Oct2006 GO Ed report

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GO Editorial Office Report - October 2006

SourceForge items
  Items opened	75
  Closed by editorial office	29
   (note: 20 SF items closed outside GO-Ed. this month; see end of
    report for details and for non-GO-Ed contributors to items we
    closed)
  Items in progress, assigned to editorial office	71

See monthly report in CVS for ontology statistics.

Erika's project:
  Jen and Erika communicate weekly via Skype. Erika has presented a
    full plan for the 'response to' terms under response to drug to
    the response to drug interest group, which she will implement. She
    has offered to present her plan for drug transport and Xenobiotic
    terms at the consortium meeting in January.
  Erika's supervisor, Giorgio Valle, will contact Judy about a content
    meeting on muscle development; if a meeting is held, the Valle
    group would host and fund it.

Content topics in progress:
  Is_a complete biological process (also see content wg below)
  Damaged DNA binding terms (Midori, with RefGen group, esp. Varsha &
    Eurie)
  Cardiac muscle terms, round 2 (Jen, with Varsha)

Content topics resolved:
  Cardiac muscle terms, round 1 (Jen, with Doug, David Hill, David
    Fashena)
  Lateral line development (Jen, with Doug Howe)
  Several small things for SourceForge items  

Content working group update: 
  Is_a complete BP well under way
    GO Eds and David Hill met in Hinxton Oct. 2-3. Since the meeting,
    Jane, Jen and David, and sometimes Tanya, have had frequent
    conference calls to continue work. As of the end of Oct., there
    are no more is_a orphans. Much more detail about the work plan,
    questions arising, outstanding issus, etc. are on the wiki
    (http://gocwiki.geneontology.org/index.php/Isa-complete_BP).
  Management plans
    Fortnightly IRC or web conference "meetings"; the first few will
      focus on the is_a complete BP work
    Plan for assigning SF items to MOD curators based on areas of
      expertise

OBO-Edit working group update:
  Application Note manuscript submitted to Bioinformatics
  OBO-Edit 1.1 beta testing in progress
  Revised plan for OBO-Edit 2.0 (formerly 1.2) features

AmiGO working group (Jane, Amelia):
  Mockups for new look (Amelia)
  Preparations for November release, to include (list from Eurie):
    1. links to user feedback form
    2. updating the AmiGO user help doc
    3. links to the AmiGO user help doc
    4. cosmetic changes in layout
    5. programming changes to improve the speed of the queries

Advocacy group (Jane):
  Training for Royal Society of Chemistry editors, who will use GO and
    SO terms to mark up RSC journal articles (Jane, Jen)
  Work on November newsletter
  Proposal for users meetings (Jane, Eurie)
  GOhelp list fairly quiet

Annotation outreach (Jen):
  Invitation to speak to group in Copenhagen; they work on Aspergillus
    nidulans
  Some progress populating outreach database

Conferences/meetings
  Content meeting on is_a complete BP, Hinxton; see above (all + David
    Hill)
  Ontoverse workshop and SAB meeting (Midori; also see email to
    managers list)

Mapping of NAR databases to GO terms (Jane, with MA)

Updates to web pages (Amelia)

GO.xrf_abbs update (Midori)

GO Bibliography now has 1081 entries


Appendix 1: Items closed outside GO-Ed this month
1490281 - Harold
1493845 - Tanya
1524750 - content at Hinxton mtg, edits by David Hill
1544114 - Harold
1558940 - Karen C, with outside experts
1568078 - Donghui
1568086 - Donghui
1568088 - Donghui
1568090 - Donghui
1568092 - Donghui
1568094 - Donghui
1569489 - Donghui
1570154 - Donghui
1570155 - Donghui
1570156 - Donghui
1572126 - David Hill
1572131 - David Hill
1574018 - Karen C, input from Midori
1574122 - Karen C, input from Midori
1584010 - Tanya, input from David Hill

Appendix 2: input from others on SF items closed this month
1549443 - Doug and other ZFIN curators
1563211 - David Hill
1566035 - Doug, David Fashena, David Hill
1567087 - RefGen curators, esp. Rachael, Karen C
1570756 - RefGen curators, esp. Varsha, Eurie
1571580 - Michelle G
1571702 - Michelle G
1574878 - Karen C
1575164 - Stacia