Ontology meeting 2022-09-26: Difference between revisions
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(Created page with "* '''Group members:''' Pascale, Karen, Harold, Raymond, Peter, Jim, Tanya, Kimberly, David, Chris, Paul * '''Present:''' * '''Regrets: ''' =Announcements= =Editors discussion items= ==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 regulati...") |
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=Editors discussion items= | =Editors discussion items= | ||
==Continue discussion on relations== | |||
* Pascale | |||
* Started to implement the [https://docs.google.com/document/d/1xW-bG-1lWwY9KbjunpRdYUaMxlBNO1w2-XTkWoLaQN4/edit proposal] we presented last week | |||
* Some questions: | |||
*# We had proposed to change the label of 'directly provides input for' to 'provides input for' ; however I would like to confirm that we really want to do this, as this would result in: | |||
*#* 'causally upstream of or within, positive effect' | |||
*#** 'transitively provides input for' | |||
*#*** provides input for | |||
Doesn't 'provides input for' sound more general than 'transitively' and 'directly'? | |||
==Stem cell taxonomic range== | ==Stem cell taxonomic range== |
Revision as of 04:35, 26 September 2022
- Group members: Pascale, Karen, Harold, Raymond, Peter, Jim, Tanya, Kimberly, David, Chris, Paul
- Present:
- Regrets:
Announcements
Editors discussion items
Continue discussion on relations
- Pascale
- Started to implement the proposal we presented last week
- Some questions:
- We had proposed to change the label of 'directly provides input for' to 'provides input for' ; however I would like to confirm that we really want to do this, as this would result in:
- 'causally upstream of or within, positive effect'
- 'transitively provides input for'
- provides input for
- 'transitively provides input for'
- 'causally upstream of or within, positive effect'
- We had proposed to change the label of 'directly provides input for' to 'provides input for' ; however I would like to confirm that we really want to do this, as this would result in:
Doesn't 'provides input for' sound more general than 'transitively' and 'directly'?
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)
Hindgut contraction
https://github.com/geneontology/go-ontology/issues/11758 Maybe we only need 'smooth muscle contraction' and the we can use 'occurs in' the appropriate anatomical structure?
Follow up on previous discussion topics
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
Next jamboree
Date & topic
For a future call/project
- 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