the continuant participates in some way in the process. (axiom label in BFO2 Reference: [086-003])
has associated axiom(nl): if b has_participant c at t & c is a generically dependent continuant, then there is some independent continuant that is not a spatial region d, and which is such that c g-depends on d at t & b s-depends_on d at t. (axiom label in BFO2 Reference: [091-003])
has associated axiom(nl): if b has_participant c at t & c is a specifically dependent continuant, then there is some independent continuant that is not a spatial region d, c s-depends_on d at t & b s-depends_on d at t. (axiom label in BFO2 Reference: [090-003])
has associated axiom(nl): if b has_participant c at t then b is an occurrent. (axiom label in BFO2 Reference: [087-001])
has associated axiom(nl): if b has_participant c at t then c exists at t. (axiom label in BFO2 Reference: [089-001])
has associated axiom(nl): if b has_participant c at t then c is a continuant. (axiom label in BFO2 Reference: [088-001])
has associated axiom(fol): (forall (x y t) (if (and (hasParticipantAt x y t) (GenericallyDependentContinuant y)) (exists (z) (and (IndependentContinuant z) (not (SpatialRegion z)) (genericallyDependsOn y z t) (specificallyDependsOnAt x z t))))) // axiom label in BFO2 CLIF: [091-003]
has associated axiom(fol): (forall (x y t) (if (and (hasParticipantAt x y t) (SpecificallyDependentContinuant y)) (exists (z) (and (IndependentContinuant z) (not (SpatialRegion z)) (specificallyDependsOnAt x z t) (specificallyDependsOnAt y z t))))) // axiom label in BFO2 CLIF: [090-003]
has associated axiom(fol): (forall (x y t) (if (hasParticipantAt x y t) (Continuant y))) // axiom label in BFO2 CLIF: [088-001]
has associated axiom(fol): (forall (x y t) (if (hasParticipantAt x y t) (Occurrent x))) // axiom label in BFO2 CLIF: [087-001]
has associated axiom(fol): (forall (x y t) (if (hasParticipantAt x y t) (existsAt y t))) // axiom label in BFO2 CLIF: [089-001]

Axiom
annotated source: has participant at some time
annotated property: elucidation
annotated target: has_participant is an instance-level relation between a process, a continuant, and a temporal region at which the continuant participates in some way in the process. (axiom label in BFO2 Reference: [086-003])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/086-003

Axiom
annotated source: has participant at some time
annotated property: has associated axiom(nl)
annotated target: if b has_participant c at t & c is a generically dependent continuant, then there is some independent continuant that is not a spatial region d, and which is such that c g-depends on d at t & b s-depends_on d at t. (axiom label in BFO2 Reference: [091-003])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/091-003

Axiom
annotated source: has participant at some time
annotated property: has associated axiom(nl)
annotated target: if b has_participant c at t & c is a specifically dependent continuant, then there is some independent continuant that is not a spatial region d, c s-depends_on d at t & b s-depends_on d at t. (axiom label in BFO2 Reference: [090-003])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/090-003

Axiom
annotated source: has participant at some time
annotated property: has associated axiom(nl)
annotated target: if b has_participant c at t then b is an occurrent. (axiom label in BFO2 Reference: [087-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/087-001

Axiom
annotated source: has participant at some time
annotated property: has associated axiom(nl)
annotated target: if b has_participant c at t then c exists at t. (axiom label in BFO2 Reference: [089-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/089-001

Axiom
annotated source: has participant at some time
annotated property: has associated axiom(nl)
annotated target: if b has_participant c at t then c is a continuant. (axiom label in BFO2 Reference: [088-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/088-001

Axiom
annotated source: has participant at some time
annotated property: has associated axiom(fol)
annotated target: (forall (x y t) (if (and (hasParticipantAt x y t) (GenericallyDependentContinuant y)) (exists (z) (and (IndependentContinuant z) (not (SpatialRegion z)) (genericallyDependsOn y z t) (specificallyDependsOnAt x z t))))) // axiom label in BFO2 CLIF: [091-003]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/091-003

Axiom
annotated source: has participant at some time
annotated property: has associated axiom(fol)
annotated target: (forall (x y t) (if (and (hasParticipantAt x y t) (SpecificallyDependentContinuant y)) (exists (z) (and (IndependentContinuant z) (not (SpatialRegion z)) (specificallyDependsOnAt x z t) (specificallyDependsOnAt y z t))))) // axiom label in BFO2 CLIF: [090-003]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/090-003

Axiom
annotated source: has participant at some time
annotated property: has associated axiom(fol)
annotated target: (forall (x y t) (if (hasParticipantAt x y t) (Continuant y))) // axiom label in BFO2 CLIF: [088-001]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/088-001

Axiom
annotated source: has participant at some time
annotated property: has associated axiom(fol)
annotated target: (forall (x y t) (if (hasParticipantAt x y t) (Occurrent x))) // axiom label in BFO2 CLIF: [087-001]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/087-001

Axiom
annotated source: has participant at some time
annotated property: has associated axiom(fol)
annotated target: (forall (x y t) (if (hasParticipantAt x y t) (existsAt y t))) // axiom label in BFO2 CLIF: [089-001]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/089-001

concretized by at some time
type: ObjectProperty
inverse of: concretizes at some time
domain: generically dependent continuant
range: specifically dependent continuant
BFO OWL specification label: concretized-by_st
example of usage: [copied from inverse property 'concretizes at some time'] You may concretize a piece of software by installing it in your computer
example of usage: [copied from inverse property 'concretizes at some time'] You may concretize a recipe that you find in a cookbook by turning it into a plan which exists as a realizable dependent continuant in your head.
example of usage: [copied from inverse property 'concretizes at some time'] you may concretize a poem as a pattern of memory traces in your head
editor note: [copied from inverse property 'concretizes at some time'] Alan Ruttenberg: This is a binary version of a ternary time-indexed, instance level, relation. The BFO reading of the binary relation 'concretizes at some time@en' is: exists t, exists_at(x,t) & exists_at(y,t) & 'concretizes@en'(x,y,t)
imported from: OGG: Ontology of Genes and Genomes
elucidation: [copied from inverse property 'concretizes at some time'] b concretizes c at t means: b is a specifically dependent continuant & c is a generically dependent continuant & for some independent continuant that is not a spatial region d, b s-depends_on d at t & c g-depends on d at t & if c migrates from bearer d to another bearer e than a copy of b will be created in e. (axiom label in BFO2 Reference: [075-002])

concretizes at some time
type: ObjectProperty
domain: specifically dependent continuant
range: generically dependent continuant
BFO OWL specification label: concretizes_st
BFO CLIF specification label: concretizesAt
example of usage: You may concretize a piece of software by installing it in your computer
example of usage: You may concretize a recipe that you find in a cookbook by turning it into a plan which exists as a realizable dependent continuant in your head.
example of usage: you may concretize a poem as a pattern of memory traces in your head
editor note: Alan Ruttenberg: This is a binary version of a ternary time-indexed, instance level, relation. The BFO reading of the binary relation 'concretizes at some time@en' is: exists t, exists_at(x,t) & exists_at(y,t) & 'concretizes@en'(x,y,t)
imported from: OGG: Ontology of Genes and Genomes
elucidation: b concretizes c at t means: b is a specifically dependent continuant & c is a generically dependent continuant & for some independent continuant that is not a spatial region d, b s-depends_on d at t & c g-depends on d at t & if c migrates from bearer d to another bearer e than a copy of b will be created in e. (axiom label in BFO2 Reference: [075-002])
has associated axiom(nl): if b g-depends on c at some time t, then there is some d, such that d concretizes b at t and d s-depends_on c at t. (axiom label in BFO2 Reference: [076-001])
has associated axiom(fol): (forall (x y t) (if (concretizesAt x y t) (and (SpecificallyDependentContinuant x) (GenericallyDependentContinuant y) (exists (z) (and (IndependentContinuant z) (specificallyDependsOnAt x z t) (genericallyDependsOnAt y z t)))))) // axiom label in BFO2 CLIF: [075-002]
has associated axiom(fol): (forall (x y t) (if (genericallyDependsOnAt x y t) (exists (z) (and (concretizesAt z x t) (specificallyDependsOnAt z y t))))) // axiom label in BFO2 CLIF: [076-001]

Axiom
annotated source: concretizes at some time
annotated property: elucidation
annotated target: b concretizes c at t means: b is a specifically dependent continuant & c is a generically dependent continuant & for some independent continuant that is not a spatial region d, b s-depends_on d at t & c g-depends on d at t & if c migrates from bearer d to another bearer e than a copy of b will be created in e. (axiom label in BFO2 Reference: [075-002])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/075-002

Axiom
annotated source: concretizes at some time
annotated property: has associated axiom(nl)
annotated target: if b g-depends on c at some time t, then there is some d, such that d concretizes b at t and d s-depends_on c at t. (axiom label in BFO2 Reference: [076-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/076-001

Axiom
annotated source: concretizes at some time
annotated property: has associated axiom(fol)
annotated target: (forall (x y t) (if (concretizesAt x y t) (and (SpecificallyDependentContinuant x) (GenericallyDependentContinuant y) (exists (z) (and (IndependentContinuant z) (specificallyDependsOnAt x z t) (genericallyDependsOnAt y z t)))))) // axiom label in BFO2 CLIF: [075-002]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/075-002

Axiom
annotated source: concretizes at some time
annotated property: has associated axiom(fol)
annotated target: (forall (x y t) (if (genericallyDependsOnAt x y t) (exists (z) (and (concretizesAt z x t) (specificallyDependsOnAt z y t))))) // axiom label in BFO2 CLIF: [076-001]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/076-001

occurs in
type: ObjectProperty
inverse of: contains process
domain: Class
  union of: process
  union of: process boundary
range: Class
  union of: site
  union of: material entity
BFO OWL specification label: occurs-in
BFO CLIF specification label: occursIn
definition: b occurs_in c =def b is a process and c is a material entity or immaterial entity& there exists a spatiotemporal region r and b occupies_spatiotemporal_region r.& forall(t) if b exists_at t then c exists_at t & there exist spatial regions s and s’ where & b spatially_projects_onto s at t& c is occupies_spatial_region s’ at t& s is a proper_continuant_part_of s’ at t [XXX-001

contains process
type: ObjectProperty
domain: Class
  union of: site
  union of: material entity
range: Class
  union of: process
  union of: process boundary
BFO OWL specification label: contains-process
BFO CLIF specification label: containsProcess
definition: [copied from inverse property 'occurs in'] b occurs_in c =def b is a process and c is a material entity or immaterial entity& there exists a spatiotemporal region r and b occupies_spatiotemporal_region r.& forall(t) if b exists_at t then c exists_at t & there exist spatial regions s and s’ where & b spatially_projects_onto s at t& c is occupies_spatial_region s’ at t& s is a proper_continuant_part_of s’ at t [XXX-001

specifically depends on at all times
type: ObjectProperty
sub property of: specifically depends on at some time
BFO OWL specification label: s-depends-on_at
BFO CLIF specification label: specificallyDependsOn
example of usage: A pain s-depends_on the organism that is experiencing the pain
example of usage: a gait s-depends_on the walking object. (All at some specific time.)
example of usage: a shape s-depends_on the shaped object
example of usage: one-sided s-dependence of a dependent continuant on an independent continuant: an instance of headache s-depends_on some head
example of usage: one-sided s-dependence of a dependent continuant on an independent continuant: an instance of temperature s-depends_on some organism
example of usage: one-sided s-dependence of a process on something: a process of cell death s-depends_on a cell
example of usage: one-sided s-dependence of a process on something: an instance of seeing (a relational process) s-depends_on some organism and on some seen entity, which may be an occurrent or a continuant
example of usage: one-sided s-dependence of one occurrent on another: a process of answering a question is dependent on a prior process of asking a question
example of usage: one-sided s-dependence of one occurrent on another: a process of obeying a command is dependent on a prior process of issuing a command
example of usage: one-sided s-dependence of one occurrent on multiple independent continuants: a relational process of hitting a ball with a cricket bat
example of usage: one-sided s-dependence of one occurrent on multiple independent continuants: a relational process of paying cash to a merchant in exchange for a bag of figs
example of usage: reciprocal s-dependence between occurrents: a process of buying and the associated process of selling
example of usage: reciprocal s-dependence between occurrents: a process of increasing the volume of a portion of gas while temperature remains constant and the associated process of decreasing the pressure exerted by the gas
example of usage: reciprocal s-dependence between occurrents: in a game of chess the process of playing with the white pieces is mutually dependent on the process of playing with the black pieces
example of usage: the one-sided dependence of an occurrent on an independent continuant: football match on the players, the ground, the ball
example of usage: the one-sided dependence of an occurrent on an independent continuant: handwave on a hand
example of usage: the three-sided reciprocal s-dependence of the hue, saturation and brightness of a color [45
example of usage: the three-sided reciprocal s-dependence of the pitch, timbre and volume of a tone [45
example of usage: the two-sided reciprocal s-dependence of the roles of husband and wife [20
editor note: Alan Ruttenberg: This is a binary version of a ternary time-indexed, instance-level, relation. The BFO reading of the binary relation 'specifically depends on at all times@en' is: forall(t) exists_at(x,t) -> exists_at(y,t) and 'specifically depends on@en(x,y,t)'.
editor note: BFO 2 Reference: An entity – for example an act of communication or a game of football – can s-depends_on more than one entity. Complex phenomena for example in the psychological and social realms (such as inferring, commanding and requesting) or in the realm of multi-organismal biological processes (such as infection and resistance), will involve multiple families of dependence relations, involving both continuants and occurrents [1, 4, 28
editor note: BFO 2 Reference: S-dependence is just one type of dependence among many; it is what, in the literature, is referred to as ‘existential dependence’ [87, 46, 65, 20
editor note: BFO 2 Reference: the relation of s-depends_on does not in every case require simultaneous existence of its relata. Note the difference between such cases and the cases of continuant universals defined historically: the act of answering depends existentially on the prior act of questioning; the human being who was baptized or who answered a question does not himself depend existentially on the prior act of baptism or answering. He would still exist even if these acts had never taken place.
editor note: BFO2 Reference: specifically dependent continuant\; process; process boundary
imported from: OGG: Ontology of Genes and Genomes
elucidation: To say that b s-depends_on a at t is to say that b and c do not share common parts & b is of its nature such that it cannot exist unless c exists & b is not a boundary of c and b is not a site of which c is the host [64
has associated axiom(nl): If b is s-depends_on something at some time, then b is not a material entity. (axiom label in BFO2 Reference: [052-001])
has associated axiom(nl): If b s-depends_on something at t, then there is some c, which is an independent continuant and not a spatial region, such that b s-depends_on c at t. (axiom label in BFO2 Reference: [136-001])
has associated axiom(nl): If occurrent b s-depends_on some independent continuant c at t, then b s-depends_on c at every time at which b exists. (axiom label in BFO2 Reference: [015-002])
has associated axiom(nl): an entity does not s-depend_on any of its (continuant or occurrent) parts or on anything it is part of. (axiom label in BFO2 Reference: [013-002])
has associated axiom(nl): if b s-depends_on c at t & c s-depends_on d at t then b s-depends_on d at t. (axiom label in BFO2 Reference: [054-002])
has associated axiom(fol): (forall (x y t) (if (and (Entity x) (or (continuantPartOfAt y x t) (continuantPartOfAt x y t) (occurrentPartOf x y) (occurrentPartOf y x))) (not (specificallyDependsOnAt x y t)))) // axiom label in BFO2 CLIF: [013-002]
has associated axiom(fol): (forall (x y t) (if (and (Occurrent x) (IndependentContinuant y) (specificallyDependsOnAt x y t)) (forall (t_1) (if (existsAt x t_1) (specificallyDependsOnAt x y t_1))))) // axiom label in BFO2 CLIF: [015-002]
has associated axiom(fol): (forall (x y t) (if (specificallyDependsOnAt x y t) (exists (z) (and (IndependentContinuant z) (not (SpatialRegion z)) (specificallyDependsOnAt x z t))))) // axiom label in BFO2 CLIF: [136-001]
has associated axiom(fol): (forall (x y z t) (if (and (specificallyDependsOnAt x y t) (specificallyDependsOnAt y z t)) (specificallyDependsOnAt x z t))) // axiom label in BFO2 CLIF: [054-002]
has associated axiom(fol): (forall (x) (if (exists (y t) (specificallyDependsOnAt x y t)) (not (MaterialEntity x)))) // axiom label in BFO2 CLIF: [052-001]

Axiom
annotated source: specifically depends on at all times
annotated property: has associated axiom(nl)
annotated target: If b is s-depends_on something at some time, then b is not a material entity. (axiom label in BFO2 Reference: [052-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/052-001

Axiom
annotated source: specifically depends on at all times
annotated property: has associated axiom(nl)
annotated target: If b s-depends_on something at t, then there is some c, which is an independent continuant and not a spatial region, such that b s-depends_on c at t. (axiom label in BFO2 Reference: [136-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/136-001

Axiom
annotated source: specifically depends on at all times
annotated property: has associated axiom(nl)
annotated target: If occurrent b s-depends_on some independent continuant c at t, then b s-depends_on c at every time at which b exists. (axiom label in BFO2 Reference: [015-002])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/015-002

Axiom
annotated source: specifically depends on at all times
annotated property: has associated axiom(nl)
annotated target: an entity does not s-depend_on any of its (continuant or occurrent) parts or on anything it is part of. (axiom label in BFO2 Reference: [013-002])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/013-002

Axiom
annotated source: specifically depends on at all times
annotated property: has associated axiom(nl)
annotated target: if b s-depends_on c at t & c s-depends_on d at t then b s-depends_on d at t. (axiom label in BFO2 Reference: [054-002])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/054-002

Axiom
annotated source: specifically depends on at all times
annotated property: has associated axiom(fol)
annotated target: (forall (x y t) (if (and (Entity x) (or (continuantPartOfAt y x t) (continuantPartOfAt x y t) (occurrentPartOf x y) (occurrentPartOf y x))) (not (specificallyDependsOnAt x y t)))) // axiom label in BFO2 CLIF: [013-002]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/013-002

Axiom
annotated source: specifically depends on at all times
annotated property: has associated axiom(fol)
annotated target: (forall (x y t) (if (and (Occurrent x) (IndependentContinuant y) (specificallyDependsOnAt x y t)) (forall (t_1) (if (existsAt x t_1) (specificallyDependsOnAt x y t_1))))) // axiom label in BFO2 CLIF: [015-002]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/015-002

Axiom
annotated source: specifically depends on at all times
annotated property: has associated axiom(fol)
annotated target: (forall (x y t) (if (specificallyDependsOnAt x y t) (exists (z) (and (IndependentContinuant z) (not (SpatialRegion z)) (specificallyDependsOnAt x z t))))) // axiom label in BFO2 CLIF: [136-001]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/136-001

Axiom
annotated source: specifically depends on at all times
annotated property: has associated axiom(fol)
annotated target: (forall (x y z t) (if (and (specificallyDependsOnAt x y t) (specificallyDependsOnAt y z t)) (specificallyDependsOnAt x z t))) // axiom label in BFO2 CLIF: [054-002]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/054-002

Axiom
annotated source: specifically depends on at all times
annotated property: has associated axiom(fol)
annotated target: (forall (x) (if (exists (y t) (specificallyDependsOnAt x y t)) (not (MaterialEntity x)))) // axiom label in BFO2 CLIF: [052-001]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/052-001

function of at all times
type: ObjectProperty
sub property of: inheres in at all times
domain: function
BFO OWL specification label: f-of_at
BFO CLIF specification label: functionOfAt
definition: a function_of b at t =Def. a is a function and a inheres_in b at t. (axiom label in BFO2 Reference: [067-001])
editor note: Alan Ruttenberg: This is a binary version of a ternary time-indexed, instance-level, relation. The BFO reading of the binary relation 'function of at all times@en' is: forall(t) exists_at(x,t) -> exists_at(y,t) and 'function of@en(x,y,t)'.
has associated axiom(fol): (iff (functionOf a b t) (and (Function a) (inheresInAt a b t))) // axiom label in BFO2 CLIF: [067-001]

Axiom
annotated source: function of at all times
annotated property: definition
annotated target: a function_of b at t =Def. a is a function and a inheres_in b at t. (axiom label in BFO2 Reference: [067-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/067-001

Axiom
annotated source: function of at all times
annotated property: has associated axiom(fol)
annotated target: (iff (functionOf a b t) (and (Function a) (inheresInAt a b t))) // axiom label in BFO2 CLIF: [067-001]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/067-001

quality of at all times
type: ObjectProperty
sub property of: inheres in at all times
domain: quality
BFO OWL specification label: q-of_at
BFO CLIF specification label: qualityOfAt
definition: b quality_of c at t = Def. b is a quality & c is an independent continuant that is not a spatial region & b s-depends_on c at t. (axiom label in BFO2 Reference: [056-002])
editor note: Alan Ruttenberg: This is a binary version of a ternary time-indexed, instance-level, relation. The BFO reading of the binary relation 'quality of at all times@en' is: forall(t) exists_at(x,t) -> exists_at(y,t) and 'quality of@en(x,y,t)'.
has associated axiom(fol): (iff (qualityOfAt a b t) (and (Quality a) (IndependentContinuant b) (not (SpatialRegion b)) (specificallyDependsOnAt a b t))) // axiom label in BFO2 CLIF: [056-002]

Axiom
annotated source: quality of at all times
annotated property: definition
annotated target: b quality_of c at t = Def. b is a quality & c is an independent continuant that is not a spatial region & b s-depends_on c at t. (axiom label in BFO2 Reference: [056-002])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/056-002

Axiom
annotated source: quality of at all times
annotated property: has associated axiom(fol)
annotated target: (iff (qualityOfAt a b t) (and (Quality a) (IndependentContinuant b) (not (SpatialRegion b)) (specificallyDependsOnAt a b t))) // axiom label in BFO2 CLIF: [056-002]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/056-002

role of at all times
type: ObjectProperty
sub property of: inheres in at all times
domain: role
BFO OWL specification label: r-of_at
BFO CLIF specification label: roleOfAt
definition: a role_of b at t =Def. a is a role and a inheres_in b at t. (axiom label in BFO2 Reference: [065-001])
editor note: Alan Ruttenberg: This is a binary version of a ternary time-indexed, instance-level, relation. The BFO reading of the binary relation 'role of at all times@en' is: forall(t) exists_at(x,t) -> exists_at(y,t) and 'role of@en(x,y,t)'.
has associated axiom(fol): (iff (roleOfAt a b t) (and (Role a) (inheresInAt a b t))) // axiom label in BFO2 CLIF: [065-001]

Axiom
annotated source: role of at all times
annotated property: definition
annotated target: a role_of b at t =Def. a is a role and a inheres_in b at t. (axiom label in BFO2 Reference: [065-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/065-001

Axiom
annotated source: role of at all times
annotated property: has associated axiom(fol)
annotated target: (iff (roleOfAt a b t) (and (Role a) (inheresInAt a b t))) // axiom label in BFO2 CLIF: [065-001]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/065-001

located in at all times
type: ObjectProperty
sub property of: located in at some time
type: TransitiveProperty
BFO OWL specification label: located-in_at
BFO CLIF specification label: locatedInAt
example of usage: Mary located_in Salzburg
example of usage: the Empire State Building located_in New York.
example of usage: this portion of cocaine located_in this portion of blood
example of usage: this stem cell located_in this portion of bone marrow
example of usage: your arm located_in your body
definition: b located_in c at t = Def. b and c are independent continuants, and the region at which b is located at t is a (proper or improper) continuant_part_of the region at which c is located at t. (axiom label in BFO2 Reference: [045-001])
editor note: Alan Ruttenberg: This is a binary version of a ternary time-indexed, instance-level, relation. The BFO reading of the binary relation 'located in at all times@en' is: forall(t) exists_at(x,t) -> exists_at(y,t) and 'located in@en(x,y,t)'.
editor note: BFO2 Reference: independent continuant
has associated axiom(nl): Located_in is transitive. (axiom label in BFO2 Reference: [046-001])
has associated axiom(nl): for all independent continuants b, c, and d: if b continuant_part_of c at t & c located_in d at t, then b located_in d at t. (axiom label in BFO2 Reference: [048-001])
has associated axiom(nl): for all independent continuants b, c, and d: if b located_in c at t & c continuant_part_of d at t, then b located_in d at t. (axiom label in BFO2 Reference: [049-001])
has associated axiom(fol): (forall (x y z t) (if (and (IndependentContinuant x) (IndependentContinuant y) (IndependentContinuant z) (continuantPartOfAt x y t) (locatedInAt y z t)) (locatedInAt x z t))) // axiom label in BFO2 CLIF: [048-001]
has associated axiom(fol): (forall (x y z t) (if (and (IndependentContinuant x) (IndependentContinuant y) (IndependentContinuant z) (locatedInAt x y t) (continuantPartOfAt y z t)) (locatedInAt x z t))) // axiom label in BFO2 CLIF: [049-001]
has associated axiom(fol): (forall (x y z t) (if (and (locatedInAt x y t) (locatedInAt y z t)) (locatedInAt x z t))) // axiom label in BFO2 CLIF: [046-001]
has associated axiom(fol): (iff (locatedInAt a b t) (and (IndependentContinuant a) (IndependentContinuant b) (exists (r_1 r_2) (and (occupiesSpatialRegionAt a r_1 t) (occupiesSpatialRegionAt b r_2 t) (continuantPartOfAt r_1 r_2 t))))) // axiom label in BFO2 CLIF: [045-001]

Axiom
annotated source: located in at all times
annotated property: has associated axiom(fol)
annotated target: (forall (x y z t) (if (and (locatedInAt x y t) (locatedInAt y z t)) (locatedInAt x z t))) // axiom label in BFO2 CLIF: [046-001]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/046-001

Axiom
annotated source: located in at all times
annotated property: has associated axiom(fol)
annotated target: (iff (locatedInAt a b t) (and (IndependentContinuant a) (IndependentContinuant b) (exists (r_1 r_2) (and (occupiesSpatialRegionAt a r_1 t) (occupiesSpatialRegionAt b r_2 t) (continuantPartOfAt r_1 r_2 t))))) // axiom label in BFO2 CLIF: [045-001]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/045-001

Axiom
annotated source: located in at all times
annotated property: definition
annotated target: b located_in c at t = Def. b and c are independent continuants, and the region at which b is located at t is a (proper or improper) continuant_part_of the region at which c is located at t. (axiom label in BFO2 Reference: [045-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/045-001

Axiom
annotated source: located in at all times
annotated property: has associated axiom(nl)
annotated target: Located_in is transitive. (axiom label in BFO2 Reference: [046-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/046-001

Axiom
annotated source: located in at all times
annotated property: has associated axiom(nl)
annotated target: for all independent continuants b, c, and d: if b continuant_part_of c at t & c located_in d at t, then b located_in d at t. (axiom label in BFO2 Reference: [048-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/048-001

Axiom
annotated source: located in at all times
annotated property: has associated axiom(nl)
annotated target: for all independent continuants b, c, and d: if b located_in c at t & c continuant_part_of d at t, then b located_in d at t. (axiom label in BFO2 Reference: [049-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/049-001

Axiom
annotated source: located in at all times
annotated property: has associated axiom(fol)
annotated target: (forall (x y z t) (if (and (IndependentContinuant x) (IndependentContinuant y) (IndependentContinuant z) (continuantPartOfAt x y t) (locatedInAt y z t)) (locatedInAt x z t))) // axiom label in BFO2 CLIF: [048-001]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/048-001

Axiom
annotated source: located in at all times
annotated property: has associated axiom(fol)
annotated target: (forall (x y z t) (if (and (IndependentContinuant x) (IndependentContinuant y) (IndependentContinuant z) (locatedInAt x y t) (continuantPartOfAt y z t)) (locatedInAt x z t))) // axiom label in BFO2 CLIF: [049-001]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/049-001

occupies spatial region at some time
type: ObjectProperty
inverse of: has spatial occupant at some time
domain: independent continuant
range: spatial region
BFO OWL specification label: located-at-r_st
BFO CLIF specification label: occupiesSpatialRegionAt
editor note: Alan Ruttenberg: This is a binary version of a ternary time-indexed, instance level, relation. The BFO reading of the binary relation 'occupies spatial region at some time@en' is: exists t, exists_at(x,t) & exists_at(y,t) & 'occupies spatial region@en'(x,y,t)
editor note: BFO2 Reference: independent continuant
editor note: BFO2 Reference: spatial region
imported from: OGG: Ontology of Genes and Genomes
elucidation: b occupies_spatial_region r at t means that r is a spatial region in which independent continuant b is exactly located (axiom label in BFO2 Reference: [041-002])
has associated axiom(nl): every region r is occupies_spatial_region r at all times. (axiom label in BFO2 Reference: [042-002])
has associated axiom(nl): if b occupies_spatial_region r at t & b continuant_part_of b at t, then there is some r which is continuant_part_of r at t such that b occupies_spatial_region r at t. (axiom label in BFO2 Reference: [043-001])
has associated axiom(fol): (forall (r t) (if (Region r) (occupiesSpatialRegionAt r r t))) // axiom label in BFO2 CLIF: [042-002]
has associated axiom(fol): (forall (x r t) (if (occupiesSpatialRegionAt x r t) (and (SpatialRegion r) (IndependentContinuant x)))) // axiom label in BFO2 CLIF: [041-002]
has associated axiom(fol): (forall (x y r_1 t) (if (and (occupiesSpatialRegionAt x r_1 t) (continuantPartOfAt y x t)) (exists (r_2) (and (continuantPartOfAt r_2 r_1 t) (occupiesSpatialRegionAt y r_2 t))))) // axiom label in BFO2 CLIF: [043-001]

Axiom
annotated source: occupies spatial region at some time
annotated property: elucidation
annotated target: b occupies_spatial_region r at t means that r is a spatial region in which independent continuant b is exactly located (axiom label in BFO2 Reference: [041-002])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/041-002

Axiom
annotated source: occupies spatial region at some time
annotated property: has associated axiom(nl)
annotated target: every region r is occupies_spatial_region r at all times. (axiom label in BFO2 Reference: [042-002])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/042-002

Axiom
annotated source: occupies spatial region at some time
annotated property: has associated axiom(nl)
annotated target: if b occupies_spatial_region r at t & b continuant_part_of b at t, then there is some r which is continuant_part_of r at t such that b occupies_spatial_region r at t. (axiom label in BFO2 Reference: [043-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/043-001

Axiom
annotated source: occupies spatial region at some time
annotated property: has associated axiom(fol)
annotated target: (forall (r t) (if (Region r) (occupiesSpatialRegionAt r r t))) // axiom label in BFO2 CLIF: [042-002]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/042-002

Axiom
annotated source: occupies spatial region at some time
annotated property: has associated axiom(fol)
annotated target: (forall (x r t) (if (occupiesSpatialRegionAt x r t) (and (SpatialRegion r) (IndependentContinuant x)))) // axiom label in BFO2 CLIF: [041-002]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/041-002

Axiom
annotated source: occupies spatial region at some time
annotated property: has associated axiom(fol)
annotated target: (forall (x y r_1 t) (if (and (occupiesSpatialRegionAt x r_1 t) (continuantPartOfAt y x t)) (exists (r_2) (and (continuantPartOfAt r_2 r_1 t) (occupiesSpatialRegionAt y r_2 t))))) // axiom label in BFO2 CLIF: [043-001]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/043-001

generically depends on at some time
type: ObjectProperty
inverse of: has generic dependent at some time
domain: generically dependent continuant
range: Class
  intersection of: independent continuant
  intersection of: Class
    complement of: spatial region
BFO OWL specification label: g-depends-on_st
BFO CLIF specification label: genericallyDependsOn
editor note: Alan Ruttenberg: This is a binary version of a ternary time-indexed, instance level, relation. The BFO reading of the binary relation 'generically depends on at some time@en' is: exists t, exists_at(x,t) & exists_at(y,t) & 'generically depends on@en'(x,y,t)
editor note: BFO2 Reference: generically dependent continuant
editor note: BFO2 Reference: independent continuant
elucidation: b g-depends on c at t1 means: b exists at t1 and c exists at t1 & for some type B it holds that (c instantiates B at t1) & necessarily, for all t (if b exists at t then some instance_of B exists at t) & not (b s-depends_on c at t1). (axiom label in BFO2 Reference: [072-002])
has associated axiom(nl): if b g-depends_on c at some time t, then b g-depends_on something at all times at which b exists. (axiom label in BFO2 Reference: [073-001])
has associated axiom(fol): (forall (x y) (if (exists (t) (genericallyDependsOnAt x y t)) (forall (t_1) (if (existsAt x t_1) (exists (z) (genericallyDependsOnAt x z t_1)))))) // axiom label in BFO2 CLIF: [073-001]

Axiom
annotated source: generically depends on at some time
annotated property: elucidation
annotated target: b g-depends on c at t1 means: b exists at t1 and c exists at t1 & for some type B it holds that (c instantiates B at t1) & necessarily, for all t (if b exists at t then some instance_of B exists at t) & not (b s-depends_on c at t1). (axiom label in BFO2 Reference: [072-002])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/072-002

Axiom
annotated source: generically depends on at some time
annotated property: has associated axiom(nl)
annotated target: if b g-depends_on c at some time t, then b g-depends_on something at all times at which b exists. (axiom label in BFO2 Reference: [073-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/073-001

Axiom
annotated source: generically depends on at some time
annotated property: has associated axiom(fol)
annotated target: (forall (x y) (if (exists (t) (genericallyDependsOnAt x y t)) (forall (t_1) (if (existsAt x t_1) (exists (z) (genericallyDependsOnAt x z t_1)))))) // axiom label in BFO2 CLIF: [073-001]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/073-001

has function at some time
type: ObjectProperty
sub property of: bearer of at some time
range: function
BFO OWL specification label: has-f_st
BFO CLIF specification label: hasFunctionAt
definition: a has_function b at t =Def. b function_of a at t. (axiom label in BFO2 Reference: [070-001])
editor note: Alan Ruttenberg: This is a binary version of a ternary time-indexed, instance level, relation. The BFO reading of the binary relation 'has function at some time@en' is: exists t, exists_at(x,t) & exists_at(y,t) & 'has function@en'(x,y,t)
has associated axiom(fol): (iff (hasFunctionAt a b t) (functionOf b a t)) // axiom label in BFO2 CLIF: [070-001]

Axiom
annotated source: has function at some time
annotated property: definition
annotated target: a has_function b at t =Def. b function_of a at t. (axiom label in BFO2 Reference: [070-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/070-001

Axiom
annotated source: has function at some time
annotated property: has associated axiom(fol)
annotated target: (iff (hasFunctionAt a b t) (functionOf b a t)) // axiom label in BFO2 CLIF: [070-001]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/070-001

has quality at some time
type: ObjectProperty
sub property of: bearer of at some time
range: quality
BFO OWL specification label: has-q_st

has role at some time
type: ObjectProperty
sub property of: bearer of at some time
range: role
BFO OWL specification label: has-r_st
BFO CLIF specification label: hasRoleAt
definition: a has_role b at t =Def. b role_of a at t. (axiom label in BFO2 Reference: [068-001])
editor note: Alan Ruttenberg: This is a binary version of a ternary time-indexed, instance level, relation. The BFO reading of the binary relation 'has role at some time@en' is: exists t, exists_at(x,t) & exists_at(y,t) & 'has role@en'(x,y,t)
has associated axiom(fol): (iff (hasRoleAt a b t) (roleOfAt b a t)) // axiom label in BFO2 CLIF: [068-001]

Axiom
annotated source: has role at some time
annotated property: definition
annotated target: a has_role b at t =Def. b role_of a at t. (axiom label in BFO2 Reference: [068-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/068-001

Axiom
annotated source: has role at some time
annotated property: has associated axiom(fol)
annotated target: (iff (hasRoleAt a b t) (roleOfAt b a t)) // axiom label in BFO2 CLIF: [068-001]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/068-001

has generic dependent at some time
type: ObjectProperty
domain: Class
  intersection of: independent continuant
  intersection of: Class
    complement of: spatial region
range: generically dependent continuant
property chain axiom: has specific dependent at some time
property chain axiom: concretizes at all times
BFO OWL specification label: has-g-dep_st
editor note: [copied from inverse property 'generically depends on at some time'] Alan Ruttenberg: This is a binary version of a ternary time-indexed, instance level, relation. The BFO reading of the binary relation 'generically depends on at some time@en' is: exists t, exists_at(x,t) & exists_at(y,t) & 'generically depends on@en'(x,y,t)
editor note: [copied from inverse property 'generically depends on at some time'] BFO2 Reference: generically dependent continuant
editor note: [copied from inverse property 'generically depends on at some time'] BFO2 Reference: independent continuant
elucidation: [copied from inverse property 'generically depends on at some time'] b g-depends on c at t1 means: b exists at t1 and c exists at t1 & for some type B it holds that (c instantiates B at t1) & necessarily, for all t (if b exists at t then some instance_of B exists at t) & not (b s-depends_on c at t1). (axiom label in BFO2 Reference: [072-002])

disposition of at all times
type: ObjectProperty
sub property of: inheres in at all times
domain: disposition
BFO OWL specification label: d-of_at
BFO CLIF specification label: dispositionOfAt
definition: a disposition_of b at t =Def. a is a disposition and a inheres_in b at t. (axiom label in BFO2 Reference: [066-001])
editor note: Alan Ruttenberg: This is a binary version of a ternary time-indexed, instance-level, relation. The BFO reading of the binary relation 'disposition of at all times@en' is: forall(t) exists_at(x,t) -> exists_at(y,t) and 'disposition of@en(x,y,t)'.
has associated axiom(fol): (iff (dispositionOf a b t) (and (Disposition a) (inheresInAt a b t))) // axiom label in BFO2 CLIF: [066-001]

Axiom
annotated source: disposition of at all times
annotated property: definition
annotated target: a disposition_of b at t =Def. a is a disposition and a inheres_in b at t. (axiom label in BFO2 Reference: [066-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/066-001

Axiom
annotated source: disposition of at all times
annotated property: has associated axiom(fol)
annotated target: (iff (dispositionOf a b t) (and (Disposition a) (inheresInAt a b t))) // axiom label in BFO2 CLIF: [066-001]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/0000602
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/066-001

Axiom
annotated source: disposition of at all times
annotated property: has associated axiom(fol)
annotated target: (iff (dispositionOf a b t) (and (Disposition a) (inheresInAt a b t))) // axiom label in BFO2 CLIF: [066-001]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/066-001

exists at
type: ObjectProperty
inverse of: during which exists
domain: entity
range: temporal region
BFO OWL specification label: exists-at
BFO CLIF specification label: existsAt
editor note: BFO2 Reference: entity
editor note: BFO2 Reference: temporal region
imported from: OGG: Ontology of Genes and Genomes
elucidation: b exists_at t means: b is an entity which exists at some temporal region t. (axiom label in BFO2 Reference: [118-002])

Axiom
annotated source: exists at
annotated property: elucidation
annotated target: b exists_at t means: b is an entity which exists at some temporal region t. (axiom label in BFO2 Reference: [118-002])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/118-002

has continuant part at all times
type: ObjectProperty
sub property of: has continuant part at some time
inverse of: part of continuant at all times that whole exists
type: TransitiveProperty
BFO OWL specification label: c-has-part_at
BFO CLIF specification label: hasContinuantPartAt
definition: [copied from inverse property 'part of continuant at all times that whole exists'] forall(t) exists_at(y,t) -> exists_at(x,t) and 'part of continuant'(x,y,t)
definition: b has_continuant_part c at t = Def. c continuant_part_of b at t. (axiom label in BFO2 Reference: [006-001])
editor note: Alan Ruttenberg: This is a binary version of a ternary time-indexed, instance-level, relation. The BFO reading of the binary relation 'has continuant part at all times@en' is: forall(t) exists_at(x,t) -> exists_at(y,t) and 'has continuant part@en(x,y,t)'.
editor note: [copied from inverse property 'part of continuant at all times that whole exists'] This is a binary version of a ternary time-indexed, instance level, relation. Unlike the rest of the temporalized relations which temporally quantify over existence of the subject of the relation, this relation temporally quantifies over the existence of the object of the relation. The relation is provided tentatively, to assess whether the GO needs such a relation. It is inverse of 'has continuant part at all times'
has associated axiom(fol): (iff (hasContinuantPartAt a b t) (continuantPartOfAt b a t)) // axiom label in BFO2 CLIF: [006-001]

Axiom
annotated source: has continuant part at all times
annotated property: definition
annotated target: b has_continuant_part c at t = Def. c continuant_part_of b at t. (axiom label in BFO2 Reference: [006-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/006-001

Axiom
annotated source: has continuant part at all times
annotated property: has associated axiom(fol)
annotated target: (iff (hasContinuantPartAt a b t) (continuantPartOfAt b a t)) // axiom label in BFO2 CLIF: [006-001]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/0000602
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/006-001

Axiom
annotated source: has continuant part at all times
annotated property: has associated axiom(fol)
annotated target: (iff (hasContinuantPartAt a b t) (continuantPartOfAt b a t)) // axiom label in BFO2 CLIF: [006-001]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/006-001

has proper continuant part at all times
type: ObjectProperty
sub property of: has continuant part at all times
sub property of: has proper continuant part at some time
type: TransitiveProperty
BFO OWL specification label: c-has-ppart_at
BFO CLIF specification label: hasProperContinuantPartAt
definition: b has_proper_continuant_part c at t = Def. c proper_continuant_part_of b at t. [XXX-001
editor note: Alan Ruttenberg: This is a binary version of a ternary time-indexed, instance-level, relation. The BFO reading of the binary relation 'has proper continuant part at all times@en' is: forall(t) exists_at(x,t) -> exists_at(y,t) and 'has proper continuant part@en(x,y,t)'.

has disposition at some time
type: ObjectProperty
sub property of: bearer of at some time
range: disposition
BFO OWL specification label: has-d_st
BFO CLIF specification label: hasDispositionAt
definition: a has_disposition b at t =Def. b disposition_of a at t. (axiom label in BFO2 Reference: [069-001])
editor note: Alan Ruttenberg: This is a binary version of a ternary time-indexed, instance level, relation. The BFO reading of the binary relation 'has disposition at some time@en' is: exists t, exists_at(x,t) & exists_at(y,t) & 'has disposition@en'(x,y,t)
has associated axiom(fol): (iff (hasDispositionAt a b t) (dispositionOf b a t)) // axiom label in BFO2 CLIF: [069-001]

Axiom
annotated source: has disposition at some time
annotated property: definition
annotated target: a has_disposition b at t =Def. b disposition_of a at t. (axiom label in BFO2 Reference: [069-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/069-001

Axiom
annotated source: has disposition at some time
annotated property: has associated axiom(fol)
annotated target: (iff (hasDispositionAt a b t) (dispositionOf b a t)) // axiom label in BFO2 CLIF: [069-001]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/069-001

has material basis at all times
type: ObjectProperty
domain: disposition
range: material entity
BFO OWL specification label: has-material-basis_at
BFO CLIF specification label: hasMaterialBasisAt
example of usage: the material basis of John’s disposition to cough is the viral infection in John’s upper respiratory tract
example of usage: the material basis of the disposition to wear unevenly of John’s tires is the worn suspension of his car.
editor note: Alan Ruttenberg: This is a binary version of a ternary time-indexed, instance-level, relation. The BFO reading of the binary relation 'has material basis at all times@en' is: forall(t) exists_at(x,t) -> exists_at(y,t) and 'has material basis@en(x,y,t)'.
elucidation: b has_material_basis c at t means: b is a disposition & c is a material entity & there is some d bearer_of b at t& c continuant_part_of d at t& d has_disposition b at t because c continuant_part_of d at t. (axiom label in BFO2 Reference: [071-002])
has associated axiom(fol): (forall (x y t) (if (hasMaterialBasisAt x y t) (and (Disposition x) (MaterialEntity y) (exists (z) (and (bearerOfAt z x t) (continuantPartOfAt y z t) (exists (w) (and (Disposition w) (if (hasDisposition z w) (continuantPartOfAt y z t))))))))) // axiom label in BFO2 CLIF: [071-002]

Axiom
annotated source: has material basis at all times
annotated property: elucidation
annotated target: b has_material_basis c at t means: b is a disposition & c is a material entity & there is some d bearer_of b at t& c continuant_part_of d at t& d has_disposition b at t because c continuant_part_of d at t. (axiom label in BFO2 Reference: [071-002])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/071-002

Axiom
annotated source: has material basis at all times
annotated property: has associated axiom(fol)
annotated target: (forall (x y t) (if (hasMaterialBasisAt x y t) (and (Disposition x) (MaterialEntity y) (exists (z) (and (bearerOfAt z x t) (continuantPartOfAt y z t) (exists (w) (and (Disposition w) (if (hasDisposition z w) (continuantPartOfAt y z t))))))))) // axiom label in BFO2 CLIF: [071-002]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/071-002

has member part at some time
type: ObjectProperty
sub property of: has continuant part at some time
inverse of: member part of at some time
domain: continuant
range: continuant
BFO OWL specification label: has-member-part_st
example of usage: [copied from inverse property 'member part of at some time'] each piece in a chess set is a member part of the chess set; each Beatle in the collection called The Beatles is a member part of The Beatles.
example of usage: [copied from inverse property 'member part of at some time'] each tree in a forest is a member_part of the forest
definition: [copied from inverse property 'member part of at some time'] b member_part_of c at t =Def. b is an object & there is at t a mutually exhaustive and pairwise disjoint partition of c into objects x1, …, xn (for some n > 1) with b = xi for some 1 ? i ? n. (axiom label in BFO2 Reference: [026-004])
editor note: [copied from inverse property 'member part of at some time'] Alan Ruttenberg: This is a binary version of a ternary time-indexed, instance level, relation. The BFO reading of the binary relation 'member part of at some time@en' is: exists t, exists_at(x,t) & exists_at(y,t) & 'member part of@en'(x,y,t)
editor note: [copied from inverse property 'member part of at some time'] BFO2 Reference: object
editor note: [copied from inverse property 'member part of at some time'] BFO2 Reference: object aggregate

has occurrent part
type: ObjectProperty
inverse of: part of occurrent
type: TransitiveProperty
domain: occurrent
range: occurrent
BFO OWL specification label: o-has-part
BFO CLIF specification label: hasOccurrentPart
example of usage: [copied from inverse property 'part of occurrent'] Mary’s 5th birthday occurrent_part_of Mary’s life
example of usage: [copied from inverse property 'part of occurrent'] The process of a footballer’s heart beating once is an occurrent part but not a temporal_part of a game of football.
example of usage: [copied from inverse property 'part of occurrent'] the first set of the tennis match occurrent_part_of the tennis match.
definition: b has_occurrent_part c = Def. c occurrent_part_of b. (axiom label in BFO2 Reference: [007-001])
editor note: [copied from inverse property 'part of occurrent'] BFO 2 Reference: a (continuant or occurrent) part of itself. We appreciate that this is counterintuitive for some users, since it implies for example that President Obama is a part of himself. However it brings benefits in simplifying the logical formalism, and it captures an important feature of identity, namely that it is the limit case of mereological inclusion.
editor note: [copied from inverse property 'part of occurrent'] BFO2 Reference: occurrent
imported from: OGG: Ontology of Genes and Genomes
elucidation: [copied from inverse property 'part of occurrent'] b occurrent_part_of c =Def. b is a part of c & b and c are occurrents. (axiom label in BFO2 Reference: [003-002])
has associated axiom(fol): (iff (hasOccurrentPart a b) (occurrentPartOf b a)) // axiom label in BFO2 CLIF: [007-001]

Axiom
annotated source: has occurrent part
annotated property: definition
annotated target: b has_occurrent_part c = Def. c occurrent_part_of b. (axiom label in BFO2 Reference: [007-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/007-001

Axiom
annotated source: has occurrent part
annotated property: has associated axiom(fol)
annotated target: (iff (hasOccurrentPart a b) (occurrentPartOf b a)) // axiom label in BFO2 CLIF: [007-001]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/007-001

has proper occurrent part
type: ObjectProperty
sub property of: has occurrent part
inverse of: proper part of occurrent
type: TransitiveProperty
domain: occurrent
range: occurrent
BFO OWL specification label: o-has-ppart
BFO CLIF specification label: hasProperOccurrentPart
definition: [copied from inverse property 'proper part of occurrent'] b proper_occurrent_part_of c =Def. b occurrent_part_of c & b and c are not identical. (axiom label in BFO2 Reference: [005-001])
definition: b has_proper_occurrent_part c = Def. c proper_occurrent_part_of b. [XXX-001
imported from: OGG: Ontology of Genes and Genomes

has profile
type: ObjectProperty
inverse of: process profile of
domain: process
range: process profile
BFO OWL specification label: has-profile

has temporal part
type: ObjectProperty
sub property of: has occurrent part
inverse of: temporal part of
type: TransitiveProperty
domain: occurrent
range: occurrent
BFO OWL specification label: has-t-part
example of usage: [copied from inverse property 'temporal part of'] the 4th year of your life is a temporal part of your life\. The first quarter of a game of football is a temporal part of the whole game\. The process of your heart beating from 4pm to 5pm today is a temporal part of the entire process of your heart beating.\ The 4th year of your life is a temporal part of your life
example of usage: [copied from inverse property 'temporal part of'] the process boundary which separates the 3rd and 4th years of your life.
example of usage: [copied from inverse property 'temporal part of'] your heart beating from 4pm to 5pm today is a temporal part of the process of your heart beating
definition: [copied from inverse property 'temporal part of'] b proper_temporal_part_of c =Def. b temporal_part_of c & not (b = c). (axiom label in BFO2 Reference: [116-001])
definition: [copied from inverse property 'temporal part of'] b temporal_part_of c =Def.b occurrent_part_of c & & for some temporal region t, b occupies_temporal_region t & for all occurrents d, t (if d occupies_temporal_region t & t? occurrent_part_of t then (d occurrent_part_of a iff d occurrent_part_of b)). (axiom label in BFO2 Reference: [078-003])

has spatial occupant at some time
type: ObjectProperty
domain: spatial region
range: independent continuant
BFO OWL specification label: r-location-of_st
editor note: [copied from inverse property 'occupies spatial region at some time'] Alan Ruttenberg: This is a binary version of a ternary time-indexed, instance level, relation. The BFO reading of the binary relation 'occupies spatial region at some time@en' is: exists t, exists_at(x,t) & exists_at(y,t) & 'occupies spatial region@en'(x,y,t)
editor note: [copied from inverse property 'occupies spatial region at some time'] BFO2 Reference: independent continuant
editor note: [copied from inverse property 'occupies spatial region at some time'] BFO2 Reference: spatial region
imported from: OGG: Ontology of Genes and Genomes
elucidation: [copied from inverse property 'occupies spatial region at some time'] b occupies_spatial_region r at t means that r is a spatial region in which independent continuant b is exactly located (axiom label in BFO2 Reference: [041-002])

has location at some time
type: ObjectProperty
inverse of: located in at some time
domain: independent continuant
range: independent continuant
BFO OWL specification label: has-location_st
example of usage: [copied from inverse property 'located in at some time'] Mary located_in Salzburg
example of usage: [copied from inverse property 'located in at some time'] the Empire State Building located_in New York.
example of usage: [copied from inverse property 'located in at some time'] this portion of cocaine located_in this portion of blood
example of usage: [copied from inverse property 'located in at some time'] this stem cell located_in this portion of bone marrow
example of usage: [copied from inverse property 'located in at some time'] your arm located_in your body
definition: [copied from inverse property 'located in at some time'] b located_in c at t = Def. b and c are independent continuants, and the region at which b is located at t is a (proper or improper) continuant_part_of the region at which c is located at t. (axiom label in BFO2 Reference: [045-001])
editor note: [copied from inverse property 'located in at some time'] Alan Ruttenberg: This is a binary version of a ternary time-indexed, instance level, relation. The BFO reading of the binary relation 'located in at some time@en' is: exists t, exists_at(x,t) & exists_at(y,t) & 'located in@en'(x,y,t)
editor note: [copied from inverse property 'located in at some time'] BFO2 Reference: independent continuant

has specific dependent at some time
type: ObjectProperty
inverse of: specifically depends on at some time
domain: Class
  union of: process
  union of: specifically dependent continuant
  union of: Class
    intersection of: independent continuant
    intersection of: Class
      complement of: spatial region
range: Class
  union of: process
  union of: specifically dependent continuant
BFO OWL specification label: has-s-dep_st
example of usage: [copied from inverse property 'specifically depends on at some time'] A pain s-depends_on the organism that is experiencing the pain
example of usage: [copied from inverse property 'specifically depends on at some time'] a gait s-depends_on the walking object. (All at some specific time.)
example of usage: [copied from inverse property 'specifically depends on at some time'] a shape s-depends_on the shaped object
example of usage: [copied from inverse property 'specifically depends on at some time'] one-sided s-dependence of a dependent continuant on an independent continuant: an instance of headache s-depends_on some head
example of usage: [copied from inverse property 'specifically depends on at some time'] one-sided s-dependence of a dependent continuant on an independent continuant: an instance of temperature s-depends_on some organism
example of usage: [copied from inverse property 'specifically depends on at some time'] one-sided s-dependence of a process on something: a process of cell death s-depends_on a cell
example of usage: [copied from inverse property 'specifically depends on at some time'] one-sided s-dependence of a process on something: an instance of seeing (a relational process) s-depends_on some organism and on some seen entity, which may be an occurrent or a continuant
example of usage: [copied from inverse property 'specifically depends on at some time'] one-sided s-dependence of one occurrent on another: a process of answering a question is dependent on a prior process of asking a question
example of usage: [copied from inverse property 'specifically depends on at some time'] one-sided s-dependence of one occurrent on another: a process of obeying a command is dependent on a prior process of issuing a command
example of usage: [copied from inverse property 'specifically depends on at some time'] one-sided s-dependence of one occurrent on multiple independent continuants: a relational process of hitting a ball with a cricket bat
example of usage: [copied from inverse property 'specifically depends on at some time'] one-sided s-dependence of one occurrent on multiple independent continuants: a relational process of paying cash to a merchant in exchange for a bag of figs
example of usage: [copied from inverse property 'specifically depends on at some time'] reciprocal s-dependence between occurrents: a process of buying and the associated process of selling
example of usage: [copied from inverse property 'specifically depends on at some time'] reciprocal s-dependence between occurrents: a process of increasing the volume of a portion of gas while temperature remains constant and the associated process of decreasing the pressure exerted by the gas
example of usage: [copied from inverse property 'specifically depends on at some time'] reciprocal s-dependence between occurrents: in a game of chess the process of playing with the white pieces is mutually dependent on the process of playing with the black pieces
example of usage: [copied from inverse property 'specifically depends on at some time'] the one-sided dependence of an occurrent on an independent continuant: football match on the players, the ground, the ball
example of usage: [copied from inverse property 'specifically depends on at some time'] the one-sided dependence of an occurrent on an independent continuant: handwave on a hand
example of usage: [copied from inverse property 'specifically depends on at some time'] the three-sided reciprocal s-dependence of the hue, saturation and brightness of a color [45
example of usage: [copied from inverse property 'specifically depends on at some time'] the three-sided reciprocal s-dependence of the pitch, timbre and volume of a tone [45
example of usage: [copied from inverse property 'specifically depends on at some time'] the two-sided reciprocal s-dependence of the roles of husband and wife [20
editor note: [copied from inverse property 'specifically depends on at some time'] Alan Ruttenberg: This is a binary version of a ternary time-indexed, instance level, relation. The BFO reading of the binary relation 'specifically depends on at some time@en' is: exists t, exists_at(x,t) & exists_at(y,t) & 'specifically depends on@en'(x,y,t)
editor note: [copied from inverse property 'specifically depends on at some time'] BFO 2 Reference: An entity – for example an act of communication or a game of football – can s-depends_on more than one entity. Complex phenomena for example in the psychological and social realms (such as inferring, commanding and requesting) or in the realm of multi-organismal biological processes (such as infection and resistance), will involve multiple families of dependence relations, involving both continuants and occurrents [1, 4, 28
editor note: [copied from inverse property 'specifically depends on at some time'] BFO 2 Reference: S-dependence is just one type of dependence among many; it is what, in the literature, is referred to as ‘existential dependence’ [87, 46, 65, 20
editor note: [copied from inverse property 'specifically depends on at some time'] BFO 2 Reference: the relation of s-depends_on does not in every case require simultaneous existence of its relata. Note the difference between such cases and the cases of continuant universals defined historically: the act of answering depends existentially on the prior act of questioning; the human being who was baptized or who answered a question does not himself depend existentially on the prior act of baptism or answering. He would still exist even if these acts had never taken place.
editor note: [copied from inverse property 'specifically depends on at some time'] BFO2 Reference: specifically dependent continuant\; process; process boundary
imported from: OGG: Ontology of Genes and Genomes
elucidation: [copied from inverse property 'specifically depends on at some time'] To say that b s-depends_on a at t is to say that b and c do not share common parts & b is of its nature such that it cannot exist unless c exists & b is not a boundary of c and b is not a site of which c is the host [64

has spatiotemporal occupant
type: ObjectProperty
inverse of: occupies spatiotemporal region
domain: spatiotemporal region
range: occurrent
BFO OWL specification label: occupied-by
editor note: [copied from inverse property 'occupies spatiotemporal region'] BFO 2 Reference: The occupies_spatiotemporal_region and occupies_temporal_region relations are the counterpart, on the occurrent side, of the relation occupies_spatial_region.
imported from: OGG: Ontology of Genes and Genomes
elucidation: [copied from inverse property 'occupies spatiotemporal region'] p occupies_spatiotemporal_region s. This is a primitive relation between an occurrent p and the spatiotemporal region s which is its spatiotemporal extent. (axiom label in BFO2 Reference: [082-003])

material basis of at some time
type: ObjectProperty
domain: material entity
range: disposition
BFO OWL specification label: material-basis-of_st

member part of at some time
type: ObjectProperty
sub property of: proper part of continuant at some time
sub property of: part of continuant at some time
domain: continuant
range: continuant
BFO OWL specification label: member-part-of_st
BFO CLIF specification label: memberPartOfAt
example of usage: each piece in a chess set is a member part of the chess set; each Beatle in the collection called The Beatles is a member part of The Beatles.
example of usage: each tree in a forest is a member_part of the forest
definition: b member_part_of c at t =Def. b is an object & there is at t a mutually exhaustive and pairwise disjoint partition of c into objects x1, …, xn (for some n > 1) with b = xi for some 1 ? i ? n. (axiom label in BFO2 Reference: [026-004])
editor note: Alan Ruttenberg: This is a binary version of a ternary time-indexed, instance level, relation. The BFO reading of the binary relation 'member part of at some time@en' is: exists t, exists_at(x,t) & exists_at(y,t) & 'member part of@en'(x,y,t)
editor note: BFO2 Reference: object
editor note: BFO2 Reference: object aggregate
has associated axiom(nl): if b member_part_of c at t then b continuant_part_of c at t. (axiom label in BFO2 Reference: [104-001])
has associated axiom(fol): (forall (x y t) (if (memberPartOfAt x y t) (continuantPartOfAt x y t))) // axiom label in BFO2 CLIF: [104-001]

Axiom
annotated source: member part of at some time
annotated property: definition
annotated target: b member_part_of c at t =Def. b is an object & there is at t a mutually exhaustive and pairwise disjoint partition of c into objects x1, …, xn (for some n > 1) with b = xi for some 1 ? i ? n. (axiom label in BFO2 Reference: [026-004])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/026-004

Axiom
annotated source: member part of at some time
annotated property: has associated axiom(nl)
annotated target: if b member_part_of c at t then b continuant_part_of c at t. (axiom label in BFO2 Reference: [104-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/104-001

Axiom
annotated source: member part of at some time
annotated property: has associated axiom(fol)
annotated target: (forall (x y t) (if (memberPartOfAt x y t) (continuantPartOfAt x y t))) // axiom label in BFO2 CLIF: [104-001]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/104-001

occupies spatiotemporal region
type: ObjectProperty
domain: occurrent
range: spatiotemporal region
BFO OWL specification label: occupies
BFO CLIF specification label: occupiesSpatiotemporalRegion
editor note: BFO 2 Reference: The occupies_spatiotemporal_region and occupies_temporal_region relations are the counterpart, on the occurrent side, of the relation occupies_spatial_region.
imported from: OGG: Ontology of Genes and Genomes
elucidation: p occupies_spatiotemporal_region s. This is a primitive relation between an occurrent p and the spatiotemporal region s which is its spatiotemporal extent. (axiom label in BFO2 Reference: [082-003])

Axiom
annotated source: occupies spatiotemporal region
annotated property: elucidation
annotated target: p occupies_spatiotemporal_region s. This is a primitive relation between an occurrent p and the spatiotemporal region s which is its spatiotemporal extent. (axiom label in BFO2 Reference: [082-003])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/082-003

part of occurrent
type: ObjectProperty
type: TransitiveProperty
domain: occurrent
range: occurrent
BFO OWL specification label: o-part-of
BFO CLIF specification label: occurrentPartOf
example of usage: Mary’s 5th birthday occurrent_part_of Mary’s life
example of usage: The process of a footballer’s heart beating once is an occurrent part but not a temporal_part of a game of football.
example of usage: the first set of the tennis match occurrent_part_of the tennis match.
definition: [copied from inverse property 'has occurrent part'] b has_occurrent_part c = Def. c occurrent_part_of b. (axiom label in BFO2 Reference: [007-001])
editor note: BFO 2 Reference: a (continuant or occurrent) part of itself. We appreciate that this is counterintuitive for some users, since it implies for example that President Obama is a part of himself. However it brings benefits in simplifying the logical formalism, and it captures an important feature of identity, namely that it is the limit case of mereological inclusion.
editor note: BFO2 Reference: occurrent
imported from: OGG: Ontology of Genes and Genomes
elucidation: b occurrent_part_of c =Def. b is a part of c & b and c are occurrents. (axiom label in BFO2 Reference: [003-002])
has associated axiom(nl): occurrent_part_of is antisymmetric. (axiom label in BFO2 Reference: [123-001])
has associated axiom(nl): occurrent_part_of is reflexive (every occurrent entity is an occurrent_part_of itself). (axiom label in BFO2 Reference: [113-002])
has associated axiom(nl): occurrent_part_of is transitive. (axiom label in BFO2 Reference: [112-001])
has associated axiom(nl): occurrent_part_of satisfies unique product. (axiom label in BFO2 Reference: [125-001])
has associated axiom(nl): occurrent_part_of satisfies weak supplementation. (axiom label in BFO2 Reference: [124-001])
has associated axiom(fol): (forall (x y t) (if (and (occurrentPartOf x y t) (not (= x y))) (exists (z) (and (occurrentPartOf z y t) (not (exists (w) (and (occurrentPartOf w x t) (occurrentPartOf w z t)))))))) // axiom label in BFO2 CLIF: [124-001]
has associated axiom(fol): (forall (x y t) (if (and (occurrentPartOf x y t) (occurrentPartOf y x t)) (= x y))) // axiom label in BFO2 CLIF: [123-001]
has associated axiom(fol): (forall (x y t) (if (exists (v) (and (occurrentPartOf v x t) (occurrentPartOf v y t))) (exists (z) (forall (u w) (iff (iff (occurrentPartOf w u t) (and (occurrentPartOf w x t) (occurrentPartOf w y t))) (= z u)))))) // axiom label in BFO2 CLIF: [125-001]
has associated axiom(fol): (forall (x y z) (if (and (occurrentPartOf x y) (occurrentPartOf y z)) (occurrentPartOf x z))) // axiom label in BFO2 CLIF: [112-001]
has associated axiom(fol): (forall (x) (if (Occurrent x) (occurrentPartOf x x))) // axiom label in BFO2 CLIF: [113-002]

Axiom
annotated source: part of occurrent
annotated property: elucidation
annotated target: b occurrent_part_of c =Def. b is a part of c & b and c are occurrents. (axiom label in BFO2 Reference: [003-002])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/003-002

Axiom
annotated source: part of occurrent
annotated property: has associated axiom(nl)
annotated target: occurrent_part_of is antisymmetric. (axiom label in BFO2 Reference: [123-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/123-001

Axiom
annotated source: part of occurrent
annotated property: has associated axiom(nl)
annotated target: occurrent_part_of is reflexive (every occurrent entity is an occurrent_part_of itself). (axiom label in BFO2 Reference: [113-002])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/113-002

Axiom
annotated source: part of occurrent
annotated property: has associated axiom(nl)
annotated target: occurrent_part_of is transitive. (axiom label in BFO2 Reference: [112-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/112-001

Axiom
annotated source: part of occurrent
annotated property: has associated axiom(nl)
annotated target: occurrent_part_of satisfies unique product. (axiom label in BFO2 Reference: [125-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/125-001

Axiom
annotated source: part of occurrent
annotated property: has associated axiom(nl)
annotated target: occurrent_part_of satisfies weak supplementation. (axiom label in BFO2 Reference: [124-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/124-001

Axiom
annotated source: part of occurrent
annotated property: has associated axiom(fol)
annotated target: (forall (x y t) (if (and (occurrentPartOf x y t) (not (= x y))) (exists (z) (and (occurrentPartOf z y t) (not (exists (w) (and (occurrentPartOf w x t) (occurrentPartOf w z t)))))))) // axiom label in BFO2 CLIF: [124-001]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/124-001

Axiom
annotated source: part of occurrent
annotated property: has associated axiom(fol)
annotated target: (forall (x y t) (if (and (occurrentPartOf x y t) (occurrentPartOf y x t)) (= x y))) // axiom label in BFO2 CLIF: [123-001]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/123-001

Axiom
annotated source: part of occurrent
annotated property: has associated axiom(fol)
annotated target: (forall (x y t) (if (exists (v) (and (occurrentPartOf v x t) (occurrentPartOf v y t))) (exists (z) (forall (u w) (iff (iff (occurrentPartOf w u t) (and (occurrentPartOf w x t) (occurrentPartOf w y t))) (= z u)))))) // axiom label in BFO2 CLIF: [125-001]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/125-001

Axiom
annotated source: part of occurrent
annotated property: has associated axiom(fol)
annotated target: (forall (x y z) (if (and (occurrentPartOf x y) (occurrentPartOf y z)) (occurrentPartOf x z))) // axiom label in BFO2 CLIF: [112-001]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/112-001

Axiom
annotated source: part of occurrent
annotated property: has associated axiom(fol)
annotated target: (forall (x) (if (Occurrent x) (occurrentPartOf x x))) // axiom label in BFO2 CLIF: [113-002]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/113-002

process profile of
type: ObjectProperty
domain: process profile
range: process
BFO OWL specification label: profile-of
BFO CLIF specification label: processProfileOf

proper temporal part of
type: ObjectProperty
sub property of: proper part of occurrent
sub property of: temporal part of
inverse of: has proper temporal part
type: TransitiveProperty
domain: occurrent
range: occurrent
BFO OWL specification label: t-ppart-of
BFO CLIF specification label: properTemporalPartOf

proper part of continuant at all times
type: ObjectProperty
sub property of: proper part of continuant at some time
sub property of: part of continuant at all times
type: TransitiveProperty
BFO OWL specification label: c-ppart-of_at
BFO CLIF specification label: properContinuantPartOfAt
definition: b proper_continuant_part_of c at t =Def. b continuant_part_of c at t & b and c are not identical. (axiom label in BFO2 Reference: [004-001])
editor note: Alan Ruttenberg: This is a binary version of a ternary time-indexed, instance-level, relation. The BFO reading of the binary relation 'proper part of continuant at all times@en' is: forall(t) exists_at(x,t) -> exists_at(y,t) and 'proper part of continuant@en(x,y,t)'.
has associated axiom(fol): (iff (properContinuantPartOfAt a b t) (and (continuantPartOfAt a b t) (not (= a b)))) // axiom label in BFO2 CLIF: [004-001]

Axiom
annotated source: proper part of continuant at all times
annotated property: definition
annotated target: b proper_continuant_part_of c at t =Def. b continuant_part_of c at t & b and c are not identical. (axiom label in BFO2 Reference: [004-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/004-001

Axiom
annotated source: proper part of continuant at all times
annotated property: has associated axiom(fol)
annotated target: (iff (properContinuantPartOfAt a b t) (and (continuantPartOfAt a b t) (not (= a b)))) // axiom label in BFO2 CLIF: [004-001]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/004-001

proper part of occurrent
type: ObjectProperty
sub property of: part of occurrent
type: TransitiveProperty
domain: occurrent
range: occurrent
BFO OWL specification label: o-ppart-of
BFO CLIF specification label: properOccurrentPartOf
definition: [copied from inverse property 'has proper occurrent part'] b has_proper_occurrent_part c = Def. c proper_occurrent_part_of b. [XXX-001
definition: b proper_occurrent_part_of c =Def. b occurrent_part_of c & b and c are not identical. (axiom label in BFO2 Reference: [005-001])
imported from: OGG: Ontology of Genes and Genomes
has associated axiom(fol): (iff (properOccurrentPartOf a b) (and (occurrentPartOf a b) (not (= a b)))) // axiom label in BFO2 CLIF: [005-001]

Axiom
annotated source: proper part of occurrent
annotated property: definition
annotated target: b proper_occurrent_part_of c =Def. b occurrent_part_of c & b and c are not identical. (axiom label in BFO2 Reference: [005-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/005-001

Axiom
annotated source: proper part of occurrent
annotated property: has associated axiom(fol)
annotated target: (iff (properOccurrentPartOf a b) (and (occurrentPartOf a b) (not (= a b)))) // axiom label in BFO2 CLIF: [005-001]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/005-001

temporal part of
type: ObjectProperty
sub property of: part of occurrent
type: TransitiveProperty
domain: occurrent
range: occurrent
BFO OWL specification label: t-part-of
BFO CLIF specification label: temporalPartOf
example of usage: the 4th year of your life is a temporal part of your life\. The first quarter of a game of football is a temporal part of the whole game\. The process of your heart beating from 4pm to 5pm today is a temporal part of the entire process of your heart beating.\ The 4th year of your life is a temporal part of your life
example of usage: the process boundary which separates the 3rd and 4th years of your life.
example of usage: your heart beating from 4pm to 5pm today is a temporal part of the process of your heart beating
definition: b proper_temporal_part_of c =Def. b temporal_part_of c & not (b = c). (axiom label in BFO2 Reference: [116-001])
definition: b temporal_part_of c =Def.b occurrent_part_of c & & for some temporal region t, b occupies_temporal_region t & for all occurrents d, t (if d occupies_temporal_region t & t? occurrent_part_of t then (d occurrent_part_of a iff d occurrent_part_of b)). (axiom label in BFO2 Reference: [078-003])
imported from: OGG: Ontology of Genes and Genomes
has associated axiom(nl): if b proper_temporal_part_of c, then there is some d which is a proper_temporal_part_of c and which shares no parts with b. (axiom label in BFO2 Reference: [117-002])
has associated axiom(fol): (forall (x y) (if (properTemporalPartOf x y) (exists (z) (and (properTemporalPartOf z y) (not (exists (w) (and (temporalPartOf w x) (temporalPartOf w z)))))))) // axiom label in BFO2 CLIF: [117-002]
has associated axiom(fol): (iff (properTemporalPartOf a b) (and (temporalPartOf a b) (not (= a b)))) // axiom label in BFO2 CLIF: [116-001]
has associated axiom(fol): (iff (temporalPartOf a b) (and (occurrentPartOf a b) (exists (t) (and (TemporalRegion t) (occupiesSpatioTemporalRegion a t))) (forall (c t_1) (if (and (Occurrent c) (occupiesSpatioTemporalRegion c t_1) (occurrentPartOf t_1 r)) (iff (occurrentPartOf c a) (occurrentPartOf c b)))))) // axiom label in BFO2 CLIF: [078-003]

Axiom
annotated source: temporal part of
annotated property: definition
annotated target: b proper_temporal_part_of c =Def. b temporal_part_of c & not (b = c). (axiom label in BFO2 Reference: [116-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/116-001

Axiom
annotated source: temporal part of
annotated property: definition
annotated target: b temporal_part_of c =Def.b occurrent_part_of c & & for some temporal region t, b occupies_temporal_region t & for all occurrents d, t (if d occupies_temporal_region t & t? occurrent_part_of t then (d occurrent_part_of a iff d occurrent_part_of b)). (axiom label in BFO2 Reference: [078-003])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/078-003

Axiom
annotated source: temporal part of
annotated property: has associated axiom(nl)
annotated target: if b proper_temporal_part_of c, then there is some d which is a proper_temporal_part_of c and which shares no parts with b. (axiom label in BFO2 Reference: [117-002])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/117-002

Axiom
annotated source: temporal part of
annotated property: has associated axiom(fol)
annotated target: (forall (x y) (if (properTemporalPartOf x y) (exists (z) (and (properTemporalPartOf z y) (not (exists (w) (and (temporalPartOf w x) (temporalPartOf w z)))))))) // axiom label in BFO2 CLIF: [117-002]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/117-002

Axiom
annotated source: temporal part of
annotated property: has associated axiom(fol)
annotated target: (iff (properTemporalPartOf a b) (and (temporalPartOf a b) (not (= a b)))) // axiom label in BFO2 CLIF: [116-001]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/116-001

Axiom
annotated source: temporal part of
annotated property: has associated axiom(fol)
annotated target: (iff (temporalPartOf a b) (and (occurrentPartOf a b) (exists (t) (and (TemporalRegion t) (occupiesSpatioTemporalRegion a t))) (forall (c t_1) (if (and (Occurrent c) (occupiesSpatioTemporalRegion c t_1) (occurrentPartOf t_1 r)) (iff (occurrentPartOf c a) (occurrentPartOf c b)))))) // axiom label in BFO2 CLIF: [078-003]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/078-003

projects onto spatial region at some time
type: ObjectProperty
inverse of: spatial projection of spatiotemporal at some time
domain: spatiotemporal region
range: spatial region
BFO OWL specification label: st-projects-onto-s_st
imported from: OGG: Ontology of Genes and Genomes

spatial projection of spatiotemporal at some time
type: ObjectProperty
domain: spatial region
range: spatiotemporal region
BFO OWL specification label: s-projection-of-st_st
imported from: OGG: Ontology of Genes and Genomes

projects onto temporal region
type: ObjectProperty
sub property of: exists at
inverse of: temporal projection of spatiotemporal
domain: spatiotemporal region
range: temporal region
BFO OWL specification label: st-projects-onto-t
imported from: OGG: Ontology of Genes and Genomes

temporal projection of spatiotemporal
type: ObjectProperty
sub property of: during which exists
domain: temporal region
range: spatiotemporal region
BFO OWL specification label: t-projection-of-st
imported from: OGG: Ontology of Genes and Genomes

occupies temporal region
type: ObjectProperty
sub property of: exists at
inverse of: has temporal occupant
domain: occurrent
range: temporal region
BFO OWL specification label: spans
BFO CLIF specification label: occupiesTemporalRegion
imported from: OGG: Ontology of Genes and Genomes
elucidation: p occupies_temporal_region t. This is a primitive relation between an occurrent p and the temporal region t upon which the spatiotemporal region p occupies_spatiotemporal_region projects. (axiom label in BFO2 Reference: [132-001])

Axiom
annotated source: occupies temporal region
annotated property: elucidation
annotated target: p occupies_temporal_region t. This is a primitive relation between an occurrent p and the temporal region t upon which the spatiotemporal region p occupies_spatiotemporal_region projects. (axiom label in BFO2 Reference: [132-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/132-001

has temporal occupant
type: ObjectProperty
sub property of: during which exists
domain: temporal region
range: occurrent
BFO OWL specification label: span-of
BFO CLIF specification label: spanOf
imported from: OGG: Ontology of Genes and Genomes
elucidation: [copied from inverse property 'occupies temporal region'] p occupies_temporal_region t. This is a primitive relation between an occurrent p and the temporal region t upon which the spatiotemporal region p occupies_spatiotemporal_region projects. (axiom label in BFO2 Reference: [132-001])

during which exists
type: ObjectProperty
domain: temporal region
range: entity
BFO OWL specification label: during-which-exists
editor note: [copied from inverse property 'exists at'] BFO2 Reference: entity
editor note: [copied from inverse property 'exists at'] BFO2 Reference: temporal region
imported from: OGG: Ontology of Genes and Genomes
elucidation: [copied from inverse property 'exists at'] b exists_at t means: b is an entity which exists at some temporal region t. (axiom label in BFO2 Reference: [118-002])

bearer of at all times
type: ObjectProperty
sub property of: has specific dependent at all times
domain: Class
  intersection of: independent continuant
  intersection of: Class
    complement of: spatial region
range: specifically dependent continuant
BFO OWL specification label: bearer-of_at
BFO CLIF specification label: bearerOfAt
definition: b bearer_of c at t =Def. c s-depends_on b at t & b is an independent continuant that is not a spatial region. (axiom label in BFO2 Reference: [053-004])
editor note: Alan Ruttenberg: This is a binary version of a ternary time-indexed, instance-level, relation. The BFO reading of the binary relation 'bearer of at all times@en' is: forall(t) exists_at(x,t) -> exists_at(y,t) and 'bearer of@en(x,y,t)'.
editor note: BFO2 Reference: independent continuant that is not a spatial region
editor note: BFO2 Reference: specifically dependent continuant
imported from: OGG: Ontology of Genes and Genomes
has associated axiom(fol): (iff (bearerOfAt a b t) (and (specificallyDependsOnAt b a t) (IndependentContinuant a) (not (SpatialRegion a)) (existsAt b t))) // axiom label in BFO2 CLIF: [053-004]

Axiom
annotated source: bearer of at all times
annotated property: definition
annotated target: b bearer_of c at t =Def. c s-depends_on b at t & b is an independent continuant that is not a spatial region. (axiom label in BFO2 Reference: [053-004])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/053-004

Axiom
annotated source: bearer of at all times
annotated property: has associated axiom(fol)
annotated target: (iff (bearerOfAt a b t) (and (specificallyDependsOnAt b a t) (IndependentContinuant a) (not (SpatialRegion a)) (existsAt b t))) // axiom label in BFO2 CLIF: [053-004]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/053-004

has quality at all times
type: ObjectProperty
sub property of: bearer of at all times
range: quality
BFO OWL specification label: has-q_at

has function at all times
type: ObjectProperty
sub property of: bearer of at all times
range: function
BFO OWL specification label: has-f_at
BFO CLIF specification label: hasFunctionAt
definition: a has_function b at t =Def. b function_of a at t. (axiom label in BFO2 Reference: [070-001])
editor note: Alan Ruttenberg: This is a binary version of a ternary time-indexed, instance-level, relation. The BFO reading of the binary relation 'has function at all times@en' is: forall(t) exists_at(x,t) -> exists_at(y,t) and 'has function@en(x,y,t)'.
has associated axiom(fol): (iff (hasFunctionAt a b t) (functionOf b a t)) // axiom label in BFO2 CLIF: [070-001]

Axiom
annotated source: has function at all times
annotated property: definition
annotated target: a has_function b at t =Def. b function_of a at t. (axiom label in BFO2 Reference: [070-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/070-001

Axiom
annotated source: has function at all times
annotated property: has associated axiom(fol)
annotated target: (iff (hasFunctionAt a b t) (functionOf b a t)) // axiom label in BFO2 CLIF: [070-001]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/070-001

has role at all times
type: ObjectProperty
sub property of: bearer of at all times
range: role
BFO OWL specification label: has-r_at
BFO CLIF specification label: hasRoleAt
definition: a has_role b at t =Def. b role_of a at t. (axiom label in BFO2 Reference: [068-001])
editor note: Alan Ruttenberg: This is a binary version of a ternary time-indexed, instance-level, relation. The BFO reading of the binary relation 'has role at all times@en' is: forall(t) exists_at(x,t) -> exists_at(y,t) and 'has role@en(x,y,t)'.
has associated axiom(fol): (iff (hasRoleAt a b t) (roleOfAt b a t)) // axiom label in BFO2 CLIF: [068-001]

Axiom
annotated source: has role at all times
annotated property: definition
annotated target: a has_role b at t =Def. b role_of a at t. (axiom label in BFO2 Reference: [068-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/068-001

Axiom
annotated source: has role at all times
annotated property: has associated axiom(fol)
annotated target: (iff (hasRoleAt a b t) (roleOfAt b a t)) // axiom label in BFO2 CLIF: [068-001]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/068-001

has disposition at all times
type: ObjectProperty
sub property of: bearer of at all times
range: disposition
BFO OWL specification label: has-d_at
BFO CLIF specification label: hasDispositionAt
definition: a has_disposition b at t =Def. b disposition_of a at t. (axiom label in BFO2 Reference: [069-001])
editor note: Alan Ruttenberg: This is a binary version of a ternary time-indexed, instance-level, relation. The BFO reading of the binary relation 'has disposition at all times@en' is: forall(t) exists_at(x,t) -> exists_at(y,t) and 'has disposition@en(x,y,t)'.
imported from: OGG: Ontology of Genes and Genomes
has associated axiom(fol): (iff (hasDispositionAt a b t) (dispositionOf b a t)) // axiom label in BFO2 CLIF: [069-001]

Axiom
annotated source: has disposition at all times
annotated property: definition
annotated target: a has_disposition b at t =Def. b disposition_of a at t. (axiom label in BFO2 Reference: [069-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/069-001

Axiom
annotated source: has disposition at all times
annotated property: has associated axiom(fol)
annotated target: (iff (hasDispositionAt a b t) (dispositionOf b a t)) // axiom label in BFO2 CLIF: [069-001]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/069-001

material basis of at all times
type: ObjectProperty
sub property of: material basis of at some time
domain: material entity
range: disposition
BFO OWL specification label: material-basis-of_at

concretizes at all times
type: ObjectProperty
sub property of: concretizes at some time
BFO OWL specification label: concretizes_at
BFO CLIF specification label: concretizesAt
example of usage: You may concretize a piece of software by installing it in your computer
example of usage: You may concretize a recipe that you find in a cookbook by turning it into a plan which exists as a realizable dependent continuant in your head.
example of usage: you may concretize a poem as a pattern of memory traces in your head
editor note: Alan Ruttenberg: This is a binary version of a ternary time-indexed, instance-level, relation. The BFO reading of the binary relation 'concretizes at all times@en' is: forall(t) exists_at(x,t) -> exists_at(y,t) and 'concretizes@en(x,y,t)'.
elucidation: b concretizes c at t means: b is a specifically dependent continuant & c is a generically dependent continuant & for some independent continuant that is not a spatial region d, b s-depends_on d at t & c g-depends on d at t & if c migrates from bearer d to another bearer e than a copy of b will be created in e. (axiom label in BFO2 Reference: [075-002])
has associated axiom(nl): if b g-depends on c at some time t, then there is some d, such that d concretizes b at t and d s-depends_on c at t. (axiom label in BFO2 Reference: [076-001])
has associated axiom(fol): (forall (x y t) (if (concretizesAt x y t) (and (SpecificallyDependentContinuant x) (GenericallyDependentContinuant y) (exists (z) (and (IndependentContinuant z) (specificallyDependsOnAt x z t) (genericallyDependsOnAt y z t)))))) // axiom label in BFO2 CLIF: [075-002]
has associated axiom(fol): (forall (x y t) (if (genericallyDependsOnAt x y t) (exists (z) (and (concretizesAt z x t) (specificallyDependsOnAt z y t))))) // axiom label in BFO2 CLIF: [076-001]

Axiom
annotated source: concretizes at all times
annotated property: elucidation
annotated target: b concretizes c at t means: b is a specifically dependent continuant & c is a generically dependent continuant & for some independent continuant that is not a spatial region d, b s-depends_on d at t & c g-depends on d at t & if c migrates from bearer d to another bearer e than a copy of b will be created in e. (axiom label in BFO2 Reference: [075-002])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/075-002

Axiom
annotated source: concretizes at all times
annotated property: has associated axiom(nl)
annotated target: if b g-depends on c at some time t, then there is some d, such that d concretizes b at t and d s-depends_on c at t. (axiom label in BFO2 Reference: [076-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/076-001

Axiom
annotated source: concretizes at all times
annotated property: has associated axiom(fol)
annotated target: (forall (x y t) (if (concretizesAt x y t) (and (SpecificallyDependentContinuant x) (GenericallyDependentContinuant y) (exists (z) (and (IndependentContinuant z) (specificallyDependsOnAt x z t) (genericallyDependsOnAt y z t)))))) // axiom label in BFO2 CLIF: [075-002]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/075-002

Axiom
annotated source: concretizes at all times
annotated property: has associated axiom(fol)
annotated target: (forall (x y t) (if (genericallyDependsOnAt x y t) (exists (z) (and (concretizesAt z x t) (specificallyDependsOnAt z y t))))) // axiom label in BFO2 CLIF: [076-001]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/076-001

concretized by at all times
type: ObjectProperty
sub property of: concretized by at some time
BFO OWL specification label: concretized-by_at

participates in at all times
type: ObjectProperty
sub property of: participates in at some time
BFO OWL specification label: participates-in_at
BFO CLIF specification label: participatesInAt

has participant at all times
type: ObjectProperty
sub property of: has participant at some time
domain: process
range: Class
  intersection of: continuant
  intersection of: Class
    complement of: spatial region
BFO OWL specification label: has-participant_at
BFO CLIF specification label: hasParticipantAt
editor note: Alan Ruttenberg: This is a binary version of a ternary time-indexed, instance-level, relation. The BFO reading of the binary relation 'has participant at all times@en' is: forall(t) exists_at(x,t) -> exists_at(y,t) and 'has participant@en(x,y,t)'.
editor note: BFO 2 Reference: Spatial regions do not participate in processes.
editor note: BFO2 Reference: independent continuant that is not a spatial region, specifically dependent continuant, generically dependent continuant
editor note: BFO2 Reference: process
elucidation: has_participant is an instance-level relation between a process, a continuant, and a temporal region at which the continuant participates in some way in the process. (axiom label in BFO2 Reference: [086-003])
has associated axiom(nl): if b has_participant c at t & c is a generically dependent continuant, then there is some independent continuant that is not a spatial region d, and which is such that c g-depends on d at t & b s-depends_on d at t. (axiom label in BFO2 Reference: [091-003])
has associated axiom(nl): if b has_participant c at t & c is a specifically dependent continuant, then there is some independent continuant that is not a spatial region d, c s-depends_on d at t & b s-depends_on d at t. (axiom label in BFO2 Reference: [090-003])
has associated axiom(nl): if b has_participant c at t then b is an occurrent. (axiom label in BFO2 Reference: [087-001])
has associated axiom(nl): if b has_participant c at t then c exists at t. (axiom label in BFO2 Reference: [089-001])
has associated axiom(nl): if b has_participant c at t then c is a continuant. (axiom label in BFO2 Reference: [088-001])
has associated axiom(fol): (forall (x y t) (if (and (hasParticipantAt x y t) (GenericallyDependentContinuant y)) (exists (z) (and (IndependentContinuant z) (not (SpatialRegion z)) (genericallyDependsOn y z t) (specificallyDependsOnAt x z t))))) // axiom label in BFO2 CLIF: [091-003]
has associated axiom(fol): (forall (x y t) (if (and (hasParticipantAt x y t) (SpecificallyDependentContinuant y)) (exists (z) (and (IndependentContinuant z) (not (SpatialRegion z)) (specificallyDependsOnAt x z t) (specificallyDependsOnAt y z t))))) // axiom label in BFO2 CLIF: [090-003]
has associated axiom(fol): (forall (x y t) (if (hasParticipantAt x y t) (Continuant y))) // axiom label in BFO2 CLIF: [088-001]
has associated axiom(fol): (forall (x y t) (if (hasParticipantAt x y t) (Occurrent x))) // axiom label in BFO2 CLIF: [087-001]
has associated axiom(fol): (forall (x y t) (if (hasParticipantAt x y t) (existsAt y t))) // axiom label in BFO2 CLIF: [089-001]

Axiom
annotated source: has participant at all times
annotated property: elucidation
annotated target: has_participant is an instance-level relation between a process, a continuant, and a temporal region at which the continuant participates in some way in the process. (axiom label in BFO2 Reference: [086-003])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/086-003

Axiom
annotated source: has participant at all times
annotated property: has associated axiom(nl)
annotated target: if b has_participant c at t & c is a generically dependent continuant, then there is some independent continuant that is not a spatial region d, and which is such that c g-depends on d at t & b s-depends_on d at t. (axiom label in BFO2 Reference: [091-003])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/091-003

Axiom
annotated source: has participant at all times
annotated property: has associated axiom(nl)
annotated target: if b has_participant c at t & c is a specifically dependent continuant, then there is some independent continuant that is not a spatial region d, c s-depends_on d at t & b s-depends_on d at t. (axiom label in BFO2 Reference: [090-003])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/090-003

Axiom
annotated source: has participant at all times
annotated property: has associated axiom(nl)
annotated target: if b has_participant c at t then b is an occurrent. (axiom label in BFO2 Reference: [087-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/087-001

Axiom
annotated source: has participant at all times
annotated property: has associated axiom(nl)
annotated target: if b has_participant c at t then c exists at t. (axiom label in BFO2 Reference: [089-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/089-001

Axiom
annotated source: has participant at all times
annotated property: has associated axiom(nl)
annotated target: if b has_participant c at t then c is a continuant. (axiom label in BFO2 Reference: [088-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/088-001

Axiom
annotated source: has participant at all times
annotated property: has associated axiom(fol)
annotated target: (forall (x y t) (if (and (hasParticipantAt x y t) (GenericallyDependentContinuant y)) (exists (z) (and (IndependentContinuant z) (not (SpatialRegion z)) (genericallyDependsOn y z t) (specificallyDependsOnAt x z t))))) // axiom label in BFO2 CLIF: [091-003]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/091-003

Axiom
annotated source: has participant at all times
annotated property: has associated axiom(fol)
annotated target: (forall (x y t) (if (and (hasParticipantAt x y t) (SpecificallyDependentContinuant y)) (exists (z) (and (IndependentContinuant z) (not (SpatialRegion z)) (specificallyDependsOnAt x z t) (specificallyDependsOnAt y z t))))) // axiom label in BFO2 CLIF: [090-003]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/090-003

Axiom
annotated source: has participant at all times
annotated property: has associated axiom(fol)
annotated target: (forall (x y t) (if (hasParticipantAt x y t) (Continuant y))) // axiom label in BFO2 CLIF: [088-001]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/088-001

Axiom
annotated source: has participant at all times
annotated property: has associated axiom(fol)
annotated target: (forall (x y t) (if (hasParticipantAt x y t) (Occurrent x))) // axiom label in BFO2 CLIF: [087-001]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/087-001

Axiom
annotated source: has participant at all times
annotated property: has associated axiom(fol)
annotated target: (forall (x y t) (if (hasParticipantAt x y t) (existsAt y t))) // axiom label in BFO2 CLIF: [089-001]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/089-001

has specific dependent at all times
type: ObjectProperty
sub property of: has specific dependent at some time
BFO OWL specification label: has-s-dep_at
imported from: OGG: Ontology of Genes and Genomes

specifically depends on at some time
type: ObjectProperty
domain: Class
  union of: process
  union of: specifically dependent continuant
range: Class
  union of: process
  union of: specifically dependent continuant
  union of: Class
    intersection of: independent continuant
    intersection of: Class
      complement of: spatial region
BFO OWL specification label: s-depends-on_st
BFO CLIF specification label: specificallyDependsOn
example of usage: A pain s-depends_on the organism that is experiencing the pain
example of usage: a gait s-depends_on the walking object. (All at some specific time.)
example of usage: a shape s-depends_on the shaped object
example of usage: one-sided s-dependence of a dependent continuant on an independent continuant: an instance of headache s-depends_on some head
example of usage: one-sided s-dependence of a dependent continuant on an independent continuant: an instance of temperature s-depends_on some organism
example of usage: one-sided s-dependence of a process on something: a process of cell death s-depends_on a cell
example of usage: one-sided s-dependence of a process on something: an instance of seeing (a relational process) s-depends_on some organism and on some seen entity, which may be an occurrent or a continuant
example of usage: one-sided s-dependence of one occurrent on another: a process of answering a question is dependent on a prior process of asking a question
example of usage: one-sided s-dependence of one occurrent on another: a process of obeying a command is dependent on a prior process of issuing a command
example of usage: one-sided s-dependence of one occurrent on multiple independent continuants: a relational process of hitting a ball with a cricket bat
example of usage: one-sided s-dependence of one occurrent on multiple independent continuants: a relational process of paying cash to a merchant in exchange for a bag of figs
example of usage: reciprocal s-dependence between occurrents: a process of buying and the associated process of selling
example of usage: reciprocal s-dependence between occurrents: a process of increasing the volume of a portion of gas while temperature remains constant and the associated process of decreasing the pressure exerted by the gas
example of usage: reciprocal s-dependence between occurrents: in a game of chess the process of playing with the white pieces is mutually dependent on the process of playing with the black pieces
example of usage: the one-sided dependence of an occurrent on an independent continuant: football match on the players, the ground, the ball
example of usage: the one-sided dependence of an occurrent on an independent continuant: handwave on a hand
example of usage: the three-sided reciprocal s-dependence of the hue, saturation and brightness of a color [45
example of usage: the three-sided reciprocal s-dependence of the pitch, timbre and volume of a tone [45
example of usage: the two-sided reciprocal s-dependence of the roles of husband and wife [20
editor note: Alan Ruttenberg: This is a binary version of a ternary time-indexed, instance level, relation. The BFO reading of the binary relation 'specifically depends on at some time@en' is: exists t, exists_at(x,t) & exists_at(y,t) & 'specifically depends on@en'(x,y,t)
editor note: BFO 2 Reference: An entity – for example an act of communication or a game of football – can s-depends_on more than one entity. Complex phenomena for example in the psychological and social realms (such as inferring, commanding and requesting) or in the realm of multi-organismal biological processes (such as infection and resistance), will involve multiple families of dependence relations, involving both continuants and occurrents [1, 4, 28
editor note: BFO 2 Reference: S-dependence is just one type of dependence among many; it is what, in the literature, is referred to as ‘existential dependence’ [87, 46, 65, 20
editor note: BFO 2 Reference: the relation of s-depends_on does not in every case require simultaneous existence of its relata. Note the difference between such cases and the cases of continuant universals defined historically: the act of answering depends existentially on the prior act of questioning; the human being who was baptized or who answered a question does not himself depend existentially on the prior act of baptism or answering. He would still exist even if these acts had never taken place.
editor note: BFO2 Reference: specifically dependent continuant\; process; process boundary
imported from: OGG: Ontology of Genes and Genomes
elucidation: To say that b s-depends_on a at t is to say that b and c do not share common parts & b is of its nature such that it cannot exist unless c exists & b is not a boundary of c and b is not a site of which c is the host [64
has associated axiom(nl): If b is s-depends_on something at some time, then b is not a material entity. (axiom label in BFO2 Reference: [052-001])
has associated axiom(nl): If b s-depends_on something at t, then there is some c, which is an independent continuant and not a spatial region, such that b s-depends_on c at t. (axiom label in BFO2 Reference: [136-001])
has associated axiom(nl): If occurrent b s-depends_on some independent continuant c at t, then b s-depends_on c at every time at which b exists. (axiom label in BFO2 Reference: [015-002])
has associated axiom(nl): an entity does not s-depend_on any of its (continuant or occurrent) parts or on anything it is part of. (axiom label in BFO2 Reference: [013-002])
has associated axiom(nl): if b s-depends_on c at t & c s-depends_on d at t then b s-depends_on d at t. (axiom label in BFO2 Reference: [054-002])
has associated axiom(fol): (forall (x y t) (if (and (Entity x) (or (continuantPartOfAt y x t) (continuantPartOfAt x y t) (occurrentPartOf x y) (occurrentPartOf y x))) (not (specificallyDependsOnAt x y t)))) // axiom label in BFO2 CLIF: [013-002]
has associated axiom(fol): (forall (x y t) (if (and (Occurrent x) (IndependentContinuant y) (specificallyDependsOnAt x y t)) (forall (t_1) (if (existsAt x t_1) (specificallyDependsOnAt x y t_1))))) // axiom label in BFO2 CLIF: [015-002]
has associated axiom(fol): (forall (x y t) (if (specificallyDependsOnAt x y t) (exists (z) (and (IndependentContinuant z) (not (SpatialRegion z)) (specificallyDependsOnAt x z t))))) // axiom label in BFO2 CLIF: [136-001]
has associated axiom(fol): (forall (x y z t) (if (and (specificallyDependsOnAt x y t) (specificallyDependsOnAt y z t)) (specificallyDependsOnAt x z t))) // axiom label in BFO2 CLIF: [054-002]
has associated axiom(fol): (forall (x) (if (exists (y t) (specificallyDependsOnAt x y t)) (not (MaterialEntity x)))) // axiom label in BFO2 CLIF: [052-001]

Axiom
annotated source: specifically depends on at some time
annotated property: has associated axiom(nl)
annotated target: If b is s-depends_on something at some time, then b is not a material entity. (axiom label in BFO2 Reference: [052-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/052-001

Axiom
annotated source: specifically depends on at some time
annotated property: has associated axiom(nl)
annotated target: If b s-depends_on something at t, then there is some c, which is an independent continuant and not a spatial region, such that b s-depends_on c at t. (axiom label in BFO2 Reference: [136-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/136-001

Axiom
annotated source: specifically depends on at some time
annotated property: has associated axiom(nl)
annotated target: If occurrent b s-depends_on some independent continuant c at t, then b s-depends_on c at every time at which b exists. (axiom label in BFO2 Reference: [015-002])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/015-002

Axiom
annotated source: specifically depends on at some time
annotated property: has associated axiom(nl)
annotated target: an entity does not s-depend_on any of its (continuant or occurrent) parts or on anything it is part of. (axiom label in BFO2 Reference: [013-002])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/013-002

Axiom
annotated source: specifically depends on at some time
annotated property: has associated axiom(nl)
annotated target: if b s-depends_on c at t & c s-depends_on d at t then b s-depends_on d at t. (axiom label in BFO2 Reference: [054-002])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/054-002

Axiom
annotated source: specifically depends on at some time
annotated property: has associated axiom(fol)
annotated target: (forall (x y t) (if (and (Entity x) (or (continuantPartOfAt y x t) (continuantPartOfAt x y t) (occurrentPartOf x y) (occurrentPartOf y x))) (not (specificallyDependsOnAt x y t)))) // axiom label in BFO2 CLIF: [013-002]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/013-002

Axiom
annotated source: specifically depends on at some time
annotated property: has associated axiom(fol)
annotated target: (forall (x y t) (if (and (Occurrent x) (IndependentContinuant y) (specificallyDependsOnAt x y t)) (forall (t_1) (if (existsAt x t_1) (specificallyDependsOnAt x y t_1))))) // axiom label in BFO2 CLIF: [015-002]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/015-002

Axiom
annotated source: specifically depends on at some time
annotated property: has associated axiom(fol)
annotated target: (forall (x y t) (if (specificallyDependsOnAt x y t) (exists (z) (and (IndependentContinuant z) (not (SpatialRegion z)) (specificallyDependsOnAt x z t))))) // axiom label in BFO2 CLIF: [136-001]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/136-001

Axiom
annotated source: specifically depends on at some time
annotated property: has associated axiom(fol)
annotated target: (forall (x y z t) (if (and (specificallyDependsOnAt x y t) (specificallyDependsOnAt y z t)) (specificallyDependsOnAt x z t))) // axiom label in BFO2 CLIF: [054-002]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/054-002

Axiom
annotated source: specifically depends on at some time
annotated property: has associated axiom(fol)
annotated target: (forall (x) (if (exists (y t) (specificallyDependsOnAt x y t)) (not (MaterialEntity x)))) // axiom label in BFO2 CLIF: [052-001]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/052-001

has location at all times
type: ObjectProperty
sub property of: has location at some time
type: TransitiveProperty
BFO OWL specification label: has-location_at

located in at some time
type: ObjectProperty
domain: independent continuant
range: independent continuant
BFO OWL specification label: located-in_st
BFO CLIF specification label: locatedInAt
example of usage: Mary located_in Salzburg
example of usage: the Empire State Building located_in New York.
example of usage: this portion of cocaine located_in this portion of blood
example of usage: this stem cell located_in this portion of bone marrow
example of usage: your arm located_in your body
definition: b located_in c at t = Def. b and c are independent continuants, and the region at which b is located at t is a (proper or improper) continuant_part_of the region at which c is located at t. (axiom label in BFO2 Reference: [045-001])
editor note: Alan Ruttenberg: This is a binary version of a ternary time-indexed, instance level, relation. The BFO reading of the binary relation 'located in at some time@en' is: exists t, exists_at(x,t) & exists_at(y,t) & 'located in@en'(x,y,t)
editor note: BFO2 Reference: independent continuant
has associated axiom(nl): Located_in is transitive. (axiom label in BFO2 Reference: [046-001])
has associated axiom(nl): for all independent continuants b, c, and d: if b continuant_part_of c at t & c located_in d at t, then b located_in d at t. (axiom label in BFO2 Reference: [048-001])
has associated axiom(nl): for all independent continuants b, c, and d: if b located_in c at t & c continuant_part_of d at t, then b located_in d at t. (axiom label in BFO2 Reference: [049-001])
has associated axiom(fol): (forall (x y z t) (if (and (IndependentContinuant x) (IndependentContinuant y) (IndependentContinuant z) (continuantPartOfAt x y t) (locatedInAt y z t)) (locatedInAt x z t))) // axiom label in BFO2 CLIF: [048-001]
has associated axiom(fol): (forall (x y z t) (if (and (IndependentContinuant x) (IndependentContinuant y) (IndependentContinuant z) (locatedInAt x y t) (continuantPartOfAt y z t)) (locatedInAt x z t))) // axiom label in BFO2 CLIF: [049-001]
has associated axiom(fol): (forall (x y z t) (if (and (locatedInAt x y t) (locatedInAt y z t)) (locatedInAt x z t))) // axiom label in BFO2 CLIF: [046-001]
has associated axiom(fol): (iff (locatedInAt a b t) (and (IndependentContinuant a) (IndependentContinuant b) (exists (r_1 r_2) (and (occupiesSpatialRegionAt a r_1 t) (occupiesSpatialRegionAt b r_2 t) (continuantPartOfAt r_1 r_2 t))))) // axiom label in BFO2 CLIF: [045-001]

Axiom
annotated source: located in at some time
annotated property: definition
annotated target: b located_in c at t = Def. b and c are independent continuants, and the region at which b is located at t is a (proper or improper) continuant_part_of the region at which c is located at t. (axiom label in BFO2 Reference: [045-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/045-001

Axiom
annotated source: located in at some time
annotated property: has associated axiom(nl)
annotated target: Located_in is transitive. (axiom label in BFO2 Reference: [046-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/046-001

Axiom
annotated source: located in at some time
annotated property: has associated axiom(nl)
annotated target: for all independent continuants b, c, and d: if b continuant_part_of c at t & c located_in d at t, then b located_in d at t. (axiom label in BFO2 Reference: [048-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/048-001

Axiom
annotated source: located in at some time
annotated property: has associated axiom(nl)
annotated target: for all independent continuants b, c, and d: if b located_in c at t & c continuant_part_of d at t, then b located_in d at t. (axiom label in BFO2 Reference: [049-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/049-001

Axiom
annotated source: located in at some time
annotated property: has associated axiom(fol)
annotated target: (forall (x y z t) (if (and (IndependentContinuant x) (IndependentContinuant y) (IndependentContinuant z) (continuantPartOfAt x y t) (locatedInAt y z t)) (locatedInAt x z t))) // axiom label in BFO2 CLIF: [048-001]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/048-001

Axiom
annotated source: located in at some time
annotated property: has associated axiom(fol)
annotated target: (forall (x y z t) (if (and (IndependentContinuant x) (IndependentContinuant y) (IndependentContinuant z) (locatedInAt x y t) (continuantPartOfAt y z t)) (locatedInAt x z t))) // axiom label in BFO2 CLIF: [049-001]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/049-001

Axiom
annotated source: located in at some time
annotated property: has associated axiom(fol)
annotated target: (forall (x y z t) (if (and (locatedInAt x y t) (locatedInAt y z t)) (locatedInAt x z t))) // axiom label in BFO2 CLIF: [046-001]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/046-001

Axiom
annotated source: located in at some time
annotated property: has associated axiom(fol)
annotated target: (iff (locatedInAt a b t) (and (IndependentContinuant a) (IndependentContinuant b) (exists (r_1 r_2) (and (occupiesSpatialRegionAt a r_1 t) (occupiesSpatialRegionAt b r_2 t) (continuantPartOfAt r_1 r_2 t))))) // axiom label in BFO2 CLIF: [045-001]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/045-001

has member part at all times
type: ObjectProperty
sub property of: has continuant part at all times
sub property of: has proper continuant part at all times
sub property of: has member part at some time
BFO OWL specification label: has-member-part_at

member part of at all times
type: ObjectProperty
sub property of: member part of at some time
sub property of: proper part of continuant at all times
sub property of: part of continuant at all times
BFO OWL specification label: member-part-of_at
BFO CLIF specification label: memberPartOfAt
example of usage: each piece in a chess set is a member part of the chess set; each Beatle in the collection called The Beatles is a member part of The Beatles.
example of usage: each tree in a forest is a member_part of the forest
definition: b member_part_of c at t =Def. b is an object & there is at t a mutually exhaustive and pairwise disjoint partition of c into objects x1, …, xn (for some n > 1) with b = xi for some 1 ? i ? n. (axiom label in BFO2 Reference: [026-004])
editor note: Alan Ruttenberg: This is a binary version of a ternary time-indexed, instance-level, relation. The BFO reading of the binary relation 'member part of at all times@en' is: forall(t) exists_at(x,t) -> exists_at(y,t) and 'member part of@en(x,y,t)'.
editor note: BFO2 Reference: object
editor note: BFO2 Reference: object aggregate
has associated axiom(nl): if b member_part_of c at t then b continuant_part_of c at t. (axiom label in BFO2 Reference: [104-001])
has associated axiom(fol): (forall (x y t) (if (memberPartOfAt x y t) (continuantPartOfAt x y t))) // axiom label in BFO2 CLIF: [104-001]

Axiom
annotated source: member part of at all times
annotated property: definition
annotated target: b member_part_of c at t =Def. b is an object & there is at t a mutually exhaustive and pairwise disjoint partition of c into objects x1, …, xn (for some n > 1) with b = xi for some 1 ? i ? n. (axiom label in BFO2 Reference: [026-004])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/026-004

Axiom
annotated source: member part of at all times
annotated property: has associated axiom(nl)
annotated target: if b member_part_of c at t then b continuant_part_of c at t. (axiom label in BFO2 Reference: [104-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/104-001

Axiom
annotated source: member part of at all times
annotated property: has associated axiom(fol)
annotated target: (forall (x y t) (if (memberPartOfAt x y t) (continuantPartOfAt x y t))) // axiom label in BFO2 CLIF: [104-001]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/104-001

has proper continuant part at some time
type: ObjectProperty
sub property of: has continuant part at some time
inverse of: proper part of continuant at some time
domain: continuant
range: continuant
BFO OWL specification label: c-has-ppart_st
BFO CLIF specification label: hasProperContinuantPartAt
definition: [copied from inverse property 'proper part of continuant at some time'] b proper_continuant_part_of c at t =Def. b continuant_part_of c at t & b and c are not identical. (axiom label in BFO2 Reference: [004-001])
definition: b has_proper_continuant_part c at t = Def. c proper_continuant_part_of b at t. [XXX-001
editor note: Alan Ruttenberg: This is a binary version of a ternary time-indexed, instance level, relation. The BFO reading of the binary relation 'has proper continuant part at some time@en' is: exists t, exists_at(x,t) & exists_at(y,t) & 'has proper continuant part@en'(x,y,t)
editor note: [copied from inverse property 'proper part of continuant at some time'] Alan Ruttenberg: This is a binary version of a ternary time-indexed, instance level, relation. The BFO reading of the binary relation 'proper part of continuant at some time@en' is: exists t, exists_at(x,t) & exists_at(y,t) & 'proper part of continuant@en'(x,y,t)

proper part of continuant at some time
type: ObjectProperty
sub property of: part of continuant at some time
domain: continuant
range: continuant
BFO OWL specification label: c-ppart-of_st
BFO CLIF specification label: properContinuantPartOfAt
definition: [copied from inverse property 'has proper continuant part at some time'] b has_proper_continuant_part c at t = Def. c proper_continuant_part_of b at t. [XXX-001
definition: b proper_continuant_part_of c at t =Def. b continuant_part_of c at t & b and c are not identical. (axiom label in BFO2 Reference: [004-001])
editor note: Alan Ruttenberg: This is a binary version of a ternary time-indexed, instance level, relation. The BFO reading of the binary relation 'proper part of continuant at some time@en' is: exists t, exists_at(x,t) & exists_at(y,t) & 'proper part of continuant@en'(x,y,t)
editor note: [copied from inverse property 'has proper continuant part at some time'] Alan Ruttenberg: This is a binary version of a ternary time-indexed, instance level, relation. The BFO reading of the binary relation 'has proper continuant part at some time@en' is: exists t, exists_at(x,t) & exists_at(y,t) & 'has proper continuant part@en'(x,y,t)
has associated axiom(fol): (iff (properContinuantPartOfAt a b t) (and (continuantPartOfAt a b t) (not (= a b)))) // axiom label in BFO2 CLIF: [004-001]

Axiom
annotated source: proper part of continuant at some time
annotated property: definition
annotated target: b proper_continuant_part_of c at t =Def. b continuant_part_of c at t & b and c are not identical. (axiom label in BFO2 Reference: [004-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/004-001

Axiom
annotated source: proper part of continuant at some time
annotated property: has associated axiom(fol)
annotated target: (iff (properContinuantPartOfAt a b t) (and (continuantPartOfAt a b t) (not (= a b)))) // axiom label in BFO2 CLIF: [004-001]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/004-001

part of continuant at some time
type: ObjectProperty
inverse of: has continuant part at some time
domain: continuant
range: continuant
BFO OWL specification label: c-part-of_st
BFO CLIF specification label: continuantPartOfAt
example of usage: Mary’s arm continuant_part_of Mary in the time of her life prior to her operation
example of usage: the Northern hemisphere of the planet Earth is a part of the planet Earth at all times at which the planet Earth exists.
definition: [copied from inverse property 'has continuant part at some time'] b has_continuant_part c at t = Def. c continuant_part_of b at t. (axiom label in BFO2 Reference: [006-001])
editor note: Alan Ruttenberg: This is a binary version of a ternary time-indexed, instance level, relation. The BFO reading of the binary relation 'part of continuant at some time@en' is: exists t, exists_at(x,t) & exists_at(y,t) & 'part of continuant@en'(x,y,t)
editor note: BFO 2 Reference: Immaterial entities are in some cases continuant parts of their material hosts. Thus the hold of a ship, for example, is a part of the ship; it may itself have parts, which may have names (used for example by ship stow planners, customs inspectors, and the like). Immaterial entities under both 1. and 2. can be of zero, one, two or three dimensions. We define:a(immaterial entity)[Definition: a is an immaterial entity = Def. a is an independent continuant that has no material entities as parts. (axiom label in BFO2 Reference: [028-001])
editor note: BFO 2 Reference: a (continuant or occurrent) part of itself. We appreciate that this is counterintuitive for some users, since it implies for example that President Obama is a part of himself. However it brings benefits in simplifying the logical formalism, and it captures an important feature of identity, namely that it is the limit case of mereological inclusion.
editor note: BFO2 Reference: continuant
editor note: BFO2 Reference: continuantThe range for ‘t’ (as in all cases throughout this document unless otherwise specified) is: temporal region.
editor note: [copied from inverse property 'has continuant part at some time'] Alan Ruttenberg: This is a binary version of a ternary time-indexed, instance level, relation. The BFO reading of the binary relation 'has continuant part at some time@en' is: exists t, exists_at(x,t) & exists_at(y,t) & 'has continuant part@en'(x,y,t)
imported from: OGG: Ontology of Genes and Genomes
elucidation: b continuant_part_of c at t =Def. b is a part of c at t & t is a time & b and c are continuants. (axiom label in BFO2 Reference: [002-001])
has associated axiom(nl): continuant_part_of is antisymmetric. (axiom label in BFO2 Reference: [120-001])
has associated axiom(nl): continuant_part_of is reflexive (every continuant entity is a continuant_part_of itself). (axiom label in BFO2 Reference: [111-002])
has associated axiom(nl): continuant_part_of is transitive. (axiom label in BFO2 Reference: [110-001])
has associated axiom(nl): continuant_part_of satisfies unique product. (axiom label in BFO2 Reference: [122-001])
has associated axiom(nl): continuant_part_of satisfies weak supplementation. (axiom label in BFO2 Reference: [121-001])
has associated axiom(nl): if b continuant_part_of c at t and b is an independent continuant, then b is located_in c at t. (axiom label in BFO2 Reference: [047-002])
has associated axiom(fol): (forall (x t) (if (Continuant x) (continuantPartOfAt x x t))) // axiom label in BFO2 CLIF: [111-002]
has associated axiom(fol): (forall (x y t) (if (and (continuantPartOfAt x y t) (IndependentContinuant x)) (locatedInAt x y t))) // axiom label in BFO2 CLIF: [047-002]
has associated axiom(fol): (forall (x y t) (if (and (continuantPartOfAt x y t) (continuantPartOfAt y x t)) (= x y))) // axiom label in BFO2 CLIF: [120-001]
has associated axiom(fol): (forall (x y t) (if (and (continuantPartOfAt x y t) (not (= x y))) (exists (z) (and (continuantPartOfAt z y t) (not (exists (w) (and (continuantPartOfAt w x t) (continuantPartOfAt w z t)))))))) // axiom label in BFO2 CLIF: [121-001]
has associated axiom(fol): (forall (x y t) (if (exists (v) (and (continuantPartOfAt v x t) (continuantPartOfAt v y t))) (exists (z) (forall (u w) (iff (iff (continuantPartOfAt w u t) (and (continuantPartOfAt w x t) (continuantPartOfAt w y t))) (= z u)))))) // axiom label in BFO2 CLIF: [122-001]
has associated axiom(fol): (forall (x y z t) (if (and (continuantPartOfAt x y t) (continuantPartOfAt y z t)) (continuantPartOfAt x z t))) // axiom label in BFO2 CLIF: [110-001]
has associated axiom(fol): (iff (ImmaterialEntity a) (and (IndependentContinuant a) (not (exists (b t) (and (MaterialEntity b) (continuantPartOfAt b a t)))))) // axiom label in BFO2 CLIF: [028-001]

Axiom
annotated source: part of continuant at some time
annotated property: editor note
annotated target: BFO 2 Reference: Immaterial entities are in some cases continuant parts of their material hosts. Thus the hold of a ship, for example, is a part of the ship; it may itself have parts, which may have names (used for example by ship stow planners, customs inspectors, and the like). Immaterial entities under both 1. and 2. can be of zero, one, two or three dimensions. We define:a(immaterial entity)[Definition: a is an immaterial entity = Def. a is an independent continuant that has no material entities as parts. (axiom label in BFO2 Reference: [028-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/028-001

Axiom
annotated source: part of continuant at some time
annotated property: elucidation
annotated target: b continuant_part_of c at t =Def. b is a part of c at t & t is a time & b and c are continuants. (axiom label in BFO2 Reference: [002-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/002-001

Axiom
annotated source: part of continuant at some time
annotated property: has associated axiom(nl)
annotated target: continuant_part_of is antisymmetric. (axiom label in BFO2 Reference: [120-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/120-001

Axiom
annotated source: part of continuant at some time
annotated property: has associated axiom(nl)
annotated target: continuant_part_of is reflexive (every continuant entity is a continuant_part_of itself). (axiom label in BFO2 Reference: [111-002])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/111-002

Axiom
annotated source: part of continuant at some time
annotated property: has associated axiom(nl)
annotated target: continuant_part_of is transitive. (axiom label in BFO2 Reference: [110-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/110-001

Axiom
annotated source: part of continuant at some time
annotated property: has associated axiom(nl)
annotated target: continuant_part_of satisfies unique product. (axiom label in BFO2 Reference: [122-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/122-001

Axiom
annotated source: part of continuant at some time
annotated property: has associated axiom(nl)
annotated target: continuant_part_of satisfies weak supplementation. (axiom label in BFO2 Reference: [121-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/121-001

Axiom
annotated source: part of continuant at some time
annotated property: has associated axiom(nl)
annotated target: if b continuant_part_of c at t and b is an independent continuant, then b is located_in c at t. (axiom label in BFO2 Reference: [047-002])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/047-002

Axiom
annotated source: part of continuant at some time
annotated property: has associated axiom(fol)
annotated target: (forall (x t) (if (Continuant x) (continuantPartOfAt x x t))) // axiom label in BFO2 CLIF: [111-002]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/111-002

Axiom
annotated source: part of continuant at some time
annotated property: has associated axiom(fol)
annotated target: (forall (x y t) (if (and (continuantPartOfAt x y t) (IndependentContinuant x)) (locatedInAt x y t))) // axiom label in BFO2 CLIF: [047-002]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/047-002

Axiom
annotated source: part of continuant at some time
annotated property: has associated axiom(fol)
annotated target: (forall (x y t) (if (and (continuantPartOfAt x y t) (continuantPartOfAt y x t)) (= x y))) // axiom label in BFO2 CLIF: [120-001]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/120-001

Axiom
annotated source: part of continuant at some time
annotated property: has associated axiom(fol)
annotated target: (forall (x y t) (if (and (continuantPartOfAt x y t) (not (= x y))) (exists (z) (and (continuantPartOfAt z y t) (not (exists (w) (and (continuantPartOfAt w x t) (continuantPartOfAt w z t)))))))) // axiom label in BFO2 CLIF: [121-001]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/121-001

Axiom
annotated source: part of continuant at some time
annotated property: has associated axiom(fol)
annotated target: (forall (x y t) (if (exists (v) (and (continuantPartOfAt v x t) (continuantPartOfAt v y t))) (exists (z) (forall (u w) (iff (iff (continuantPartOfAt w u t) (and (continuantPartOfAt w x t) (continuantPartOfAt w y t))) (= z u)))))) // axiom label in BFO2 CLIF: [122-001]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/122-001

Axiom
annotated source: part of continuant at some time
annotated property: has associated axiom(fol)
annotated target: (forall (x y z t) (if (and (continuantPartOfAt x y t) (continuantPartOfAt y z t)) (continuantPartOfAt x z t))) // axiom label in BFO2 CLIF: [110-001]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/110-001

Axiom
annotated source: part of continuant at some time
annotated property: has associated axiom(fol)
annotated target: (iff (ImmaterialEntity a) (and (IndependentContinuant a) (not (exists (b t) (and (MaterialEntity b) (continuantPartOfAt b a t)))))) // axiom label in BFO2 CLIF: [028-001]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/028-001

part of continuant at all times
type: ObjectProperty
sub property of: part of continuant at some time
inverse of: has continuant part at all times that part exists
type: TransitiveProperty
BFO OWL specification label: c-part-of_at
BFO CLIF specification label: continuantPartOfAt
example of usage: Mary’s arm continuant_part_of Mary in the time of her life prior to her operation
example of usage: the Northern hemisphere of the planet Earth is a part of the planet Earth at all times at which the planet Earth exists.
definition: [copied from inverse property 'has continuant part at all times that part exists'] forall(t) exists_at(y,t) -> exists_at(x,t) and 'has continuant part'(x,y,t)
editor note: Alan Ruttenberg: This is a binary version of a ternary time-indexed, instance-level, relation. The BFO reading of the binary relation 'part of continuant at all times@en' is: forall(t) exists_at(x,t) -> exists_at(y,t) and 'part of continuant@en(x,y,t)'.
editor note: BFO 2 Reference: Immaterial entities are in some cases continuant parts of their material hosts. Thus the hold of a ship, for example, is a part of the ship; it may itself have parts, which may have names (used for example by ship stow planners, customs inspectors, and the like). Immaterial entities under both 1. and 2. can be of zero, one, two or three dimensions. We define:a(immaterial entity)[Definition: a is an immaterial entity = Def. a is an independent continuant that has no material entities as parts. (axiom label in BFO2 Reference: [028-001])
editor note: BFO 2 Reference: a (continuant or occurrent) part of itself. We appreciate that this is counterintuitive for some users, since it implies for example that President Obama is a part of himself. However it brings benefits in simplifying the logical formalism, and it captures an important feature of identity, namely that it is the limit case of mereological inclusion.
editor note: BFO2 Reference: continuant
editor note: BFO2 Reference: continuantThe range for ‘t’ (as in all cases throughout this document unless otherwise specified) is: temporal region.
editor note: [copied from inverse property 'has continuant part at all times that part exists'] This is a binary version of a ternary time-indexed, instance level, relation. Unlike the rest of the temporalized relations which temporally quantify over existence of the subject of the relation, this relation temporally quantifies over the existence of the object of the relation. The relation is provided tentatively, to assess whether the GO needs such a relation. It is inverse of 'part of continuant at all times'
elucidation: b continuant_part_of c at t =Def. b is a part of c at t & t is a time & b and c are continuants. (axiom label in BFO2 Reference: [002-001])
has associated axiom(nl): continuant_part_of is antisymmetric. (axiom label in BFO2 Reference: [120-001])
has associated axiom(nl): continuant_part_of is reflexive (every continuant entity is a continuant_part_of itself). (axiom label in BFO2 Reference: [111-002])
has associated axiom(nl): continuant_part_of is transitive. (axiom label in BFO2 Reference: [110-001])
has associated axiom(nl): continuant_part_of satisfies unique product. (axiom label in BFO2 Reference: [122-001])
has associated axiom(nl): continuant_part_of satisfies weak supplementation. (axiom label in BFO2 Reference: [121-001])
has associated axiom(nl): if b continuant_part_of c at t and b is an independent continuant, then b is located_in c at t. (axiom label in BFO2 Reference: [047-002])
has associated axiom(fol): (forall (x t) (if (Continuant x) (continuantPartOfAt x x t))) // axiom label in BFO2 CLIF: [111-002]
has associated axiom(fol): (forall (x y t) (if (and (continuantPartOfAt x y t) (IndependentContinuant x)) (locatedInAt x y t))) // axiom label in BFO2 CLIF: [047-002]
has associated axiom(fol): (forall (x y t) (if (and (continuantPartOfAt x y t) (continuantPartOfAt y x t)) (= x y))) // axiom label in BFO2 CLIF: [120-001]
has associated axiom(fol): (forall (x y t) (if (and (continuantPartOfAt x y t) (not (= x y))) (exists (z) (and (continuantPartOfAt z y t) (not (exists (w) (and (continuantPartOfAt w x t) (continuantPartOfAt w z t)))))))) // axiom label in BFO2 CLIF: [121-001]
has associated axiom(fol): (forall (x y t) (if (exists (v) (and (continuantPartOfAt v x t) (continuantPartOfAt v y t))) (exists (z) (forall (u w) (iff (iff (continuantPartOfAt w u t) (and (continuantPartOfAt w x t) (continuantPartOfAt w y t))) (= z u)))))) // axiom label in BFO2 CLIF: [122-001]
has associated axiom(fol): (forall (x y z t) (if (and (continuantPartOfAt x y t) (continuantPartOfAt y z t)) (continuantPartOfAt x z t))) // axiom label in BFO2 CLIF: [110-001]
has associated axiom(fol): (iff (ImmaterialEntity a) (and (IndependentContinuant a) (not (exists (b t) (and (MaterialEntity b) (continuantPartOfAt b a t)))))) // axiom label in BFO2 CLIF: [028-001]

Axiom
annotated source: part of continuant at all times
annotated property: editor note
annotated target: BFO 2 Reference: Immaterial entities are in some cases continuant parts of their material hosts. Thus the hold of a ship, for example, is a part of the ship; it may itself have parts, which may have names (used for example by ship stow planners, customs inspectors, and the like). Immaterial entities under both 1. and 2. can be of zero, one, two or three dimensions. We define:a(immaterial entity)[Definition: a is an immaterial entity = Def. a is an independent continuant that has no material entities as parts. (axiom label in BFO2 Reference: [028-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/0000601
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/028-001

Axiom
annotated source: part of continuant at all times
annotated property: editor note
annotated target: BFO 2 Reference: Immaterial entities are in some cases continuant parts of their material hosts. Thus the hold of a ship, for example, is a part of the ship; it may itself have parts, which may have names (used for example by ship stow planners, customs inspectors, and the like). Immaterial entities under both 1. and 2. can be of zero, one, two or three dimensions. We define:a(immaterial entity)[Definition: a is an immaterial entity = Def. a is an independent continuant that has no material entities as parts. (axiom label in BFO2 Reference: [028-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/028-001

Axiom
annotated source: part of continuant at all times
annotated property: elucidation
annotated target: b continuant_part_of c at t =Def. b is a part of c at t & t is a time & b and c are continuants. (axiom label in BFO2 Reference: [002-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/002-001

Axiom
annotated source: part of continuant at all times
annotated property: has associated axiom(nl)
annotated target: continuant_part_of is antisymmetric. (axiom label in BFO2 Reference: [120-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/120-001

Axiom
annotated source: part of continuant at all times
annotated property: has associated axiom(nl)
annotated target: continuant_part_of is reflexive (every continuant entity is a continuant_part_of itself). (axiom label in BFO2 Reference: [111-002])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/111-002

Axiom
annotated source: part of continuant at all times
annotated property: has associated axiom(nl)
annotated target: continuant_part_of is transitive. (axiom label in BFO2 Reference: [110-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/110-001

Axiom
annotated source: part of continuant at all times
annotated property: has associated axiom(nl)
annotated target: continuant_part_of satisfies unique product. (axiom label in BFO2 Reference: [122-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/122-001

Axiom
annotated source: part of continuant at all times
annotated property: has associated axiom(nl)
annotated target: continuant_part_of satisfies weak supplementation. (axiom label in BFO2 Reference: [121-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/121-001

Axiom
annotated source: part of continuant at all times
annotated property: has associated axiom(nl)
annotated target: if b continuant_part_of c at t and b is an independent continuant, then b is located_in c at t. (axiom label in BFO2 Reference: [047-002])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/047-002

Axiom
annotated source: part of continuant at all times
annotated property: has associated axiom(fol)
annotated target: (forall (x t) (if (Continuant x) (continuantPartOfAt x x t))) // axiom label in BFO2 CLIF: [111-002]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/111-002

Axiom
annotated source: part of continuant at all times
annotated property: has associated axiom(fol)
annotated target: (forall (x y t) (if (and (continuantPartOfAt x y t) (IndependentContinuant x)) (locatedInAt x y t))) // axiom label in BFO2 CLIF: [047-002]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/047-002

Axiom
annotated source: part of continuant at all times
annotated property: has associated axiom(fol)
annotated target: (forall (x y t) (if (and (continuantPartOfAt x y t) (continuantPartOfAt y x t)) (= x y))) // axiom label in BFO2 CLIF: [120-001]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/120-001

Axiom
annotated source: part of continuant at all times
annotated property: has associated axiom(fol)
annotated target: (forall (x y t) (if (and (continuantPartOfAt x y t) (not (= x y))) (exists (z) (and (continuantPartOfAt z y t) (not (exists (w) (and (continuantPartOfAt w x t) (continuantPartOfAt w z t)))))))) // axiom label in BFO2 CLIF: [121-001]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/121-001

Axiom
annotated source: part of continuant at all times
annotated property: has associated axiom(fol)
annotated target: (forall (x y t) (if (exists (v) (and (continuantPartOfAt v x t) (continuantPartOfAt v y t))) (exists (z) (forall (u w) (iff (iff (continuantPartOfAt w u t) (and (continuantPartOfAt w x t) (continuantPartOfAt w y t))) (= z u)))))) // axiom label in BFO2 CLIF: [122-001]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/122-001

Axiom
annotated source: part of continuant at all times
annotated property: has associated axiom(fol)
annotated target: (forall (x y z t) (if (and (continuantPartOfAt x y t) (continuantPartOfAt y z t)) (continuantPartOfAt x z t))) // axiom label in BFO2 CLIF: [110-001]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/110-001

Axiom
annotated source: part of continuant at all times
annotated property: has associated axiom(fol)
annotated target: (iff (ImmaterialEntity a) (and (IndependentContinuant a) (not (exists (b t) (and (MaterialEntity b) (continuantPartOfAt b a t)))))) // axiom label in BFO2 CLIF: [028-001]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/028-001

has continuant part at some time
type: ObjectProperty
domain: continuant
range: continuant
BFO OWL specification label: c-has-part_st
BFO CLIF specification label: hasContinuantPartAt
example of usage: [copied from inverse property 'part of continuant at some time'] Mary’s arm continuant_part_of Mary in the time of her life prior to her operation
example of usage: [copied from inverse property 'part of continuant at some time'] the Northern hemisphere of the planet Earth is a part of the planet Earth at all times at which the planet Earth exists.
definition: b has_continuant_part c at t = Def. c continuant_part_of b at t. (axiom label in BFO2 Reference: [006-001])
editor note: Alan Ruttenberg: This is a binary version of a ternary time-indexed, instance level, relation. The BFO reading of the binary relation 'has continuant part at some time@en' is: exists t, exists_at(x,t) & exists_at(y,t) & 'has continuant part@en'(x,y,t)
editor note: [copied from inverse property 'part of continuant at some time'] Alan Ruttenberg: This is a binary version of a ternary time-indexed, instance level, relation. The BFO reading of the binary relation 'part of continuant at some time@en' is: exists t, exists_at(x,t) & exists_at(y,t) & 'part of continuant@en'(x,y,t)
editor note: [copied from inverse property 'part of continuant at some time'] BFO 2 Reference: Immaterial entities are in some cases continuant parts of their material hosts. Thus the hold of a ship, for example, is a part of the ship; it may itself have parts, which may have names (used for example by ship stow planners, customs inspectors, and the like). Immaterial entities under both 1. and 2. can be of zero, one, two or three dimensions. We define:a(immaterial entity)[Definition: a is an immaterial entity = Def. a is an independent continuant that has no material entities as parts. (axiom label in BFO2 Reference: [028-001])
editor note: [copied from inverse property 'part of continuant at some time'] BFO 2 Reference: a (continuant or occurrent) part of itself. We appreciate that this is counterintuitive for some users, since it implies for example that President Obama is a part of himself. However it brings benefits in simplifying the logical formalism, and it captures an important feature of identity, namely that it is the limit case of mereological inclusion.
editor note: [copied from inverse property 'part of continuant at some time'] BFO2 Reference: continuant
editor note: [copied from inverse property 'part of continuant at some time'] BFO2 Reference: continuantThe range for ‘t’ (as in all cases throughout this document unless otherwise specified) is: temporal region.
imported from: OGG: Ontology of Genes and Genomes
elucidation: [copied from inverse property 'part of continuant at some time'] b continuant_part_of c at t =Def. b is a part of c at t & t is a time & b and c are continuants. (axiom label in BFO2 Reference: [002-001])
has associated axiom(fol): (iff (hasContinuantPartAt a b t) (continuantPartOfAt b a t)) // axiom label in BFO2 CLIF: [006-001]

Axiom
annotated source: has continuant part at some time
annotated property: definition
annotated target: b has_continuant_part c at t = Def. c continuant_part_of b at t. (axiom label in BFO2 Reference: [006-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/006-001

Axiom
annotated source: has continuant part at some time
annotated property: has associated axiom(fol)
annotated target: (iff (hasContinuantPartAt a b t) (continuantPartOfAt b a t)) // axiom label in BFO2 CLIF: [006-001]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/006-001

has proper temporal part
type: ObjectProperty
sub property of: has proper occurrent part
sub property of: has temporal part
type: TransitiveProperty
domain: occurrent
range: occurrent
BFO OWL specification label: has-t-ppart

history of
type: ObjectProperty
sub property of: occurs in
sub property of: specifically depends on at all times
inverse of: has history
type: FunctionalProperty
type: InverseFunctionalProperty
domain: process
range: material entity
BFO OWL specification label: history-of
BFO CLIF specification label: historyOf
definition: [copied from inverse property 'has history'] b has_history c iff c history_of b [XXX-001
elucidation: b history_of c if c is a material entity or site and b is a history that is the unique history of cAxiom: if b history_of c and b history_of d then c=d [XXX-001

has history
type: ObjectProperty
sub property of: contains process
sub property of: participates in at all times
type: FunctionalProperty
type: InverseFunctionalProperty
domain: material entity
range: process
BFO OWL specification label: has-history
BFO CLIF specification label: hasHistory
definition: b has_history c iff c history_of b [XXX-001
elucidation: [copied from inverse property 'history of'] b history_of c if c is a material entity or site and b is a history that is the unique history of cAxiom: if b history_of c and b history_of d then c=d [XXX-001

part of continuant at all times that whole exists
type: ObjectProperty
sub property of: part of continuant at some time
type: TransitiveProperty
domain: continuant
range: continuant
BFO OWL specification label: c-part-of-object_at
definition: [copied from inverse property 'has continuant part at all times'] b has_continuant_part c at t = Def. c continuant_part_of b at t. (axiom label in BFO2 Reference: [006-001])
definition: forall(t) exists_at(y,t) -> exists_at(x,t) and 'part of continuant'(x,y,t)
editor note: This is a binary version of a ternary time-indexed, instance level, relation. Unlike the rest of the temporalized relations which temporally quantify over existence of the subject of the relation, this relation temporally quantifies over the existence of the object of the relation. The relation is provided tentatively, to assess whether the GO needs such a relation. It is inverse of 'has continuant part at all times'
editor note: [copied from inverse property 'has continuant part at all times'] Alan Ruttenberg: This is a binary version of a ternary time-indexed, instance-level, relation. The BFO reading of the binary relation 'has continuant part at all times@en' is: forall(t) exists_at(x,t) -> exists_at(y,t) and 'has continuant part@en(x,y,t)'.
imported from: OGG: Ontology of Genes and Genomes

Axiom
annotated source: part of continuant at all times that whole exists
annotated property: definition
annotated target: forall(t) exists_at(y,t) -> exists_at(x,t) and 'part of continuant'(x,y,t)
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/0000598

Axiom
annotated source: part of continuant at all times that whole exists
annotated property: editor note
annotated target: This is a binary version of a ternary time-indexed, instance level, relation. Unlike the rest of the temporalized relations which temporally quantify over existence of the subject of the relation, this relation temporally quantifies over the existence of the object of the relation. The relation is provided tentatively, to assess whether the GO needs such a relation. It is inverse of 'has continuant part at all times'
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/0000599

has continuant part at all times that part exists
type: ObjectProperty
sub property of: has continuant part at some time
type: TransitiveProperty
domain: continuant
range: continuant
BFO OWL specification label: c-has-part-object_at
example of usage: [copied from inverse property 'part of continuant at all times'] Mary’s arm continuant_part_of Mary in the time of her life prior to her operation
example of usage: [copied from inverse property 'part of continuant at all times'] the Northern hemisphere of the planet Earth is a part of the planet Earth at all times at which the planet Earth exists.
definition: forall(t) exists_at(y,t) -> exists_at(x,t) and 'has continuant part'(x,y,t)
editor note: This is a binary version of a ternary time-indexed, instance level, relation. Unlike the rest of the temporalized relations which temporally quantify over existence of the subject of the relation, this relation temporally quantifies over the existence of the object of the relation. The relation is provided tentatively, to assess whether the GO needs such a relation. It is inverse of 'part of continuant at all times'
editor note: [copied from inverse property 'part of continuant at all times'] Alan Ruttenberg: This is a binary version of a ternary time-indexed, instance-level, relation. The BFO reading of the binary relation 'part of continuant at all times@en' is: forall(t) exists_at(x,t) -> exists_at(y,t) and 'part of continuant@en(x,y,t)'.
editor note: [copied from inverse property 'part of continuant at all times'] BFO 2 Reference: Immaterial entities are in some cases continuant parts of their material hosts. Thus the hold of a ship, for example, is a part of the ship; it may itself have parts, which may have names (used for example by ship stow planners, customs inspectors, and the like). Immaterial entities under both 1. and 2. can be of zero, one, two or three dimensions. We define:a(immaterial entity)[Definition: a is an immaterial entity = Def. a is an independent continuant that has no material entities as parts. (axiom label in BFO2 Reference: [028-001])
editor note: [copied from inverse property 'part of continuant at all times'] BFO 2 Reference: a (continuant or occurrent) part of itself. We appreciate that this is counterintuitive for some users, since it implies for example that President Obama is a part of himself. However it brings benefits in simplifying the logical formalism, and it captures an important feature of identity, namely that it is the limit case of mereological inclusion.
editor note: [copied from inverse property 'part of continuant at all times'] BFO2 Reference: continuant
editor note: [copied from inverse property 'part of continuant at all times'] BFO2 Reference: continuantThe range for ‘t’ (as in all cases throughout this document unless otherwise specified) is: temporal region.
imported from: OGG: Ontology of Genes and Genomes
elucidation: [copied from inverse property 'part of continuant at all times'] b continuant_part_of c at t =Def. b is a part of c at t & t is a time & b and c are continuants. (axiom label in BFO2 Reference: [002-001])

Axiom
annotated source: has continuant part at all times that part exists
annotated property: definition
annotated target: forall(t) exists_at(y,t) -> exists_at(x,t) and 'has continuant part'(x,y,t)
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/0000599

Axiom
annotated source: has continuant part at all times that part exists
annotated property: editor note
annotated target: This is a binary version of a ternary time-indexed, instance level, relation. Unlike the rest of the temporalized relations which temporally quantify over existence of the subject of the relation, this relation temporally quantifies over the existence of the object of the relation. The relation is provided tentatively, to assess whether the GO needs such a relation. It is inverse of 'part of continuant at all times'
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/0000600

is genome of organism
type: ObjectProperty
sub property of: part of continuant at some time
definition: a 'part of continuant at some time' relation that incides a genome belongs to a organism.
term editor: Yongqun He, Bin Zhao
imported from: OGG: Ontology of Genes and Genomes

is gene of organism
type: ObjectProperty
sub property of: part of continuant at some time
domain: gene
range: organism
definition: a relation between a gene and the organism where this gene belongs to the organism in nature. It does not include a foreign gene that is transferred to an organism by a genetic engineering method.
term editor: Oliver He, Yue Liu
imported from: OGG: Ontology of Genes and Genomes

entity
type: Class
subclass of: Restriction
  on property: exists at
  some values from: temporal region
BFO OWL specification label: entity
BFO CLIF specification label: Entity
example of usage: Julius Caesar
example of usage: Verdi’s Requiem
example of usage: the Second World War
example of usage: your body mass index
editor note: BFO 2 Reference: In all areas of empirical inquiry we encounter general terms of two sorts. First are general terms which refer to universals or types:animaltuberculosissurgical procedurediseaseSecond, are general terms used to refer to groups of entities which instantiate a given universal but do not correspond to the extension of any subuniversal of that universal because there is nothing intrinsic to the entities in question by virtue of which they – and only they – are counted as belonging to the given group. Examples are: animal purchased by the Emperortuberculosis diagnosed on a Wednesdaysurgical procedure performed on a patient from Stockholmperson identified as candidate for clinical trial #2056-555person who is signatory of Form 656-PPVpainting by Leonardo da VinciSuch terms, which represent what are called ‘specializations’ in [81
editor note: Entity doesn't have a closure axiom because the subclasses don't necessarily exhaust all possibilites. For example Werner Ceusters 'portions of reality' include 4 sorts, entities (as BFO construes them), universals, configurations, and relations. It is an open question as to whether entities as construed in BFO will at some point also include these other portions of reality. See, for example, 'How to track absolutely everything' at http://www.referent-tracking.com/_RTU/papers/CeustersICbookRevised.pdf
imported from: OGG: Ontology of Genes and Genomes
elucidation: An entity is anything that exists or has existed or will exist. (axiom label in BFO2 Reference: [001-001])

Axiom
annotated source: entity
annotated property: editor note
annotated target: 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
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/0000004
comment: per discussion with Barry Smith

Axiom
annotated source: entity
annotated property: elucidation
annotated target: An entity is anything that exists or has existed or will exist. (axiom label in BFO2 Reference: [001-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/001-001

continuant
type: Class
subclass of: entity
disjoint with: occurrent
BFO OWL specification label: continuant
BFO CLIF specification label: Continuant
editor note: BFO 2 Reference: Continuant entities are entities which can be sliced to yield parts only along the spatial dimension, yielding for example the parts of your table which we call its legs, its top, its nails. ‘My desk stretches from the window to the door. It has spatial parts, and can be sliced (in space) in two. With respect to time, however, a thing is a continuant.’ [60, p. 240
editor note: Continuant doesn't have a closure axiom because the subclasses don't necessarily exhaust all possibilites. For example, in an expansion involving bringing in some of Ceuster's other portions of reality, questions are raised as to whether universals are continuants
imported from: OGG: Ontology of Genes and Genomes
elucidation: 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])
has associated axiom(nl): 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])
has associated axiom(nl): 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])
has associated axiom(nl): 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])
has associated axiom(fol): (forall (x y) (if (and (Continuant x) (exists (t) (continuantPartOfAt y x t))) (Continuant y))) // axiom label in BFO2 CLIF: [009-002]
has associated axiom(fol): (forall (x y) (if (and (Continuant x) (exists (t) (hasContinuantPartOfAt y x t))) (Continuant y))) // axiom label in BFO2 CLIF: [126-001]
has associated axiom(fol): (forall (x) (if (Continuant x) (Entity x))) // axiom label in BFO2 CLIF: [008-002]
has associated axiom(fol): (forall (x) (if (Material Entity x) (exists (t) (and (TemporalRegion t) (existsAt x t))))) // axiom label in BFO2 CLIF: [011-002]

Axiom
annotated source: continuant
annotated property: editor note
annotated target: 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
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/0000007

Axiom
annotated source: continuant
annotated property: elucidation
annotated target: 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])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/008-002

Axiom
annotated source: continuant
annotated property: has associated axiom(nl)
annotated target: 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])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/126-001

Axiom
annotated source: continuant
annotated property: has associated axiom(nl)
annotated target: 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])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/009-002

Axiom
annotated source: continuant
annotated property: has associated axiom(nl)
annotated target: 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])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/011-002

Axiom
annotated source: continuant
annotated property: has associated axiom(fol)
annotated target: (forall (x y) (if (and (Continuant x) (exists (t) (continuantPartOfAt y x t))) (Continuant y))) // axiom label in BFO2 CLIF: [009-002]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/009-002

Axiom
annotated source: continuant
annotated property: has associated axiom(fol)
annotated target: (forall (x y) (if (and (Continuant x) (exists (t) (hasContinuantPartOfAt y x t))) (Continuant y))) // axiom label in BFO2 CLIF: [126-001]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/126-001

Axiom
annotated source: continuant
annotated property: has associated axiom(fol)
annotated target: (forall (x) (if (Continuant x) (Entity x))) // axiom label in BFO2 CLIF: [008-002]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/008-002

Axiom
annotated source: continuant
annotated property: has associated axiom(fol)
annotated target: (forall (x) (if (Material Entity x) (exists (t) (and (TemporalRegion t) (existsAt x t))))) // axiom label in BFO2 CLIF: [011-002]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/011-002

occurrent
type: Class
subclass of: entity
BFO OWL specification label: occurrent
BFO CLIF specification label: Occurrent
editor note: BFO 2 Reference: every occurrent that is not a temporal or spatiotemporal region is s-dependent on some independent continuant that is not a spatial region
editor note: BFO 2 Reference: s-dependence obtains between every process and its participants in the sense that, as a matter of necessity, this process could not have existed unless these or those participants existed also. A process may have a succession of participants at different phases of its unfolding. Thus there may be different players on the field at different times during the course of a football game; but the process which is the entire game s-depends_on all of these players nonetheless. Some temporal parts of this process will s-depend_on on only some of the players.
editor note: Occurrent doesn't have a closure axiom because the subclasses don't necessarily exhaust all possibilites. An example would be the sum of a process and the process boundary of another process.
editor note: Simons uses different terminology for relations of occurrents to regions: Denote the spatio-temporal location of a given occurrent e by 'spn[e]' and call this region its span. We may say an occurrent is at its span, in any larger region, and covers any smaller region. Now suppose we have fixed a frame of reference so that we can speak not merely of spatio-temporal but also of spatial regions (places) and temporal regions (times). The spread of an occurrent, (relative to a frame of reference) is the space it exactly occupies, and its spell is likewise the time it exactly occupies. We write 'spr[e]' and `spl[e]' respectively for the spread and spell of e, omitting mention of the frame.
imported from: OGG: Ontology of Genes and Genomes
elucidation: 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])
has associated axiom(nl): Every occurrent occupies_spatiotemporal_region some spatiotemporal region. (axiom label in BFO2 Reference: [108-001])
has associated axiom(nl): b is an occurrent entity iff b is an entity that has temporal parts. (axiom label in BFO2 Reference: [079-001])
has associated axiom(fol): (forall (x) (if (Occurrent x) (exists (r) (and (SpatioTemporalRegion r) (occupiesSpatioTemporalRegion x r))))) // axiom label in BFO2 CLIF: [108-001]
has associated axiom(fol): (forall (x) (iff (Occurrent x) (and (Entity x) (exists (y) (temporalPartOf y x))))) // axiom label in BFO2 CLIF: [079-001]

Axiom
annotated source: occurrent
annotated property: editor note
annotated target: 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.
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/0000006
comment: per discussion with Barry Smith

Axiom
annotated source: occurrent
annotated property: editor note
annotated target: 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.
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/0000012

Axiom
annotated source: occurrent
annotated property: elucidation
annotated target: 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])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/077-002

Axiom
annotated source: occurrent
annotated property: has associated axiom(nl)
annotated target: Every occurrent occupies_spatiotemporal_region some spatiotemporal region. (axiom label in BFO2 Reference: [108-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/108-001

Axiom
annotated source: occurrent
annotated property: has associated axiom(nl)
annotated target: b is an occurrent entity iff b is an entity that has temporal parts. (axiom label in BFO2 Reference: [079-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/079-001

Axiom
annotated source: occurrent
annotated property: has associated axiom(fol)
annotated target: (forall (x) (if (Occurrent x) (exists (r) (and (SpatioTemporalRegion r) (occupiesSpatioTemporalRegion x r))))) // axiom label in BFO2 CLIF: [108-001]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/108-001

Axiom
annotated source: occurrent
annotated property: has associated axiom(fol)
annotated target: (forall (x) (iff (Occurrent x) (and (Entity x) (exists (y) (temporalPartOf y x))))) // axiom label in BFO2 CLIF: [079-001]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/079-001

independent continuant
type: Class
subclass of: continuant
subclass of: Restriction
  on property: occupies spatial region at some time
  some values from: spatial region
subclass of: Restriction
  on property: specifically depends on at some time
  all values from: Nothing
subclass of: Restriction
  on property: part of continuant at some time
  all values from: Class
    complement of: Class
      union of: specifically dependent continuant
      union of: generically dependent continuant
subclass of: Restriction
  on property: part of continuant at all times that whole exists
  all values from: Class
    complement of: Class
      union of: specifically dependent continuant
      union of: generically dependent continuant
BFO OWL specification label: ic
BFO CLIF specification label: IndependentContinuant
example of usage: a chair
example of usage: a heart
example of usage: a leg
example of usage: a molecule
example of usage: a spatial region
example of usage: an atom
example of usage: an orchestra.
example of usage: an organism
example of usage: the bottom right portion of a human torso
example of usage: the interior of your mouth
definition: 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])
imported from: OGG: Ontology of Genes and Genomes
has associated axiom(nl): 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])
has associated axiom(nl): 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])
has associated axiom(fol): (forall (x t) (if (IndependentContinuant x) (exists (r) (and (SpatialRegion r) (locatedInAt x r t))))) // axiom label in BFO2 CLIF: [134-001]
has associated axiom(fol): (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]
has associated axiom(fol): (iff (IndependentContinuant a) (and (Continuant a) (not (exists (b t) (specificallyDependsOnAt a b t))))) // axiom label in BFO2 CLIF: [017-002]

Axiom
annotated source: independent continuant
annotated property: definition
annotated target: 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])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/017-002

Axiom
annotated source: independent continuant
annotated property: has associated axiom(nl)
annotated target: 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])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/134-001

Axiom
annotated source: independent continuant
annotated property: has associated axiom(nl)
annotated target: 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])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/018-002

Axiom
annotated source: independent continuant
annotated property: has associated axiom(fol)
annotated target: (forall (x t) (if (IndependentContinuant x) (exists (r) (and (SpatialRegion r) (locatedInAt x r t))))) // axiom label in BFO2 CLIF: [134-001]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/134-001

Axiom
annotated source: independent continuant
annotated property: has associated axiom(fol)
annotated target: (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]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/018-002

Axiom
annotated source: independent continuant
annotated property: has associated axiom(fol)
annotated target: (iff (IndependentContinuant a) (and (Continuant a) (not (exists (b t) (specificallyDependsOnAt a b t))))) // axiom label in BFO2 CLIF: [017-002]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/017-002

spatial region
type: Class
subclass of: immaterial entity
subclass of: Restriction
  on property: part of continuant at some time
  all values from: spatial region
subclass of: Restriction
  on property: has continuant part at some time
  all values from: spatial region
subclass of: Restriction
  on property: part of continuant at all times that whole exists
  all values from: spatial region
subclass of: Restriction
  on property: has continuant part at all times that part exists
  all values from: spatial region
subclass of: Restriction
  on property: occupies spatial region at some time
  has self: true
subclass of: Restriction
  on property: has spatial occupant at some time
  has self: true
BFO OWL specification label: s-region
BFO CLIF specification label: SpatialRegion
editor note: BFO 2 Reference: Spatial regions do not participate in processes.
editor note: Spatial region doesn't have a closure axiom because the subclasses don't exhaust all possibilites. An example would be the union of a spatial point and a spatial line that doesn't overlap the point, or two spatial lines that intersect at a single point. In both cases the resultant spatial region is neither 0-dimensional, 1-dimensional, 2-dimensional, or 3-dimensional.
imported from: OGG: Ontology of Genes and Genomes
elucidation: A spatial region is a continuant entity that is a continuant_part_of spaceR as defined relative to some frame R. (axiom label in BFO2 Reference: [035-001])
has associated axiom(nl): All continuant parts of spatial regions are spatial regions. (axiom label in BFO2 Reference: [036-001])
has associated axiom(fol): (forall (x y t) (if (and (SpatialRegion x) (continuantPartOfAt y x t)) (SpatialRegion y))) // axiom label in BFO2 CLIF: [036-001]
has associated axiom(fol): (forall (x) (if (SpatialRegion x) (Continuant x))) // axiom label in BFO2 CLIF: [035-001]

Axiom
annotated source: spatial region
annotated property: subClassOf
annotated target: Restriction
  on property: occupies spatial region at some time
  has self: true
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/575

Axiom
annotated source: spatial region
annotated property: subClassOf
annotated target: Restriction
  on property: has spatial occupant at some time
  has self: true
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/576

Axiom
annotated source: spatial region
annotated property: editor note
annotated target: Spatial region doesn't have a closure axiom because the subclasses don't exhaust all possibilites. An example would be the union of a spatial point and a spatial line that doesn't overlap the point, or two spatial lines that intersect at a single point. In both cases the resultant spatial region is neither 0-dimensional, 1-dimensional, 2-dimensional, or 3-dimensional.
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/0000002
comment: per discussion with Barry Smith

Axiom
annotated source: spatial region
annotated property: elucidation
annotated target: A spatial region is a continuant entity that is a continuant_part_of spaceR as defined relative to some frame R. (axiom label in BFO2 Reference: [035-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/035-001

Axiom
annotated source: spatial region
annotated property: has associated axiom(nl)
annotated target: All continuant parts of spatial regions are spatial regions. (axiom label in BFO2 Reference: [036-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/036-001

Axiom
annotated source: spatial region
annotated property: has associated axiom(fol)
annotated target: (forall (x y t) (if (and (SpatialRegion x) (continuantPartOfAt y x t)) (SpatialRegion y))) // axiom label in BFO2 CLIF: [036-001]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/036-001

Axiom
annotated source: spatial region
annotated property: has associated axiom(fol)
annotated target: (forall (x) (if (SpatialRegion x) (Continuant x))) // axiom label in BFO2 CLIF: [035-001]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/035-001

temporal region
type: Class
subclass of: occurrent
subclass of: Restriction
  on property: has occurrent part
  all values from: temporal region
subclass of: Restriction
  on property: part of occurrent
  all values from: temporal region
subclass of: Restriction
  on property: occupies temporal region
  has self: true
subclass of: Restriction
  on property: has temporal occupant
  has self: true
BFO OWL specification label: t-region
BFO CLIF specification label: TemporalRegion
editor note: 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
imported from: OGG: Ontology of Genes and Genomes
elucidation: 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])
has associated axiom(nl): All parts of temporal regions are temporal regions. (axiom label in BFO2 Reference: [101-001])
has associated axiom(nl): Every temporal region t is such that t occupies_temporal_region t. (axiom label in BFO2 Reference: [119-002])
has associated axiom(fol): (forall (r) (if (TemporalRegion r) (occupiesTemporalRegion r r))) // axiom label in BFO2 CLIF: [119-002]
has associated axiom(fol): (forall (x y) (if (and (TemporalRegion x) (occurrentPartOf y x)) (TemporalRegion y))) // axiom label in BFO2 CLIF: [101-001]
has associated axiom(fol): (forall (x) (if (TemporalRegion x) (Occurrent x))) // axiom label in BFO2 CLIF: [100-001]

Axiom
annotated source: temporal region
annotated property: subClassOf
annotated target: Restriction
  on property: occupies temporal region
  has self: true
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/163

Axiom
annotated source: temporal region
annotated property: subClassOf
annotated target: Restriction
  on property: has temporal occupant
  has self: true
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/164

Axiom
annotated source: temporal region
annotated property: editor note
annotated target: 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
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/0000003
comment: per discussion with Barry Smith

Axiom
annotated source: temporal region
annotated property: elucidation
annotated target: 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])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/100-001

Axiom
annotated source: temporal region
annotated property: has associated axiom(nl)
annotated target: All parts of temporal regions are temporal regions. (axiom label in BFO2 Reference: [101-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/101-001

Axiom
annotated source: temporal region
annotated property: has associated axiom(nl)
annotated target: Every temporal region t is such that t occupies_temporal_region t. (axiom label in BFO2 Reference: [119-002])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/119-002

Axiom
annotated source: temporal region
annotated property: has associated axiom(fol)
annotated target: (forall (r) (if (TemporalRegion r) (occupiesTemporalRegion r r))) // axiom label in BFO2 CLIF: [119-002]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/119-002

Axiom
annotated source: temporal region
annotated property: has associated axiom(fol)
annotated target: (forall (x y) (if (and (TemporalRegion x) (occurrentPartOf y x)) (TemporalRegion y))) // axiom label in BFO2 CLIF: [101-001]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/101-001

Axiom
annotated source: temporal region
annotated property: has associated axiom(fol)
annotated target: (forall (x) (if (TemporalRegion x) (Occurrent x))) // axiom label in BFO2 CLIF: [100-001]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/100-001

two-dimensional spatial region
type: Class
subclass of: spatial region
subclass of: Restriction
  on property: has continuant part at some time
  all values from: Class
    complement of: three-dimensional spatial region
subclass of: Restriction
  on property: has continuant part at all times that part exists
  all values from: Class
    complement of: three-dimensional spatial region
BFO OWL specification label: 2d-s-region
BFO CLIF specification label: TwoDimensionalSpatialRegion
example of usage: an infinitely thin plane in space.
example of usage: the surface of a sphere-shaped part of space
elucidation: A two-dimensional spatial region is a spatial region that is of two dimensions. (axiom label in BFO2 Reference: [039-001])
has associated axiom(fol): (forall (x) (if (TwoDimensionalSpatialRegion x) (SpatialRegion x))) // axiom label in BFO2 CLIF: [039-001]

Axiom
annotated source: two-dimensional spatial region
annotated property: elucidation
annotated target: A two-dimensional spatial region is a spatial region that is of two dimensions. (axiom label in BFO2 Reference: [039-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/039-001

Axiom
annotated source: two-dimensional spatial region
annotated property: has associated axiom(fol)
annotated target: (forall (x) (if (TwoDimensionalSpatialRegion x) (SpatialRegion x))) // axiom label in BFO2 CLIF: [039-001]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/039-001

spatiotemporal region
type: Class
subclass of: occurrent
subclass of: Restriction
  on property: projects onto spatial region at some time
  some values from: spatial region
subclass of: Restriction
  on property: projects onto temporal region
  some values from: temporal region
subclass of: Restriction
  on property: has occurrent part
  all values from: spatiotemporal region
subclass of: Restriction
  on property: part of occurrent
  all values from: spatiotemporal region
subclass of: Restriction
  on property: has spatiotemporal occupant
  has self: true
subclass of: Restriction
  on property: occupies spatiotemporal region
  has self: true
BFO OWL specification label: st-region
BFO CLIF specification label: SpatiotemporalRegion
example of usage: the spatiotemporal region occupied by a human life
example of usage: the spatiotemporal region occupied by a process of cellular meiosis.
example of usage: the spatiotemporal region occupied by the development of a cancer tumor
imported from: OGG: Ontology of Genes and Genomes
elucidation: A spatiotemporal region is an occurrent entity that is part of spacetime. (axiom label in BFO2 Reference: [095-001])
has associated axiom(nl): All parts of spatiotemporal regions are spatiotemporal regions. (axiom label in BFO2 Reference: [096-001])
has associated axiom(nl): Each spatiotemporal region at any time t projects_onto some spatial region at t. (axiom label in BFO2 Reference: [099-001])
has associated axiom(nl): Each spatiotemporal region projects_onto some temporal region. (axiom label in BFO2 Reference: [098-001])
has associated axiom(nl): Every spatiotemporal region occupies_spatiotemporal_region itself.
has associated axiom(nl): Every spatiotemporal region s is such that s occupies_spatiotemporal_region s. (axiom label in BFO2 Reference: [107-002])
has associated axiom(fol): (forall (r) (if (SpatioTemporalRegion r) (occupiesSpatioTemporalRegion r r))) // axiom label in BFO2 CLIF: [107-002]
has associated axiom(fol): (forall (x t) (if (SpatioTemporalRegion x) (exists (y) (and (SpatialRegion y) (spatiallyProjectsOntoAt x y t))))) // axiom label in BFO2 CLIF: [099-001]
has associated axiom(fol): (forall (x y) (if (and (SpatioTemporalRegion x) (occurrentPartOf y x)) (SpatioTemporalRegion y))) // axiom label in BFO2 CLIF: [096-001]
has associated axiom(fol): (forall (x) (if (SpatioTemporalRegion x) (Occurrent x))) // axiom label in BFO2 CLIF: [095-001]
has associated axiom(fol): (forall (x) (if (SpatioTemporalRegion x) (exists (y) (and (TemporalRegion y) (temporallyProjectsOnto x y))))) // axiom label in BFO2 CLIF: [098-001]

Axiom
annotated source: spatiotemporal region
annotated property: subClassOf
annotated target: Restriction
  on property: has spatiotemporal occupant
  has self: true
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/166

Axiom
annotated source: spatiotemporal region
annotated property: subClassOf
annotated target: Restriction
  on property: occupies spatiotemporal region
  has self: true
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/165

Axiom
annotated source: spatiotemporal region
annotated property: elucidation
annotated target: A spatiotemporal region is an occurrent entity that is part of spacetime. (axiom label in BFO2 Reference: [095-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/095-001

Axiom
annotated source: spatiotemporal region
annotated property: has associated axiom(nl)
annotated target: All parts of spatiotemporal regions are spatiotemporal regions. (axiom label in BFO2 Reference: [096-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/096-001

Axiom
annotated source: spatiotemporal region
annotated property: has associated axiom(nl)
annotated target: Each spatiotemporal region at any time t projects_onto some spatial region at t. (axiom label in BFO2 Reference: [099-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/099-001

Axiom
annotated source: spatiotemporal region
annotated property: has associated axiom(nl)
annotated target: Each spatiotemporal region projects_onto some temporal region. (axiom label in BFO2 Reference: [098-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/098-001

Axiom
annotated source: spatiotemporal region
annotated property: has associated axiom(nl)
annotated target: Every spatiotemporal region s is such that s occupies_spatiotemporal_region s. (axiom label in BFO2 Reference: [107-002])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/107-002

Axiom
annotated source: spatiotemporal region
annotated property: has associated axiom(fol)
annotated target: (forall (r) (if (SpatioTemporalRegion r) (occupiesSpatioTemporalRegion r r))) // axiom label in BFO2 CLIF: [107-002]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/107-002

Axiom
annotated source: spatiotemporal region
annotated property: has associated axiom(fol)
annotated target: (forall (x t) (if (SpatioTemporalRegion x) (exists (y) (and (SpatialRegion y) (spatiallyProjectsOntoAt x y t))))) // axiom label in BFO2 CLIF: [099-001]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/099-001

Axiom
annotated source: spatiotemporal region
annotated property: has associated axiom(fol)
annotated target: (forall (x y) (if (and (SpatioTemporalRegion x) (occurrentPartOf y x)) (SpatioTemporalRegion y))) // axiom label in BFO2 CLIF: [096-001]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/096-001

Axiom
annotated source: spatiotemporal region
annotated property: has associated axiom(fol)
annotated target: (forall (x) (if (SpatioTemporalRegion x) (Occurrent x))) // axiom label in BFO2 CLIF: [095-001]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/095-001

Axiom
annotated source: spatiotemporal region
annotated property: has associated axiom(fol)
annotated target: (forall (x) (if (SpatioTemporalRegion x) (exists (y) (and (TemporalRegion y) (temporallyProjectsOnto x y))))) // axiom label in BFO2 CLIF: [098-001]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/098-001

process
type: Class
subclass of: occurrent
subclass of: Restriction
  on property: specifically depends on at some time
  some values from: material entity
subclass of: Restriction
  on property: has occurrent part
  all values from: Class
    union of: process
    union of: process boundary
subclass of: Restriction
  on property: part of occurrent
  all values from: process
BFO OWL specification label: process
BFO CLIF specification label: Process
example of usage: a process of cell-division, \ a beating of the heart
example of usage: a process of meiosis
example of usage: a process of sleeping
example of usage: the course of a disease
example of usage: the flight of a bird
example of usage: the life of an organism
example of usage: your process of aging.
definition: 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])
editor note: BFO 2 Reference: The realm of occurrents is less pervasively marked by the presence of natural units than is the case in the realm of independent continuants. Thus there is here no counterpart of ‘object’. In BFO 1.0 ‘process’ served as such a counterpart. In BFO 2.0 ‘process’ is, rather, the occurrent counterpart of ‘material entity’. Those natural – as contrasted with engineered, which here means: deliberately executed – units which do exist in the realm of occurrents are typically either parasitic on the existence of natural units on the continuant side, or they are fiat in nature. Thus we can count lives; we can count football games; we can count chemical reactions performed in experiments or in chemical manufacturing. We cannot count the processes taking place, for instance, in an episode of insect mating behavior.Even where natural units are identifiable, for example cycles in a cyclical process such as the beating of a heart or an organism’s sleep/wake cycle, the processes in question form a sequence with no discontinuities (temporal gaps) of the sort that we find for instance where billiard balls or zebrafish or planets are separated by clear spatial gaps. Lives of organisms are process units, but they too unfold in a continuous series from other, prior processes such as fertilization, and they unfold in turn in continuous series of post-life processes such as post-mortem decay. Clear examples of boundaries of processes are almost always of the fiat sort (midnight, a time of death as declared in an operating theater or on a death certificate, the initiation of a state of war)
imported from: OGG: Ontology of Genes and Genomes
has associated axiom(fol): (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]

Axiom
annotated source: process
annotated property: definition
annotated target: 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])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/083-003

Axiom
annotated source: process
annotated property: has associated axiom(fol)
annotated target: (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]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/083-003

disposition
type: Class
subclass of: realizable entity
subclass of: Restriction
  on property: part of continuant at some time
  all values from: Class
    complement of: role
subclass of: Restriction
  on property: part of continuant at all times that whole exists
  all values from: Class
    complement of: role
disjoint with: role
BFO OWL specification label: disposition
BFO CLIF specification label: Disposition
example of usage: an atom of element X has the disposition to decay to an atom of element Y
example of usage: certain people have a predisposition to colon cancer
example of usage: children are innately disposed to categorize objects in certain ways.
example of usage: the cell wall is disposed to filter chemicals in endocitosis and exocitosis
editor note: BFO 2 Reference: Dispositions exist along a strength continuum. Weaker forms of disposition are realized in only a fraction of triggering cases. These forms occur in a significant number of cases of a similar type [89
imported from: OGG: Ontology of Genes and Genomes
elucidation: 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])
has associated axiom(nl): 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])
has associated axiom(fol): (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]
has associated axiom(fol): (forall (x) (if (Disposition x) (and (RealizableEntity x) (exists (y) (and (MaterialEntity y) (bearerOfAt x y t)))))) // axiom label in BFO2 CLIF: [062-002]

Axiom
annotated source: disposition
annotated property: elucidation
annotated target: 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])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/062-002

Axiom
annotated source: disposition
annotated property: has associated axiom(nl)
annotated target: 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])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/063-002

Axiom
annotated source: disposition
annotated property: has associated axiom(fol)
annotated target: (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]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/063-002

Axiom
annotated source: disposition
annotated property: has associated axiom(fol)
annotated target: (forall (x) (if (Disposition x) (and (RealizableEntity x) (exists (y) (and (MaterialEntity y) (bearerOfAt x y t)))))) // axiom label in BFO2 CLIF: [062-002]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/062-002

realizable entity
type: Class
subclass of: specifically dependent continuant
subclass of: Restriction
  on property: part of continuant at some time
  all values from: Class
    complement of: quality
subclass of: Restriction
  on property: part of continuant at all times that whole exists
  all values from: Class
    complement of: quality
disjoint with: quality
BFO OWL specification label: realizable
BFO CLIF specification label: RealizableEntity
example of usage: the disposition of this piece of metal to conduct electricity.
example of usage: the disposition of your blood to coagulate
example of usage: the function of your reproductive organs
example of usage: the role of being a doctor
example of usage: the role of this boundary to delineate where Utah and Colorado meet
imported from: OGG: Ontology of Genes and Genomes
elucidation: 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])
has associated axiom(nl): All realizable dependent continuants have independent continuants that are not spatial regions as their bearers. (axiom label in BFO2 Reference: [060-002])
has associated axiom(fol): (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]
has associated axiom(fol): (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]

Axiom
annotated source: realizable entity
annotated property: elucidation
annotated target: 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])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/058-002

Axiom
annotated source: realizable entity
annotated property: has associated axiom(nl)
annotated target: All realizable dependent continuants have independent continuants that are not spatial regions as their bearers. (axiom label in BFO2 Reference: [060-002])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/060-002

Axiom
annotated source: realizable entity
annotated property: has associated axiom(fol)
annotated target: (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]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/060-002

Axiom
annotated source: realizable entity
annotated property: has associated axiom(fol)
annotated target: (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]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/058-002

zero-dimensional spatial region
type: Class
subclass of: spatial region
subclass of: Restriction
  on property: has continuant part at some time
  all values from: Class
    complement of: Class
      union of: two-dimensional spatial region
      union of: one-dimensional spatial region
      union of: three-dimensional spatial region
subclass of: Restriction
  on property: has continuant part at all times that part exists
  all values from: Class
    complement of: Class
      union of: two-dimensional spatial region
      union of: one-dimensional spatial region
      union of: three-dimensional spatial region
BFO OWL specification label: 0d-s-region
BFO CLIF specification label: ZeroDimensionalSpatialRegion
elucidation: A zero-dimensional spatial region is a point in space. (axiom label in BFO2 Reference: [037-001])
has associated axiom(fol): (forall (x) (if (ZeroDimensionalSpatialRegion x) (SpatialRegion x))) // axiom label in BFO2 CLIF: [037-001]

Axiom
annotated source: zero-dimensional spatial region
annotated property: elucidation
annotated target: A zero-dimensional spatial region is a point in space. (axiom label in BFO2 Reference: [037-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/037-001

Axiom
annotated source: zero-dimensional spatial region
annotated property: has associated axiom(fol)
annotated target: (forall (x) (if (ZeroDimensionalSpatialRegion x) (SpatialRegion x))) // axiom label in BFO2 CLIF: [037-001]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/037-001

quality
type: Class
subclass of: specifically dependent continuant
subclass of: Restriction
  on property: part of continuant at some time
  all values from: Class
    complement of: realizable entity
subclass of: Restriction
  on property: part of continuant at all times that whole exists
  all values from: Class
    complement of: realizable entity
subclass of: Restriction
  on property: part of continuant at all times that whole exists
  all values from: Class
    complement of: realizable entity
BFO OWL specification label: quality
BFO CLIF specification label: Quality
example of usage: the ambient temperature of this portion of air
example of usage: the color of a tomato
example of usage: the length of the circumference of your waist
example of usage: the mass of this piece of gold.
example of usage: the shape of your nose
example of usage: the shape of your nostril
imported from: OGG: Ontology of Genes and Genomes
elucidation: 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])
has associated axiom(nl): 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])
has associated axiom(fol): (forall (x) (if (Quality x) (SpecificallyDependentContinuant x))) // axiom label in BFO2 CLIF: [055-001]
has associated axiom(fol): (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]

Axiom
annotated source: quality
annotated property: elucidation
annotated target: 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])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/055-001

Axiom
annotated source: quality
annotated property: has associated axiom(nl)
annotated target: 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])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/105-001

Axiom
annotated source: quality
annotated property: has associated axiom(fol)
annotated target: (forall (x) (if (Quality x) (SpecificallyDependentContinuant x))) // axiom label in BFO2 CLIF: [055-001]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/055-001

Axiom
annotated source: quality
annotated property: has associated axiom(fol)
annotated target: (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]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/105-001

specifically dependent continuant
type: Class
subclass of: continuant
subclass of: Restriction
  on property: inheres in at all times
  some values from: Class
    intersection of: independent continuant
    intersection of: Class
      complement of: spatial region
subclass of: Restriction
  on property: part of continuant at some time
  all values from: Class
    complement of: Class
      union of: independent continuant
      union of: generically dependent continuant
subclass of: Restriction
  on property: part of continuant at some time
  all values from: Class
    complement of: Class
      union of: independent continuant
      union of: generically dependent continuant
subclass of: Restriction
  on property: part of continuant at all times that whole exists
  all values from: Class
    complement of: Class
      union of: independent continuant
      union of: generically dependent continuant
BFO OWL specification label: sdc
BFO CLIF specification label: SpecificallyDependentContinuant
example of usage: Reciprocal specifically dependent continuants: the function of this key to open this lock and the mutually dependent disposition of this lock: to be opened by this key
example of usage: of one-sided specifically dependent continuants: the mass of this tomato
example of usage: of relational dependent continuants (multiple bearers): John’s love for Mary, the ownership relation between John and this statue, the relation of authority between John and his subordinates.
example of usage: the disposition of this fish to decay
example of usage: the function of this heart: to pump blood
example of usage: the mutual dependence of proton donors and acceptors in chemical reactions [79
example of usage: the mutual dependence of the role predator and the role prey as played by two organisms in a given interaction
example of usage: the pink color of a medium rare piece of grilled filet mignon at its center
example of usage: the role of being a doctor
example of usage: the shape of this hole.
example of usage: the smell of this portion of mozzarella
definition: 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])
definition: 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])
editor note: Specifically dependent continuant doesn't have a closure axiom because the subclasses don't necessarily exhaust all possibilites. We're not sure what else will develop here, but for example there are questions such as what are promises, obligation, etc.
imported from: OGG: Ontology of Genes and Genomes
has associated axiom(fol): (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]
has associated axiom(fol): (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]

Axiom
annotated source: specifically dependent continuant
annotated property: definition
annotated target: 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])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/131-004

Axiom
annotated source: specifically dependent continuant
annotated property: definition
annotated target: 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])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/050-003

Axiom
annotated source: specifically dependent continuant
annotated property: editor note
annotated target: 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.
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/0000005
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/0000601
comment: per discussion with Barry Smith

Axiom
annotated source: specifically dependent continuant
annotated property: editor note
annotated target: 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.
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/0000005
comment: per discussion with Barry Smith

Axiom
annotated source: specifically dependent continuant
annotated property: has associated axiom(fol)
annotated target: (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]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/131-004

Axiom
annotated source: specifically dependent continuant
annotated property: has associated axiom(fol)
annotated target: (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]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/050-003

role
type: Class
subclass of: realizable entity
subclass of: Restriction
  on property: part of continuant at some time
  all values from: Class
    complement of: disposition
subclass of: Restriction
  on property: part of continuant at all times that whole exists
  all values from: Class
    complement of: disposition
BFO OWL specification label: role
BFO CLIF specification label: Role
example of usage: John’s role of husband to Mary is dependent on Mary’s role of wife to John, and both are dependent on the object aggregate comprising John and Mary as member parts joined together through the relational quality of being married.
example of usage: the priest role
example of usage: the role of a boundary to demarcate two neighboring administrative territories
example of usage: the role of a building in serving as a military target
example of usage: the role of a stone in marking a property boundary
example of usage: the role of subject in a clinical trial
example of usage: the student role
editor note: BFO 2 Reference: One major family of examples of non-rigid universals involves roles, and ontologies developed for corresponding administrative purposes may consist entirely of representatives of entities of this sort. Thus ‘professor’, defined as follows,b instance_of professor at t =Def. there is some c, c instance_of professor role & c inheres_in b at t.denotes a non-rigid universal and so also do ‘nurse’, ‘student’, ‘colonel’, ‘taxpayer’, and so forth. (These terms are all, in the jargon of philosophy, phase sortals.) By using role terms in definitions, we can create a BFO conformant treatment of such entities drawing on the fact that, while an instance of professor may be simultaneously an instance of trade union member, no instance of the type professor role is also (at any time) an instance of the type trade union member role (any more than any instance of the type color is at any time an instance of the type length).If an ontology of employment positions should be defined in terms of roles following the above pattern, this enables the ontology to do justice to the fact that individuals instantiate the corresponding universals – professor, sergeant, nurse – only during certain phases in their lives.
imported from: OGG: Ontology of Genes and Genomes
elucidation: 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])
has associated axiom(fol): (forall (x) (if (Role x) (RealizableEntity x))) // axiom label in BFO2 CLIF: [061-001]

Axiom
annotated source: role
annotated property: elucidation
annotated target: 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])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/061-001

Axiom
annotated source: role
annotated property: has associated axiom(fol)
annotated target: (forall (x) (if (Role x) (RealizableEntity x))) // axiom label in BFO2 CLIF: [061-001]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/061-001

fiat object
type: Class
subclass of: material entity
BFO OWL specification label: fiat-object
BFO CLIF specification label: FiatObjectPart
example of usage: or with divisions drawn by cognitive subjects for practical reasons, such as the division of a cake (before slicing) into (what will become) slices (and thus member parts of an object aggregate). However, this does not mean that fiat object parts are dependent for their existence on divisions or delineations effected by cognitive subjects. If, for example, it is correct to conceive geological layers of the Earth as fiat object parts of the Earth, then even though these layers were first delineated in recent times, still existed long before such delineation and what holds of these layers (for example that the oldest layers are also the lowest layers) did not begin to hold because of our acts of delineation.Treatment of material entity in BFOExamples viewed by some as problematic cases for the trichotomy of fiat object part, object, and object aggregate include: a mussel on (and attached to) a rock, a slime mold, a pizza, a cloud, a galaxy, a railway train with engine and multiple carriages, a clonal stand of quaking aspen, a bacterial community (biofilm), a broken femur. Note that, as Aristotle already clearly recognized, such problematic cases – which lie at or near the penumbra of instances defined by the categories in question – need not invalidate these categories. The existence of grey objects does not prove that there are not objects which are black and objects which are white; the existence of mules does not prove that there are not objects which are donkeys and objects which are horses. It does, however, show that the examples in question need to be addressed carefully in order to show how they can be fitted into the proposed scheme, for example by recognizing additional subdivisions [29
example of usage: the FMA:regional parts of an intact human body.
example of usage: the Western hemisphere of the Earth
example of usage: the division of the brain into regions
example of usage: the division of the planet into hemispheres
example of usage: the dorsal and ventral surfaces of the body
example of usage: the upper and lower lobes of the left lung
editor note: BFO 2 Reference: Most examples of fiat object parts are associated with theoretically drawn divisions
elucidation: b is a fiat object part = Def. b is a material entity which is such that for all times t, if b exists at t then there is some object c such that b proper continuant_part of c at t and c is demarcated from the remainder of c by a two-dimensional continuant fiat boundary. (axiom label in BFO2 Reference: [027-004])
has associated axiom(fol): (forall (x) (if (FiatObjectPart x) (and (MaterialEntity x) (forall (t) (if (existsAt x t) (exists (y) (and (Object y) (properContinuantPartOfAt x y t)))))))) // axiom label in BFO2 CLIF: [027-004]

Axiom
annotated source: fiat object
annotated property: elucidation
annotated target: b is a fiat object part = Def. b is a material entity which is such that for all times t, if b exists at t then there is some object c such that b proper continuant_part of c at t and c is demarcated from the remainder of c by a two-dimensional continuant fiat boundary. (axiom label in BFO2 Reference: [027-004])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/027-004

Axiom
annotated source: fiat object
annotated property: has associated axiom(fol)
annotated target: (forall (x) (if (FiatObjectPart x) (and (MaterialEntity x) (forall (t) (if (existsAt x t) (exists (y) (and (Object y) (properContinuantPartOfAt x y t)))))))) // axiom label in BFO2 CLIF: [027-004]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/027-004

one-dimensional spatial region
type: Class
subclass of: spatial region
subclass of: Restriction
  on property: has continuant part at some time
  all values from: Class
    complement of: Class
      union of: two-dimensional spatial region
      union of: three-dimensional spatial region
subclass of: Restriction
  on property: has continuant part at all times that part exists
  all values from: Class
    complement of: Class
      union of: two-dimensional spatial region
      union of: three-dimensional spatial region
BFO OWL specification label: 1d-s-region
BFO CLIF specification label: OneDimensionalSpatialRegion
example of usage: an edge of a cube-shaped portion of space.
elucidation: A one-dimensional spatial region is a line or aggregate of lines stretching from one point in space to another. (axiom label in BFO2 Reference: [038-001])
has associated axiom(fol): (forall (x) (if (OneDimensionalSpatialRegion x) (SpatialRegion x))) // axiom label in BFO2 CLIF: [038-001]

Axiom
annotated source: one-dimensional spatial region
annotated property: elucidation
annotated target: A one-dimensional spatial region is a line or aggregate of lines stretching from one point in space to another. (axiom label in BFO2 Reference: [038-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/038-001

Axiom
annotated source: one-dimensional spatial region
annotated property: has associated axiom(fol)
annotated target: (forall (x) (if (OneDimensionalSpatialRegion x) (SpatialRegion x))) // axiom label in BFO2 CLIF: [038-001]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/038-001

object aggregate
type: Class
subclass of: material entity
BFO OWL specification label: object-aggregate
BFO CLIF specification label: ObjectAggregate
example of usage: a collection of cells in a blood biobank.
example of usage: a swarm of bees is an aggregate of members who are linked together through natural bonds
example of usage: a symphony orchestra
example of usage: an organization is an aggregate whose member parts have roles of specific types (for example in a jazz band, a chess club, a football team)
example of usage: defined by fiat: the aggregate of members of an organization
example of usage: defined through physical attachment: the aggregate of atoms in a lump of granite
example of usage: defined through physical containment: the aggregate of molecules of carbon dioxide in a sealed container
example of usage: defined via attributive delimitations such as: the patients in this hospital
example of usage: the aggregate of bearings in a constant velocity axle joint
example of usage: the aggregate of blood cells in your body
example of usage: the nitrogen atoms in the atmosphere
example of usage: the restaurants in Palo Alto
example of usage: your collection of Meissen ceramic plates.
editor note: An entity a is an object aggregate if and only if there is a mutually exhaustive and pairwise disjoint partition of a into objects
editor note: BFO 2 Reference: object aggregates may gain and lose parts while remaining numerically identical (one and the same individual) over time. This holds both for aggregates whose membership is determined naturally (the aggregate of cells in your body) and aggregates determined by fiat (a baseball team, a congressional committee).
definition source: ISBN:978-3-938793-98-5pp124-158#Thomas Bittner and Barry Smith, 'A Theory of Granular Partitions', in K. Munn and B. Smith (eds.), Applied Ontology: An Introduction, Frankfurt/Lancaster: ontos, 2008, 125-158.
elucidation: b is an object aggregate means: b is a material entity consisting exactly of a plurality of objects as member_parts at all times at which b exists. (axiom label in BFO2 Reference: [025-004])
has associated axiom(fol): (forall (x) (if (ObjectAggregate x) (and (MaterialEntity x) (forall (t) (if (existsAt x t) (exists (y z) (and (Object y) (Object z) (memberPartOfAt y x t) (memberPartOfAt z x t) (not (= y z)))))) (not (exists (w t_1) (and (memberPartOfAt w x t_1) (not (Object w)))))))) // axiom label in BFO2 CLIF: [025-004]

Axiom
annotated source: object aggregate
annotated property: editor note
annotated target: An entity a is an object aggregate if and only if there is a mutually exhaustive and pairwise disjoint partition of a into objects
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/0000011

Axiom
annotated source: object aggregate
annotated property: editor note
annotated target: An entity a is an object aggregate if and only if there is a mutually exhaustive and pairwise disjoint partition of a into objects
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/0000301

Axiom
annotated source: object aggregate
annotated property: definition source
annotated target: ISBN:978-3-938793-98-5pp124-158#Thomas Bittner and Barry Smith, 'A Theory of Granular Partitions', in K. Munn and B. Smith (eds.), Applied Ontology: An Introduction, Frankfurt/Lancaster: ontos, 2008, 125-158.
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/0000300

Axiom
annotated source: object aggregate
annotated property: elucidation
annotated target: b is an object aggregate means: b is a material entity consisting exactly of a plurality of objects as member_parts at all times at which b exists. (axiom label in BFO2 Reference: [025-004])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/025-004

Axiom
annotated source: object aggregate
annotated property: has associated axiom(fol)
annotated target: (forall (x) (if (ObjectAggregate x) (and (MaterialEntity x) (forall (t) (if (existsAt x t) (exists (y z) (and (Object y) (Object z) (memberPartOfAt y x t) (memberPartOfAt z x t) (not (= y z)))))) (not (exists (w t_1) (and (memberPartOfAt w x t_1) (not (Object w)))))))) // axiom label in BFO2 CLIF: [025-004]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/025-004

three-dimensional spatial region
type: Class
subclass of: spatial region
BFO OWL specification label: 3d-s-region
BFO CLIF specification label: ThreeDimensionalSpatialRegion
example of usage: a cube-shaped region of space
example of usage: a sphere-shaped region of space,
imported from: OGG: Ontology of Genes and Genomes
elucidation: A three-dimensional spatial region is a spatial region that is of three dimensions. (axiom label in BFO2 Reference: [040-001])
has associated axiom(fol): (forall (x) (if (ThreeDimensionalSpatialRegion x) (SpatialRegion x))) // axiom label in BFO2 CLIF: [040-001]

Axiom
annotated source: three-dimensional spatial region
annotated property: elucidation
annotated target: A three-dimensional spatial region is a spatial region that is of three dimensions. (axiom label in BFO2 Reference: [040-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/040-001

Axiom
annotated source: three-dimensional spatial region
annotated property: has associated axiom(fol)
annotated target: (forall (x) (if (ThreeDimensionalSpatialRegion x) (SpatialRegion x))) // axiom label in BFO2 CLIF: [040-001]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/040-001

site
type: Class
subclass of: immaterial entity
BFO OWL specification label: site
BFO CLIF specification label: Site
example of usage: Manhattan Canyon)
example of usage: a hole in the interior of a portion of cheese
example of usage: a rabbit hole
example of usage: an air traffic control region defined in the airspace above an airport
example of usage: the Grand Canyon
example of usage: the Piazza San Marco
example of usage: the cockpit of an aircraft
example of usage: the hold of a ship
example of usage: the interior of a kangaroo pouch
example of usage: the interior of the trunk of your car
example of usage: the interior of your bedroom
example of usage: the interior of your office
example of usage: the interior of your refrigerator
example of usage: the lumen of your gut
example of usage: your left nostril (a fiat part – the opening – of your left nasal cavity)
elucidation: b is a site means: b is a three-dimensional immaterial entity that is (partially or wholly) bounded by a material entity or it is a three-dimensional immaterial part thereof. (axiom label in BFO2 Reference: [034-002])
has associated axiom(fol): (forall (x) (if (Site x) (ImmaterialEntity x))) // axiom label in BFO2 CLIF: [034-002]

Axiom
annotated source: site
annotated property: elucidation
annotated target: b is a site means: b is a three-dimensional immaterial entity that is (partially or wholly) bounded by a material entity or it is a three-dimensional immaterial part thereof. (axiom label in BFO2 Reference: [034-002])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/034-002

Axiom
annotated source: site
annotated property: has associated axiom(fol)
annotated target: (forall (x) (if (Site x) (ImmaterialEntity x))) // axiom label in BFO2 CLIF: [034-002]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/034-002

object
type: Class
subclass of: material entity
BFO OWL specification label: object
BFO CLIF specification label: Object
example of usage: atom
example of usage: cell
example of usage: cells and organisms
example of usage: engineered artifacts
example of usage: grain of sand
example of usage: molecule
example of usage: organelle
example of usage: organism
example of usage: planet
example of usage: solid portions of matter
example of usage: star
editor note: BFO 2 Reference: BFO rests on the presupposition that at multiple micro-, meso- and macroscopic scales reality exhibits certain stable, spatially separated or separable material units, combined or combinable into aggregates of various sorts (for example organisms into what are called ‘populations’). Such units play a central role in almost all domains of natural science from particle physics to cosmology. Many scientific laws govern the units in question, employing general terms (such as ‘molecule’ or ‘planet’) referring to the types and subtypes of units, and also to the types and subtypes of the processes through which such units develop and interact. The division of reality into such natural units is at the heart of biological science, as also is the fact that these units may form higher-level units (as cells form multicellular organisms) and that they may also form aggregates of units, for example as cells form portions of tissue and organs form families, herds, breeds, species, and so on. At the same time, the division of certain portions of reality into engineered units (manufactured artifacts) is the basis of modern industrial technology, which rests on the distributed mass production of engineered parts through division of labor and on their assembly into larger, compound units such as cars and laptops. The division of portions of reality into units is one starting point for the phenomenon of counting.
editor note: BFO 2 Reference: Each object is such that there are entities of which we can assert unproblematically that they lie in its interior, and other entities of which we can assert unproblematically that they lie in its exterior. This may not be so for entities lying at or near the boundary between the interior and exterior. This means that two objects – for example the two cells depicted in Figure 3 – may be such that there are material entities crossing their boundaries which belong determinately to neither cell. Something similar obtains in certain cases of conjoined twins (see below).
editor note: BFO 2 Reference: To say that b is causally unified means: b is a material entity which is such that its material parts are tied together in such a way that, in environments typical for entities of the type in question,if c, a continuant part of b that is in the interior of b at t, is larger than a certain threshold size (which will be determined differently from case to case, depending on factors such as porosity of external cover) and is moved in space to be at t at a location on the exterior of the spatial region that had been occupied by b at t, then either b’s other parts will be moved in coordinated fashion or b will be damaged (be affected, for example, by breakage or tearing) in the interval between t and t.causal changes in one part of b can have consequences for other parts of b without the mediation of any entity that lies on the exterior of b. Material entities with no proper material parts would satisfy these conditions trivially. Candidate examples of types of causal unity for material entities of more complex sorts are as follows (this is not intended to be an exhaustive list):CU1: Causal unity via physical coveringHere the parts in the interior of the unified entity are combined together causally through a common membrane or other physical covering\. The latter points outwards toward and may serve a protective function in relation to what lies on the exterior of the entity [13, 47
editor note: BFO 2 Reference: an object is a maximal causally unified material entity
editor note: BFO 2 Reference: ‘objects’ are sometimes referred to as ‘grains’ [74
elucidation: b is an object means: b is a material entity which manifests causal unity of one or other of the types CUn listed above & is of a type (a material universal) instances of which are maximal relative to this criterion of causal unity. (axiom label in BFO2 Reference: [024-001])

Axiom
annotated source: object
annotated property: elucidation
annotated target: b is an object means: b is a material entity which manifests causal unity of one or other of the types CUn listed above & is of a type (a material universal) instances of which are maximal relative to this criterion of causal unity. (axiom label in BFO2 Reference: [024-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/024-001

generically dependent continuant
type: Class
subclass of: continuant
subclass of: Restriction
  on property: concretized by at some time
  some values from: specifically dependent continuant
subclass of: Restriction
  on property: part of continuant at some time
  all values from: Class
    complement of: Class
      union of: independent continuant
      union of: specifically dependent continuant
subclass of: Restriction
  on property: part of continuant at all times that whole exists
  all values from: Class
    complement of: Class
      union of: independent continuant
      union of: specifically dependent continuant
BFO OWL specification label: gdc
BFO CLIF specification label: GenericallyDependentContinuant
example of usage: The entries in your database are patterns instantiated as quality instances in your hard drive. The database itself is an aggregate of such patterns. When you create the database you create a particular instance of the generically dependent continuant type database. Each entry in the database is an instance of the generically dependent continuant type IAO: information content entity.
example of usage: the pdf file on your laptop, the pdf file that is a copy thereof on my laptop
example of usage: the sequence of this protein molecule; the sequence that is a copy thereof in that protein molecule.
definition: 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])
imported from: OGG: Ontology of Genes and Genomes
has associated axiom(fol): (iff (GenericallyDependentContinuant a) (and (Continuant a) (exists (b t) (genericallyDependsOnAt a b t)))) // axiom label in BFO2 CLIF: [074-001]

Axiom
annotated source: generically dependent continuant
annotated property: definition
annotated target: 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])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/074-001

Axiom
annotated source: generically dependent continuant
annotated property: has associated axiom(fol)
annotated target: (iff (GenericallyDependentContinuant a) (and (Continuant a) (exists (b t) (genericallyDependsOnAt a b t)))) // axiom label in BFO2 CLIF: [074-001]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/074-001

function
type: Class
subclass of: disposition
BFO OWL specification label: function
BFO CLIF specification label: Function
example of usage: the function of a hammer to drive in nails
example of usage: the function of a heart pacemaker to regulate the beating of a heart through electricity
example of usage: the function of amylase in saliva to break down starch into sugar
editor note: BFO 2 Reference: In the past, we have distinguished two varieties of function, artifactual function and biological function. These are not asserted subtypes of BFO:function however, since the same function – for example: to pump, to transport – can exist both in artifacts and in biological entities. The asserted subtypes of function that would be needed in order to yield a separate monoheirarchy are not artifactual function, biological function, etc., but rather transporting function, pumping function, etc.
elucidation: A function is a disposition that exists in virtue of the bearer’s physical make-up and this physical make-up is something the bearer possesses because it came into being, either through evolution (in the case of natural biological entities) or through intentional design (in the case of artifacts), in order to realize processes of a certain sort. (axiom label in BFO2 Reference: [064-001])
has associated axiom(fol): (forall (x) (if (Function x) (Disposition x))) // axiom label in BFO2 CLIF: [064-001]

Axiom
annotated source: function
annotated property: elucidation
annotated target: A function is a disposition that exists in virtue of the bearer’s physical make-up and this physical make-up is something the bearer possesses because it came into being, either through evolution (in the case of natural biological entities) or through intentional design (in the case of artifacts), in order to realize processes of a certain sort. (axiom label in BFO2 Reference: [064-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/064-001

Axiom
annotated source: function
annotated property: has associated axiom(fol)
annotated target: (forall (x) (if (Function x) (Disposition x))) // axiom label in BFO2 CLIF: [064-001]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/064-001

process boundary
type: Class
subclass of: occurrent
subclass of: Restriction
  on property: exists at
  all values from: zero-dimensional temporal region
subclass of: Restriction
  on property: has occurrent part
  all values from: process boundary
subclass of: Restriction
  on property: occupies spatiotemporal region
  all values from: Class
    intersection of: spatiotemporal region
    intersection of: Restriction
      on property: temporal part of
      some values from: spatiotemporal region
subclass of: Restriction
  on property: part of occurrent
  all values from: Class
    union of: process
    union of: process boundary
BFO OWL specification label: p-boundary
BFO CLIF specification label: ProcessBoundary
example of usage: the boundary between the 2nd and 3rd year of your life.
definition: p is a process boundary =Def. p is a temporal part of a process & p has no proper temporal parts. (axiom label in BFO2 Reference: [084-001])
imported from: OGG: Ontology of Genes and Genomes
has associated axiom(nl): Every process boundary occupies_temporal_region a zero-dimensional temporal region. (axiom label in BFO2 Reference: [085-002])
has associated axiom(fol): (forall (x) (if (ProcessBoundary x) (exists (y) (and (ZeroDimensionalTemporalRegion y) (occupiesTemporalRegion x y))))) // axiom label in BFO2 CLIF: [085-002]
has associated axiom(fol): (iff (ProcessBoundary a) (exists (p) (and (Process p) (temporalPartOf a p) (not (exists (b) (properTemporalPartOf b a)))))) // axiom label in BFO2 CLIF: [084-001]

Axiom
annotated source: process boundary
annotated property: definition
annotated target: p is a process boundary =Def. p is a temporal part of a process & p has no proper temporal parts. (axiom label in BFO2 Reference: [084-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/084-001

Axiom
annotated source: process boundary
annotated property: has associated axiom(nl)
annotated target: Every process boundary occupies_temporal_region a zero-dimensional temporal region. (axiom label in BFO2 Reference: [085-002])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/085-002

Axiom
annotated source: process boundary
annotated property: has associated axiom(fol)
annotated target: (forall (x) (if (ProcessBoundary x) (exists (y) (and (ZeroDimensionalTemporalRegion y) (occupiesTemporalRegion x y))))) // axiom label in BFO2 CLIF: [085-002]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/085-002

Axiom
annotated source: process boundary
annotated property: has associated axiom(fol)
annotated target: (iff (ProcessBoundary a) (exists (p) (and (Process p) (temporalPartOf a p) (not (exists (b) (properTemporalPartOf b a)))))) // axiom label in BFO2 CLIF: [084-001]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/084-001

one-dimensional temporal region
type: Class
subclass of: temporal region
disjoint with: zero-dimensional temporal region
BFO OWL specification label: 1d-t-region
BFO CLIF specification label: OneDimensionalTemporalRegion
example of usage: the temporal region during which a process occurs.
editor note: 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).
elucidation: A one-dimensional temporal region is a temporal region that is extended. (axiom label in BFO2 Reference: [103-001])
has associated axiom(fol): (forall (x) (if (OneDimensionalTemporalRegion x) (TemporalRegion x))) // axiom label in BFO2 CLIF: [103-001]

Axiom
annotated source: one-dimensional temporal region
annotated property: elucidation
annotated target: A one-dimensional temporal region is a temporal region that is extended. (axiom label in BFO2 Reference: [103-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/103-001

Axiom
annotated source: one-dimensional temporal region
annotated property: has associated axiom(fol)
annotated target: (forall (x) (if (OneDimensionalTemporalRegion x) (TemporalRegion x))) // axiom label in BFO2 CLIF: [103-001]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/103-001

material entity
type: Class
subclass of: independent continuant
subclass of: Restriction
  on property: occupies spatial region at some time
  all values from: three-dimensional spatial region
subclass of: Restriction
  on property: part of continuant at some time
  all values from: material entity
subclass of: Restriction
  on property: has continuant part at some time
  all values from: Class
    union of: material entity
    union of: immaterial entity
subclass of: Restriction
  on property: part of continuant at all times that whole exists
  all values from: material entity
subclass of: Restriction
  on property: has continuant part at all times that part exists
  all values from: Class
    union of: material entity
    union of: immaterial entity
disjoint with: immaterial entity
BFO OWL specification label: material
BFO CLIF specification label: MaterialEntity
example of usage: a flame
example of usage: a forest fire
example of usage: a human being
example of usage: a hurricane
example of usage: a photon
example of usage: a puff of smoke
example of usage: a sea wave
example of usage: a tornado
example of usage: an aggregate of human beings.
example of usage: an energy wave
example of usage: an epidemic
example of usage: the undetached arm of a human being
editor note: BFO 2 Reference: Material entities (continuants) can preserve their identity even while gaining and losing material parts. Continuants are contrasted with occurrents, which unfold themselves in successive temporal parts or phases [60
editor note: BFO 2 Reference: Object, Fiat Object Part and Object Aggregate are not intended to be exhaustive of Material Entity. Users are invited to propose new subcategories of Material Entity.
editor note: BFO 2 Reference: ‘Matter’ is intended to encompass both mass and energy (we will address the ontological treatment of portions of energy in a later version of BFO). A portion of matter is anything that includes elementary particles among its proper or improper parts: quarks and leptons, including electrons, as the smallest particles thus far discovered; baryons (including protons and neutrons) at a higher level of granularity; atoms and molecules at still higher levels, forming the cells, organs, organisms and other material entities studied by biologists, the portions of rock studied by geologists, the fossils studied by paleontologists, and so on.Material entities are three-dimensional entities (entities extended in three spatial dimensions), as contrasted with the processes in which they participate, which are four-dimensional entities (entities extended also along the dimension of time).According to the FMA, material entities may have immaterial entities as parts – including the entities identified below as sites; for example the interior (or ‘lumen’) of your small intestine is a part of your body. BFO 2.0 embodies a decision to follow the FMA here.
imported from: OGG: Ontology of Genes and Genomes
elucidation: 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])
has associated axiom(nl): Every entity which has a material entity as continuant part is a material entity. (axiom label in BFO2 Reference: [020-002])
has associated axiom(nl): every entity of which a material entity is continuant part is also a material entity. (axiom label in BFO2 Reference: [021-002])
has associated axiom(fol): (forall (x) (if (MaterialEntity x) (IndependentContinuant x))) // axiom label in BFO2 CLIF: [019-002]
has associated axiom(fol): (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]
has associated axiom(fol): (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]

Axiom
annotated source: material entity
annotated property: elucidation
annotated target: 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])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/019-002

Axiom
annotated source: material entity
annotated property: has associated axiom(nl)
annotated target: Every entity which has a material entity as continuant part is a material entity. (axiom label in BFO2 Reference: [020-002])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/020-002

Axiom
annotated source: material entity
annotated property: has associated axiom(nl)
annotated target: every entity of which a material entity is continuant part is also a material entity. (axiom label in BFO2 Reference: [021-002])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/021-002

Axiom
annotated source: material entity
annotated property: has associated axiom(fol)
annotated target: (forall (x) (if (MaterialEntity x) (IndependentContinuant x))) // axiom label in BFO2 CLIF: [019-002]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/019-002

Axiom
annotated source: material entity
annotated property: has associated axiom(fol)
annotated target: (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]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/021-002

Axiom
annotated source: material entity
annotated property: has associated axiom(fol)
annotated target: (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]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/020-002

continuant fiat boundary
type: Class
subclass of: immaterial entity
subclass of: Restriction
  on property: occupies spatial region at some time
  all values from: Class
    union of: two-dimensional spatial region
    union of: zero-dimensional spatial region
    union of: one-dimensional spatial region
subclass of: Restriction
  on property: part of continuant at some time
  all values from: Class
    complement of: spatial region
subclass of: Restriction
  on property: has continuant part at some time
  all values from: continuant fiat boundary
subclass of: Restriction
  on property: part of continuant at all times that whole exists
  all values from: Class
    complement of: spatial region
subclass of: Restriction
  on property: has continuant part at all times that part exists
  all values from: continuant fiat boundary
BFO OWL specification label: cf-boundary
BFO CLIF specification label: ContinuantFiatBoundary
definition: b is a continuant fiat boundary = Def. b is an immaterial entity that is of zero, one or two dimensions and does not include a spatial region as part. (axiom label in BFO2 Reference: [029-001])
editor note: BFO 2 Reference: In BFO 1.1 the assumption was made that the external surface of a material entity such as a cell could be treated as if it were a boundary in the mathematical sense. The new document propounds the view that when we talk about external surfaces of material objects in this way then we are talking about something fiat. To be dealt with in a future version: fiat boundaries at different levels of granularity.More generally, the focus in discussion of boundaries in BFO 2.0 is now on fiat boundaries, which means: boundaries for which there is no assumption that they coincide with physical discontinuities. The ontology of boundaries becomes more closely allied with the ontology of regions.
editor note: BFO 2 Reference: a continuant fiat boundary is a boundary of some material entity (for example: the plane separating the Northern and Southern hemispheres; the North Pole), or it is a boundary of some immaterial entity (for example of some portion of airspace). Three basic kinds of continuant fiat boundary can be distinguished (together with various combination kinds [29
editor note: Continuant fiat boundary doesn't have a closure axiom because the subclasses don't necessarily exhaust all possibilites. An example would be the mereological sum of two-dimensional continuant fiat boundary and a one dimensional continuant fiat boundary that doesn't overlap it. The situation is analogous to temporal and spatial regions.
has associated axiom(nl): Every continuant fiat boundary is located at some spatial region at every time at which it exists
has associated axiom(fol): (iff (ContinuantFiatBoundary a) (and (ImmaterialEntity a) (exists (b) (and (or (ZeroDimensionalSpatialRegion b) (OneDimensionalSpatialRegion b) (TwoDimensionalSpatialRegion b)) (forall (t) (locatedInAt a b t)))) (not (exists (c t) (and (SpatialRegion c) (continuantPartOfAt c a t)))))) // axiom label in BFO2 CLIF: [029-001]

Axiom
annotated source: continuant fiat boundary
annotated property: definition
annotated target: b is a continuant fiat boundary = Def. b is an immaterial entity that is of zero, one or two dimensions and does not include a spatial region as part. (axiom label in BFO2 Reference: [029-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/029-001

Axiom
annotated source: continuant fiat boundary
annotated property: editor note
annotated target: Continuant fiat boundary doesn't have a closure axiom because the subclasses don't necessarily exhaust all possibilites. An example would be the mereological sum of two-dimensional continuant fiat boundary and a one dimensional continuant fiat boundary that doesn't overlap it. The situation is analogous to temporal and spatial regions.
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/0000008

Axiom
annotated source: continuant fiat boundary
annotated property: has associated axiom(fol)
annotated target: (iff (ContinuantFiatBoundary a) (and (ImmaterialEntity a) (exists (b) (and (or (ZeroDimensionalSpatialRegion b) (OneDimensionalSpatialRegion b) (TwoDimensionalSpatialRegion b)) (forall (t) (locatedInAt a b t)))) (not (exists (c t) (and (SpatialRegion c) (continuantPartOfAt c a t)))))) // axiom label in BFO2 CLIF: [029-001]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/029-001

immaterial entity
type: Class
subclass of: independent continuant
subclass of: Restriction
  on property: has continuant part at some time
  all values from: immaterial entity
subclass of: Restriction
  on property: has continuant part at some time
  all values from: Class
    complement of: material entity
subclass of: Restriction
  on property: has continuant part at all times that part exists
  all values from: immaterial entity
subclass of: Restriction
  on property: has continuant part at all times that part exists
  all values from: Class
    complement of: material entity
BFO OWL specification label: immaterial
BFO CLIF specification label: ImmaterialEntity
editor note: BFO 2 Reference: Immaterial entities are divided into two subgroups:boundaries and sites, which bound, or are demarcated in relation, to material entities, and which can thus change location, shape and size and as their material hosts move or change shape or size (for example: your nasal passage; the hold of a ship; the boundary of Wales (which moves with the rotation of the Earth) [38, 7, 10
imported from: OGG: Ontology of Genes and Genomes

one-dimensional continuant fiat boundary
type: Class
subclass of: continuant fiat boundary
subclass of: Restriction
  on property: has continuant part at some time
  all values from: Class
    complement of: Class
      union of: two-dimensional continuant fiat boundary
subclass of: Restriction
  on property: has continuant part at all times that part exists
  all values from: Class
    complement of: Class
      union of: two-dimensional continuant fiat boundary
BFO OWL specification label: 1d-cf-boundary
BFO CLIF specification label: OneDimensionalContinuantFiatBoundary
example of usage: The Equator
example of usage: all geopolitical boundaries
example of usage: all lines of latitude and longitude
example of usage: the line separating the outer surface of the mucosa of the lower lip from the outer surface of the skin of the chin.
example of usage: the median sulcus of your tongue
elucidation: a one-dimensional continuant fiat boundary is a continuous fiat line whose location is defined in relation to some material entity. (axiom label in BFO2 Reference: [032-001])
has associated axiom(fol): (iff (OneDimensionalContinuantFiatBoundary a) (and (ContinuantFiatBoundary a) (exists (b) (and (OneDimensionalSpatialRegion b) (forall (t) (locatedInAt a b t)))))) // axiom label in BFO2 CLIF: [032-001]

Axiom
annotated source: one-dimensional continuant fiat boundary
annotated property: elucidation
annotated target: a one-dimensional continuant fiat boundary is a continuous fiat line whose location is defined in relation to some material entity. (axiom label in BFO2 Reference: [032-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/032-001

Axiom
annotated source: one-dimensional continuant fiat boundary
annotated property: has associated axiom(fol)
annotated target: (iff (OneDimensionalContinuantFiatBoundary a) (and (ContinuantFiatBoundary a) (exists (b) (and (OneDimensionalSpatialRegion b) (forall (t) (locatedInAt a b t)))))) // axiom label in BFO2 CLIF: [032-001]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/032-001

process profile
type: Class
equivalent class: Restriction
  on property: process profile of
  some values from: process
subclass of: process
subclass of: Restriction
  on property: part of occurrent
  some values from: process
disjoint with: history
BFO OWL specification label: process-profile
BFO CLIF specification label: ProcessProfile
example of usage: On a somewhat higher level of complexity are what we shall call rate process profiles, which are the targets of selective abstraction focused not on determinate quality magnitudes plotted over time, but rather on certain ratios between these magnitudes and elapsed times. A speed process profile, for example, is represented by a graph plotting against time the ratio of distance covered per unit of time. Since rates may change, and since such changes, too, may have rates of change, we have to deal here with a hierarchy of process profile universals at successive levels
example of usage: One important sub-family of rate process profiles is illustrated by the beat or frequency profiles of cyclical processes, illustrated by the 60 beats per minute beating process of John’s heart, or the 120 beats per minute drumming process involved in one of John’s performances in a rock band, and so on. Each such process includes what we shall call a beat process profile instance as part, a subtype of rate process profile in which the salient ratio is not distance covered but rather number of beat cycles per unit of time. Each beat process profile instance instantiates the determinable universal beat process profile. But it also instantiates multiple more specialized universals at lower levels of generality, selected from rate process profilebeat process profileregular beat process profile3 bpm beat process profile4 bpm beat process profileirregular beat process profileincreasing beat process profileand so on.In the case of a regular beat process profile, a rate can be assigned in the simplest possible fashion by dividing the number of cycles by the length of the temporal region occupied by the beating process profile as a whole. Irregular process profiles of this sort, for example as identified in the clinic, or in the readings on an aircraft instrument panel, are often of diagnostic significance.
example of usage: The simplest type of process profiles are what we shall call ‘quality process profiles’, which are the process profiles which serve as the foci of the sort of selective abstraction that is involved when measurements are made of changes in single qualities, as illustrated, for example, by process profiles of mass, temperature, aortic pressure, and so on.
definition: b is a process_profile =Def. there is some process c such that b process_profile_of c (axiom label in BFO2 Reference: [093-002])
elucidation: b process_profile_of c holds when b proper_occurrent_part_of c& there is some proper_occurrent_part d of c which has no parts in common with b & is mutually dependent on b& is such that b, c and d occupy the same temporal region (axiom label in BFO2 Reference: [094-005])
has associated axiom(fol): (forall (x y) (if (processProfileOf x y) (and (properContinuantPartOf x y) (exists (z t) (and (properOccurrentPartOf z y) (TemporalRegion t) (occupiesSpatioTemporalRegion x t) (occupiesSpatioTemporalRegion y t) (occupiesSpatioTemporalRegion z t) (not (exists (w) (and (occurrentPartOf w x) (occurrentPartOf w z))))))))) // axiom label in BFO2 CLIF: [094-005]
has associated axiom(fol): (iff (ProcessProfile a) (exists (b) (and (Process b) (processProfileOf a b)))) // axiom label in BFO2 CLIF: [093-002]

Axiom
annotated source: process profile
annotated property: definition
annotated target: b is a process_profile =Def. there is some process c such that b process_profile_of c (axiom label in BFO2 Reference: [093-002])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/093-002

Axiom
annotated source: process profile
annotated property: elucidation
annotated target: b process_profile_of c holds when b proper_occurrent_part_of c& there is some proper_occurrent_part d of c which has no parts in common with b & is mutually dependent on b& is such that b, c and d occupy the same temporal region (axiom label in BFO2 Reference: [094-005])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/094-005

Axiom
annotated source: process profile
annotated property: has associated axiom(fol)
annotated target: (forall (x y) (if (processProfileOf x y) (and (properContinuantPartOf x y) (exists (z t) (and (properOccurrentPartOf z y) (TemporalRegion t) (occupiesSpatioTemporalRegion x t) (occupiesSpatioTemporalRegion y t) (occupiesSpatioTemporalRegion z t) (not (exists (w) (and (occurrentPartOf w x) (occurrentPartOf w z))))))))) // axiom label in BFO2 CLIF: [094-005]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/094-005

Axiom
annotated source: process profile
annotated property: has associated axiom(fol)
annotated target: (iff (ProcessProfile a) (exists (b) (and (Process b) (processProfileOf a b)))) // axiom label in BFO2 CLIF: [093-002]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/093-002

relational quality
type: Class
equivalent class: Class
  intersection of: quality
  intersection of: Restriction
    on property: inheres in at all times
    min qualified cardinality: 2
    on class: independent continuant
subclass of: quality
BFO OWL specification label: r-quality
BFO CLIF specification label: RelationalQuality
example of usage: John’s role of husband to Mary is dependent on Mary’s role of wife to John, and both are dependent on the object aggregate comprising John and Mary as member parts joined together through the relational quality of being married.
example of usage: a marriage bond, an instance of love, an obligation between one person and another.
definition: b is a relational quality = Def. for some independent continuants c, d and for some time t: b quality_of c at t & b quality_of d at t. (axiom label in BFO2 Reference: [057-001])
has associated axiom(fol): (iff (RelationalQuality a) (exists (b c t) (and (IndependentContinuant b) (IndependentContinuant c) (qualityOfAt a b t) (qualityOfAt a c t)))) // axiom label in BFO2 CLIF: [057-001]

Axiom
annotated source: relational quality
annotated property: equivalentClass
annotated target: Class
  intersection of: quality
  intersection of: Restriction
    on property: inheres in at all times
    min qualified cardinality: 2
    on class: independent continuant
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/0000568

Axiom
annotated source: relational quality
annotated property: definition
annotated target: b is a relational quality = Def. for some independent continuants c, d and for some time t: b quality_of c at t & b quality_of d at t. (axiom label in BFO2 Reference: [057-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/057-001

Axiom
annotated source: relational quality
annotated property: has associated axiom(fol)
annotated target: (iff (RelationalQuality a) (exists (b c t) (and (IndependentContinuant b) (IndependentContinuant c) (qualityOfAt a b t) (qualityOfAt a c t)))) // axiom label in BFO2 CLIF: [057-001]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/057-001

two-dimensional continuant fiat boundary
type: Class
subclass of: continuant fiat boundary
BFO OWL specification label: 2d-cf-boundary
BFO CLIF specification label: TwoDimensionalContinuantFiatBoundary
elucidation: a two-dimensional continuant fiat boundary (surface) is a self-connected fiat surface whose location is defined in relation to some material entity. (axiom label in BFO2 Reference: [033-001])
has associated axiom(fol): (iff (TwoDimensionalContinuantFiatBoundary a) (and (ContinuantFiatBoundary a) (exists (b) (and (TwoDimensionalSpatialRegion b) (forall (t) (locatedInAt a b t)))))) // axiom label in BFO2 CLIF: [033-001]

Axiom
annotated source: two-dimensional continuant fiat boundary
annotated property: elucidation
annotated target: a two-dimensional continuant fiat boundary (surface) is a self-connected fiat surface whose location is defined in relation to some material entity. (axiom label in BFO2 Reference: [033-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/033-001

Axiom
annotated source: two-dimensional continuant fiat boundary
annotated property: has associated axiom(fol)
annotated target: (iff (TwoDimensionalContinuantFiatBoundary a) (and (ContinuantFiatBoundary a) (exists (b) (and (TwoDimensionalSpatialRegion b) (forall (t) (locatedInAt a b t)))))) // axiom label in BFO2 CLIF: [033-001]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/033-001

zero-dimensional continuant fiat boundary
type: Class
subclass of: continuant fiat boundary
subclass of: Restriction
  on property: has continuant part at some time
  all values from: Class
    complement of: Class
      union of: one-dimensional continuant fiat boundary
      union of: two-dimensional continuant fiat boundary
subclass of: Restriction
  on property: has continuant part at all times that part exists
  all values from: Class
    complement of: Class
      union of: one-dimensional continuant fiat boundary
      union of: two-dimensional continuant fiat boundary
BFO OWL specification label: 0d-cf-boundary
BFO CLIF specification label: ZeroDimensionalContinuantFiatBoundary
example of usage: the geographic North Pole
example of usage: the point of origin of some spatial coordinate system.
example of usage: the quadripoint where the boundaries of Colorado, Utah, New Mexico, and Arizona meet
editor note: zero dimension continuant fiat boundaries are not spatial points. Considering the example 'the quadripoint where the boundaries of Colorado, Utah, New Mexico, and Arizona meet' : There are many frames in which that point is zooming through many points in space. Whereas, no matter what the frame, the quadripoint is always in the same relation to the boundaries of Colorado, Utah, New Mexico, and Arizona.
elucidation: a zero-dimensional continuant fiat boundary is a fiat point whose location is defined in relation to some material entity. (axiom label in BFO2 Reference: [031-001])
has associated axiom(fol): (iff (ZeroDimensionalContinuantFiatBoundary a) (and (ContinuantFiatBoundary a) (exists (b) (and (ZeroDimensionalSpatialRegion b) (forall (t) (locatedInAt a b t)))))) // axiom label in BFO2 CLIF: [031-001]

Axiom
annotated source: zero-dimensional continuant fiat boundary
annotated property: editor note
annotated target: zero dimension continuant fiat boundaries are not spatial points. Considering the example 'the quadripoint where the boundaries of Colorado, Utah, New Mexico, and Arizona meet' : There are many frames in which that point is zooming through many points in space. Whereas, no matter what the frame, the quadripoint is always in the same relation to the boundaries of Colorado, Utah, New Mexico, and Arizona.
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/0000001
comment: requested by Melanie Courtot

Axiom
annotated source: zero-dimensional continuant fiat boundary
annotated property: elucidation
annotated target: a zero-dimensional continuant fiat boundary is a fiat point whose location is defined in relation to some material entity. (axiom label in BFO2 Reference: [031-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/031-001

Axiom
annotated source: zero-dimensional continuant fiat boundary
annotated property: has associated axiom(fol)
annotated target: (iff (ZeroDimensionalContinuantFiatBoundary a) (and (ContinuantFiatBoundary a) (exists (b) (and (ZeroDimensionalSpatialRegion b) (forall (t) (locatedInAt a b t)))))) // axiom label in BFO2 CLIF: [031-001]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/031-001

zero-dimensional temporal region
type: Class
subclass of: temporal region
subclass of: Restriction
  on property: has proper occurrent part
  all values from: Nothing
BFO OWL specification label: 0d-t-region
BFO CLIF specification label: ZeroDimensionalTemporalRegion
example of usage: a temporal region that is occupied by a process boundary
example of usage: right now
example of usage: the moment at which a child is born
example of usage: the moment at which a finger is detached in an industrial accident
example of usage: the moment of death.
alternative term: temporal instant.
imported from: OGG: Ontology of Genes and Genomes
elucidation: A zero-dimensional temporal region is a temporal region that is without extent. (axiom label in BFO2 Reference: [102-001])
has associated axiom(fol): (forall (x) (if (ZeroDimensionalTemporalRegion x) (TemporalRegion x))) // axiom label in BFO2 CLIF: [102-001]

Axiom
annotated source: zero-dimensional temporal region
annotated property: elucidation
annotated target: A zero-dimensional temporal region is a temporal region that is without extent. (axiom label in BFO2 Reference: [102-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/102-001

Axiom
annotated source: zero-dimensional temporal region
annotated property: has associated axiom(fol)
annotated target: (forall (x) (if (ZeroDimensionalTemporalRegion x) (TemporalRegion x))) // axiom label in BFO2 CLIF: [102-001]
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/102-001

history
type: Class
subclass of: process
subclass of: Restriction
  on property: history of
  some values from: continuant
subclass of: Restriction
  on property: part of occurrent
  all values from: Class
    complement of: process profile
BFO OWL specification label: history
BFO CLIF specification label: History
elucidation: A history is a process that is the sum of the totality of processes taking place in the spatiotemporal region occupied by a material entity or site, including processes on the surface of the entity or within the cavities to which it serves as host. (axiom label in BFO2 Reference: [138-001])

Axiom
annotated source: history
annotated property: elucidation
annotated target: A history is a process that is the sum of the totality of processes taking place in the spatiotemporal region occupied by a material entity or site, including processes on the surface of the entity or within the cavities to which it serves as host. (axiom label in BFO2 Reference: [138-001])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/138-001

Mus musculus
type: Class
subclass of: Euarchontoglires
imported from: ncbitaxon.owl
has_rank: NCBITaxon species
has_alternative_id: NCBITaxon:85055
database_cross_reference: GC_ID:1
has_exact_synonym: house mouse
has_exact_synonym: mouse
has_obo_namespace: ncbi_taxonomy
has_related_synonym: Mus muscaris
has_related_synonym: mice C57BL/6xCBA/CaJ hybrid

Viruses
type: Class
subclass of: organism
imported from: ncbitaxon.owl
has_rank: NCBITaxon superkingdom
database_cross_reference: GC_ID:1
has_obo_namespace: ncbi_taxonomy
has_related_synonym: Vira
has_related_synonym: Viridae
has_related_synonym: viruses

Human immunodeficiency virus 1
type: Class
subclass of: Viruses
imported from: ncbitaxon.owl
has_rank: NCBITaxon species
has_broad_synonym: HIV
has_broad_synonym: HIV-1
has_broad_synonym: HIV1
has_broad_synonym: LAV-1
database_cross_reference: GC_ID:1
has_obo_namespace: ncbi_taxonomy
has_related_synonym: AIDS virus
has_related_synonym: Human immundeficiency virus type 1
has_related_synonym: Human immunodeficiencey virus type 1
has_related_synonym: Human immunodeficiency virus type 1
has_related_synonym: human immunodeficiency virus 1 HIV-1
has_related_synonym: human immunodeficiency virus HIV-1
has_related_synonym: human immunodeficiency virus type 1 ,HIV-1
has_related_synonym: human immunodeficiency virus type 1 HIV 1
has_related_synonym: human immunodeficiency virus type 1 HIV-1
has_related_synonym: human immunodeficiency virus type 1 HIV1
has_related_synonym: human immunodeficiency virus type 1, HIV-1
has_related_synonym: human immunodeficiency virus type I HIV-1
has_related_synonym: human immunodeficiency virus type-1 HIV-1
has_related_synonym: human immunodeficiency virus-1 HIV-1

Euteleostomi
type: Class
subclass of: Bilateria
imported from: ncbitaxon.owl
has_alternative_id: NCBITaxon:40673
database_cross_reference: GC_ID:1
has_exact_synonym: bony vertebrates
has_obo_namespace: ncbi_taxonomy

Ecdysozoa
type: Class
subclass of: Bilateria
imported from: ncbitaxon.owl
database_cross_reference: GC_ID:1
has_obo_namespace: ncbi_taxonomy

Proteobacteria
type: Class
subclass of: Bacteria
imported from: ncbitaxon.owl
has_rank: NCBITaxon phylum
database_cross_reference: GC_ID:11
database_cross_reference: PMID:11321122
database_cross_reference: PMID:11542017
database_cross_reference: PMID:11837318
database_cross_reference: PMID:16280474
has_exact_synonym: purple bacteria
has_exact_synonym: purple bacteria and relatives
has_exact_synonym: purple non-sulfur bacteria
has_exact_synonym: purple photosynthetic bacteria
has_exact_synonym: purple photosynthetic bacteria and relatives
has_obo_namespace: ncbi_taxonomy
has_related_synonym: proteobacteria

Gammaproteobacteria
type: Class
subclass of: Proteobacteria
imported from: ncbitaxon.owl
has_rank: NCBITaxon class
database_cross_reference: GC_ID:11
database_cross_reference: PMID:16280474
has_obo_namespace: ncbi_taxonomy
has_related_synonym: Gammaproteobacteria Garrity et al. 2005
has_related_synonym: Proteobacteria gamma subdivision
has_related_synonym: Purple bacteria, gamma subdivision
has_related_synonym: g-proteobacteria
has_related_synonym: gamma proteobacteria
has_related_synonym: gamma subdivision
has_related_synonym: gamma subgroup

Bacteria
type: Class
subclass of: organism
subclass of: Restriction
  on property: has part
  some values from: genome of Bacteria
imported from: ncbitaxon.owl
imported from: OGG: Ontology of Genes and Genomes
has_rank: NCBITaxon superkingdom
database_cross_reference: GC_ID:11
database_cross_reference: PMID:10425795
database_cross_reference: PMID:10425796
database_cross_reference: PMID:10425797
database_cross_reference: PMID:10490293
database_cross_reference: PMID:10843050
database_cross_reference: PMID:10939651
database_cross_reference: PMID:10939673
database_cross_reference: PMID:10939677
database_cross_reference: PMID:11211268
database_cross_reference: PMID:11321083
database_cross_reference: PMID:11321113
database_cross_reference: PMID:11411719
database_cross_reference: PMID:11540071
database_cross_reference: PMID:11542017
database_cross_reference: PMID:11542087
database_cross_reference: PMID:11760965
database_cross_reference: PMID:12054223
database_cross_reference: PMID:2112744
database_cross_reference: PMID:270744
database_cross_reference: PMID:8123559
database_cross_reference: PMID:8590690
database_cross_reference: PMID:9103655
database_cross_reference: PMID:9336922
has_exact_synonym: eubacteria
has_obo_namespace: ncbi_taxonomy
has_related_synonym: Monera
has_related_synonym: Procaryotae
has_related_synonym: Prokaryota
has_related_synonym: Prokaryotae
has_related_synonym: bacteria
has_related_synonym: not Bacteria Haeckel 1894
has_related_synonym: prokaryote
has_related_synonym: prokaryotes

Brucella suis 1330
type: Class
subclass of: Brucella
subclass of: Restriction
  on property: has part
  some values from: genome of Brucella suis 1330
imported from: ncbitaxon.owl
database_cross_reference: GC_ID:11
database_cross_reference: PMID:12271122
has_exact_synonym: Brucella suis str. 1330
has_obo_namespace: ncbi_taxonomy
has_related_synonym: Brucella melitensis biovar Suis str. 1330
has_related_synonym: Brucella suis ATCC 23444
has_related_synonym: Brucella suis NCTC 10316

Pseudomonas aeruginosa PAO1
type: Class
subclass of: Gammaproteobacteria
imported from: ncbitaxon.owl
database_cross_reference: GC_ID:11
database_cross_reference: PMID:10984043
has_obo_namespace: ncbi_taxonomy
has_related_synonym: Pseudomonas aeruginosa PA01
has_related_synonym: Pseudomonas aeruginosa str. PA01
has_related_synonym: Pseudomonas aeruginosa str. PAO1

Archaea
type: Class
subclass of: organism
imported from: ncbitaxon.owl
has_rank: NCBITaxon superkingdom
database_cross_reference: GC_ID:11
database_cross_reference: PMID:10425795
database_cross_reference: PMID:10425796
database_cross_reference: PMID:10425797
database_cross_reference: PMID:10490293
database_cross_reference: PMID:10843050
database_cross_reference: PMID:10939651
database_cross_reference: PMID:10939673
database_cross_reference: PMID:10939677
database_cross_reference: PMID:11211268
database_cross_reference: PMID:11321083
database_cross_reference: PMID:11321113
database_cross_reference: PMID:11411719
database_cross_reference: PMID:11540071
database_cross_reference: PMID:11541975
database_cross_reference: PMID:11542064
database_cross_reference: PMID:11542149
database_cross_reference: PMID:11760965
database_cross_reference: PMID:12054223
database_cross_reference: PMID:2112744
database_cross_reference: PMID:270744
database_cross_reference: PMID:8123559
database_cross_reference: PMID:8590690
database_cross_reference: PMID:9103655
database_cross_reference: PMID:9336922
has_obo_namespace: ncbi_taxonomy
has_related_synonym: Archaebacteria
has_related_synonym: Mendosicutes
has_related_synonym: Metabacteria
has_related_synonym: Monera
has_related_synonym: Procaryotae
has_related_synonym: Prokaryota
has_related_synonym: Prokaryotae
has_related_synonym: archaea
has_related_synonym: prokaryote
has_related_synonym: prokaryotes

Brucella melitensis bv. 1 str. 16M
type: Class
subclass of: Proteobacteria
subclass of: Brucella
subclass of: Restriction
  on property: has part
  some values from: genome of Brucella melitensis bv. 1 str. 16M
imported from: ncbitaxon.owl
database_cross_reference: GC_ID:11
database_cross_reference: PMID:11756688
has_obo_namespace: ncbi_taxonomy
has_related_synonym: Brucella melitensis 16M
has_related_synonym: Brucella melitensis ATCC 23456
has_related_synonym: Brucella melitensis str. 16M
has_related_synonym: Brucella melitensis str. ATCC 23456

Brucella
type: Class
subclass of: Bacteria
subclass of: Restriction
  on property: has part
  some values from: genome of Brucella
imported from: ncbitaxon.owl
has_rank: NCBITaxon genus
database_cross_reference: GC_ID:11
database_cross_reference: PMID:8573514
has_obo_namespace: ncbi_taxonomy
has_related_synonym: Brucella Meyer and Shaw 1920

Eukaryota
type: Class
subclass of: organism
imported from: ncbitaxon.owl
has_rank: NCBITaxon superkingdom
database_cross_reference: GC_ID:1
database_cross_reference: PMID:23020233
has_exact_synonym: eucaryotes
has_exact_synonym: eukaryotes
has_obo_namespace: ncbi_taxonomy
has_related_synonym: Eucarya
has_related_synonym: Eucaryotae
has_related_synonym: Eukarya
has_related_synonym: Eukaryotae
has_related_synonym: eukaryotes

Euarchontoglires
type: Class
subclass of: Euteleostomi
imported from: ncbitaxon.owl
has_rank: NCBITaxon superorder
database_cross_reference: GC_ID:1
database_cross_reference: PMID:11214319
database_cross_reference: PMID:12082125
database_cross_reference: PMID:12878460
database_cross_reference: PMID:15522813
has_obo_namespace: ncbi_taxonomy

Opisthokonta
type: Class
subclass of: Eukaryota
imported from: ncbitaxon.owl
database_cross_reference: GC_ID:1
has_obo_namespace: ncbi_taxonomy
has_related_synonym: Fungi/Metazoa group
has_related_synonym: opisthokonts

Bilateria
type: Class
subclass of: Opisthokonta
imported from: ncbitaxon.owl
database_cross_reference: GC_ID:1
has_obo_namespace: ncbi_taxonomy

Influenza A virus (A/New York/392/2004(H3N2))
type: Class
subclass of: Viruses
imported from: ncbitaxon.owl
database_cross_reference: GC_ID:1
has_obo_namespace: ncbi_taxonomy

Brucella melitensis biovar Abortus 2308
type: Class
subclass of: Brucella
subclass of: Restriction
  on property: has part
  some values from: genome of Brucella melitensis biovar Abortus 2308
imported from: ncbitaxon.owl
database_cross_reference: GC_ID:11
database_cross_reference: PMID:16299333
database_cross_reference: PMID:20462421
has_exact_synonym: Brucella melitensis biovar Abortus str. 2308
has_exact_synonym: Brucella melitensis biovar Abortus strain 2308
has_obo_namespace: ncbi_taxonomy

Plasmodium falciparum 3D7
type: Class
subclass of: Eukaryota
imported from: ncbitaxon.owl
database_cross_reference: GC_ID:1
has_obo_namespace: ncbi_taxonomy
has_related_synonym: PLASMODIUM FALCIPARUM (ISOLATE 3D7).
has_related_synonym: Plasmodium falciparum (isolate 3D7)

Arabidopsis thaliana
type: Class
subclass of: Eukaryota
imported from: ncbitaxon.owl
has_rank: NCBITaxon species
database_cross_reference: GC_ID:1
has_exact_synonym: mouse-ear cress
has_exact_synonym: thale cress
has_exact_synonym: thale-cress
has_obo_namespace: ncbi_taxonomy
has_related_synonym: Arabidopsis thaliana (thale cress)
has_related_synonym: Arbisopsis thaliana

Escherichia coli str. K-12 substr. MG1655
type: Class
subclass of: Gammaproteobacteria
imported from: ncbitaxon.owl
database_cross_reference: GC_ID:11
has_exact_synonym: Escherichia coli str. K12 substr. MG1655
has_exact_synonym: Escherichia coli str. MG1655
has_exact_synonym: Escherichia coli strain MG1655
has_obo_namespace: ncbi_taxonomy
has_related_synonym: Escherichia coli MG1655

Saccharomyces cerevisiae S288c
type: Class
subclass of: Opisthokonta
imported from: ncbitaxon.owl
database_cross_reference: GC_ID:1
has_obo_namespace: ncbi_taxonomy

Caenorhabditis elegans
type: Class
subclass of: Ecdysozoa
imported from: ncbitaxon.owl
has_rank: NCBITaxon species
database_cross_reference: GC_ID:1
has_exact_synonym: nematode
has_obo_namespace: ncbi_taxonomy
has_related_synonym: Rhabditis elegans

Drosophila melanogaster
type: Class
subclass of: Ecdysozoa
imported from: ncbitaxon.owl
has_rank: NCBITaxon species
database_cross_reference: GC_ID:1
has_exact_synonym: fruit fly
has_obo_namespace: ncbi_taxonomy
has_related_synonym: Drosophila melangaster

Danio rerio
type: Class
subclass of: Euteleostomi
imported from: ncbitaxon.owl
has_rank: NCBITaxon species
has_alternative_id: NCBITaxon:27702
has_alternative_id: NCBITaxon:37966
database_cross_reference: GC_ID:1
has_exact_synonym: leopard danio
has_exact_synonym: zebra danio
has_exact_synonym: zebra fish
has_exact_synonym: zebrafish
has_obo_namespace: ncbi_taxonomy
has_related_synonym: Brachidanio rerio
has_related_synonym: Brachydanio rerio
has_related_synonym: Brachydanio rerio frankei
has_related_synonym: Cyprinus rerio
has_related_synonym: Cyprinus rerio Hamilton, 1822
has_related_synonym: Danio frankei
has_related_synonym: Danio rerio (Hamilton, 1822)
has_related_synonym: Danio rerio frankei

Mycobacterium tuberculosis H37Rv
type: Class
subclass of: Bacteria
imported from: ncbitaxon.owl
database_cross_reference: GC_ID:11
database_cross_reference: PMID:12218036
database_cross_reference: PMID:12368430
database_cross_reference: PMID:9634230
has_exact_synonym: Mycobacterium tuberculosis str. H37Rv
has_exact_synonym: Mycobacterium tuberculosis strain H37Rv
has_obo_namespace: ncbi_taxonomy

Homo sapiens
type: Class
subclass of: Euarchontoglires
imported from: ncbitaxon.owl
has_rank: NCBITaxon species
database_cross_reference: GC_ID:1
has_exact_synonym: human
has_exact_synonym: man
has_obo_namespace: ncbi_taxonomy

organism
type: Class
subclass of: material entity
subclass of: Restriction
  on property: has part
  some values from: genome
editor preferred term: organism
example of usage: animal
example of usage: fungus
example of usage: plant
example of usage: virus
has curation status: IAO_0000121
definition: A material entity that is an individual living system, such as animal, plant, bacteria or virus, that is capable of replicating or reproducing, growth and maintenance in the right environment. An organism may be unicellular or made up, like humans, of many billions of cells divided into specialized tissues and organs.
editor note: 10/21/09: This is a placeholder term, that should ideally be imported from the NCBI taxonomy, but the high level hierarchy there does not suit our needs (includes plasmids and 'other organisms')
term editor: GROUP: OBI Biomaterial Branch
definition source: WEB: http://en.wikipedia.org/wiki/Organism
imported from: obi.owl
imported from: OGG: Ontology of Genes and Genomes

genome
type: Class
subclass of: material entity
subclass of: Restriction
  on property: has part
  some values from: gene
definition: A genome is a material entity that represents the entirety of an organism's hereditary information. The genome includes both the genes and the non-coding sequences of the DNA and RNA.
term editor: Oliver He
definition source: Book: Eugene Nester, Denise Anderson, C. Evans Roberts, Jr., Microbiology (Companion Site): A Human Perspective, 7th Edition. Mcgraw Hill, October 18, 2011. ISBN-13: 978-0073375311
definition source: WEB: http://en.wikipedia.org/wiki/Genome
imported from: OGG: Ontology of Genes and Genomes

gene
type: Class
subclass of: material entity
subclass of: Restriction
  on property: has disposition at all times
  some values from: gene disposition
definition: A gene is a material entity that represents the entire DNA sequence required for synthesis of a functional protein or RNA molecule.
term editor: Oliver He
definition source: WEB: http://www.ncbi.nlm.nih.gov/books/NBK21640/
imported from: OGG: Ontology of Genes and Genomes
comment: In addition to the coding regions (exons), a gene includes transcription-control regions and sometimes introns. Although the majority of genes encode proteins, some encode tRNAs, rRNAs, and other types of RNA.

gene disposition
type: Class
subclass of: disposition
definition: a disposition that a gene can be used as a blueprint for generating a new form of product such as protein.
term editor: Yongqun He
definition source: WEB: http://www.ncbi.nlm.nih.gov/IEB/ToolBox/CPP_DOC/lxr/source/src/objects/entrezgene/entrezgene.asn
imported from: OGG: Ontology of Genes and Genomes
comment: YH: According to NCBI Gene project, there are two gene types: unknown (0) , tRNA (1) , rRNA (2) , snRNA (3) , scRNA (4) , snoRNA (5) , protein-coding (6) , pseudo (7) , transposon (8) , miscRNA (9) , ncRNA (10) , other (255). Therefore, we have generated corresponding gene dispositions. Note that we don't use the term "gene type" here to differentiate the meanings of "type" and "disposition".

protein-coding gene disposition
type: Class
subclass of: gene disposition
definition: a gene disposition that a gene can be used as a blueprint for generating a protein (i.e., a gene encodes for a protein).
term editor: Yongqun He
definition source: WEB: http://www.ncbi.nlm.nih.gov/IEB/ToolBox/CPP_DOC/lxr/source/src/objects/entrezgene/entrezgene.asn

RNA gene disposition
type: Class
subclass of: gene disposition
definition: a gene disposition that is the disposition of a gene that encodes for a tRNA.
term editor: Yongqun He, Bin Zhao
definition source: WEB: http://www.ncbi.nlm.nih.gov/IEB/ToolBox/CPP_DOC/lxr/source/src/objects/entrezgene/entrezgene.asn

rRNA gene disposition
type: Class
subclass of: RNA gene disposition
definition: a RNA gene disposition that is for a gene that encodes for a rRNA.
term editor: Yongqun He
definition source: WEB: http://www.ncbi.nlm.nih.gov/IEB/ToolBox/CPP_DOC/lxr/source/src/objects/entrezgene/entrezgene.asn

snRNA gene disposition
type: Class
subclass of: RNA gene disposition
definition: a RNA gene disposition that is for a gene that encodes for a snRNA.
term editor: Yongqun He
definition source: WEB: http://www.ncbi.nlm.nih.gov/IEB/ToolBox/CPP_DOC/lxr/source/src/objects/entrezgene/entrezgene.asn

tRNA gene disposition
type: Class
subclass of: RNA gene disposition
definition: a RNA gene disposition that is for a gene that encodes for a tRNA.
term editor: Yongqun He
definition source: WEB: http://www.ncbi.nlm.nih.gov/IEB/ToolBox/CPP_DOC/lxr/source/src/objects/entrezgene/entrezgene.asn

scRNA gene disposition
type: Class
subclass of: RNA gene disposition
definition: a RNA gene disposition that is for a gene that encodes for a scRNA.
term editor: Yongqun He
definition source: WEB: http://www.ncbi.nlm.nih.gov/IEB/ToolBox/CPP_DOC/lxr/source/src/objects/entrezgene/entrezgene.asn

snoRNA gene disposition
type: Class
subclass of: RNA gene disposition
definition: a RNA gene disposition that is for a gene that encodes for a snoRNA.
term editor: Yongqun He
definition source: WEB: http://www.ncbi.nlm.nih.gov/IEB/ToolBox/CPP_DOC/lxr/source/src/objects/entrezgene/entrezgene.asn

miscRNA gene disposition
type: Class
subclass of: RNA gene disposition
definition: a RNA gene disposition that is for a gene that encodes for a miscRNA.
term editor: Yongqun He
definition source: WEB: http://www.ncbi.nlm.nih.gov/IEB/ToolBox/CPP_DOC/lxr/source/src/objects/entrezgene/entrezgene.asn

ncRNA gene disposition
type: Class
subclass of: RNA gene disposition
definition: a RNA gene disposition that is for a gene that encodes for a ncRNA.
term editor: Yongqun He
definition source: WEB: http://www.ncbi.nlm.nih.gov/IEB/ToolBox/CPP_DOC/lxr/source/src/objects/entrezgene/entrezgene.asn

pseudo gene disposition
type: Class
subclass of: gene disposition
definition: a gene disposition that represents the disposition of gene being "pseudo", i.e., the gene is a pseudogene.
term editor: Yongqun He
definition source: WEB: http://www.ncbi.nlm.nih.gov/IEB/ToolBox/CPP_DOC/lxr/source/src/objects/entrezgene/entrezgene.asn

transposon gene disposition
type: Class
subclass of: gene disposition
definition: a gene disposition that represents the disposition of a gene that encodes for a transposon.
term editor: Yongqun He
definition source: WEB: http://www.ncbi.nlm.nih.gov/IEB/ToolBox/CPP_DOC/lxr/source/src/objects/entrezgene/entrezgene.asn

other gene disposition
type: Class
subclass of: gene disposition
definition: a gene disposition that is "other", i.e., the gene is for a gene product that is not listed for another other gene type.
editor note: Note: The other gene disposition originates from automated generation using terms imported from the NCBI Gene resource (http://www.ncbi.nlm.nih.gov/books/NBK3841/ ). However the use of such an information-related term is not fully compliant with the Foundry Principles. Before we can find a better solution, we will for now keep them in the OGG.
term editor: Yongqun He
definition source: WEB: http://www.ncbi.nlm.nih.gov/IEB/ToolBox/CPP_DOC/lxr/source/src/objects/entrezgene/entrezgene.asn

unknown gene disposition
type: Class
subclass of: gene disposition
definition: a gene disposition that represents the disposition of gene where the gene product is unknown.
editor note: Note: The unknown gene disposition originates from automated generation using terms imported from the NCBI Gene resource (http://www.ncbi.nlm.nih.gov/books/NBK3841/ ). However the use of such an information-related term is not fully compliant with the Foundry Principles. Before we can find a better solution, we will for now keep them in the OGG.
term editor: Yongqun He
definition source: WEB: http://www.ncbi.nlm.nih.gov/IEB/ToolBox/CPP_DOC/lxr/source/src/objects/entrezgene/entrezgene.asn

RNA gene
type: Class
subclass of: gene
subclass of: Restriction
  on property: has disposition at all times
  some values from: RNA gene disposition
definition: a gene that encodes for a RNA
term editor: Oliver He

miscRNA gene
type: Class
subclass of: RNA gene
subclass of: Restriction
  on property: has disposition at all times
  some values from: miscRNA gene disposition
definition: a RNA gene that encodes for a miscRNA
term editor: Oliver He

ncRNA gene
type: Class
subclass of: RNA gene
subclass of: Restriction
  on property: has disposition at all times
  some values from: ncRNA gene disposition
definition: a RNA gene that encodes for a ncRNA
term editor: Oliver He

rRNA gene
type: Class
subclass of: RNA gene
subclass of: Restriction
  on property: has disposition at all times
  some values from: rRNA gene disposition
definition: a RNA gene that encodes for a rRNA
term editor: Oliver He

scRNA gene
type: Class
subclass of: RNA gene
subclass of: Restriction
  on property: has disposition at all times
  some values from: scRNA gene disposition
definition: a RNA gene that encodes for a scRNA
term editor: Oliver He

snoRNA gene
type: Class
subclass of: RNA gene
subclass of: Restriction
  on property: has disposition at all times
  some values from: snoRNA gene disposition
definition: a RNA gene that encodes for a snoRNA
term editor: Oliver He

snRNA gene
type: Class
subclass of: RNA gene
subclass of: Restriction
  on property: has disposition at all times
  some values from: snRNA gene disposition
definition: a RNA gene that encodes for a snRNA
term editor: Oliver He

tRNA gene
type: Class
subclass of: RNA gene
subclass of: Restriction
  on property: has disposition at all times
  some values from: tRNA gene disposition
definition: a RNA gene that encodes for a tRNA
term editor: Oliver He

protein-coding gene
type: Class
subclass of: gene
subclass of: Restriction
  on property: has disposition at all times
  some values from: protein-coding gene disposition
definition: a gene that encodes for a protein
term editor: Oliver He

pseudo gene
type: Class
subclass of: gene
subclass of: Restriction
  on property: has disposition at all times
  some values from: pseudo gene disposition
definition: a gene that has lost its protein-coding ability or is otherwise no longer expressed in the cell.
term editor: Oliver He
definition source: WEB: http://en.wikipedia.org/wiki/Pseudogene

transposon gene
type: Class
subclass of: gene
subclass of: Restriction
  on property: has disposition at all times
  some values from: transposon gene disposition
definition: a gene that encodes for a transposable genetic element that can change its position within the genome.
term editor: Oliver He
definition source: WEB: http://en.wikipedia.org/wiki/Transposable_element

gene with unknown gene disposition
type: Class
subclass of: gene
subclass of: Restriction
  on property: has disposition at all times
  some values from: unknown gene disposition
definition: a gene that has an unknown gene disposition
editor note: Note: The unknown gene disposition originates from automated generation using terms imported from the NCBI Gene resource (http://www.ncbi.nlm.nih.gov/books/NBK3841/ ). However the use of such an information-related term is not fully compliant with the Foundry Principles. Before we can find a better solution, we will for now keep them in the OGG.
term editor: Oliver He
definition source: WEB: http://www.ncbi.nlm.nih.gov/IEB/ToolBox/CPP_DOC/lxr/source/src/objects/entrezgene/entrezgene.asn
definition source: WEB: http://www.ncbi.nlm.nih.gov/books/NBK3841/

gene with other gene disposition
type: Class
subclass of: gene
subclass of: Restriction
  on property: has disposition at all times
  some values from: unknown gene disposition
definition: a gene that has an other gene disposition
editor note: Note: The other gene disposition originates from automated generation using terms imported from the NCBI Gene resource (http://www.ncbi.nlm.nih.gov/books/NBK3841/ ). However the use of such an information-related term is not fully compliant with the Foundry Principles. Before we can find a better solution, we will for now keep them in the OGG.
term editor: Oliver He
definition source: WEB: http://www.ncbi.nlm.nih.gov/IEB/ToolBox/CPP_DOC/lxr/source/src/objects/entrezgene/entrezgene.asn
definition source: WEB: http://www.ncbi.nlm.nih.gov/books/NBK3841/

genome of Bacteria
type: Class
subclass of: genome
subclass of: Restriction
  on property: has part
  some values from: gene of Bacteria
subclass of: Restriction
  on property: is genome of organism
  some values from: Bacteria
definition: The genome of an organism of Bacteria
term editor: Yue Liu, Bin Zhao, Oliver He
imported from: OGG: Ontology of Genes and Genomes
organism NCBITaxon ID: 2

genome of Brucella
type: Class
subclass of: genome of Bacteria
subclass of: Restriction
  on property: has part
  some values from: gene of Brucella
subclass of: Restriction
  on property: is genome of organism
  some values from: Brucella
definition: The genome of an organism of Brucella
term editor: Yue Liu, Bin Zhao, Oliver He
organism NCBITaxon ID: 234

genome of Brucella suis 1330
type: Class
subclass of: genome of Brucella
subclass of: Restriction
  on property: has part
  some values from: gene of Brucella suis 1330
subclass of: Restriction
  on property: is genome of organism
  some values from: Brucella suis 1330
definition: The genome of an organism of Brucella suis 1330
term editor: Yue Liu, Bin Zhao, Oliver He
organism NCBITaxon ID: 204722

genome of Brucella melitensis bv. 1 str. 16M
type: Class
subclass of: genome of Brucella
subclass of: Restriction
  on property: has part
  some values from: gene of Brucella melitensis bv. 1 str. 16M
subclass of: Restriction
  on property: is genome of organism
  some values from: Brucella melitensis bv. 1 str. 16M
definition: The genome of an organism of Brucella melitensis bv. 1 str. 16M
term editor: Yue Liu, Bin Zhao, Oliver He
organism NCBITaxon ID: 224914

genome of Brucella melitensis biovar Abortus 2308
type: Class
subclass of: genome of Brucella
subclass of: Restriction
  on property: has part
  some values from: gene of Brucella melitensis biovar Abortus 2308
subclass of: Restriction
  on property: is genome of organism
  some values from: Brucella melitensis biovar Abortus 2308
definition: The genome of an organism of Brucella melitensis biovar Abortus 2308
term editor: Yue Liu, Bin Zhao, Oliver He
organism NCBITaxon ID: 359391

gene of Bacteria
type: Class
subclass of: gene
subclass of: Restriction
  on property: is gene of organism
  some values from: Bacteria
definition: A gene of an organism of Bacteria
term editor: Yue Liu, Bin Zhao, Oliver He
imported from: OGG: Ontology of Genes and Genomes
organism NCBITaxon ID: 2

gene of Brucella
type: Class
subclass of: gene of Bacteria
subclass of: Restriction
  on property: is gene of organism
  some values from: Brucella
definition: A gene of an organism of Brucella
term editor: Yue Liu, Bin Zhao, Oliver He
organism NCBITaxon ID: 234

gene of Brucella suis 1330
type: Class
subclass of: gene of Brucella
subclass of: Restriction
  on property: is gene of organism
  some values from: Brucella suis 1330
definition: A gene of an organism of Brucella suis 1330
term editor: Yue Liu, Bin Zhao, Oliver He
organism NCBITaxon ID: 204722

gene of Brucella melitensis bv. 1 str. 16M
type: Class
subclass of: gene of Brucella
subclass of: Restriction
  on property: is gene of organism
  some values from: Brucella melitensis bv. 1 str. 16M
definition: A gene of an organism of Brucella melitensis bv. 1 str. 16M
term editor: Yue Liu, Bin Zhao, Oliver He
organism NCBITaxon ID: 224914

gene of Brucella melitensis biovar Abortus 2308
type: Class
subclass of: gene of Brucella
subclass of: Restriction
  on property: is gene of organism
  some values from: Brucella melitensis biovar Abortus 2308
definition: A gene of an organism of Brucella melitensis biovar Abortus 2308
term editor: Yue Liu, Bin Zhao, Oliver He
organism NCBITaxon ID: 359391

dnaA of Escherichia coli K12
type: Class
subclass of: dnaA of Escherichia coli
term editor: Meng LIU (Mia), Oliver He
definition source: https://www.ncbi.nlm.nih.gov/nuccore/NC_000913
NCBI GeneID: 948217
NCBI LocusTag: b3702
description: chromosomal replication initiator protein DnaA, DNA-binding transcriptional dual regulator

dnaA of Brucella abortus 2308
type: Class
subclass of: dnaA of Brucella
term editor: Meng LIU (Mia), Oliver He
definition source: https://www.ncbi.nlm.nih.gov/nuccore/NC_007618
NCBI GeneID: 3786822
NCBI LocusTag: BAB_RS10420
description: chromosomal replication initiator protein DnaA

dnaA of Brucella suis 1330
type: Class
subclass of: dnaA of Brucella
term editor: Meng LIU (Mia), Oliver He
definition source: https://www.ncbi.nlm.nih.gov/nuccore/NC_017251
NCBI GeneID: 12137634
NCBI LocusTag: BS1330_RS00005
description: chromosomal replication initiator protein DnaA

dnaA of Brucella melitensis 16M
type: Class
subclass of: dnaA of Brucella
term editor: Meng LIU (Mia), Oliver He
definition source: https://www.ncbi.nlm.nih.gov/nuccore/NC_003317
NCBI GeneID: 29594817
NCBI LocusTag: BME_RS09615
description: chromosomal replication initiator protein DnaA

dnaA of Bacteria
type: Class
subclass of: genome of Bacteria

dnaA of Bacteria
type: Class
subclass of: gene of Bacteria
definition: DnaA is a protein that activates initiation of DNA replication in bacteria, which promotes the unwinding of DNA at oriC.
term editor: Meng LIU (Mia), Oliver He
definition source: https://en.wikipedia.org/wiki/DnaA

dnaA_1 of Syntheic bacterium JCVI-syn1.0
type: Class
subclass of: dnaA of Synthetic bacterium
term editor: Meng LIU (Mia), Oliver He
alternative term: dnaA_1
alternative term: dnaA_1 of Syntheic Mycoplasma mycoides JCVI-syn1.0 clone sMmYCp235-1
definition source: https://www.ncbi.nlm.nih.gov/nuccore/296455217
NCBI LocusTag: MMSYN1_0001

dnaA of Synthetic bacterium JCVI-Syn3.0
type: Class
subclass of: dnaA of Synthetic bacterium
term editor: Meng LIU (Mia), Oliver He
definition source: https://www.ncbi.nlm.nih.gov/nuccore/1009427419
NCBI LocusTag: JCVISYN3_0001
description: DnaA: initiation of DNA replication in bacteria

dnaA of Synthetic bacterium JCBI-Syn2.0
type: Class
subclass of: dnaA of Synthetic bacterium
term editor: Meng LIU (Mia), Oliver He
definition source: https://www.ncbi.nlm.nih.gov/nuccore/1012306382
NCBI LocusTag: JCVISYN2_0001

dnaA of Synthetic bacterium
type: Class
subclass of: dnaA of Bacteria

dnaA of Escherichia coli
type: Class
subclass of: dnaA of Bacteria

dnaA of Brucella
type: Class
subclass of: dnaA of Bacteria

bfo-spec-label
definition source: Person:Alan Ruttenberg

BFO_0000134
elucidation: To say that each spatiotemporal region s temporally_projects_onto some temporal region t is to say that t is the temporal extension of s. (axiom label in BFO2 Reference: [080-003])
elucidation: To say that spatiotemporal region s spatially_projects_onto spatial region r at t is to say that r is the spatial extent of s at t. (axiom label in BFO2 Reference: [081-003])

Axiom
annotated source: BFO_0000134
annotated property: elucidation
annotated target: To say that each spatiotemporal region s temporally_projects_onto some temporal region t is to say that t is the temporal extension of s. (axiom label in BFO2 Reference: [080-003])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/080-003

Axiom
annotated source: BFO_0000134
annotated property: elucidation
annotated target: To say that spatiotemporal region s spatially_projects_onto spatial region r at t is to say that r is the spatial extent of s at t. (axiom label in BFO2 Reference: [081-003])
has axiom label: http://purl.obolibrary.org/obo/bfo/axiom/081-003

OGG: Ontology of Genes and Genomes
version info: Vision Release: 1.0.59
creator: Yue Liu
creator: Yongqun "Oliver" He (YH)
subject: A biological ontology in the area of genes and genomes.
description: OGG is a biological ontology in the area of genes and genomes. OGG uses the Basic Formal Ontology (BFO) as its upper level ontology. This OGG document contains the genes and genomes of a list of selected organisms, including human, two viruses (HIV and influenza virus), and bacteria (B. melitensis strain 16M, E. coli strain K-12 substrain MG1655, M. tuberculosis strain H37Rv, and P. aeruginosa strain PAO1). More OGG information for other organisms (e.g., mouse, zebrafish, fruit fly, yeast, etc.) may be found in other OGG subsets.
license: http://creativecommons.org/licenses/by/3.0/
date: 12-01-2016
format: OWL-DL
creator: Bin Zhao