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cmungall committed Jun 15, 2017
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* 2017-06-14 Release

commit 7bf8fa406e90c8a849dd4acf65b3cd5f8b82e381
Author: Chris Mungall <[email protected]>
Date: Mon Jun 12 08:50:53 2017 -0700

NR: realized-in-response-to

gitowl || subject: http://purl.obolibrary.org/obo/RO_0009501
gitowl ++ AnnotationAssertion(dc:contributor obo:RO_0009501 "Marie Angelique Laporte")
gitowl || <http://purl.obolibrary.org/obo/RO_0009501> contributor "Marie Angelique Laporte"
gitowl ++ SubObjectPropertyOf(obo:RO_0009501 obo:RO_0002410)
gitowl || realized in response to SubPropertyOf causally related to
gitowl ++ Declaration(ObjectProperty(obo:RO_0009501))
gitowl || ObjectProperty: realized in response to
gitowl ++ AnnotationAssertion(obo:IAO_0000112 obo:RO_0009501 "A drought sensitivity trait that inheres in a whole plant is realized in a systemic response process in response to exposu
gitowl || <http://purl.obolibrary.org/obo/RO_0009501> IAO_0000112 "A drought sensitivity trait that inheres in a whole plant is realized in a systemic response process in response
gitowl ++ ObjectPropertyDomain(obo:RO_0009501 obo:BFO_0000017)
gitowl || realized in response to Domain BFO_0000017
gitowl ++ AnnotationAssertion(obo:IAO_0000115 obo:RO_0009501 "r 'realized in response to' s iff, r is a realizable (e.g. a plant trait such as responsivity to drought), s is an environ
gitowl || <http://purl.obolibrary.org/obo/RO_0009501> IAO_0000115 "r 'realized in response to' s iff, r is a realizable (e.g. a plant trait such as responsivity to drought), s is a
gitowl ++ AnnotationAssertion(dc:contributor obo:RO_0009501 "David Osumi-Sutherland")
gitowl || <http://purl.obolibrary.org/obo/RO_0009501> contributor "David Osumi-Sutherland"
gitowl ++ AnnotationAssertion(rdfs:label obo:RO_0009501 "realized in response to"@en)
gitowl || <http://purl.obolibrary.org/obo/RO_0009501> label "realized in response to"@en
gitowl ++ AnnotationAssertion(dc:contributor obo:RO_0009501 "Chris Mungall")
gitowl || <http://purl.obolibrary.org/obo/RO_0009501> contributor "Chris Mungall"
gitowl ++ ObjectPropertyRange(obo:RO_0009501 obo:BFO_0000015)
gitowl || realized in response to Range BFO_0000015
gitowl ++ AnnotationAssertion(obo:IAO_0000112 obo:RO_0009501 "Environmental polymorphism in butterflies: These butterflies have a 'responsivity to day length trait' that is realized in
gitowl || <http://purl.obolibrary.org/obo/RO_0009501> IAO_0000112 "Environmental polymorphism in butterflies: These butterflies have a 'responsivity to day length trait' that is re
gitowl ++ AnnotationAssertion(dc:contributor obo:RO_0009501 "Austin Meier")
gitowl || <http://purl.obolibrary.org/obo/RO_0009501> contributor "Austin Meier"
gitowl ||
gitowl || subject: NO_SUBJECT
gitowl ++ SubObjectPropertyOf(ObjectPropertyChain(obo:BFO_0000054 obo:RO_0002404) obo:RO_0009501)
gitowl || BFO_0000054 o causally downstream of SubPropertyOf realized in response to

commit 8875568e96d5a14d47a6cef8878d2580e9ab3b39
Author: Chris Mungall <[email protected]>
Date: Mon Jun 12 08:36:12 2017 -0700

adding conditions to def of exposure stimulus

commit 9eb002127abab507340d24a6a323ec4ef1a3b596
Author: James A. Overton <[email protected]>
Date: Tue Jun 6 14:54:09 2017 -0400

Fix typos in exposure relation definitions

commit 820c6f1af38063468bdc4d1c45ad4420f1f31de4
Author: Chris Mungall <[email protected]>
Date: Mon Jun 5 11:50:55 2017 -0700

Added grouping class for different kinds of exposures,
using as domain for exposure relations.
See: https://github.com/Planteome/plant-environment-ontology/issues/94

commit af62b82494e441a6253aa44296c153ac3cc36f36
Author: Chris Mungall <[email protected]>
Date: Mon Jun 5 10:52:54 2017 -0700

NRR: 'has exposure stimulus', fixes #172
gitowl || Diffing: src/ontology/ro-edit.owl
gitowl ||
gitowl || subject: http://purl.obolibrary.org/obo/RO_0002241
gitowl -- SubObjectPropertyOf(obo:RO_0002241 obo:RO_0002244)
gitowl || has exposure stressor SubPropertyOf related via exposure to
gitowl ++ SubObjectPropertyOf(obo:RO_0002241 obo:RO_0002309)
gitowl || has exposure stressor SubPropertyOf has exposure stimulus
gitowl ||
gitowl || subject: http://purl.obolibrary.org/obo/RO_0002309
gitowl ++ SubObjectPropertyOf(obo:RO_0002309 obo:RO_0002244)
gitowl || has exposure stimulus SubPropertyOf related via exposure to
gitowl ++ AnnotationAssertion(dc:contributor obo:RO_0002309 "Chris Mungall")
gitowl || <http://purl.obolibrary.org/obo/RO_0002309> contributor "Chris Mungall"
gitowl ++ AnnotationAssertion(dc:contributor obo:RO_0002309 "Austin Meier")
gitowl || <http://purl.obolibrary.org/obo/RO_0002309> contributor "Austin Meier"
gitowl ++ AnnotationAssertion(dc:contributor obo:RO_0002309 "Marie Angelique Laporte")
gitowl || <http://purl.obolibrary.org/obo/RO_0002309> contributor "Marie Angelique Laporte"
gitowl ++ AnnotationAssertion(rdfs:label obo:RO_0002309 "has exposure stimulus")
gitowl || <http://purl.obolibrary.org/obo/RO_0002309> label "has exposure stimulus"
gitowl ++ AnnotationAssertion(obo:IAO_0000115 obo:RO_0002309 "A relationship between an exposure event or process and any agent, stimulus, activity, or event that c
gitowl || <http://purl.obolibrary.org/obo/RO_0002309> IAO_0000115 "A relationship between an exposure event or process and any agent, stimulus, activity, or eve
gitowl ++ AnnotationAssertion(oboInOwl:creation_date obo:RO_0002309 "2017-06-05T17:35:04Z"^^xsd:dateTime)
gitowl || <http://purl.obolibrary.org/obo/RO_0002309> creation_date "2017-06-05T17:35:04Z"^^dateTime
gitowl ++ Declaration(ObjectProperty(obo:RO_0002309))
gitowl || ObjectProperty: has exposure stimulus
gitowl ++ AnnotationAssertion(oboInOwl:created_by obo:RO_0002309 "cjm"^^xsd:string)
gitowl || <http://purl.obolibrary.org/obo/RO_0002309> created_by "cjm"^^string

* 2017-05-29 Release

commit https://github.com/oborel/obo-relations/commit/dd541eb02d08ab6e8a72c2c7fbcbe5db237fe444
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53 changes: 48 additions & 5 deletions ro.obo
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@@ -1,5 +1,5 @@
format-version: 1.2
data-version: releases/2017-05-29
data-version: releases/2017-06-15
subsetdef: ro-eco ""
subsetdef: RO:0002259 ""
remark: Includes Ontology(OntologyID(Anonymous-21)) [Axioms: 26 Logical Axioms: 0]
Expand Down Expand Up @@ -423,6 +423,19 @@ id: PATO:0002124
name: laminar
is_a: PATO:0000141 ! structure

[Term]
id: RO:0002310
name: exposure event or process
def: "A process occurring within or in the vicinity of an organism that exerts some causal influence on the organism via the interaction between an exposure stimulus and an exposure receptor. The exposure stimulus may be a process, material entity or condition (for example, lack of nutrients). The exposure receptor can be an organism, organism population or a part of an organism." []
is_a: BFO:0000015 ! process
property_value: http://purl.org/dc/elements/1.1/creator "Chris Mungall" xsd:string
property_value: IAO:0000112 "An exposure event in which a human is exposed to particulate matter in the air. Here the exposure stimulus/stress is the particulate matter, the receptor is the airways and lungs of the human," xsd:string
property_value: IAO:0000112 "An exposure event in which a plant is provided with fertilizer. The exposure receptor is the root system of the plant, the stimulus is the fertilizing chemical, the route is via the soil, possibly mediated by symbotic microbes." xsd:anyURI
property_value: IAO:0000116 "This class is intended as a grouping for various domain and species-specific exposure classes. The ExO class http://purl.obolibrary.org/obo/ExO_0000002 'exposure event' assumes that all exposures involve stressors, which limits the applicability of this class to 'positive' exposures, e.g. exposing a plant to beneficial growing conditions." xsd:string
property_value: seeAlso https://github.com/oborel/obo-relations/pull/173 xsd:anyURI
created_by: cjm
creation_date: 2017-06-05T17:55:39Z

[Term]
id: RO:0002532
name: sequentially ordered entity
Expand Down Expand Up @@ -2089,7 +2102,7 @@ is_a: RO:0002444 ! parasite of
[Typedef]
id: RO:0002240
name: has exposure receptor
def: "A broad relationship between an exposure event or process and any entity (e.g., a human, human population, or a human organ) that interacts with an exposure stressor during the exposure event" []
def: "A broad relationship between an exposure event or process and any entity (e.g., an organism, organism population, or an organism part) that interacts with an exposure stimulus during the exposure event." []
property_value: IAO:0000119 ExO:0000001 xsd:string
is_a: RO:0002244 ! related via exposure to

Expand All @@ -2098,7 +2111,7 @@ id: RO:0002241
name: has exposure stressor
def: "A broad relationship between an exposure event or process and any agent, stimulus, activity, or event that causes stress or tension on an organism and interacts with an exposure receptor during an exposure event." []
property_value: IAO:0000119 ExO:0000000 xsd:string
is_a: RO:0002244 ! related via exposure to
is_a: RO:0002309 ! has exposure stimulus

[Typedef]
id: RO:0002242
Expand All @@ -2110,13 +2123,16 @@ is_a: RO:0002244 ! related via exposure to
[Typedef]
id: RO:0002243
name: has exposure transport path
def: "A broad relationship between an exposure event or process and a the material an agent takes from the source to the target." []
def: "A broad relationship between an exposure event or process and the course takes from the source to the target." []
property_value: IAO:0000119 http://purl.obolibrary.org/obo/ExO_0000004 xsd:anyURI
is_a: RO:0002244 ! related via exposure to

[Typedef]
id: RO:0002244
name: related via exposure to
domain: BFO:0000015 ! process
def: "Any relationship between an exposure event or process and any other entity." []
property_value: IAO:0000232 "Do not use this relation directly. It is intended as a grouping for a diverse set of relations, all involving exposure events or processes." xsd:string
domain: RO:0002310 ! exposure event or process
is_a: RO:0002410 ! causally related to

[Typedef]
Expand Down Expand Up @@ -2360,6 +2376,17 @@ comment: holds between x and y if and only if x is causally upstream of y and th
property_value: http://purl.org/dc/elements/1.1/creator "cjm" xsd:string
is_a: RO:0002411 ! causally upstream of

[Typedef]
id: RO:0002309
name: has exposure stimulus
def: "A relationship between an exposure event or process and any agent, stimulus, activity, or event that causally effects an organism and interacts with an exposure receptor during an exposure event." []
property_value: http://purl.org/dc/elements/1.1/contributor "Austin Meier" xsd:string
property_value: http://purl.org/dc/elements/1.1/contributor "Chris Mungall" xsd:string
property_value: http://purl.org/dc/elements/1.1/contributor "Marie Angelique Laporte" xsd:string
is_a: RO:0002244 ! related via exposure to
created_by: cjm
creation_date: 2017-06-05T17:35:04Z

[Typedef]
id: RO:0002312
name: evolutionary variant of
Expand Down Expand Up @@ -4769,6 +4796,22 @@ property_value: IAO:0000114 IAO:0000428
property_value: IAO:0000117 "Damion Dooley" xsd:string
is_a: RO:0009001 ! has substance added

[Typedef]
id: RO:0009501
name: realized in response to
def: "r 'realized in response to' s iff, r is a realizable (e.g. a plant trait such as responsivity to drought), s is an environmental stimulus (a process), and s directly causes the realization of r." []
property_value: http://purl.org/dc/elements/1.1/contributor "Austin Meier" xsd:string
property_value: http://purl.org/dc/elements/1.1/contributor "Chris Mungall" xsd:string
property_value: http://purl.org/dc/elements/1.1/contributor "David Osumi-Sutherland" xsd:string
property_value: http://purl.org/dc/elements/1.1/contributor "Marie Angelique Laporte" xsd:string
property_value: IAO:0000112 "A drought sensitivity trait that inheres in a whole plant is realized in a systemic response process in response to exposure to drought conditions." xsd:string
property_value: IAO:0000112 "Environmental polymorphism in butterflies: These butterflies have a 'responsivity to day length trait' that is realized in response to the duration of the day, and is realized in developmental processes that lead to increased or decreased pigmentation in the adult morph." xsd:string
property_value: seeAlso https://docs.google.com/document/d/1KWhZxVBhIPkV6_daHta0h6UyHbjY2eIrnON1WIRGgdY/edit xsd:anyURI
domain: BFO:0000017 ! realizable entity
range: BFO:0000015 ! process
holds_over_chain: BFO:0000054 RO:0002404
is_a: RO:0002410 ! causally related to

[Typedef]
id: RO:HOM0000000
name: in similarity relationship with
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