Status of Reference Genome Project, June 5, 2007

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Status of Reference Genome Annotation (as of 6/5/07)

Genome // targets annotated (of a possible 209)

  • C elegans: 202
  • TAIR: 187
  • Chicken: 101
  • Human: 117
  • Mouse: 207
  • S.cerevisiae: 209 (note: spreadsheet structure makes connecting orthologs with publication metrics difficult)
  • Drosophila: 101
  • Rat: 187
  • Zebrafish: 221 (note: there are additional lines for some targets)
  • Dicty: 187
  • S. pombe: 164

SourceForge items

Date # SF iterms

  • 11/2003  : 1 (old item that has been relabeled?)
  • 05/2006  : 1
  • 06/2006  : 1
  • 07/2006  : 1
  • 08/2006  : 5
  • 09/2006  : 6
  • 10/2006  : 28
  • 11/2006  : 17
  • 12/2006  : 14
  • 01/2007  : 20
  • 02/2007  : 16
  • 03/2007  : 14
  • 04/2007  : 4
  • 05/2007  : 4

The has been a general decrease in requests for new ontology terms from the Reference Genomes Group. We are trying to understand if this has occurred because the number of new terms being required based on Reference Genome Annotation has decreased, or if there are barriers to term requests that need to be addressed. Could you please comment on this from the perspective of your genome?

Possible explanations

  • new strategy for choosing target genes includes genes just curated; presumably the ontology has already been repaired for those

Documentation: publications metrics

Mouse and Chicken have not completed the Summary of how each group is completing the publications metrics on [Reference_Genome_Publication_Counts]. Could you guys try to do this soon.