12 APR 2011 RefGen Phone Conference (Archived)

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Present

Action items

  • Everyone needs to communicate to the software team to upload the MF-BP inferences on the FTP site (ADD LINK TO DOCUMENTATION).

(Rama, everyone)


Reference genome annotation targets

  • Transcription factors from the wnt pathway
  • Varsha: pick targets
  • Paul and his group: send list of protein members


'Response to' guidelines

  • Pascale

Change in definition - Response to terms

No one commented in the SF entry regarding the change of definition: http://sourceforge.net/tracker/?func=detail&aid=3234988&group_id=36855&atid=440764

So I am happy to go ahead and change the definitions from: A change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus.

to:

Any process that results in a change in state or activity of a cell or organism as the result of a stimulus. The process begins with detection of the stimulus and ends with a change in state or activity or the cell or organism.


Apoptosis Annotation Project

(Emily): Discussion of the BCL family of proteins Apoptosis_Reference_Genome_Targets#BCL_family_Proteins

PAINT evidence codes

  • IBA: biological aspect of ancestor : A type of phylogenetic evidence whereby an aspect of a descendent is inferred through the characterization of an aspect of a ancestral gene
  • IBD: biological aspect of descendant: A type of phylogenetic evidence whereby an aspect of an ancestral gene is inferred through the characterization of an aspect of a descendant gene.
  • IKR (synonym IMR): phylogenetic determination of loss of key residues => NOT
  • IRD: A type of phylogenetic evidence characterized by long phylogenetic tree branch lengths following a duplication event => NO ANNOTATION