2010 GO camp Geneva minutes: Difference between revisions

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* Avoiding redundancy.   
* Avoiding redundancy.   
** Authoritative sources
** Authoritative sources
*** no MOD - UniProt-GOA.




Revision as of 04:03, 16 June 2010

Day 1 morning session

9:00 Introductions and objectives of the meeting

  1. Introductions & Logistics: Serenella Ferro Rojas
  • Poll for Thursday lunch reservations, depending on weather.
  • Dinner at Brasserie la Bourse on the Carouge
    • ~ 1.9 km from meeting site

Friday Reception at noon for Amos Bairoch celebration of the Otto Naegeli prize.

Introductions

Goals: Pascale Gaudet

GO – Ontology, annotation, tools and technical aspects

Chairs: Serenella Ferro Rojas and Pascale Gaudet

GO overview

An introduction to the GO ontology : terms, definitions, synonyms, relationships, cross-products. Jane Lomax

  • Inter-ontology links
    • Most tools don't make inferences across the ontoogies. Make redundant annotations.
    • Cross products
      • between GO ontologies
      • external ontologies (cell ontology; CHEBI)
  • Ontology development
    • large scale targeted projects
    • logical consistency
    • small scale requests (Sourceforge tracker; future via Amigo)

Q/A: classical relationships (e.g. part_of within an ontology) are subset of cross-products.

Annotation Process

  • General overview of the annotation guidelines used by GO, and contributing resources. Rama Balakrishnan
    • Annotation guidelines

Goal:say as much as possible about a gene product. Be useful to bench and computational biologists.

  • GO annotation: Gene product association with GO terms and other info.
    • Core
      • gene product identifiers
      • GO term
      • Reference
      • Evidence code
    • Additional info
      • qualifiers
      • with/from
      • Annotation detail (16)
      • Isoform
  • Sources
    • Manual
    • Automated
    • PAINT (new)
      • inter-ontology inferences (new)

Differences between previous GO camps and this one. This one more internal and focused on strengthening guidelines.

  • Challenges ...
  • Avoiding redundancy.
    • Authoritative sources
      • no MOD - UniProt-GOA.


  • General overview UniProtKB/SwissProt manual annotation. Serenella (15 min)

10: 30 Binding documentation

 12:30 Lunch
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