2018 Montreal GOC Meeting Agenda
AGENDA
Milestones to be met for the Montreal meeting
GO rules update, pipeline and error reports
Eric & Pascale
- Documentation of rules: Which annotation validation rules are currently implemented? https://github.com/geneontology/go-annotation/issues/1928
- Current rules status & future priorities
- For MODs: where to find reports
Pipeline documentation
Kimberly, Pascale, Chris, Seth, etc Must be completed (as much as possible) and announced http://wiki.geneontology.org/index.php/Release_Pipeline
Ontology and Annotation documentation update
David, Kimberly and Pascale (random thoughts:
- Ontology: mention the creation of 'projects' in GH where we moved old projects, so that its' easier t find old discussions
GO website migration
Laurent-Philippe, SuziA, etc
Noctua 1.1
Kimberly Seth, etc
PAINT
PAINT GAF file generation QC
Huaiyu and Pascale
PAINT tickets
Marc & Pascale https://github.com/geneontology/go-annotation/labels/PAINT%20annotation
Annotation
Suggestions:
- Signaling 2017 update
- Transcription reviews
- ECM reviews
Ontology
Suggestions:
- MF refactor update, including transcription
- ECM update
GO subsets update
Pascale:
- Deprecated a number of unused/unmaintained subsets
- Show subset yaml files and how they are used
- Each subset needs a maintainer
Suggestions for topics Fall 2018
Carried over from May 2018
- 'Response to' workshop (similar to the signaling WS)
- Use cases: Should we add this to the agenda? What would be a productive way of discussing this topic? https://docs.google.com/document/d/104m4jUNjPH9pCpskg8E29Zm2pLHhPFmKyIFLa9l_EOQ/edit
New topics
Representing complete proteomes in GO (added by Val)
Datasets (obtaining/maintaining complete datasets with unique identifiers)
- https://github.com/geneontology/go-site/issues/756
- https://github.com/geneontology/amigo/issues/475
- What does reference proteome mean, why we have duplicates for pufferfish, and why it includes unreviewed proteins? See https://docs.google.com/document/d/1l4hZw_ZTor8RoTjYTNS4FtGAba4HZrewmjccrSXJ9Hs/edit
- https://github.com/pantherdb/Helpdesk/issues/1
Annotation
- Which organisms other than cerevisiae and pombe have looked at all protein coding genes for the availability/possibility of GO annotation? Establish the difference between:
- (1) "not in the GO database (not found);
- (2) "unknown" (ND),
- (3) "unannotated" (no ND, and no annotation in Aspect of interest)
(difference can be established using the complete known protein ID set for your organism and GO term mapper https://go.princeton.edu/cgi-bin/GOTermMapper)