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EvoDB: Evolutionary rates DataBase

Evolutionary Medicine Laboratory, Sydney Brenner Institute of Molecular Bioscience

University of the Witwatersrand, Johannesburg

EvoDB version 1.0: December 2014, 13512 Pfam families

EvoDB is a database of evolutionary rate (dN/dS) profiles, gapped nucleotide multiple sequence alignments and phylogenetic trees for the Pfam-A (protein family) domain and families database. The evolutionary rate at codon sites across protein-coding nucleotide sequences represents a valuable tier of information for aligning sequences, inferring homology and constructing phylogenetic profiles. However, a comprehensive resource for cataloguing the evolutionary rate at codon sites and their corresponding nucleotide and protein domain sequence alignments has not been developed. To address this gap in knowledge, EvoDB was compiled.

Citing EvoDB

Ndhlovu,A., Durand,P.M., and Hazelhurst,S. (2015) EvoDB: a database of evolutionary rate profiles, associated protein domains and phylogenetic trees for PFAM-A. Database, 2015.

EvoDB and the FIRE algorithm

EvoDB is also used by the FIRE algorithm to infer protein domain functions.

Copyright notice for EvoDB

EvoDB is licenced under the GNU Lesser General Public License.

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