Clade genomics of Vertebrates.

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
M. musculus Mus musculus
G. gallus Gallus gallus
T. guttata Taeniopygia guttata
A. carolinensis Anolis carolinensis
T. nigroviridis Tetraodon nigroviridis
D. rerio Danio rerio
O. anatinus Ornitorhynchus anatinus
C. picta Chrysemys picta

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 optic_cpicta3_4, released on unknown.