Annotation Conf. Call 2017-09-12: Difference between revisions
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* MAPK - David, Sabrina | * MAPK - David, Sabrina | ||
* Wnt - Helen (Kimberly away) | * Wnt - Helen (Kimberly away) | ||
** | **[https://github.com/geneontology/go-ontology/issues/14120 receptor ligand activity #14120] | ||
***receptor agonist activity (GO:0048018) re-named 'receptor ligand activity' and new definition (http://amigo.geneontology.org/amigo/term/GO:0048018). Relationships to ‘signal transduction' & 'receptor activator activity' removed. | ***receptor agonist activity (GO:0048018) re-named 'receptor ligand activity' and new definition (http://amigo.geneontology.org/amigo/term/GO:0048018). Relationships to ‘signal transduction' & 'receptor activator activity' removed. | ||
*** Kimberly has checked usage of receptor agonist activity in curation corresponds to ligand as defined above and looking at documenting criteria for using this term. | *** Kimberly has checked usage of receptor agonist activity in curation corresponds to ligand as defined above and looking at documenting criteria for using this term. | ||
**Review of 'receptor activator activity' | **Review of 'receptor activator activity' | ||
***Inconsistent use. | ***Inconsistent use. [https://docs.google.com/spreadsheets/d/15HcC6LFgOhA-BdQHvKMRjk3e-uIaGvitD5xH8Qzdkpk/edit#gid=233101787 Google spread sheet of ~20 experimental annotations] - different activities/processes have been annotated with this term. Will make a ticket. | ||
**Review annotations of beta-catenin to DNA binding terms. Will make a ticket. | **Review annotations of beta-catenin to DNA binding terms. Will make a ticket. | ||
**Tickets: for merging ‘frizzled-2 binding’ with ‘frizzled binding’ https://github.com/geneontology/go-ontology/issues/14182, and moving 'smoothened binding' from under 'frizzled binding' https://github.com/geneontology/go-ontology/issues/14182. | **Tickets: for merging ‘frizzled-2 binding’ with ‘frizzled binding’ https://github.com/geneontology/go-ontology/issues/14182, and moving 'smoothened binding' from under 'frizzled binding' https://github.com/geneontology/go-ontology/issues/14182. | ||
Revision as of 09:04, 12 September 2017
Meeting URL
Agenda
Update on Signaling Projects
github/go-annotation Signaling Projects page
- JAK/STAT - Giulia (Ruth away)
- Google spreadsheet with annotation and ontology analysis
- Thinking about how to define the beginning of the pathway and its components
- How is the pathway regulated?
- Review annotations - Annotation and Ontology Issues:
- Some members of the pathway have regulation terms and some regulators are annotated directly to the pathway
- Many cases with no MF terms
- Tickets: positive regulation of TF dimerization activity #14164, positive regulation of STAT transcription factor activity #14165, tyrosine dephosphorylation of STAT protein #14166, JAK/STAT pathway #14167
- Working on GO-CAM model
- GPCR
- MAPK - David, Sabrina
- Wnt - Helen (Kimberly away)
- receptor ligand activity #14120
- receptor agonist activity (GO:0048018) re-named 'receptor ligand activity' and new definition (http://amigo.geneontology.org/amigo/term/GO:0048018). Relationships to ‘signal transduction' & 'receptor activator activity' removed.
- Kimberly has checked usage of receptor agonist activity in curation corresponds to ligand as defined above and looking at documenting criteria for using this term.
- Review of 'receptor activator activity'
- Inconsistent use. Google spread sheet of ~20 experimental annotations - different activities/processes have been annotated with this term. Will make a ticket.
- Review annotations of beta-catenin to DNA binding terms. Will make a ticket.
- Tickets: for merging ‘frizzled-2 binding’ with ‘frizzled binding’ https://github.com/geneontology/go-ontology/issues/14182, and moving 'smoothened binding' from under 'frizzled binding' https://github.com/geneontology/go-ontology/issues/14182.
- Collecting publications for documentation to illustrate term use and assays https://docs.google.com/document/d/1S6pjVaSpqwDHB3Q-2JBf35BrgOD-Z9z3w8WjijWvjw8/edit
- receptor ligand activity #14120
- Ca2+ (Penelope away)
Cambridge GO Meeting
- Signalling workshop
- Review Meeting Agenda
Minutes
- On call: