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Fix axioms on uncinate fasciculus and added disjoint for brainstem #2343

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Mar 10, 2022
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Fix axioms on uncinate fasciculus and added disjoint for brainstem #2343

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13 changes: 10 additions & 3 deletions src/ontology/uberon-edit.obo
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Original file line number Diff line number Diff line change
Expand Up @@ -34744,6 +34744,7 @@ xref: Wikipedia:Forebrain
xref: XAO:0000011
xref: ZFA:0000109
is_a: UBERON:0002616 ! regional part of brain
disjoint_from: UBERON:0002298 ! brainstem
relationship: contributes_to_morphology_of UBERON:0000955 ! brain
relationship: develops_from UBERON:0003080 ! anterior neural tube
relationship: immediate_transformation_of UBERON:0006240 {evidence="definitional"} ! future forebrain
Expand Down Expand Up @@ -66003,7 +66004,12 @@ xref: SCTID:369083001
xref: UMLS:C0228271 {source="BIRNLEX:983"}
xref: Wikipedia:Uncinate_fasciculus
is_a: UBERON:0005838 {source="FMA"} ! fasciculus of brain
relationship: part_of UBERON:0003023 {source="NIFSTD"} ! pontine tegmentum
relationship: overlaps UBERON:0002153 ! fastigial nucleus
relationship: overlaps UBERON:0002275 ! reticular formation
relationship: overlaps UBERON:0002298 ! brainstem
relationship: overlaps UBERON:0002726 ! cervical spinal cord
relationship: overlaps UBERON:0003023 {source="NIFSTD"} ! pontine tegmentum
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@shawntanzk I'd remove the NIFSTD source, because it's not the source of this overlaps rel.

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That was there on the part_of relation from before - I wonder if it shows provenance? cause the definition doesn't mention pons/pontine tegmentum at all. Will try to look into NIFSTD to check this, if not find why this is there from literature

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Might be worth keeping as NIFSTD is at least the source of a partonomy relationship, even if they didn't choose the right one.

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ok trying to open NIF on protege is killing it lol, im going to assume that the partonomy relationship is there (don't see partonomy relationships in general on bioportal where the user facing nif is at) - either way, since it was there before I think it should be kept

relationship: overlaps UBERON:0007228 ! vestibular nucleus
property_value: depicted_by http://upload.wikimedia.org/wikipedia/commons/d/d1/Gray751.png xsd:anyURI

[Term]
Expand Down Expand Up @@ -147135,8 +147141,8 @@ id: UBERON:0011390
name: pudendal nerve
def: "The pudendal nerve is a somatic nerve in the pelvic region that innervates the external genitalia of both sexes, as well as sphincters for the bladder and the rectum. It originates in Onuf's nucleus in the sacral region of the spinal cord." [Wikipedia:Pudendal_nerve]
synonym: "internal pudendal nerve" RELATED [Wikipedia:Pudendal_nerve]
synonym: "nervus pudendae" EXACT DEPRECATED [doi:10.1002/ca.23705]
synonym: "nervus pudendae" EXACT LATIN [doi:10.1002/ca.23705]
synonym: "nervus pudendae" EXACT DEPRECATED [doi:10.1002/ca.23705]
synonym: "nervus pudendales" EXACT LATIN [doi:10.1002/ca.23705]
synonym: "pudenal nerve" RELATED [Wikipedia:Pudendal_nerve]
synonym: "pudendal" BROAD [Wikipedia:Pudendal_nerve]
Expand Down Expand Up @@ -175129,6 +175135,7 @@ xref: HBA:9284
xref: http://braininfo.rprc.washington.edu/centraldirectory.aspx?ID=1444
xref: NLX:98733
is_a: UBERON:0002616 ! regional part of brain
relationship: part_of UBERON:0003044 ! uncinate fasciculus
relationship: part_of UBERON:0011299 {source="HBA"} ! white matter of telencephalon

[Term]
Expand Down Expand Up @@ -190991,8 +190998,8 @@ name: rima vulvae
def: "The fissure between the labia majora" [https://www.thefreedictionary.com/pudendal+cleft]
synonym: "pudendal cleft" EXACT [FMA:19995]
synonym: "pudendal cleft" EXACT DEPRECATED [doi:10.1002/ca.23705]
synonym: "rima pudendi" EXACT DEPRECATED [doi:10.1002/ca.23705]
synonym: "rima pudendi" EXACT LATIN [A09.2.01.006]
synonym: "rima pudendi" EXACT DEPRECATED [doi:10.1002/ca.23705]
synonym: "urogenital cleft" BROAD [https://www.thefreedictionary.com/pudendal+cleft]
synonym: "vulvar slit" EXACT [https://www.thefreedictionary.com/pudendal+cleft]
xref: FMA:19995
Expand Down