uberon

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Where are the axioms that connect CL with Uberon?

5

Opening uberon.owl or cl.owl reveals no connection of the CL upper level with Uberon. cc @dosumis @shawntanzk

matentzn

Implement comprehensive test before release

10

Person that is responsible for release should run a comprehensive set of test (we can turn on checks/CI that we turned off) That way we get informed before release rather...

shawntanzk

Document SOP for all Uberon curators

10

- Changes to classifications of terms from the 2x, 3x and 4x range should be reviewed by @cmungall https://github.com/obophenotype/uberon/issues/2514#issue-1258390659 - The higher up you are in the ontology, the more...

matentzn

NTR: HuBMAP Move FMA terms to Uberon Vasculature, heart, lung

34

[FMA _term_List.csv](https://github.com/obophenotype/uberon/files/7043104/FMA._term_List.csv) **Google sheet here of same terms as in FMA._term_List.csv used to track progress:** https://docs.google.com/spreadsheets/d/1ECi6VqDIcB63lJAQtipN-bW4WOhUuawXOqnxX8LMnqo/edit?usp=sharing **Preferred term label:** **Synonyms** **Definition (free text, please give PubMed ID)** **Parent term (use...

emquardokus

Review amphibian vasculature groupings

1

The AAO grouping is suspect: id: UBERON:0001611 name: sublingual artery def: "**A branch of the lingual artery that supplies the sublingual gland.**" [http://orcid.org/0000-0002-6601-2165] subset: uberon_slim synonym: "arteria sublingualis" RELATED LATIN...

cmungall

gonad is inappropriately placed in the renal system

3

From @balhoff in GO:  the fact this wasn't caught in the uberon release system is a problem in itself Another tip: be very very conservative with uberon IDs in...

cmungall

Should synonym scopes be contextual?

3

One thing I have never thought about is the fact that synonym scope (exact, broad, related, etc) is not an absolute truth, but depends on the context. Consider this ...

matentzn

[Typo/Error] Synonym appears as both exact AND broad or related for the same term

12

**Uberon term** Multiple terms. For example, https://www.ebi.ac.uk/ols/ontologies/uberon/terms?iri=http%3A%2F%2Fpurl.obolibrary.org%2Fobo%2FUBERON_0013528 (and other Brodmann area terms). **Bug description** There are several instances where the same synonym is used as both an exact synonym and...

ghost

Review: removed terms from human subset during last release

5

~ 750 terms where removed from the human subset during the last release. - [ ] @rays22 you should review an make note of the ones that where falsely removed....

matentzn

**Uberon term** UBERON:0002078 **Suggested revision of textual definition** A cardiac atrium that is in the ~~left~~ **right** side of the heart. It receives deoxygenated blood. In mammals, this comes from...

jahilton