Ontology meeting 2022-01-24: Difference between revisions
mNo edit summary |
|||
Line 26: | Line 26: | ||
https://github.com/geneontology/go-ontology/pull/22642 | https://github.com/geneontology/go-ontology/pull/22642 | ||
===Property range violations=== | ===Property range violations=== | ||
Line 41: | Line 35: | ||
* New relation(s): (positively|negatively) regulates characteristic | * New relation(s): (positively|negatively) regulates characteristic | ||
* Remaining blocker: https://github.com/obophenotype/uberon/issues/2218 | * Remaining blocker: https://github.com/obophenotype/uberon/issues/2218 | ||
===Protein-complex organization/assembly/disassembly=== | |||
Problem with relations used in logical definition | |||
https://github.com/geneontology/go-ontology/issues/22488 | |||
RO has been changed, so that the logical issue is fixed; however do we want to use 'results in assembly of' or 'has output' for protein-containing complex assembly? This decision impacts the relations used in GO-CAM and extensions, since we aim to align them. | |||
== Other Business == | == Other Business == |
Revision as of 01:25, 24 January 2022
- Group members: Pascale, Karen, Harold, Raymond, Peter, Jim, Tanya, Kimberly, David, Chris, Paul
- Present:
- Regrets:
Announcements
Agenda
Following up on previous items
ChEBI update
https://github.com/geneontology/go-ontology/pull/22092 Jan 1 release was supposed to remove the links of fumaric acid, succinic acid, and malonic acid to lipid; can we start the import again?
Design patterns
Implemented in ontology see for example GO:2001077
Question: do we need to remove the 'conforms to dp' when we obsolete terms? Are these automatically calculated at each GO release?
Making localization and metabolic process disjoint
OK to merge? https://github.com/geneontology/go-ontology/pull/22648
Changing the relation for transport and transporter activity from 'transports or maintains localization of' to 'has input'
https://github.com/geneontology/go-ontology/pull/22642
Property range violations
https://github.com/geneontology/go-ontology/issues/16524
Progress:
- New relation(s): (positively|negatively) regulates characteristic
- Remaining blocker: https://github.com/obophenotype/uberon/issues/2218
Protein-complex organization/assembly/disassembly
Problem with relations used in logical definition https://github.com/geneontology/go-ontology/issues/22488
RO has been changed, so that the logical issue is fixed; however do we want to use 'results in assembly of' or 'has output' for protein-containing complex assembly? This decision impacts the relations used in GO-CAM and extensions, since we aim to align them.