uberon

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Review structures involved in 'drains' relationship (continued from #2335)

1

See 'major and minor kidney calyces miss-classified as renal venous blood vessel #2335' for the origin and context of this ticket. Briefly, anatomical structures that are not veins were incorrectly...

bvarner-ebi

uberon polysemy issues

22

Hi, Trying to use UBERON (uberon-simple.obo from https://github.com/obophenotype/uberon/releases/download/v2022-04-05/uberon-simple.obo) for text mining when I noticed the following polysemy issues. The following terms are assigned in more than one UBERON Ids using...

vasvir

Please revise UBERON:0001850 lacrimal drainage system

2

UBERON:0001850 lacrimal drainage system has an editor note "TODO - resolve lacrimal canaliculus vs larcimal duct" please see https://github.com/obophenotype/cell-ontology/issues/1392 for implications/consequences in CL too. Thanks!

paola-scibite

skin of calf

1

**Uberon term** lower leg skin UBERON:0004264 **Synonym to be added** skin of calf; calf skin **broad/exact/narrow/related ?** narrow **Comment**: Calf is the back of the lower leg. Calf appears in...

paulacalipho

UBERON:0007685 'region of nephron tubule' is both part of and subclass of 'nephron tubule'

12

**Uberon term** UBERON:0007685 'region of nephron tubule' **Bug description** Is both (asserted) part of nephron tubule and (inferred) subclass of nephron tubule Explanation in screenshot attached: ![Screenshot 2022-02-04 at 10...

paolaroncaglia

**Comment:** The following term is needed to indicate the origin of the tissues used establish cell lines annotated in Cellosaurus. Many thanks **Preferred term label:** retroauricular region **Synonyms** retroauricular area...

paulacalipho

**Comment:** The following term is needed to indicate the origin of the tissues used establish cell lines annotated in Cellosaurus. Many thanks **Preferred term label:** mucosa of rumen **Synonyms** rumen...

paulacalipho

**Comment:** The following term is needed to indicate the origin of the tissues used establish cell lines annotated in Cellosaurus. Many thanks **Preferred term label:** pelvic wall **Synonyms** wall of...

paulacalipho

**Comment:** The following term is needed to indicate the origin of the tissues used establish cell lines annotated in Cellosaurus. Many thanks **Preferred term label:** subiliac lymph node **Synonyms** sub-ilal...

paulacalipho

Include proper taxon constrait checking in general CI

3

For debugging purposes, I am running: ``` sh run.sh make reports/taxon-constraint-check.txt MIR=false IMP=false PAT=false BRI=true -B robot explain -i tmp/uberon-edit-plus-tax-equivs.owl --reasoner ELK -M unsatisfiability --unsatisfiable random:10 --explanation unsat.md ``` Then...

matentzn