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Add taxon-specific GCIs for existential relations. #2390

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May 3, 2022
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Add taxon-specific GCIs for existential relations. #2390

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21 changes: 10 additions & 11 deletions src/ontology/uberon-edit.obo
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Original file line number Diff line number Diff line change
Expand Up @@ -1861,7 +1861,7 @@ xref: XAO:0003000
xref: ZFA:0000037
is_a: UBERON:0000465 ! material anatomical entity
relationship: existence_ends_during_or_before UBERON:0000071 ! death stage
relationship: existence_starts_during_or_after UBERON:0000106 ! zygote stage
relationship: existence_starts_during_or_after UBERON:0000106 {gci_relation="in_taxon", gci_filler="NCBITaxon:33208"} ! zygote stage

[Term]
id: UBERON:0000062
Expand Down Expand Up @@ -1889,7 +1889,7 @@ is_a: UBERON:0010000 ! multicellular anatomical structure
disjoint_from: UBERON:0002095 {source="PMID:28192867"} ! mesentery
disjoint_from: UBERON:0034921 ! multi organ part structure
relationship: capable_of GO:0008150 ! biological_process
relationship: existence_starts_during_or_after UBERON:0000111 ! organogenesis stage
relationship: existence_starts_during_or_after UBERON:0000111 {gci_filler="NCBITaxon:6072", gci_relation="in_taxon"} ! organogenesis stage
relationship: has_boundary UBERON:0006984 ! anatomical surface
relationship: never_in_taxon NCBITaxon:110815 {source="Wikipedia"} ! Xenoturbella
relationship: part_of UBERON:0000467 ! anatomical system
Expand Down Expand Up @@ -6964,7 +6964,7 @@ xref: Wikipedia:Organ_system
xref: XAO:0003002
xref: ZFA:0001439
is_a: UBERON:0000061 ! anatomical structure
relationship: existence_starts_during_or_after UBERON:0000111 ! organogenesis stage
relationship: existence_starts_during_or_after UBERON:0000111 {gci_filler="NCBITaxon:6072", gci_relation="in_taxon"} ! organogenesis stage
relationship: has_part UBERON:0000062 ! organ
relationship: part_of UBERON:0000468 ! multicellular organism
relationship: seeAlso EHDAA2:0001330
Expand Down Expand Up @@ -7220,11 +7220,11 @@ xref: ZFA:0001308
is_a: UBERON:0010000 {source="CARO"} ! multicellular anatomical structure
relationship: has_part UBERON:0000075 {gci_relation="part_of", gci_filler="NCBITaxon:7742"} ! subdivision of skeletal system
relationship: has_part UBERON:0034929 {gci_relation="part_of", gci_filler="NCBITaxon:7742"} ! external soft tissue zone
relationship: overlaps UBERON:0001009 ! circulatory system
relationship: overlaps UBERON:0001015 ! musculature
relationship: overlaps UBERON:0001016 ! nervous system
relationship: overlaps UBERON:0001434 ! skeletal system
relationship: overlaps UBERON:0002416 ! integumental system
relationship: overlaps UBERON:0001009 {gci_filler="NCBITaxon:33213", gci_relation="in_taxon"} ! circulatory system
relationship: overlaps UBERON:0001015 {gci_filler="NCBITaxon:6072", gci_relation="in_taxon"} ! musculature
relationship: overlaps UBERON:0001016 {gci_filler="NCBITaxon:6072", gci_relation="in_taxon"} ! nervous system
relationship: overlaps UBERON:0001434 {gci_filler="NCBITaxon:33213", gci_relation="in_taxon"} ! skeletal system
relationship: overlaps UBERON:0002416 {gci_filler="NCBITaxon:6072", gci_relation="in_taxon"} ! integumental system
relationship: part_of UBERON:0000468 ! multicellular organism
property_value: editor_note "Reflects CARO2. todo - check the inclusion of FMA 'cardinal body part here', and check child terms for consistency" xsd:string

Expand Down Expand Up @@ -7299,7 +7299,7 @@ xref: XAO:0004005
xref: ZFA:0000020
intersection_of: UBERON:0005423 ! developing anatomical structure
intersection_of: part_of UBERON:0016887 ! entire extraembryonic component
relationship: existence_starts_and_ends_during UBERON:0000068 ! embryo stage
relationship: existence_starts_and_ends_during UBERON:0000068 {gci_filler="NCBITaxon:6072", gci_relation="in_taxon"} ! embryo stage

[Term]
id: UBERON:0000479
Expand Down Expand Up @@ -7376,7 +7376,7 @@ xref: XAO:0003037
xref: ZFA:0001488
is_a: UBERON:0010000 {source="CARO"} ! multicellular anatomical structure
relationship: has_part UBERON:0000479 ! tissue
relationship: part_of NCBITaxon:6072 ! Eumetazoa
relationship: part_of NCBITaxon:6072 {gci_filler="NCBITaxon:6072", gci_relation="in_taxon"} ! Eumetazoa
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this was an odd axiom to begin with.. but I guess the GCI is not wrong


[Term]
id: UBERON:0000482
Expand Down Expand Up @@ -67552,7 +67552,6 @@ xref: VHOG:0001723
xref: XAO:0003041
xref: ZFA:0000496
is_a: UBERON:0000062 ! organ
relationship: only_in_taxon NCBITaxon:6072 ! Eumetazoa
property_value: curator_notes "this class was introduced for consistency with CARO. However, in this ontology we typically classify organs directly under 'organ' rather than subdividing into compound and simple organs" xsd:string

[Term]
Expand Down