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This article is part of a special issue on epigenomics.

Open Access Software

EpiExplorer: live exploration and global analysis of large epigenomic datasets

Konstantin Halachev1*, Hannah Bast2, Felipe Albrecht1, Thomas Lengauer1 and Christoph Bock134*

Author Affiliations

1 Max Planck Institute for Informatics, Campus E1.4, 66123 Saarbrücken, Germany

2 Department of Computer Science, University of Freiburg, Georges-Köhler-Allee 51, 79110 Freiburg, Germany

3 CeMM Research Center for Molecular Medicine of the Austrian Academy of Sciences, Lazarettgasse 14, 1090 Vienna, Austria

4 Department of Laboratory Medicine, Medical University of Vienna, Währinger Gürtel 18-20, 1090 Vienna, Austria

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Genome Biology 2012, 13:R96  doi:10.1186/gb-2012-13-10-r96

Published: 3 October 2012

Abstract

Epigenome mapping consortia are generating resources of tremendous value for studying epigenetic regulation. To maximize their utility and impact, new tools are needed that facilitate interactive analysis of epigenome datasets. Here we describe EpiExplorer, a web tool for exploring genome and epigenome data on a genomic scale. We demonstrate EpiExplorer's utility by describing a hypothesis-generating analysis of DNA hydroxymethylation in relation to public reference maps of the human epigenome. All EpiExplorer analyses are performed dynamically within seconds, using an efficient and versatile text indexing scheme that we introduce to bioinformatics. EpiExplorer is available at http://epiexplorer.mpi-inf.mpg.de webcite.