Ontology meeting 2022-10-03

• Group members: Pascale, Karen, Harold, Raymond, Peter, Jim, Tanya, Kimberly, David, Chris, Paul
• Present:
• Regrets:

Announcements

• GOC meeting is the week after next (Oct 11-13) - virtual
• The following week will be a no GO calls week (week of Sept 17th)

• ontology update:

GH tracker - ontology repo - overview of tickets topics

Tickets classified by some 'biological' topic https://docs.google.com/spreadsheets/d/1egN8wd7AbEStBp3Za19jEFYOUyWOVL8DesRFviGlyZU/edit#gid=0

Editors discussion items

Tickets by ontology editors

• Harold:
• Raymond:
  • Follow up on chorion issue

Follow up on MF to MF Relations

Pascale RO Ticket for directly positively regulates and activates & directly negatively regulates and inhibits

Topics postponed from previous calls

Stem cell taxonomic range

https://github.com/geneontology/go-ontology/issues/23764

'Nested' regulation

https://github.com/geneontology/go-ontology/issues/12976 I think we are obsoleting these terms? "regulation of X by regulation of Y" We still have 'regulation of x by regulation of release of sequestered calcium ions' (maybe others)

Next jamboree

Date & topic

Follow up - Regulation of a process in another organism

• AI (Pascale) should create a new triad of relations for linking the modulation of a process in another organism- for eg, modulates process in another organism (something along these lines)
• AI (Pascale) Open a RO ticket to make in_taxon over regulates transitive

• https://wiki.geneontology.org/Ontology_meeting_2022-07-18#Glycosylation_ontology
• Ordering of subset/ribbon terms: make a tsv file - we just need to know who needs this; would Alliance, UniProt use it?
• COB: Jim and Chris could give an overview of COB + biological phase superclass https://github.com/OBOFoundry/COB/issues/51