Extension of Protein2GO to non-UniProtKB Identifiers

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Conference Call Agenda

What types of entity identifiers might be needed?

  1. Proteins not in UniProtKB
  2. ncRNAs
  3. Orphan genes (variations not associated with a specific gene)
  4. Protein complexes

See Google spreadsheet:

https://docs.google.com/spreadsheet/ccc?key=0Aiei4RvoiQdqdHBFVEcwXzRvcW94V2JOLVFSNjJaTHc&usp=drive_web#gid=0

Knowledge Representation

  • What kind of biological statements do we want to make?
  • Given these statements, what is the appropriate resource for the entity IDs?
  • How will this be represented in the GAFs/GPADs?

Practical Considerations

  • How many of each type?
  • ID stability - if there is churn, can IDs be mapped forward, not go stale?
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