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Bioinformatics Advance Access published online on April 23, 2009
Bioinformatics, doi:10.1093/bioinformatics/btp248
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© The Author (2009). Published by Oxford University Press. All rights reserved. For Permissions, please email: journals.permissions@oxfordjournals.org

CROC: Finding Chromosomal Clusters in Eukaryotic Genomes

Miguel Pignatelli 1,*, Florenci Serras 2, Andrés Moya 1, Roderic Guigó 3 and Montserrat Corominas 2

1Instituto Cavanilles de Biodiversitat i Biologia Evolutiva, Universitat de Valencia and CIBER en Epidemiología y Salud Pública (CIBERESP), Avenida Blasco Ibáñez 13, P.O.Box 22085, 46071 Valencia, Spain.
2Department de Genética and Institut de Biomedicina de la Universitat de Barcelona (IBUB), Universitat de Barcelona, Diagonal 645, 08028 Barcelona, Catalonia, Spain.
3Centre de Regulació Genòmica i Grup de Recerca en Informàtica Biomèdica, IMIM-UPF, Parc de Recerca Biomèdica de Barcelona, Dr. Aiguader 88, 08003 Barcelona, Catalonia, Spain.

*To whom correspondence should be addressed. Dr. Miguel Pignatelli, E-mail: miguel.pignatelli{at}uv.es


  Abstract

Summary: There is increasing evidence showing that co-expression of genes that cluster along the genome is a common characteristic of eukaryotic transcriptomes. Several algorithms have been used to date in the identification of these kind of gene organization. Here we present a web tool called CROC that aims to help in the identification and analysis of genomic gene clusters. This method has been successfully used before in the identification of chromosomal clusters in different eukaryotic species.

Availability: The web server is freely available to non-commercial users at the following address: http://metagenomics.uv.es/CROC/

Contact: miguel.pignatelli{at}uv.es

Associate Editor: Prof. Dmitrij Frishman

Received on October 31, 2008; revised on March 9, 2009; accepted on April 6, 2009

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