Annotation Call October 28, 2014

Agenda

GOC meeting report

• Meeting agenda and minutes are available on the wiki-

http://wiki.geneontology.org/index.php/2014_Barcelona_GOC_Meeting_Agenda

• FAQ on GO Website (get an account and write a FAQ)
• Please volunteer to review papers, this is the best way to catch misrepresentation of GO in papers
• We will work on getting stats on how much GO changes, why and what type of change

• With column pipe vs comma change to match col-16 usage (pipe = OR and comma = AND), proposal has passed
  • Next steps involve writing Specs for changing the GAF (we will introduce comma in the GAF), retrofitting annotations, announcements etc
• ECO codes
  • If you want add a new ECO term please request Chris for write access. Your new term will be committed but when Marcus reviews the term he will upgrade the term to be 'curator approved'
• Ontology related
  • Term genie, SF term requests, how term requests will be prioritized
  • Catabolism, biosynthesis terms

(https://sourceforge.net/p/geneontology/ontology-requests/11253/) (cytokine production, glycoprotein synthesis, degradation of a protein is not catabolism and making is not metabolism. Protein maturation is also not biosynthesis.

• • Talked a little bit about readout vs process studied (Rubidium transport)
  • protein dimerization etc terms
  • vacuole vs lysosome (we will keep both terms in the ontology, they are different)
• IntACT complex annotations will be moved to a separate file (it is messing up term enrichment)
• Annotating to the process term vs regulation of process term. We came up with a qualifier 'implicated in' to capture this OR situation.
• Align relationships used in the ontology and col-16, better documentation.