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Bioinformatics Advance Access originally published online on April 1, 2004
Bioinformatics 2004 20(14):2324-2326; doi:10.1093/bioinformatics/bth230
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Bioinformatics 20(14) © Oxford University Press 2004; all rights reserved.

Applications Note

BioMercator: integrating genetic maps and QTL towards discovery of candidate genes

Anne Arcade 1, Aymeric Labourdette 2, Matthieu Falque 1, Brigitte Mangin 2, Fabien Chardon 1, Alain Charcosset 1 and Johann Joets 1,*

1 UMR, INRA UPS-XI INAPG CNRS Génétique Végétale, Ferme du Moulon, 91190 Gif-sur-Yvette, France and 2 INRA, Biométrie et Intelligence Artificielle, Toulouse, BP27, 31326 Castanet-Tolosan, France

Received on November 28, 2003; revised on January 29, 2004; accepted on February 20, 2004
Advance Access Publication April 1, 2004

Summary: Breeding programs face the challenge of integrating information from genomics and from quantitative trait loci (QTL) analysis in order to identify genomic sequences controlling the variation of important traits. Despite the development of integrative databases, building a consensus map of genes, QTL and other loci gathered from multiple maps remains a manual and tedious task. Nevertheless, this is a critical step to reveal co-locations between genes and QTL. Another important matter is to determine whether QTL linked to same traits or related ones is detected in independent experiments and located in the same region, and represents a single locus or not. Statistical tools such as meta-analysis can be used to answer this question. BioMercator has been developed to automate map compilation and QTL meta-analysis, and to visualize co-locations between genes and QTL through a graphical interface.

Availability: Available upon request (http://moulon/~bioinfo/BioMercator/). Free of charge for academic use.

Contact: joets{at}moulon.inra.fr

* To whom correspondence should be addressed.


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