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adding trophic relations for issue 647 #737

Merged
merged 15 commits into from
Aug 12, 2024
Merged

adding trophic relations for issue 647 #737

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a01cfe8
adding relations for issue 647
diatomsRcool Jul 17, 2023
7080760
Merge branch 'master' into thessen-3
Jul 17, 2023
7a16058
changing to dcterms
diatomsRcool Jul 18, 2023
e4bda9a
test
diatomsRcool Jul 18, 2023
7353db7
fixing annotations
diatomsRcool Jul 18, 2023
b5fd456
fixing dc creator
diatomsRcool Jul 18, 2023
acd6c65
Merge branch 'master' into thessen-3
Aug 14, 2023
07defcc
adding examples
diatomsRcool Mar 25, 2024
b92abdc
rewording example
diatomsRcool Mar 25, 2024
36d7b68
Merge branch 'master' into thessen-3
Mar 25, 2024
c24530b
adding more examples
diatomsRcool Mar 25, 2024
e94b91c
Merge branch 'thessen-3' of https://github.com/oborel/obo-relations i…
diatomsRcool Mar 25, 2024
8137ef7
Merge branch 'master' into thessen-3
Jul 15, 2024
34ca9cc
Merge branch 'master' into thessen-3
Jul 25, 2024
46d041d
Merge branch 'master' into thessen-3
Aug 12, 2024
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24 changes: 23 additions & 1 deletion src/ontology/ro-edit.owl
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Original file line number Diff line number Diff line change
Expand Up @@ -511,6 +511,8 @@ Declaration(ObjectProperty(obo:RO_0008506))
Declaration(ObjectProperty(obo:RO_0008507))
Declaration(ObjectProperty(obo:RO_0008508))
Declaration(ObjectProperty(obo:RO_0008509))
Declaration(ObjectProperty(obo:RO_0008510))
Declaration(ObjectProperty(obo:RO_0008511))
Declaration(ObjectProperty(obo:RO_0009001))
Declaration(ObjectProperty(obo:RO_0009002))
Declaration(ObjectProperty(obo:RO_0009003))
Expand Down Expand Up @@ -3881,8 +3883,8 @@ SubObjectPropertyOf(obo:RO_0002433 obo:RO_0002131)
# Object Property: obo:RO_0002434 (interacts with)

AnnotationAssertion(obo:IAO_0000115 obo:RO_0002434 "A relationship that holds between two entities in which the processes executed by the two entities are causally connected.")
AnnotationAssertion(obo:IAO_0000116 obo:RO_0002434 "This relation and all sub-relations can be applied to either (1) pairs of entities that are interacting at any moment of time (2) populations or species of entity whose members have the disposition to interact (3) classes whose members have the disposition to interact.")
AnnotationAssertion(obo:IAO_0000116 obo:RO_0002434 "Considering relabeling as 'pairwise interacts with'"^^xsd:anyURI)
AnnotationAssertion(obo:IAO_0000116 obo:RO_0002434 "This relation and all sub-relations can be applied to either (1) pairs of entities that are interacting at any moment of time (2) populations or species of entity whose members have the disposition to interact (3) classes whose members have the disposition to interact.")
AnnotationAssertion(obo:IAO_0000117 obo:RO_0002434 <https://orcid.org/0000-0002-6601-2165>)
AnnotationAssertion(obo:IAO_0000232 obo:RO_0002434 "Note that this relationship type, and sub-relationship types may be redundant with process terms from other ontologies. For example, the symbiotic relationship hierarchy parallels GO. The relations are provided as a convenient shortcut. Consider using the more expressive processual form to capture your data. In the future, these relations will be linked to their cognate processes through rules.")
AnnotationAssertion(oboInOwl:hasExactSynonym obo:RO_0002434 "in pairwise interaction with")
Expand Down Expand Up @@ -3933,6 +3935,7 @@ ObjectPropertyRange(obo:RO_0002437 obo:BFO_0000040)

# Object Property: obo:RO_0002438 (trophically interacts with)

AnnotationAssertion(obo:IAO_0000112 obo:RO_0002438 "lions trophically interact with the zebras that they eat")
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AnnotationAssertion(obo:IAO_0000115 obo:RO_0002438 "An interaction relationship in which the partners are related via a feeding relationship.")
AnnotationAssertion(obo:IAO_0000117 obo:RO_0002438 <https://orcid.org/0000-0002-6601-2165>)
AnnotationAssertion(oboInOwl:inSubset obo:RO_0002438 subsets:ro-eco)
Expand All @@ -3959,6 +3962,7 @@ InverseObjectProperties(obo:RO_0002439 obo:RO_0002458)

# Object Property: obo:RO_0002440 (symbiotically interacts with)

AnnotationAssertion(obo:IAO_0000112 obo:RO_0002440 "whales symbiotically interact with the barnacles that attach to them")
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AnnotationAssertion(obo:IAO_0000115 obo:RO_0002440 "A biotic interaction in which the two organisms live together in more or less intimate association.")
AnnotationAssertion(obo:IAO_0000117 obo:RO_0002440 <https://orcid.org/0000-0002-6601-2165>)
AnnotationAssertion(obo:IAO_0000119 obo:RO_0002440 "http://www.ncbi.nlm.nih.gov/pubmed/19278549"^^xsd:anyURI)
Expand Down Expand Up @@ -5950,6 +5954,24 @@ SubObjectPropertyOf(obo:RO_0008509 obo:RO_0002303)
ObjectPropertyDomain(obo:RO_0008509 obo:OBI_0100026)
ObjectPropertyRange(obo:RO_0008509 obo:ENVO_01000739)

# Object Property: obo:RO_0008510 (symbiotrophically interacts with)

AnnotationAssertion(obo:IAO_0000115 obo:RO_0008510 "A trophic interaction in which one organism acquires nutrients through a symbiotic relationship with another organism")
AnnotationAssertion(terms:contributor obo:RO_0008510 <https://orcid.org/0000-0002-2908-3327>)
AnnotationAssertion(terms:date obo:RO_0008510 "2023-07-17T14:39:56Z"^^xsd:dateTime)
AnnotationAssertion(oboInOwl:inSubset obo:RO_0008510 subsets:ro-eco)
AnnotationAssertion(rdfs:label obo:RO_0008510 "symbiotrophically interacts with"@en)
SubObjectPropertyOf(obo:RO_0008510 obo:RO_0002438)

# Object Property: obo:RO_0008511 (trophic parasite of)
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AnnotationAssertion(obo:IAO_0000115 obo:RO_0008511 "A symbiotrophic interaction in which one organism acquires nutrients through a parasitic relationship with another organism")
AnnotationAssertion(terms:contributor obo:RO_0008511 <https://orcid.org/0000-0002-2908-3327>)
AnnotationAssertion(terms:date obo:RO_0008511 "2023-07-17T14:41:07Z"^^xsd:dateTime)
AnnotationAssertion(oboInOwl:inSubset obo:RO_0008511 subsets:ro-eco)
AnnotationAssertion(rdfs:label obo:RO_0008511 "trophic parasite of"@en)
SubObjectPropertyOf(obo:RO_0008511 obo:RO_0008510)

# Object Property: obo:RO_0009001 (has substance added)

AnnotationAssertion(obo:IAO_0000112 obo:RO_0009001 "muffin 'has substance added' some 'baking soda'"@en)
Expand Down
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