Construction of Phylogenetic Trees on Parallel Clusters
Identifieur interne : 001608 ( Main/Exploration ); précédent : 001607; suivant : 001609Construction of Phylogenetic Trees on Parallel Clusters
Auteurs : Frédéric Guinand [Allemagne, France] ; Gilles Parmentier [France] ; Denis Trystram [France]Source :
- Lecture Notes in Computer Science [ 0302-9743 ] ; 2006.
Abstract
Abstract: In this work, we present the preliminary step of a novel approach for the construction of phylogenetic trees on large parallel clusters of PCs. Computation of multiple alignments of biological sequences and phylogenetic tree construction are performed simultaneously. Any algorithm built upon this process uses the concept of neighborhood (which can be informally defined as sets of evolutionary related sequences). The process, called PhylTre, schematically consists in three iterative steps: the first step produces an undirected graph from a pre-processing operation. The second step aims at determining a neighborhood for each sequence. The third step builds partial phylogenetic trees using results stemmed from step two. The steps are applied iteratively until the whole phylogenetic tree is obtained. A sequential code is available and it is currently implemented in parallel on a large cluster of PCs available at ID-IMAG.
Url:
DOI: 10.1007/3-540-48086-2_24
Affiliations:
Links toward previous steps (curation, corpus...)
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- to stream Main, to step Curation: 001608
Le document en format XML
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<front><div type="abstract" xml:lang="en">Abstract: In this work, we present the preliminary step of a novel approach for the construction of phylogenetic trees on large parallel clusters of PCs. Computation of multiple alignments of biological sequences and phylogenetic tree construction are performed simultaneously. Any algorithm built upon this process uses the concept of neighborhood (which can be informally defined as sets of evolutionary related sequences). The process, called PhylTre, schematically consists in three iterative steps: the first step produces an undirected graph from a pre-processing operation. The second step aims at determining a neighborhood for each sequence. The third step builds partial phylogenetic trees using results stemmed from step two. The steps are applied iteratively until the whole phylogenetic tree is obtained. A sequential code is available and it is currently implemented in parallel on a large cluster of PCs available at ID-IMAG.</div>
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