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Nucleic Acids Research 2005 33(Web Server Issue):W512-W515; doi:10.1093/nar/gki489
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© The Author 2005. Published by Oxford University Press. All rights reserved
The online version of this article has been published under an open access model. Users are entitled to use, reproduce, disseminate, or display the open access version of this article for non-commercial purposes provided that: the original authorship is properly and fully attributed; the Journal and Oxford University Press are attributed as the original place of publication with the correct citation details given; if an article is subsequently reproduced or disseminated not in its entirety but only in part or as a derivative work this must be clearly indicated. For commercial re-use, please contact journals.permissions{at}oupjournals.org

Article

GENSTYLE: exploration and analysis of DNA sequences with genomic signature

Bernard Fertil*, Matthieu Massin, Sylvain Lespinats, Caroline Devic, Philippe Dumee and Alain Giron

INSERM U. 678 91 boulevard de l'Hôpital, 75634 Paris, France

*To whom correspondence should be addressed: Tel: +33 1 53 82 84 05; Fax: +33 1 53 82 84 46; Email: bernard.fertil{at}imed.jussieu.fr

Received February 15, 2005. Revised March 31, 2005. Accepted April 21, 2005.

GENSTYLE (http://Genstyle.imed.jussieu.fr) is a workspace designed for the characterization and classification of nucleotide sequences. Based on the genomic signature paradigm, GENSTYLE focuses on oligonucleotide frequencies in DNA sequences. Users can select sequences of interest in the GENSTYLE companion database, where the whole set of GenBank sequences is grouped per species, or upload their own sequences to work with. Tools for the exploration and analysis of signatures allow (i) identification of the origin of DNA segments (detection of rare species or species for which technical problems prevent fast characterization, such as micro-organisms with slow growth), (ii) analysis of the homogeneity of a genome and isolation of areas with novel functionality (horizontal transfers for example) – and (iii) molecular phylogeny and taxonomy.


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