Annotation Conf. Call 2017-01-10

Bluejeans

• https://bluejeans.com/993661940
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Agenda

Next Consortium Meeting

• June 1-3, 2017
• The regular meeting will be followed by two optional workshop days on LEGO and Reactome curation on June 4 and 5
• Pankaj Jaiswal has graciously offered to host the meeting at Oregon State University in Corvallis, Oregon
• He has set up a really nice meeting webpage at https://sites.google.com/view/goc2017
• Please register!

Review of Jenkins Pipeline

View GAF builds in Jenkins

• GAF checks
  • Relevant github issues:
    • Jenkins GAF checks with red status cannot be inspected
    • GOA annotation checks on GAFs are more stringent than Jenkins checks (should be same?)
• Inferred annotations (annotations created by logical inference)
  • Inter-ontology links
    • Source: GOC
    • PomBase inferred GAF missing annotations
    • Remove all single-step BP classes
  • Annotations inferred from annotation extensions (fold-based predictions)
    • Source: GOC-OWL
    • GOC-OWL inference pipeline concerns
    • Change assigned_by for GOC OWL inferences to be able to distinguish from F-P
  • Evidence Codes used for Inferred Annotations
    • GOC-OWL inference pipeline concerns
    • Add inter-ontology links to go-basic and stop materializing inferred annotations from inter-ontology links
    • Remove constraint on IEP only applying to BP

Working Groups

• At the November 2016 USC meeting, we agreed to establish working groups for several topics.
• If they haven't already, groups need to set up meeting schedule and agendas
  • Annotation Guidelines for High Throughput Experiments
    • Helen Attrill (FB)
    • Stacia Engel (SGD)
    • Pascale Gaudet (SIB)
    • Ruth Lovering (UCL)
    • Kimberly Van Auken (WB)
  • Working group to finalize transcription decision tree
    • Marcio Acencio (NTNU)
    • Karen Christie (MGI)
    • Rachael Huntely (UCL)
  • Working group to review use of ECO codes
    • David Hill (MGI)
    • Note also that there is an ECO workshop at this year's ISB meeting

LEGO Modeling Discussions

• We would like to reserve the second Tuesday of each month for discussion of LEGO modeling.
• The proposal is to have two presenters each month for an ~30 minute discussion of their model.
• The goal is to get more people comfortable with LEGO modeling and increase the number of processes represented by LEGO models in GO.
• Please sign-up for a time slot
• We would like to do this on a volunteer basis, so please consider taking a turn.
• We all benefit from discussing modeling issues from across a broad spectrum of organisms, and there is likely commonality amongst the pathways and processes that we are trying to represent.