Reference Genome Timeline-June-Dec2010 (Archived): Difference between revisions

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[[Category:Reference Genome]] [[Category:Timelines]] [[Category:Archived]]
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!Project
!Project
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|PAINT (Ed, Suzi, Paul)
|PAINT (Ed, Suzi, Paul)
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|Latest version is Beta29, which we use as a production version. No major bugs. No programmer available to develop PAINT after May 2010.
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|Protein Families
|Panther protein families (Paul)
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|Latest version is V7, with 48 species
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|MOD curation
|MOD curation
|wnt : Project leaders: Varsha Khodiyar, Suzi Lewis
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|Protein family annotation
|Protein family annotation
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|Curation report (Kara, Stan, Seth, Chris)
|Curation report (Kara, Sven, Seth, Chris)
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|http://amigo.berkeleybop.org/cgi-bin/amigo/phylotree
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* PAINT
*  Phylogenomics: description of the rationale for doing annotations using phylogenetic trees; how we deal with inconsistencies in the tree; dealing with ‘NOTs’; dealing with rapid divergence of sequences
*  Reference Genome ‘end product’: annotations: annotation guidelines; show data from a few families (need to decide on the scope) compare results with other pipelines such automated ISO and automated triangulation; QC.
| We'd like at least one paper to be submitted before the grant.
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Revision as of 11:08, 16 January 2018

Project June 2010 July 2010 August 2010 September 2010 October 2010 November 2010 December 2010
PAINT (Ed, Suzi, Paul) Latest version is Beta29, which we use as a production version. No major bugs. No programmer available to develop PAINT after May 2010.
Panther protein families (Paul) Latest version is V7, with 48 species
MOD curation wnt : Project leaders: Varsha Khodiyar, Suzi Lewis wnt wnt wnt wnt wnt wnt
Protein family annotation p53, MutS/MSH wnt wnt wnt wnt wnt wnt
Curation report (Kara, Sven, Seth, Chris) http://amigo.berkeleybop.org/cgi-bin/amigo/phylotree Public version?
Papers
  • PAINT
  • Phylogenomics: description of the rationale for doing annotations using phylogenetic trees; how we deal with inconsistencies in the tree; dealing with ‘NOTs’; dealing with rapid divergence of sequences
  • Reference Genome ‘end product’: annotations: annotation guidelines; show data from a few families (need to decide on the scope) compare results with other pipelines such automated ISO and automated triangulation; QC.
We'd like at least one paper to be submitted before the grant.