CAPS: coevolution analysis using protein sequences

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  • Mario A. Fares
    Evolutionary Genetics and Bioinformatics Laboratory, Department of Genetics   Smurfit Institute of Genetics, University of Dublin, Trinity College, Dublin 2, Dublin, Ireland
  • David McNally
    Evolutionary Genetics and Bioinformatics Laboratory, Department of Genetics   Smurfit Institute of Genetics, University of Dublin, Trinity College, Dublin 2, Dublin, Ireland

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<jats:title>Abstract</jats:title> <jats:p>Summary: Coevolution Analysis using Protein Sequences (CAPS) is a PERL based software that identifies co-evolution between amino acid sites. Blosum-corrected amino acid distances are used to identify amino acid co-variation. The phylogenetic sequence relationships are used to remove the phylogenetic and stochastic dependencies between sites. The 3D protein structure is used to identify the nature of the dependencies between co-evolving amino acid sites. Friendly interpretable output files are generated.</jats:p> <jats:p>Availability: CAPS version 1 is available at . Distribution versions for Linux/Unix, Mac OS X and Windows operating systems are available, including manual and example files.</jats:p> <jats:p>Contact: faresm@tcd.ie</jats:p>

収録刊行物

  • Bioinformatics

    Bioinformatics 22 (22), 2821-2822, 2006-09-27

    Oxford University Press (OUP)

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