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Nucleic Acids Research, 2003, Vol. 31, No. 13 3461-3467
© 2003 Oxford University Press

GEPAS: a web-based resource for microarray gene expression data analysis

Javier Herrero, Fátima Al-Shahrour, Ramón Díaz-Uriarte, Álvaro Mateos, Juan M. Vaquerizas, Javier Santoyo and Joaquín Dopazo*

Bioinformatics Unit, Centro Nacional de Investigaciones Oncológicas (CNIO), c/Melchor Fernández Almagro 3, 28029, Madrid, Spain

*To whom correspondence should be addressed. Tel: +34 9122 46919; Fax: +34 9122 46972; Email: jdopazo{at}cnio.es

We present a web-based pipeline for microarray gene expression profile analysis, GEPAS, which stands for Gene Expression Profile Analysis Suite (http://gepas.bioinfo.cnio.es). GEPAS is composed of different interconnected modules which include tools for data pre-processing, two-conditions comparison, unsupervised and supervised clustering (which include some of the most popular methods as well as home made algorithms) and several tests for differential gene expression among different classes, continuous variables or survival analysis. A multiple purpose tool for data mining, based on Gene Ontology, is also linked to the tools, which constitutes a very convenient way of analysing clustering results. On-line tutorials are available from our main web server (http://bioinfo.cnio.es).


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