9 FEB 2010 RefGen Phone Conference (Archived): Difference between revisions

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# Annotation Status of lung curation targets[[9_FEB_2010_RefGen_Phone_Conference#Lung_curation_targets]]
# Annotation Status of lung curation targets[[9_FEB_2010_RefGen_Phone_Conference#Lung_curation_targets]]
# Who captures the 'comprehensive annotation' status?[[9_FEB_2010_RefGen_Phone_Conference#Plan_for_annotation_status_reporting_tool]]
# Who captures the 'comprehensive annotation' status?[[9_FEB_2010_RefGen_Phone_Conference#Plan_for_annotation_status_reporting_tool]]
#  
# Please describe How_is_your_group_Publicizing_Ref.Genome annotation here: [[Ideas_for_publicizing_Ref.Genome_Annotation_Data#How_is_your_group_Publicizing_Ref.Genome_Data]]


==Present==
==Present==

Revision as of 13:45, 4 February 2010

ACTION ITEMS

ALL GROUPS: Please fill three sections here:

  1. Annotation Status of lung curation targets9_FEB_2010_RefGen_Phone_Conference#Lung_curation_targets
  2. Who captures the 'comprehensive annotation' status?9_FEB_2010_RefGen_Phone_Conference#Plan_for_annotation_status_reporting_tool
  3. Please describe How_is_your_group_Publicizing_Ref.Genome annotation here: Ideas_for_publicizing_Ref.Genome_Annotation_Data#How_is_your_group_Publicizing_Ref.Genome_Data

Present

  • GOA:
  • BHF-UCL:
  • MGI:
  • RGD:
  • Flybase:
  • dictyBase:
  • TAIR:
  • AgBase:
  • SGD:
  • pombe
  • Ecoli:
  • Wormbase:
  • ZFIN:
  • PPOD:
  • Berkeley:

Lung curation targets

  1. Discuss the priorities (Dec, Jan, and fgf10 from November) and goal (March 1st)
  2. Please answer prior to the call: Can everyone have the curation targets annotated by then? If not, can you write down which families are problematic?
  • GOA:
  • BHF-UCL:
  • MGI:
  • RGD:
  • Flybase:
  • dictyBase:
  • TAIR:
  • AgBase:
  • SGD:
  • pombe
  • Ecoli:
  • Wormbase:
  • ZFIN:

PAINT demo

Ed Lee, Berkeley

Plan for annotation status reporting tool

Kara and her group have started to work on a tool that would display the annotation status of the Panther families. There will be a regularly updated web page that will show the following information:

  1. Panther family ID
  2. Date selected for concurrent annotation
  3. Date Panther family last annotated (tree annotations)
  4. Number of members
  5. Number of RefG members
  6. Number of members with EXP
  7. Date more recent member last annotated
  8. We could add 'date comprehensively annotated' for groups that can provide this information:

Please answer prior to the call: who currently captures the 'date comprehensively annotated' and could generate a file with such information.

  • GOA: Yes
  • BHF-UCL:
  • MGI:
  • RGD:
  • Flybase:
  • dictyBase: Yes (we capture curation status for the entire 'gene' curation, but could use that for now)
  • TAIR:
  • AgBase:
  • SGD:
  • pombe
  • Ecoli:
  • Wormbase:
  • ZFIN:


  • Alerts:
    • Tree curators should be alerted when the Date in Column 7 (protein annotations by MODs) is more recent than the date in Column 3 (tree annotation).
    • When the Panther families are modified (once-twice per year), there should be a check to verify that the members are still the same. If there are additions or deletions: there should be an alert for curators annotations. We may be able to automate part of the required modifications to annotations.
  • Annotations to nodes: All the previous part of the script is just a report based on the trees and the GAF files. However in some cases we annotate to nodes rather to entire trees. There needs to be a way to request a report for a specific tree node. This will be done as a second step.

Branding Ref.genome annotation data in GOC and within each group

Rama started a wiki page to collect ideas. http://gocwiki.geneontology.org/index.php/Ideas_for_publicizing_Ref.Genome_Annotation_Data Use this page to provide suggestions



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