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Bioinformatics Advance Access published online on April 4, 2006
Bioinformatics, doi:10.1093/bioinformatics/btl131
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© The Author (2006). Published by Oxford University Press. All rights reserved. For Permissions, please email: journals.permissions@oxfordjournals.org
Received January 13, 2006
Revised March 17, 2006
Accepted March 31, 2006

Applications note

altree: association detection and localization of susceptibility sites using haplotype phylogenetic trees

Claire Bardel 1 *, Vincent Danjean 2, and Emmanuelle Génin 1

1 Unité de recherche en Génétique Épidémiologique et Structure des Populations Humaines, INSERM U535, Villejuif, France
2 Laboratoire ID-IMAG, UMR 5132, Grenoble, France

* To whom correspondence should be addressed.
Claire Bardel, E-mail: bardel{at}vjf.inserm.fr


  Abstract

Summary: Finding the genes involved in complex diseases susceptibility and among those genes, localizing the variant sites explaining this susceptibility is a major goal of genetic epidemiology. In this context, haplotypic methods that use the joint information on several markers may be of particular interest. When the number of haplotypes is large, a grouping may be required. Phylogenetic trees allow such groupings of haplotypes based on their evolutionary history and may help in the detection and localization of disease susceptibility sites. In this paper, we present a new software to perform phylogeny-based association and localization analysis.

Availability: The software package, including all documentation and example files, is freely available at http://claire.bardel.free.fr/software.html. It is distributed under the GPL license.

Associate Editor: Charlie Hodgman
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