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PhylomeDB uses PhylomeDB cross linking 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.

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September 16, 2016 - 11:56
TotM: Yeast hexokinase-2, glycolisis and the biochemical connection of all life: Part I After being abandoned by their own parents in the middle of the forest, the young siblings’ ingenious plan for finding the way back home had failed miserably. The trail of crumbs that they left was eaten by the birds, and now the two kids feared for their demise. Lost, hungry and sad; brother and...


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 Tree of the month: Zbtb7A from Mus musculus, media and gene nomenclature
August 17, 2016 - 11:38 Microbotryum lychnidis-dioicae, the biotrophic and plant-castrating anther smut fungus
August 1, 2016 - 20:49

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