A New Phylo-HMM Paradigm to Search for Sequences - LIRMM - Laboratoire d’Informatique, de Robotique et de Microélectronique de Montpellier Access content directly
Conference Papers Year : 2008

A New Phylo-HMM Paradigm to Search for Sequences

Abstract

We introduce a new type of phylogenetic Hidden Markov Model, combining the strength of usual HMM and the knowledge of the phylogeny of a family of sequences. We use such models to look into the genome of a target species for members of the sequence family. Our results on some 690 protein families show a better sensitivity and a better specificity when compared to standard profile HMM or Blast searchs.
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Dates and versions

lirmm-00324458 , version 1 (25-09-2008)

Identifiers

  • HAL Id : lirmm-00324458 , version 1

Cite

Jean-Baka Domelevo Entfellner, Olivier Gascuel. A New Phylo-HMM Paradigm to Search for Sequences. MIEP: Mathematics and Informatics in Evolution and Phylogeny, Jun 2008, Saint Martin de Londres, France. ⟨lirmm-00324458⟩

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