Reference Genome Timeline-Jan-Jun2011 (Archived): Difference between revisions

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m (Created page with '{|border="1" cell spacing="0" cellpadding="5" align="center" !Project !Jan 2011 !Feb 2011 !March 2011 !April 2011 !May 2011 !June 2011 |- |PAINT (Ed, Suzi, Paul) |Latest version …')
 
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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)
|Latest version is Beta29, which we use as a production version. No major bugs. No programmer available to develop PAINT after May 2010.
|Latest version is Beta35
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|Latest version is Beta36
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|Latest version is Beta37
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|MOD curation
|MOD curation
|wnt : Project leaders: Varsha Khodiyar, Suzi Lewis
|on hold
|wnt
|on hold
|wnt
|on hold
|wnt
|on hold
|wnt
|Heart Development Transcription factors: Project leader: Varsha Khodiyar
|wnt
|Heart tx - continuted
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|Protein family annotation
|Protein family annotation
|p53, MutS/MSH
|Train new curators
|wnt
|Train new curators
|wnt
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|wnt
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|wnt
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|wnt
|Review and complete - SOPs; Have meetings to improve annotation consistency
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|Curation report (Kara, Sven, Seth, Chris)
|Curation report (Kara, Sven, Seth, Chris)
|http://amigo.berkeleybop.org/cgi-bin/amigo/phylotree
|Public version?
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|http://amigo.berkeleybop.org/cgi-bin/amigo/phylotree
|Public version?
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|Papers
|Papers
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|Briefings in Bioinformatics; Orthology, phylogeny and function - Using evolutionary history to predict protein function, Gaudet, Livstone, Lewis, Thomas (Under revision)
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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 Jan 2011 Feb 2011 March 2011 April 2011 May 2011 June 2011
PAINT (Ed, Suzi, Paul) Latest version is Beta35 Latest version is Beta36 Latest version is Beta37
Panther protein families (Paul) Latest version is V7, with 48 species
MOD curation on hold on hold on hold on hold Heart Development Transcription factors: Project leader: Varsha Khodiyar Heart tx - continuted
Protein family annotation Train new curators Train new curators Review and complete - SOPs; Have meetings to improve annotation consistency
Curation report (Kara, Sven, Seth, Chris) http://amigo.berkeleybop.org/cgi-bin/amigo/phylotree Public version?
Papers Briefings in Bioinformatics; Orthology, phylogeny and function - Using evolutionary history to predict protein function, Gaudet, Livstone, Lewis, Thomas (Under revision)
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