Ontology meeting 2016-07-21

Attendees:

Minutes:

Regrets: Paola

Assertion or inference?

Should we assert the is_a or let the reasoner do the job? Also confirm Jenkins check is disabled.

[Term]

id: GO:0090685

name: RNA localization to nucleus

namespace: biological_process

def: "A macromolecular localization process in which RNA is transported to and maintained in a location within the nucleus." [GOD:mah, PMID:26305931]

synonym: "RNA localisation to nucleus" EXACT [GOC:mah]

is_a: GO:0006403 ! RNA localization

intersection_of: GO:0006403 ! RNA localization

intersection_of: has_target_end_location GO:0005634 ! nucleus

Request for obsoletion

https://github.com/geneontology/go-ontology/issues/1059

https://github.com/geneontology/go-ontology/issues/12533

Val said "I often wonder with terms like this, if there is no difference between the process DNA replication initiation and DNA replication initiation from late origin except via regulation

should the term DNA replication initiation from late origin exist, or should we only have the regulation terms in GO?"

Midori said "The mechanism and involved gene products are the same at early origins and at late origins, so there is no differentium to distinguish "initiation at late origin" from "initiation"."

Xrefs to Reactome

Looks like this wasn't fully addressed yet. See email thread here: While Peter is on site at Jax, we should devise and action plan for this.

https://mailman.stanford.edu/pipermail/go-ontology/2016-June/007619.html

https://mailman.stanford.edu/pipermail/go-ontology/2016-June/007620.html

https://mailman.stanford.edu/pipermail/go-ontology/2016-June/007621.html

And this GH issue:

https://github.com/geneontology/go-ontology/issues/12518

Review capitalisation of terms

https://github.com/geneontology/go-ontology/issues/12541

https://github.com/geneontology/go-ontology/issues/12540