PomBase Curator Meetings

PreviousCurationMeetings

Next Items, in rough order of priority

• gene name descriptions to phenotypes, add to phenotype ontology for searhcing?

• Val- Go through curation tracker high priority items (some are duplicated below)

• Do the mapping for the reciprocal annotation targets
  • ​https://www.ebi.ac.uk/panda/jira/browse/PB-167
  • ​https://sourceforge.net/p/pombase/curation-tasks/78/

• Midori- update us on annotation of features (chromosome repeats) status (do they have IDs, what next) ​https://sourceforge.net/p/pombase/curation-tasks/195/

• 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 (if time but will be quick)

• what we do about phenotypes for double mutants (display/query/enrichment etc)

• PHAF/GPAD/GPI files for export/import etc.

• Discuss when annotations should inherit over FYPO (or alternative solutions) ​https://sourceforge.net/p/pombase/curation-tasks/188/

• no entry into meiosis and cell cycle phenotype ​https://sourceforge.net/p/pombase/fission-yeast-phenotype/709/

• Should we add GO/protein binding terms for enzyme/substrate combinations?
  • should we use the BioGrid? evidence code "biochemical activity" which we don't use at the moment.

• we should try to tag phenotype terms as "npt for direct curation" when we think it should always be possible to be more specific
  • This is already deployed in the ontology (but neither Canto nor Chado uses it yet). (-mah)
    • most up-to-date set viewable in OBO-Edit; Dropbox/pombase/ontologies/phenotype/FYPO_qc_do_not_annotate_subsets.obo updated weekly
    • ticket for chado: ​https://sourceforge.net/p/pombase/chado/185/
    • ticket for canto: ​https://sourceforge.net/p/pombase/curation-tool/431/
  • Start a list somewhere, add possible candidates here:
    • multiseptate ​https://sourceforge.net/p/pombase/chado/188/ ​http://curation.pombase.org/pombe/view/object/cvterm/multiseptate?model=chado
    • elongated ​http://curation.pombase.org/pombe/view/object/cvterm/elongated%20cells?model=chado
  • If you want any terms flagged as not for any annotation, or not for manual annotation, OPEN A FYPO TICKET. I can't promise to notice or remember lists on wiki pages. (-mah)

• Biogrid has recorded notes and phenotypes of their interaction. Looks pretty useful....can we display/convert?

Lower priority

• Discuss regulation of G1/S in relation to 6ff4c9edff12167b (look at annotation in context of all genes in this session)

• discuss response to "cellular response to drug" ​http://www.pombase.org/spombe/result/SPAC31G5.13

• discuss establishment of cell polarity and the signalling network (MOR) (see e-mail Create