9 FEB 2010 RefGen Phone Conference (Archived): Difference between revisions
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# Discuss the priorities (Dec, Jan, and fgf10 from November) and goal (March 1st) | # Discuss the priorities (Dec, Jan, and fgf10 from November) and goal (March 1st) | ||
# <font color= "red"> Please answer prior to the call</font>: Can everyone have the curation targets annotated by then? If not, can you write down which families are problematic? | # <font color= "red"> Please answer prior to the call</font>: Can everyone have the curation targets annotated by then? If not, can you write down which families are problematic? | ||
* GOA: | * GOA: We will have a good stab at getting most of them done, the most problematic will be those with many publications; DAG1, GSTT1, SerpineE1 and E2. We will try to get at least some annotations for each aspect on all of them by March 1st though. | ||
* BHF-UCL: | * BHF-UCL: | ||
* MGI: | * MGI: |
Revision as of 05:37, 5 February 2010
ACTION ITEMS
ALL GROUPS: Please fill three sections here:
- Annotation Status of lung curation targets9_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
- 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
- Discuss the priorities (Dec, Jan, and fgf10 from November) and goal (March 1st)
- 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: We will have a good stab at getting most of them done, the most problematic will be those with many publications; DAG1, GSTT1, SerpineE1 and E2. We will try to get at least some annotations for each aspect on all of them by March 1st though.
- BHF-UCL:
- MGI:
- RGD: The genes on the lists have been curated.
- 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:
- Panther family ID
- Date selected for concurrent annotation
- Date Panther family last annotated (tree annotations)
- Number of members
- Number of RefG members
- Number of members with EXP
- Date more recent member last annotated
- 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: We don't capture that information.
- 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. Use this page to describe how your group is branding reference genomes and to provide suggestions: http://gocwiki.geneontology.org/index.php/Ideas_for_publicizing_Ref.Genome_Annotation_Data
Back to Reference Genome Conference_Calls Page