RefG Princeton April 12-13 2010

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Propagation Rules/SOP

Monday 4/12

Rm 280 10am-1pm.

Quick tour for new PAINT users (Li and Mary): Ed gave a quick tour of the latest version of PAINT.

Review protein families, see: While reviewing protein families, we can generate a list of propagation rules. We can pick up lunch in our cafe, and work through lunch.




Rm 253 1pm-4pm.

Continue to review protein families. Refine the list of propagation rules after a day's worth of reviewing families.

Tuesday 4/13:

Rm 253 10am-11am

GO annotation camp discussion

Rm 280 11am-1pm

Working lunch to go over misc. discussion items:

  • (Pascale): Should we remove GO:0005515 (protein binding) form the list of terms we see in PAINT?
  • (Mike): Is the PANTHER to P-POD OrthMCL mapping currently working?
  • (Mike): Should we fix the dates in the new GAF files to reflect when the annotations were actually made?
  • (Mike): Could we re-generate the statistics from the GAF files using a script (rather than manually)?
    • Probably easy enough, once we discuss what stats we're interested in capturing (Ed)
  • (Mike): Pascale noticed a problem with the literature linkouts to Wormbase, and I just had some trouble with ZFIN
    • Fixed (Ed)

Rm 253 1pm-4pm

Annotation tracker: Sven, CJM, Seth

  • Current issues/roadblocks
  • Subfamily issue: can we deal?
  • Feedback
  • Can we leverage the annotation reporter to generate the monthly lists in an easier way?


  • Title: ???
  • Authors: as on this mailing list, and possibly adding CJM, Seth, and Sven if we add a section on the DB and the other GO-top PIs
  • Affiliations: obviously
  • Abstract: Paul?
  • Author Summary: Suzi will take a crack at this
  • Introduction: Pascale&Paul
  • Results: as below, with possible addition of DB section and web interface, although this could be a different paper. Ed and Suzi can write #1, Paul&Mike for #2?
  • Discussion: #3 (Mike & Kara)
  • Materials and Methods: cut and dry, write at the end
  • Acknowledgments: all the curators at the MODs, the grant...
  • References, Figure Legends, Tables: as they fall out from the above.