GO Reference Genome Meeting

Sept 26-27th, 2007 Princeton, New Jersey

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

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

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

  * 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.

  * Priorities - Moderators Rex Chisholm and Pascal Gaudet
  * Methods - 
  * Metrics - Moderator Ruth Lovering
  * Tools - Moderator: Chris Mungall

  * annotation consistency
  * promotion of resource