Welcome to PhylomeDB 4!

PhylomeDB is a public database for complete catalogs of gene phylogenies (phylomes). It allows users to interactively explore the evolutionary history of genes through the visualization of phylogenetic trees and multiple sequence alignments. Moreover, phylomeDB provides genome-wide orthology and paralogy predictions which are based on the analysis of the phylogenetic trees. The automated pipeline used to reconstruct trees aims at providing a high-quality phylogenetic analysis of different genomes, including Maximum Likelihood tree inference, alignment trimming and evolutionary model testing.

PhylomeDB includes also a public download section with the complete set of trees, alignments and orthology predictions, as well as a web API that faciliates cross linking trees from external sources. Finally, phylomeDB provides an advanced tree visualization interface based on the ETE toolkit, which integrates tree topologies, taxonomic information, domain mapping and alignment visualization in a single and interactive tree image. 

What's new in phylomeDB 4?


Latest story

March 6, 2015 - 10:31

Crocodilians are one of the only two living groups in archosauria, a clade that also includes birds and the all-time favourite prehistoric monsters, dinosaurs and pterosaurs. Crocodilians diverged from their closest extant relatives 240 million years ago, and the common ancestor of all living crocodilians is dated around 70-80 million years ago, in the Cretacic era. Since then, they have experimented very few morphological changes, remaining the semi-aquatic fierce predators we all know. They shared the land with dinosaurs, they survived the massive extinction at the end of the Mesozoic. Now, PhylomeDB extend its vertebrate catalogue to include the phylomes of three of this intimidating animals: Alligator mississippiensis...

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