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adding eco relations definitions #762

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merged 7 commits into from
Feb 29, 2024
Merged

adding eco relations definitions #762

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cc9576a
adding eco relations definitions
diatomsRcool Oct 19, 2023
206605a
responding to comments in PR
diatomsRcool Oct 31, 2023
9cef4c6
updating definitions of eats and aquires nutriets from
diatomsRcool Nov 3, 2023
35a0419
Merge branch 'master' into thessen-4
Nov 3, 2023
1241c9e
Merge branch 'master' into thessen-4
cmungall Nov 6, 2023
b2edc0e
Merge branch 'master' into thessen-4
cmungall Feb 26, 2024
9bc4ac7
Merge branch 'master' into thessen-4
Feb 27, 2024
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18 changes: 13 additions & 5 deletions src/ontology/ro-edit.owl
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Original file line number Diff line number Diff line change
Expand Up @@ -3879,8 +3879,8 @@ 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 @@ -3997,6 +3997,7 @@ SubObjectPropertyOf(obo:RO_0002443 obo:RO_0002440)
# Object Property: obo:RO_0002444 (parasite of)

AnnotationAssertion(obo:IAO_0000112 obo:RO_0002444 "Pediculus humanus capitis parasite of human")
AnnotationAssertion(obo:IAO_0000115 obo:RO_0002444 "A parasite-host relationship where an organism benefits at the expense of another.")
AnnotationAssertion(obo:IAO_0000117 obo:RO_0002444 <https://orcid.org/0000-0002-6601-2165>)
AnnotationAssertion(obo:IAO_0000118 obo:RO_0002444 "parasitizes")
AnnotationAssertion(oboInOwl:hasExactSynonym obo:RO_0002444 "direct parasite of")
Expand All @@ -4009,6 +4010,7 @@ InverseObjectProperties(obo:RO_0002444 obo:RO_0002445)

# Object Property: obo:RO_0002445 (parasitized by)

AnnotationAssertion(obo:IAO_0000115 obo:RO_0002445 "Inverse of parasite of")
AnnotationAssertion(obo:IAO_0000117 obo:RO_0002445 <https://orcid.org/0000-0002-6601-2165>)
AnnotationAssertion(obo:IAO_0000118 obo:RO_0002445 "has parasite")
AnnotationAssertion(obo:IAO_0000118 obo:RO_0002445 "parasitised by")
Expand Down Expand Up @@ -4136,11 +4138,12 @@ SubObjectPropertyOf(obo:RO_0002456 obo:RO_0002442)

# Object Property: obo:RO_0002457 (acquires nutrients from)

AnnotationAssertion(obo:IAO_0000115 obo:RO_0002457 "Inverse of provides nutrients for")
AnnotationAssertion(obo:IAO_0000117 obo:RO_0002457 <https://orcid.org/0000-0002-6601-2165>)
AnnotationAssertion(obo:IAO_0000232 obo:RO_0002457 "Intended to be used when the target of the relation is not itself consumed, and does not have integral parts consumed, but provided nutrients in some other fashion.")
AnnotationAssertion(oboInOwl:inSubset obo:RO_0002457 subsets:ro-eco)
AnnotationAssertion(rdfs:label obo:RO_0002457 "acquires nutrients from")
SubObjectPropertyOf(obo:RO_0002457 obo:RO_0002438)
SubObjectPropertyOf(obo:RO_0002457 obo:RO_0002437)
InverseObjectProperties(obo:RO_0002457 obo:RO_0002469)

# Object Property: obo:RO_0002458 (preyed upon by)
Expand Down Expand Up @@ -4226,27 +4229,30 @@ SubObjectPropertyOf(obo:RO_0002468 obo:RO_0002465)

# Object Property: obo:RO_0002469 (provides nutrients for)

AnnotationAssertion(obo:IAO_0000115 obo:RO_0002469 "A biotic interaction where a material entity provides nutrition for an organism.")
AnnotationAssertion(obo:IAO_0000117 obo:RO_0002469 <https://orcid.org/0000-0002-6601-2165>)
AnnotationAssertion(oboInOwl:inSubset obo:RO_0002469 subsets:ro-eco)
AnnotationAssertion(rdfs:label obo:RO_0002469 "provides nutrients for")
SubObjectPropertyOf(obo:RO_0002469 obo:RO_0002438)
SubObjectPropertyOf(obo:RO_0002469 obo:RO_0002437)

# Object Property: obo:RO_0002470 (eats)

AnnotationAssertion(obo:IAO_0000115 obo:RO_0002470 "A biotic interaction where one organism consumes a material entity through a type of mouth or other oral opening.")
AnnotationAssertion(obo:IAO_0000117 obo:RO_0002470 <https://orcid.org/0000-0002-6601-2165>)
AnnotationAssertion(obo:IAO_0000118 obo:RO_0002470 "is subject of eating interaction with")
AnnotationAssertion(oboInOwl:inSubset obo:RO_0002470 subsets:ro-eco)
AnnotationAssertion(rdfs:label obo:RO_0002470 "eats")
SubObjectPropertyOf(obo:RO_0002470 obo:RO_0002438)
SubObjectPropertyOf(obo:RO_0002470 obo:RO_0002437)

# Object Property: obo:RO_0002471 (is eaten by)

AnnotationAssertion(obo:IAO_0000115 obo:RO_0002471 "Inverse of eats")
AnnotationAssertion(obo:IAO_0000117 obo:RO_0002471 <https://orcid.org/0000-0002-6601-2165>)
AnnotationAssertion(obo:IAO_0000118 obo:RO_0002471 "eaten by")
AnnotationAssertion(obo:IAO_0000118 obo:RO_0002471 "is target of eating interaction with")
AnnotationAssertion(oboInOwl:inSubset obo:RO_0002471 subsets:ro-eco)
AnnotationAssertion(rdfs:label obo:RO_0002471 "is eaten by")
SubObjectPropertyOf(obo:RO_0002471 obo:RO_0002438)
SubObjectPropertyOf(obo:RO_0002471 obo:RO_0002437)

# Object Property: obo:RO_0002472 (is evidence for)

Expand Down Expand Up @@ -4830,6 +4836,7 @@ SubObjectPropertyOf(obo:RO_0002555 obo:RO_0002574)

# Object Property: obo:RO_0002556 (pathogen of)

AnnotationAssertion(obo:IAO_0000115 obo:RO_0002556 "Inverse of has pathogen")
AnnotationAssertion(obo:IAO_0000117 obo:RO_0002556 <https://orcid.org/0000-0002-6601-2165>)
AnnotationAssertion(oboInOwl:inSubset obo:RO_0002556 subsets:ro-eco)
AnnotationAssertion(rdfs:label obo:RO_0002556 "pathogen of")
Expand All @@ -4838,6 +4845,7 @@ InverseObjectProperties(obo:RO_0002556 obo:RO_0002557)

# Object Property: obo:RO_0002557 (has pathogen)

AnnotationAssertion(obo:IAO_0000115 obo:RO_0002557 "A host interaction where the smaller of the two members of a symbiosis causes a disease in the larger member")
AnnotationAssertion(obo:IAO_0000117 obo:RO_0002557 <https://orcid.org/0000-0002-6601-2165>)
AnnotationAssertion(oboInOwl:inSubset obo:RO_0002557 subsets:ro-eco)
AnnotationAssertion(rdfs:label obo:RO_0002557 "has pathogen")
Expand Down
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