uberon

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UBERON base approach

2

Fixes #2094

anitacaron

Replace the use of innervates for ganglia with `extends_fibers_into`

13

* I think we could replace the use of innervates for ganglia with 'extends_fibers_into', preserving use of innervates for neuron projection bundles (tracts and nerves) - although I guess that...

anitacaron

ZFA integration to CL, only one xref is reported so far

1

https://raw.githubusercontent.com/obophenotype/uberon/master/bridge/cl-bridge-to-zfa.owl in composite-metazoan.obo, we only see so far CL:0002377 xref: ZFA:0001725

ANiknejad

1) Look at https://github.com/obophenotype/uberon/issues/2584 -> how did CL relationship go missing? (CL variant that is imported in this process that is probably not the right one? or CL is not...

shawntanzk

Multiple labels for one term

4

In composite-metazoan.owl, CL_0000134 has label 'mesenchymal stem cell' and label 'mesenchymal cell' 'mesenchymal cell' is also the label for CL_ 0008019 I do not see the same issue in http://purl.obolibrary.org/obo/cl.owl,...

jahilton

Recent changes with CL terms in composite-metazoan.owl?

1

Hello, The ENCODE Project has been using the composite-metazoan.owl files provided with each UBERON release. While investigating some unexpected changes we saw on our end while updating to the latest...

jenjou

SPARQL taxon expansion does nothing

7

Right now the goal to generate the intermediate uberon (processed version) looks like this: ``` $(OWLSRC): tmp/uberon-merged.owl $(COMPONENTSDIR)/disjoint_union_over.ofn $(REPORTDIR)/$(SRC)-gocheck $(REPORTDIR)/$(SRC)-iconv $(SCRIPTSDIR)/expand-dbxref-literals.pl echo "STRONG WARNING: issues/contributor.owl needs to be manually updated."...

matentzn

**Preferred term label:** basion **Synonyms** **Definition (free text, please give PubMed ID)** **Parent term (use https://www.ebi.ac.uk/ols/ontologies/uberon)** **Your nano-attribution (ORCID)** https://orcid.org/0000-0001-8415-4848

helenamachado

cheek teeth

1

**Preferred term label:** cheek teeth **Synonyms** cheekteeth **Definition (free text, please give PubMed ID)** **Parent term (use https://www.ebi.ac.uk/ols/ontologies/uberon)** **Your nano-attribution (ORCID)** https://orcid.org/0000-0001-8415-4848

helenamachado

composite-metazoan.owl version

8

Hi, I noticed that there was a new UBERON version released in late July, but when I look at the composite-metazoan.owl file that’s available now on OBO library, while it...

sbreiff