QCQA next call

GOC meeting Presentation: https://docs.google.com/presentation/d/1Akm-zNZWNXgyNOYZpgmzpzbkr8r9fNUJX8U2Yx5Guo4/edit#slide=id.p

Annotation review status

Pascale - update ?

GO rules status

Seth - update ?

Annotation from mutant phenotypes

Kimberly improved guidelines: Guidelines (draft) : http://wiki.geneontology.org/index.php/Annotating_from_phenotypes

Action items from the Montreal meeting

Pascale: TO DO: Create tickets

• Check groupcontacts.csv in go-site/metadata and please update for GO curators in your group [annotation group].
• Assess where we stand wrt the signaling workshop. What needs to be wrapped up? What are the sticking points and why? How do we capture downstream effects of signaling pathways?
• Develop guidelines for annotation metrics in light of the increased contribution of annotation review to curator efforts. Consider how prioritization of annotating previously unannotated genes will be taken into account. Include metrics for comprehensive annotations and develop guidelines and a system for flagging genes/gene products as annotation complete (gpi specs) and make this publically available.
• Suzi - develop a ‘white list’ for specific pathways
• Review guidelines with curators: http://wiki.geneontology.org/index.php/Tips_to_Produce_High_Quality_Annotations

Topics carried over from previous calls:

Annotation redundancy - non-experimental annotations

• We need to define what constitutes a redundant information, WRT to sources, evidences and references
• There is a ticket that explains the strategy that will be taken for this: see https://github.com/geneontology/amigo/issues/43 and https://github.com/geneontology/amigo/issues/440
• AI: Rules for flagging redundant annotations need to be documented - Chris
• https://github.com/geneontology/go-annotation/issues/2060
• https://github.com/geneontology/go-annotation/issues/1879

Different types of redundancy

• identical experimental annotations from different sources https://github.com/geneontology/go-annotation/issues/1404
• inferred and IEA, ISO, ISM, IBA annotations when EXP exist
• Redundant inferred annotations from GOC F-P links pipeline e.g. https://github.com/geneontology/go-site/issues/576
• TAS /NAS (special case)

There is no use case for users of MODs and AMiGO to see automated annotations when EXP annotations are present. If somebody wants a complete set of annotations from a mapping resource these could be made available separately.