Clade genomics of Yeasts.

We have developed a pipeline for clade analysis. Orthologs are predicted between all pairs of genomes using Leo Goodstadt's PhyOP. Pairwise orthology predictions are then clustered and multiple alignments are built for each cluster using Robert Edgar's MUSCLE. Phylogenetic trees are estimated using Heng Li's TreeBeST.
 
The result of this pipeline, clusters, trees and multiple alignments, can be accessed via these pages.

Species

The following species have been included in this analysis:
Species Full Name
S. cerevisiae Saccharomyces cerevisiae
S. paradoxus Saccharomyces paradoxus
S. mikatae (WashU) Saccharomyces mikatae
S. mikatae (MIT) Saccharomyces mikatae
S. bayanus (WashU) Saccharomyces bayanus
S. bayanus (MIT) Saccharomyces bayanus
S. kudriavzevii Saccharomyces kudriavzevii
S. kluyverii Saccharomyces kluyverii
S. castellii Saccharomyces castellii

Quick search

Quick search for a gene or orthologous group.
Gene
Group
 
Go to the query page for more elaborate searches.

Browse

We have several lists of orthologous groups available:
simple ortholog sets list of 1:1 orthologs for 2..n species
ortholog groups list of orthologous groups
For a full list, please go to the statistics pages.

Version

This is version yy_v2, released on 10.12.2007.