QCQA call 2019-03-26

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


Annotation review status

Pascale - update ? I haven't closed many tickets - I wonder if people did very much since 2018.

Future of external2GO mapping files

Kimberly added to the Cambridge agenda. We need to make a proposal https://github.com/geneontology/go-ontology/issues/16989

Rules reports - carried over from last call

Question for Seth: Can we remove Rule 26 (IBA being filtered out) from the reports ? The other half of that problem is that not all the rules are summarized on top, so it's hard for people to read their report.

  • Discussion
  • A new rule type was proposed to be able to configure reports more precisely: https://github.com/geneontology/go-site/issues/945
  • Seth mentions that a similar solution was proposed elsewhere (ACTION: he needs to dig out the ticket; then Pascale or someone else can go and fix the report types as appropriate)
  • Eric will be available to work on rules again in 1-2 weeks.

GO rules status

Not resolved last time (if still open)

  • New gorule-0000051 #935
  • Updated gorule-0000046 #933
  • new gorule-0000045 #909
  • new gorule-0000037 #892


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

Different types of redundancy

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.