Annotation Conf. Call 2018-09-11

Meeting URL

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

Agenda

Pipeline

http://wiki.geneontology.org/index.php/Release_Pipeline

Annotations

• Groups should no longer be submitting files to SVN
• Directionality of file transfer should now be GO -> Annotation group ftp (or something similar)
• Source URL should be indicated in the datasets.yaml files
• Report request - any groups still have SVN as a source for GO data?
  • Example for UniProt: https://github.com/geneontology/go-site/blob/master/metadata/datasets/goa.yaml
  • Tony S: We still submit several external2go (and gp2protein) files to SVN - see also #688 Generate external2go as part of main ontology pipeline
  • MGI still submits gp2protein, gp2rna, and gp_unlocalized via SVN;

Ontology

• The links to download the ontology will change. Right not what is in the geneontology.org website points to the daily snapshot release; it will be modified to point to the Official Monthly Release (date TBD).
• If groups want to have the most up-to-date version of the ontology. they should get in from the snapshot PURL.

Maintaining Slim Subsets

• Pascale has been trying to update information about GO slim subsets
• Specifically, which subsets are still used and who is responsible for maintaining them
• The information is present in yaml files in geneontology/go-ontology
• When GO terms are obsoleted, part of the obsoletion notice indicates in which subsets the term is used
• The editors will work with groups to make sure that, when necessary, the biological concept represented by the term is still present in the slim
• Going forward, terms will consistently be removed from subsets when they are made obsolete

Montreal Meeting, October Wednesday, 17th - Friday, 19th

• Logistics
• Agenda

GO Conference Calls

Tuesdays

• Still will be Tuesdays at 8am PDT
• Proposed meeting schedule:
  • 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

Minutes

• On call: Chris, David, Dmitry, Dustin, Edith, George, Giulia, Harold, Helen, Karen, Kimberly, Liz, Marie-Claire, Michele, Pascale, Petra, Sabrina, Seth, Shur-Jen, Tanya, Val