GO Reference Genome Meeting: Difference between revisions
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==Tentative Schedule== | ==Tentative Schedule== | ||
===Morning of the 26th=== | |||
* | * orthology | ||
* methods | * GRIN (Genome Research Informatics Network) conference call tentatively 11 am | ||
Moderator: Kara Dolinski | |||
Resources: | |||
# The Reference Genome groups have provided descriptions of their current methodology for establishing orthologs for their gene sets. These are available on the [[Orthology discussion page]]. | |||
Discussion points: | |||
# Is it necessary for all groups to use the same methodology in order to create orthology/homology data sets for the reference genome project? | |||
# How stringent and consistent do we want the language of 'orthology' and 'homology' to be incorporated into our documentation and discussion? | |||
# How will we update our orthology sets with new genome builds or do we consider the current genomes in the reference genome project to be essentially complete? | |||
# What is the impact of closely-related paralogs that have different functions on this project? | |||
Papers of Interest: | |||
# Dolinski, K. and Botstein, D. 2007. Orthology and Functional Conservation in Eukaryotes. Annu. Rev. Genet. 41:463-507. | |||
# Hulsen, T., Huynen, M.A., de Vlieg, J., and Groenen, P.M.A. 2007. Benchmarking ortholog identification methods using functional genomics data. Genome Biology 7:R31. | |||
# Wapinski, I., Pfeffer, A., Friedman, N., and Regew, A. 2007. Automatic genome-wide reconstruction of phylogenetic gene trees. Bioinformatics 23:1549-1558. | |||
== Headline text == | |||
====Afternoon of the 26th ==== | ====Afternoon of the 26th ==== |
Revision as of 21:56, 11 September 2007
Sept 26-27th, 2007 Princeton, New Jersey
Wednesday, September 26, 2007
- Meeting Location: Frist Campus Center - Multipurpose Room C
- Lunch Meal Location: Frist Campus Center - Food Gallery
- Coffee/Tea/Water service for 30 people during the morning and afternoon sessions
- Lunch - $8.50/person on meal cards to be used in the Food Gallery
- Dinner - TBA
Thursday, September 27, 2007
- Meeting Location: Frist Campus Center - Multipurpose Room B
- Lunch Meal Location: Frist Campus Center - Food Gallery
- Coffee/Tea/Water service for 25 people during the morning and afternoon sessions
- Lunch - $8.50/person on meal cards to be used in the Food Gallery
- Dinner - TBA
Agenda Details, Discusstions and Topics
High Level Topics Identified for Discussion
- Strategies to identify orthologs
- How to prioritize disease genes
- How to assess the progress made towards curation of reference genome genes; strategies for improvement
- Discussions regarding metrics, including making a plan for how to use metrics
- Review of progress toward database and tool development
- Annotation consistency discussion
- Outreach
Tentative Schedule
Morning of the 26th
* orthology * GRIN (Genome Research Informatics Network) conference call tentatively 11 am
Moderator: Kara Dolinski
Resources:
- The Reference Genome groups have provided descriptions of their current methodology for establishing orthologs for their gene sets. These are available on the Orthology discussion page.
Discussion points:
- Is it necessary for all groups to use the same methodology in order to create orthology/homology data sets for the reference genome project?
- How stringent and consistent do we want the language of 'orthology' and 'homology' to be incorporated into our documentation and discussion?
- How will we update our orthology sets with new genome builds or do we consider the current genomes in the reference genome project to be essentially complete?
- What is the impact of closely-related paralogs that have different functions on this project?
Papers of Interest:
- Dolinski, K. and Botstein, D. 2007. Orthology and Functional Conservation in Eukaryotes. Annu. Rev. Genet. 41:463-507.
- Hulsen, T., Huynen, M.A., de Vlieg, J., and Groenen, P.M.A. 2007. Benchmarking ortholog identification methods using functional genomics data. Genome Biology 7:R31.
- Wapinski, I., Pfeffer, A., Friedman, N., and Regew, A. 2007. Automatic genome-wide reconstruction of phylogenetic gene trees. Bioinformatics 23:1549-1558.
Headline text
Afternoon of the 26th
* orthology
Morning of the 27th
* annotation consistency * promotion of resource