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Jose Carbonell, 02/21/2010 10:14 am


Babelomics is a suite that integrates methods for genomic data analysis and functional interpretation. Although originally developed for analysis of microarray gene expression experiments, Babelomics can deal with other high-throughput data such as genotyping data (GWAS) or genomic copy-number alteration data (array-CGH). Both genomic and transcriptomic data can be analyzed and functional interpretation of the results of the analysis can be obtained.

Contrarily to other tools, Babelomics has “grown up” in close contact with experimental researchers and has been continuously improved as new ways of using biological information to annotate genome-scale experiments arose.


Babelomics is designed as a web application so it can work on every OS: Windows, GNU/Linux and MacOS, all you need is a modern browser, i.e.: Firefox 3.x, Safari 4.x, Chrome 2.x, Opera 9.x or even IE 7.x. and IE 8.x. You only have to create an account to save you results, we give you a 1GB of disk space.

Frequently asked questions

You can browse the most typical questions here

Citing Babelomics

Last publication of Babelomics:

Al-Shahrour, F., Minguez, P., Tárraga, J., Montaner, D., Alloza, E., Vaquerizas, J.MM., Conde, L., Blaschke, C., Vera, J. & Dopazo, J. (2006). BABELOMICS: a systems biology perspective in the functional annotation of genome-scale experiments. Nucleic Acids Research (Web Server issue) 34: W472-W476

Tool tutorials and WEB documentation

  • Expression: Under this section you will find all the tools from GEPAS. Now GEPAS has been integrated into Babelomics. This set of tools will allow you to work and analyze expression microarrays. See documentation

Advanced users

Web services

Work in progress

Command Line Interface (CLI)

Work in progress



R libraries (installation: R CMD INSTALL xxx.tar.gz)

  • Agilent normalization
  • agilent_1.3.2.tar.gz ($BABELOMICS_HOME/bin/normalizexp/agilent_1.3.2.tar.gz)
  • Time/dosage series (maSigPro test)
  • Copy number analysis
  • source("http://bioconductor.org/biocLite.R")
  • biocLite("GLAD")
  • biocLite("DNAcopy")
  • biocLite("cghMCR")