Difference between revisions of "PAMGO conference calls"

From GO Wiki
Jump to navigation Jump to search
Line 1: Line 1:
=='''PAMGO Conference Call-February 15 2008'''==
=='''PAMGO Conference Call-February 15 2008'''==


Association files submitted to GOC: see ftp://ftp.geneontology.org/pub/go/gene-associations and AMIGO
'''Association files submitted to GOC''': see ftp://ftp.geneontology.org/pub/go/gene-associations and AMIGO
       gene_association.PAMGO_Atumefaciens.gz
       gene_association.PAMGO_Atumefaciens.gz
       gene_association.PAMGO_Oomycetes.gz
       gene_association.PAMGO_Oomycetes.gz


Update on association files on:
'''Update on association files on''':
                   P. syringae
                   P. syringae
                   Erwinia
                   Erwinia
Line 11: Line 11:




GOC announcement: Regultion terms
'''GOC announcement: Regultion terms'''
"For some time now, the GO content developers have been aware that
"For some time now, the GO content developers have been aware that
regulatory processes are not necessarily integral to the processes (as
regulatory processes are not necessarily integral to the processes (as
Line 21: Line 21:
Entire e-mail attached. See  
Entire e-mail attached. See  


'''Induction and Upregulation terms'''
Induction and Upregulation of........ are currently child terms of positive regulation. Should this be merged into positive regulation?
Induction and Upregulation of........ are currently child terms of positive regulation. Should this be merged into positive regulation?




Changing wording in some host terms......See wiki    and make comments
'''Changing wording in some host terms'''
See wiki.............and make comments




Mini Reviews
'''Mini Review'''s


Report from      Michelle
'''Report'''
    Michelle




Others
'''Others'''


=='''PAMGO Conference Call-November 15 2007'''==
=='''PAMGO Conference Call-November 15 2007'''==

Revision as of 13:11, 14 February 2008

PAMGO Conference Call-February 15 2008

Association files submitted to GOC: see ftp://ftp.geneontology.org/pub/go/gene-associations and AMIGO

      gene_association.PAMGO_Atumefaciens.gz
      gene_association.PAMGO_Oomycetes.gz

Update on association files on:

                 P. syringae
                 Erwinia
                 M. grisea


GOC announcement: Regultion terms "For some time now, the GO content developers have been aware that regulatory processes are not necessarily integral to the processes (as previously indicated by the use of the 'part_of' relation) that they regulate. Nevertheless, regulatory processes have been represented as part_of the processes they regulate. We have long intended to replace these part_of relationships with a new relationship type called 'regulates'. We are now in a position to make this replacement" Entire e-mail attached. See

Induction and Upregulation terms Induction and Upregulation of........ are currently child terms of positive regulation. Should this be merged into positive regulation?


Changing wording in some host terms See wiki.............and make comments


Mini Reviews

Report

   Michelle


Others

PAMGO Conference Call-November 15 2007

Test set of annotations sent to Chris Mungall (GOC) File:PAMGO test assoc.xls

New "Properties" column in the association file

Updated Evidence Code documentation. http://www.geneontology.org/GO.evidence.shtml New children codes under ISS (still under review)


Topic for discussion: Hypersensitive response (HR) and Programmed cell death (PCD) tree

See "PAMGO SUMMARY_2007" for Candace's proposal on this subject