Phylogenetic Annotation Project: Difference between revisions

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* [[PAINT_SOP]]
* [[PAINT_SOP]]


* PAINT family list: https://docs.google.com/spreadsheets/d/1uHgcaXO7t9__9GuXgBibT0H-YlnU252IsRGWIyhCWN8/edit?usp=sharing. The family is usually easier to PAINT if there are less duplication nodes, but please select ones that have more GO terms and more genes (>100)
* PAINT family list: https://docs.google.com/spreadsheets/d/1uHgcaXO7t9__9GuXgBibT0H-YlnU252IsRGWIyhCWN8/edit?usp=sharing. '''Not updated since Panther 12'''


=Pages to review=
=Pages to review=

Revision as of 07:12, 17 January 2018


PAINT : Software for tree annotation

The reference project group has developed a software to perform the annotations based on phylogenetic trees.

PAINT Curation guidelines

Pages to review


Orthology determination: Data used to make orthology calls

reference proteomes files

At the July 2009 Quest for Orthologs meeting, it was agreed to decide upon a standard set of genomes, and compile "complete" sets of protein coding genes for each genome, and a representative protein sequence for each gene.

New gene2geneproduct file

At the April 2009 Reference Genome meeting it was decided to create a new file to replace the GP2protein file, called 'gene2geneproduct'. Specifications can be found on this page (will be added soon).


Archived & retired Pages

Preretired pages! To discuss with DH and KVH


Gene pages

http://wiki.geneontology.org/index.php/Category:Reference_Genome_Genes > I forgot how those were created. They can probably all be removed. Can this be done in bulk?


Retired Pages

Those pages are kept as reference but the information in them is not the most current information.

Past Annotation targets