Display logical definitions and reaction participants in AmiGO

[pgaudet]

This is something that would be useful for GO curators that are not using Protégé; could this information be added in the AmiGO pages?

[kltm]

It could, but I don't think the data is currently hiding in the index anywhere we have trivial access to (like in geneontology/go-ontology#26516).

[balhoff]

@kltm CHEBI participants are here linked via RO:0000057: https://golr-staging.geneontology.io/solr/select?defType=edismax&qt=standard&indent=on&wt=json&rows=10&start=0&fl=*,score&facet=true&facet.mincount=1&facet.sort=count&json.nl=arrarr&facet.limit=25&hl=true&hl.simple.pre=%3Cem%20class=%22hilite%22%3E&hl.snippets=1000&fq=document_category:%22ontology_class%22&q=id:%22GO:0103020%22

[kltm]

Well, so much for my theory :(

[balhoff]

I don't think logical definitions in general will be so easy though.

[kltm]

@balhoff Okay, so what are we looking at here then? Assuming this is useful, is there a finite and slowly changing (as I'm guessing this would be manual given what we already have here) set of relations that we could iterate through to get at what we want?

[balhoff]

For particularly listing the chemical reaction participants, then RO:0000057 will be relation.

[kltm]

@pgaudet, is that useful, having a separate "Chemical reaction participants" entry?

[pgaudet]

What do you mean by 'entry'?

It would be another item in the list here:

?

If so, yes, that would be very useful.

[kltm]

@pgaudet A small change for this snuck in https://amigo.geneontology.org/amigo/term/GO:0103020

[pgaudet]

Great !

Thanks, Pascale

[pgaudet]

What is the issue with adding logical definitions?

[balhoff]

Are they stored anywhere in Solr?

[pgaudet]

I don't suppose that's a question for me ;)

[kltm]

Nope--only things that are hanging around in that graph.

[pgaudet]

Sorry, bu this ticket is not done...