Annotation Conf. Call 2018-10-09
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Meeting URL
GO Conference Calls
- Tuesdays at 8am PDT
- 1st Tuesday: Alliance Biological Function
- 2nd Tuesday: GO Consortium
- 3rd Tuesday: Alliance Biological Function/GO-CAM Working Group
- 4th Tuesday: GO-CAM Working Group
- 5th Tuesday: ad hoc, as needed
- One Zoom URL for all - https://stanford.zoom.us/j/976175422
Agenda
Molecular Function Refactor
Distal/Proximal Promoter Binding Terms
- Proposal: use parent term and capture binding as contextual information using SO terms
Pipeline
http://wiki.geneontology.org/index.php/Release_Pipeline
Annotation QC/QC Reports
- New reports page: http://snapshot.geneontology.org/reports/gorule-report.html
Reminder - Update datasets.yaml file
- For groups that haven't already, please update your corresponding datasets.yaml file (e.g. mgi.yaml) on github to update the source URL for your annotation files
- https://github.com/geneontology/go-site/tree/master/metadata/datasets
- FB, Reactome, RGD, TAIR (others)
- Question about UniProt ftp source for MODs
Annotation File Formats
GPAD/GPI for Internal Consortium Annotation Exchange
- At NYC meeting in May, proposal was made that we would eventually switch to using GPAD/GPI file format for data exchange within the consortium
- Reasons to switch to GPAD/GPI:
- Less redundacy
- Ability to use expanded set of annotation relations (gp2term)
- Ability to use unique ECO identifiers instead of 3-letter GO codes
- Annotation properties field - allows for capturing annotation metadata
- Many groups consume GPAD (any external group using Protein2GO; groups consuming derived GPAD from GO-CAM models)
- Not all groups produce a GPAD
- Any barriers to moving to GPAD/GPI?
- Timeline - by start of new year (2019)?
Montreal Meeting, October Wednesday, 17th - Friday, 19th
Minutes
- On call: David, Dustin, Edith, Giulia, Harold, Helen, Karen, Kimberly, Li, Liz, Marie-Claire, Midori, Pascale, Penelope, Petra, Rachael, Rob, Ruth, Sabrina, Seth, Shur-Jen, Suzi
Ruth