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Nucleic Acids Research 2006 34(Web Server issue):W472-W476; doi:10.1093/nar/gkl172
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© The Author 2006. Published by Oxford University Press. All rights reserved
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Article

BABELOMICS: a systems biology perspective in the functional annotation of genome-scale experiments

Fátima Al-Shahrour1, Pablo Minguez1, Joaquín Tárraga1,2, David Montaner1,2, Eva Alloza1, Juan M. Vaquerizas1, Lucía Conde1, Christian Blaschke3, Javier Vera4 and Joaquín Dopazo1,2,*

1 Bioinformatics Department, Centro de Investigación Príncipe Felipe (CIPF) Autopista del Saler 16, E-46013, Valencia, Spain 2 Functional Genomics Node, INB CIPF, Autopista del Saler 16, E-46013, Valencia, Spain 3 Bioalma, Ronda de Poniente 4, 2-C, E-28760, Tres Cantos, Madrid, Spain 4 INB—BSC, Jordi Girona 29 Edifici Nexus II, E-08034 Barcelona, Spain

To whom correspondence should be addressed. Tel: +34 963289680; Fax: +34 963289701; Email: jdopazo{at}cipf.es

Received February 14, 2006. Revised March 20, 2006. Accepted March 20, 2006.

We present a new version of Babelomics, a complete suite of web tools for functional analysis of genome-scale experiments, with new and improved tools. New functionally relevant terms have been included such as CisRed motifs or bioentities obtained by text-mining procedures. An improved indexing has considerably speeded up several of the modules. An improved version of the FatiScan method for studying the coordinate behaviour of groups of functionally related genes is presented, along with a similar tool, the Gene Set Enrichment Analysis. Babelomics is now more oriented to test systems biology inspired hypotheses. Babelomics can be found at http://www.babelomics.org.


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