Clade genomics of Primates.

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.


The following species have been included in this analysis:
Species Full Name
H. sapiens Homo sapiens
P. troglodytes Pan troglodytes
P. pygmaeus abelii Pongo pygmaeus abelii
M. musculus Mus musculus

Quick search

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


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.


This is version pp_v1, released on 11.6.2007.