Obsolete `aggregate regional part of brain`
@anitacaron is already working on this.
Since Aug 22, 2022.
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Description
on reflection, this is a poor grouping class:
id: UBERON:0010009
name: aggregate regional part of brain
def: "A regional part of brain consisting of multiple brain regions that are not related through a simple volummetric part of hierarchy, e.g., basal ganglia[NIF]." [NLXANAT:20090509]
subset: non_informative
synonym: "set of nuclei of neuraxis" RELATED [FMA:256381]
xref: FMA:256381
xref: NLXANAT:20090509
intersection_of: UBERON:0034923 ! disconnected anatomical group
intersection_of: has_member UBERON:0002616 ! regional part of brain
intersection_of: part_of UBERON:0000955 ! brain
property_value: editor_note "May be obsoleted." xsd:string
The over-eager logical definition does not match the textual definition, I am not even sure I understand the textual definition
As a grouping class it doesn't do much work, grouping only 3 regions:
- [] BFO:0000001 ! entity
- [i] BFO:0000002 ! continuant
- [i] BFO:0000004 ! independent continuant
- [i] CARO:0030000 ! biological entity
- [i] CARO:0000000 ! anatomical entity
- [i] UBERON:0010009 ! aggregate regional part of brain
- [i] UBERON:0014370 ! extrastriate cortex
- [i] UBERON:0010011 ! collection of basal ganglia
- [i] UBERON:0023920 ! basal ganglia of rodent
- [i] UBERON:0000431 ! ventral medial complex of thalamus
- [i] UBERON:0010009 ! aggregate regional part of brain
- [i] CARO:0000000 ! anatomical entity
- [i] CARO:0030000 ! biological entity
- [i] BFO:0000004 ! independent continuant
- [i] BFO:0000002 ! continuant
If there really is something distinct about these then this should be asserted using something like pato characteristics (and it should be done consistently with reasonable completeness)
- Conservative solution: replace the logical definition with
is_a regional part of brain - My preferred solution: obsolete the grouping and rewire the above terms to RPoB
Originally posted by @cmungall in https://github.com/obophenotype/uberon/issues/2495#issuecomment-1208532662
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