Annotation Conf. Call 2017-09-12

Meeting URL

• https://stanford.zoom.us/j/976175422

Agenda

GOC Meeting dinner - Cambridge 2017

The attendants should all have received an email with a link to a Google form to select their choice of food. Please complete the form by next Friday (22nd of September).

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
• Ca2+ (Penelope away)

Cambridge GO Meeting

• Signalling workshop
  • confirm attendence http://wiki.geneontology.org/index.php/2017_Cambridge_GOC_Signalling_Workshop

• Review Meeting Agenda

Minutes

• On call: