wiki:CuratorMeeting

Version 21 (modified by val_wood, 10 years ago) (diff)

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Curator Meeting Discussion Items

In rough order of priority:

  • Gene expression controlled curation (9-30 until 11-30 on Tues 6th Sept)
    • current capture of expression (some needs to migrate to annotation_extension)
    • how should we do this in future?
  • Phenotype modelling (with Kim 11-30 - finished)
  • WT phenotypes
  • Arrange dates for next meeting
  • Q Do people need more Artemis examples?
  • migrate their extensions in the  annotation tool to the non-deprecrated terms
  • consistency checking exercises of curated papers (in pairs?)

These will probably be for the next few meetings move forward if more urgent

  • Midori will cover "relationships"
    • discuss difference between has_substrate and has_regulation_target with use cases
  • Annotation extension syntax commas or pipes
  • negating annotation extensions
  • controlled curation, still need to cover genome org/pathway/protein sequence feature/warning
  • Curation Tool discussions
    • need to decide how best to present curation of annotation_extensions/ and ability to transfer of info from extensions

  • Go through Source Forge Tracker tasks
  • Discuss "Splitting out complementation"
  • Discuss GO "response to"
  • Discuss GO "involved" in Vs. "during"
  • Discuss annotation consistency between complexes and process (should we suggest complex/process links?)
  • Precomposition, where to stop. Is this too much precomposition?
  • GO annotation redundancy (experimental Vs. non experimental)
  • direct binding
  • taxon restictions
  • improving annotation for uncharacterised genes
  • updating products

Later

  • More on Pfam, false negatives, clans
  • localization dependencies
  • Gene naming and GNC
  • Broader annotation consistency checks, Matrix project, GO slim term cmparison
  • Reference genomes
  • Regulation
    • Direct vs indirect
    • e.g autophagy example
    • regulation of cell cycle and signal transduction
    • start and end of a process
  • Function/process links
  • External sources of GO data

LAter, after migration to new system

  • Updating EMBL
  • Updating GO
  • Updating ortholog table
  • Download data formats (gff etc)
  • editing sequence in Artemis
  • systematic reduction of the orphan set