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EpiGRAPH: user-friendly software for statistical analysis and prediction of (epi)genomic data

Christoph Bock*, Konstantin Halachev, Joachim Büch and Thomas Lengauer

Author Affiliations

Max-Planck-Institut für Informatik, Campus E1.4, 66123 Saarbrücken, Germany

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Genome Biology 2009, 10:R14 doi:10.1186/gb-2009-10-2-r14

Published: 10 February 2009

Abstract

The EpiGRAPH web service http://epigraph.mpi-inf.mpg.de/ webcite enables biologists to uncover hidden associations in vertebrate genome and epigenome datasets. Users can upload sets of genomic regions and EpiGRAPH will test multiple attributes (including DNA sequence, chromatin structure, epigenetic modifications and evolutionary conservation) for enrichment or depletion among these regions. Furthermore, EpiGRAPH learns to predictively identify similar genomic regions. This paper demonstrates EpiGRAPH's practical utility in a case study on monoallelic gene expression and describes its novel approach to reproducible bioinformatic analysis.