Version 452 (modified by val_wood, 8 years ago) (diff)


PomBase Curator Meetings


Next Items, in rough order of priority

Physical Interaction Data

  • Discuss BIoGRID issue reported by Kathy yesterday, and by Henry previously
    • see my response waiting e-mail folder
  • Antonia Should we add GO/protein binding terms for enzyme/substrate combinations?
    • Antonia should we use the BioGRID evidence code "biochemical activity" which we don't use at the moment.
  • Biogrid has recorded notes and phenotypes of their interaction. Looks pretty useful....can we display/convert?

  • check biogrid alignment progress with Antonia


  • plan roadshow dates/places
  • requires...
  • Discuss the item about capturing phenotypic observations vs. Phenotypes thread PMID:19033384


  • text, for whether a paper contains curatable gene or not
  • text, do you want to transfer evidence or condition
  • text, Add allele and evidence misleading "add more alleles using this term"
  • evaluating curtain tool, where do people expected to go (gene page or summary page) after annotation completion? - if I have annotated a single gene I expect to stay on that page. I f I have transferred annotations I feel as though I should go back to the summary page. Or is that odd?


gene page overhaul

  • Describe how we would like to display annotations to streamline/ hide redundancy
  • changes to data layout and sorting on gene page, user configuration
  • what we do about phenotypes for double mutants (display/query/enrichment etc) (we can probably bump this to next meeting?)

  • SF 1056 abnormal contractile ring organization / uncoupled cytokinetic rings

Ontology questions

  • has_output between process and structure phenotypes, e.g. abolished actomyosin contractile ring assembly has_output contractile ring absent I am not sure what the question is, but I guess there must be one, so I think the first question is to guess the question.
  • Discuss has_part in relation to annotation propagation in Canto
    • SF 566 use has_part relationships for ontology term drill-down

Curation issues

  • how to represent the reintegration assays ?

Lower priority

Future Pombelist posts

  • physical interaction Biogrid vs GO
  • phenotypes vs. processes
  • Did you know's
  • Adding gene names
  • preparing HTP datasets
  • community curation demo etc etc
  • gene name descriptions to phenotypes, add to phenotype ontology for searching?
  • Val- Go through curation tracker high priority items (some are duplicated below)
  • Val- update on phenotype mapping, where it is, what to do with removed annotations
  • Antonia- Summarize community curation session quality/ ommissions
  • Val- viability exercise results (query intersection)
  • PHAF/GPAD/GPI files for export/import etc.
  • Discuss regulation of G1/S in relation to 6ff4c9edff12167b (look at annotation in context of all genes in this session)
  • discuss establishment of cell polarity and the signalling network (MOR) (see e-mail Create