RefGenome10July07 Phone Conference (Archived): Difference between revisions
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'''Tuesday July 10, 1 PM CDT (11 AM PDT, 7 PM BST)''' | '''Tuesday July 10, 1 PM CDT (11 AM PDT, 7 PM BST)''' | ||
==Present== | ==Present== | ||
*Rex Chisholm (dictyBase) | |||
*Petra Fey (dictyBase) | |||
*Pascale Gaudet (dictyBase) | |||
*Sohel Merchant (dictyBase) | |||
*Karen Christie (SGD) | |||
*Ruth Lovering (HGNC) | |||
*Fiona McCarthy (AgBase) | |||
*Judy Blake (MGI) | |||
*David Hill (MGI) | |||
*Harold Drabkin (MGI) | |||
*Mary Dolan (MGI) | |||
*Emily Dimmer (GOA) | |||
*Kimberly Van Auken (wormbase) | |||
*Ranjana Kishore(wormbase) | |||
*Tanya Berardini (TAIR) | |||
*Donghui Li(TAIR) | |||
*Doug Howe (zfin) | |||
*Susan Tweedie (flybase) | |||
*Val Wood (Sanger- pombe) | |||
*Victoria Petri (RGD) | |||
*Chris Mungall (NCBO) | |||
==Reference Genome meeting update== | ==Reference Genome meeting update== |
Revision as of 16:34, 10 July 2007
Agenda
Tuesday July 10, 1 PM CDT (11 AM PDT, 7 PM BST)
Present
- Rex Chisholm (dictyBase)
- Petra Fey (dictyBase)
- Pascale Gaudet (dictyBase)
- Sohel Merchant (dictyBase)
- Karen Christie (SGD)
- Ruth Lovering (HGNC)
- Fiona McCarthy (AgBase)
- Judy Blake (MGI)
- David Hill (MGI)
- Harold Drabkin (MGI)
- Mary Dolan (MGI)
- Emily Dimmer (GOA)
- Kimberly Van Auken (wormbase)
- Ranjana Kishore(wormbase)
- Tanya Berardini (TAIR)
- Donghui Li(TAIR)
- Doug Howe (zfin)
- Susan Tweedie (flybase)
- Val Wood (Sanger- pombe)
- Victoria Petri (RGD)
- Chris Mungall (NCBO)
Reference Genome meeting update
Judy: will be held 26 and the morning of the 27th in Princeton. Accommodations yet to be organized.
Review Action Items
1. ACTION ITEM: Judy, Petra, Karen, DongHui and Kimberley summarize how the different Tools for identifying orthologs work, algorithm explanations, order of preference and pitfalls in identifying orthologs
- Judy was away last week, this will be done for the next meeting
2. ACTION ITEM: Rex, Pascale, Emily will summarize the Strategy used to identifying target genes and suggest possible improvements
3. ACTION ITEM: Rex, Karen, Emily, Susan will write a list of information needed from curators to measure Annotation progress
4. ACTION ITEM: Rex, Judy, Ruth will summarize ideas on to how to capture Metrics: breath and depth of annotations
5. ACTION ITEM: Mary, Sohel, Chris will send a summary of what is being done by the RG Software group
- There is a test server available since this morning
http://rails-dev.bioinformatics.northwestern.edu:24000/curator http://rails-dev.bioinformatics.northwestern.edu:24000/admin
- Chris, Sohel and interested curators will have a separate conference call to discuss the tool
6. ACTION ITEM: Pascale, Donghui will provide a framework for discussing Consistency of annotations across genomes
7. ACTION ITEM: Susan and Rex will present suggestions for Outreach: publicizing the project and developing a web presence
Annotation Progress
- How many of the human genes have orthologs identified ?
- How many of these have papers associated (are published genes) ?
- How many papers associated in total ?
- How many papers have been considered for GO curation ?
- How many papers provided GO terms ?
- How many genes which have papers associated are considered complete/comprehensive ?
Issues with target genes
- pombe (Val): takes a long time to triage papers
- GOA, pombe: too many genes per month
- If too many groups are falling behind, we should consider skipping August
- not enough coordination between annotation efforts
- pombe/dictyBase: We would like to know when other databases have completed annotation
- Judy suggestion: Change from 'complete' to 'comprehensive'
- Pascale: did we not have a wiki for doing that?
Next meeting
Tuesday August 14, 10 AM CDT (8 AM PDT, 4 PM BST)