Keane, Thomas M. and Naughton, Thomas J. and McInerney, James O.
MultiPhyl: a high-throughput phylogenomics webserver using distributed computing.
Nucleic Acids Research, 35 (Web Server Issue).
With the number of fully sequenced genomes increasing steadily, there is greater interest in performing large-scale phylogenomic analyses from large numbers of individual gene families. Maximum likelihood (ML) has been shown repeatedly to be one of the most accurate methods
for phylogenetic construction. Recently, there have been a number of algorithmic improvements in maximum-likelihood-based tree search methods. However, it can still take a long time to analyse the evolutionary history of many gene families using a single computer. Distributed computing refers to a method of combining the computing power of multiple computers in order to perform some
larger overall calculation. In this article, we present
the first high-throughput implementation of a distributed phylogenetics platform, MultiPhyl, capable of using the idle computational resources of many heterogeneous non-dedicated machines to form a phylogenetics supercomputer. MultiPhyl allows a user to upload hundreds or thousands of amino acid or nucleotide alignments simultaneously and perform computationally intensive tasks
such as model selection, tree searching and bootstrapping
of each of the alignments using many desktop machines. The program implements a set of 88 amino acid models and 56 nucleotide maximum likelihood models and a variety of statistical methods for choosing between alternative models.
A MultiPhyl webserver is available for public use at:
||MultiPhyl webserver; Bioinformatics; Biology; Genomic data; Phylogenetic analysis; Distributed computing.
||Faculty of Science and Engineering > Biology
Dr. James McInerney
||16 Mar 2009 14:25
|Journal or Publication Title:
||Nucleic Acids Research
||Oxford University Press
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