Tag: PhyME

PhyME – Find Motifs in sets of Orthologous Sequences

PhyME

:: DESCRIPTION

PhyME (Phylogenetic Motif Elicitation) is a software tool for finding motifs in sets of orthologous sequences.PhyME is an ab initio motif-finding algorithm, which finds overrepresented motifs in input sequences while accounting for their evolutionary conservation in orthologs of those sequences.

PhyME discovers motifs by integrating two important aspects of the motif’s significance, overrepresentation and interspecies conservation, into one probabilistic score. The algorithm is based on multiple alignment and expectation-maximization.

::DEVELOPER

The Sinha Lab

:: SCREENSHOTS

N/A

:: REQUIREMENTS

:: DOWNLOAD

PhyME

:: MORE INFORMATION

  • S. Sinha, “PhyME: a software tool for finding motifs in sets of orthologous sequences”, Methods Mol. Biol., vol. 395 (2007) 309-18. Pubmed 17993682.
  • S. Sinha, M. Blanchette, M. Tompa, “PhyME: a probabilistic algorithm for finding motifs in sets of orthologous sequences”, BMC Bioinformatics, vol. 5(2004) 170. Pubmed 15511292.