2011 USC Meeting Agenda: Difference between revisions

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= Updates on Progress.  Defining Deliverables for the next year =
= Updates on Progress.  Defining Deliverables for the next year =
== Working Group Reports (Thursday, Friday morning)==
== Working Group Reports (Thursday, Friday morning)==



Revision as of 16:57, 16 May 2011

Minutes: (By hosts of previous meeting: MGI)

Welcome; Review of schedule and agenda

  • Introductions.
  • GOC PI announcements

Action Items from Bar Harbor GOC meeting

Updates on Progress. Defining Deliverables for the next year

Working Group Reports (Thursday, Friday morning)

  1. Annotation (Rama, Emily, Pascale) Progress and Priorities, to encompass:
    • Annotation Outreach efforts
    • Development of Annotation Guidelines:
      • Guidelines resulting from the Geneva camp
        • Additional annotation guideline suggestions? (e.g. description of how ontology relationships can be used to improve annotation consistency)
      • Guide for how external groups should display annotation.
      • Proposed improvements to the Annotation web pages
    • Description of New QC checks
    • Developments to the Taxon GO rules.
    • Discussion of Gene Ontology deliverable, different from the MOD deliverable. (Mike)
    • Discussion of policy on restricting taxon to specific GAF files. (Mike)
    • How are groups kept up-to-date? Managers discussion March 23rd
    • Evidence Code Ontology presentation (25 minutes; Marcus)
      • Discussion on the appropriate usage of ECO identifiers in annotation (Rama)
    • Annotation Extension information (Column 16) (Chris?)
    • Focused annotation efforts by GO Consortium members (Emily)
      • BHF-UCL team involved in annotating specific genes identified through GWAS or microarray (Ruth)
  2. Reference Genomes (Pascale)
  3. Software (Chris)
  4. Ontology development (David)
    • Timeline: discuss progress and priorities (10 mins)
    • Recent projects - notes/accomplishments
      • Transcription factors (Karen; available any time Thursday or Friday morning before noon) (15 mins)
      • Signaling (Becky) (15 mins)
      • Chemicals (Tanya) (15 mins)
      • Software utilities (Reasoners, QC - Chris)
    • OBO/OWL migration (Chris)
    • Notifications of change (Becky) (15-20 mins).
      • Large-scale changes to the ontology.
        • When a development project is starting up, and when their key changes are released
        • Process for discussion and release of proposed term obsoletions.
    • Protein complexes (Harold) (15 mins)
      • The scope of GO relative to that of PRO?
      • Should GO capture gene product specific protein complexes, or species-specific protein complexes?
      • Should protein complexes be defined based on function or component information? (Becky and Peter D'E)
  5. Community resources and Dissemination (Emily & Rama)
    • GO Help Rotation. How do share the load. (Rama)
    • Overview of the outreach efforts to specific scientific communities for community annotation by the BHF-UCL and TAIR teams as well as the CACAO (Community Assessment of Community Annotation with Ontologies) course by EcoliWiki (Ruth, Tanya and Jim; 10 mins each and 15 mins discussion)
    • InterPro2GO presentation
      • InterPro (Sarah Burge) (40 min presentation, 20 mins discussion)
        • Brief summary of the revised guidelines for the GO mapping of InterPro entries.
        • InterPro evidence requirements, new policy of mapping Domain, Site and Repeat entries, changes in coverage between the old and new approaches, occasions where InterPro is unable to GO map an entry and finally, the automatic checks to prevent taxonomy violations and assignment of redundant terms.

Discussion of the Vision defined in the GOC NIH grant application (Friday afternoon, Saturday Morning)

(This includes presentations of our current efforts and how these will map into the vision. Also what goals are needed to reach the aims stated in the application.)

  1. Literature-based annotations (Mike, moderator: Rama)
    • vision (i.e. efficiency, quality and consistency goals)
    • implementation: what will be necessary to accomplish this goal?
      • prioritization of what organism and genes to be curated
    • current status/accomplishments
    • possible metrics
  2. Biological focus-group annotations (Judy, moderator: Emily)
    • vision (and entire text-book TOC)
    • implementation: what will be necessary to accomplish this goal?
    • current status/accomplishments
      • New ontologies terms added at recent meetings.
    • possible metrics/milestones
  3. Phylogenetically-based annotations (Paul T)
    • vision (e.g. dynamically adding a new protein to the right family, versioning with stable IDs for ancestral nodes)
    • implementation: what will be necessary to accomplish this goal.
    • current status/accomplishments
    • possible metrics
  4. Common Annotation Framework (Paul S)
    • vision
    • implementation: what will be necessary to accomplish this goal?
    • Current Efforts
      • PomBase community annotation tool (Val)
      • Textpresso, Phenote, PAINT-web, and all the rest...
        • Introduction to GO Curation using Textpresso (Kimberly, 10-15 mins.)
    • metrics and milestones
  5. Ontology development (David)
    • Vision
    • implementation: what will be necessary to accomplish this goal.
    • metrics and milestones
  6. Community resources and Dissemination (Mike, moderators: Emily & Rama)
    • vision
    • implementation: what will be necessary to accomplish this goal.
    • Monitoring customer satisfaction

Satellite meetings

  1. Cardiac Conduction ontology development workshop (Ruth & David) [1]
    • pre-workshop discussion (David, Ruth, Doug, Tanya, Becky, Paola, Stan)
    • probably straight after main meeting closes on 19th May
    • workshop date not yet set, aiming for Sept-Nov 2011
    • Please let Ruth know if interested in attending workshop/pre-meeting