Oregon Reference Genomes Meeting

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April 1, 2009

8:00 AM - 5:00 PM


University of Oregon, Eugene, Oregon

Erb Memorial Union (EMU), Fir Room.

Map of campus, http://map.uoregon.edu/

Map of the EMU, http://emu.uoregon.edu/map_popup.php?x=-50&y=-50&level=main&arrow=SE


2009 Oregon Meeting Logistics

Please add yourself to the list of registrants on the Meeting Logistics Page


Montreal Reference Genome Minutes --Please add agenda items here with your name

Wednesday April 1



8:30-12:00 (break 10:00-10:30) (4:30-8:00pm BST, break 6:00-6:30pm BST)

Files provided by the different groups (Chris)

  • Gp2protein files for consistency
  • new GAF files 2.0: using new columns (16 and 17) and meaning of column 12 (type)

Metrics (Mike)

Metric issues

  • How should we be measuring progress ? (Judy)

9:30 - 10:30 Review intersection of PPOD and Panther (Kara and Paul)

File:GO EUGENE ppod panther-2.ppt

11:00- 12:30 Review pipeline for adding inferential annotations, includes tracker discussion and annotation examples (Pascale, Kara)

File:GO EUGENE 2009 pipeline1.ppt

Review Jamboree (Brenley)

Summary Slides & Live Demo

  1. Action item: should we change to separate GONUTS pages for each ortholog with a common summary page?

To discussion

  1. Do we continue current method of prioritization for curation?
  2. UniProt: This month's curation targets is very large for the human set of proteins (37 human proteins to annotate which have a total of ~7500 publications)
  1. Idea of having a small group go away and review a specific annotation method, meet between them and report back to the group - spending maybe a whole refgen call one on or two issues - which we could aim to completely resolve....do you think we could suggest this as a way of making progress on the consistency concerns we have? just an idea though of something to discuss

12:00-1:00 Lunch - catered at meeting room


  1. gp2protein file: (Chris, Pascale) to be renamed, and its specifications redefined
  2. GAF file: (Chris, Pascale) : Make sure people can send the new version of the file.

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