Nucleic Acids Research Advance Access originally published online on May 28, 2008
Nucleic Acids Research 2008 36(Web Server issue):W308-W314; doi:10.1093/nar/gkn303
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Nucleic Acids Research, 2008, Vol. 36, No. suppl_2 W308-W314
© 2008 The Author(s)
This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/2.0/uk/) which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.
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GEPAS, a web-based tool for microarray data analysis and interpretation
1Bioinformatics Department, Centro de Investigación Príncipe Felipe (CIPF), Autopista del Saler 16, E46013, 2Functional Genomics Node, INB, CIPF, Autopista del Saler 16, E46013, 3Center for Biomedical Research on Rare Diseases (CIBERER), CIPF, Autopista del Saler 16, E46013, Valencia and 4Department of Statistics, Universidad Carlos III, E28903, Madrid, Spain
*To whom correspondence should be addressed. Tel: +34 96 328 96 80; Fax: +34 96 328 97 01; Email: jdopazo{at}cipf.es
Received January 31, 2008. Revised April 29, 2008. Accepted April 30, 2008.
Gene Expression Profile Analysis Suite (GEPAS) is one of the most complete and extensively used web-based packages for microarray data analysis. During its more than 5 years of activity it has continuously been updated to keep pace with the state-of-the-art in the changing microarray data analysis arena. GEPAS offers diverse analysis options that include well established as well as novel algorithms for normalization, gene selection, class prediction, clustering and functional profiling of the experiment. New options for time-course (or dose-response) experiments, microarray-based class prediction, new clustering methods and new tests for differential expression have been included. The new pipeliner module allows automating the execution of sequential analysis steps by means of a simple but powerful graphic interface. An extensive re-engineering of GEPAS has been carried out which includes the use of web services and Web 2.0 technology features, a new user interface with persistent sessions and a new extended database of gene identifiers. GEPAS is nowadays the most quoted web tool in its field and it is extensively used by researchers of many countries and its records indicate an average usage rate of 500 experiments per day. GEPAS, is available at http://www.gepas.org.
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