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Identification of active regulatory regions from DNA methylation data

Burger, Lukas ; Gaidatzis, Dimos ; Schübeler, Dirk ; Stadler, Michael B.

In: Nucleic Acids Research, 2013, vol. 41, no. 16, p. e155-e155

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    Titre
    • Identification of active regulatory regions from DNA methylation data
    Auteur
    • Burger, Lukas. Friedrich Miescher Institute for Biomedical Research, Maulbeerstrasse 66, 4058 Basel, Switzerland, Swiss Institute of Bioinformatics, Maulbeerstrasse 66, 4058 Basel, Switzerland and University of Basel, Petersplatz 1, 4003 Basel, Switzerland
    • Gaidatzis, Dimos. Friedrich Miescher Institute for Biomedical Research, Maulbeerstrasse 66, 4058 Basel, Switzerland, Swiss Institute of Bioinformatics, Maulbeerstrasse 66, 4058 Basel, Switzerland and University of Basel, Petersplatz 1, 4003 Basel, Switzerland
    • Schübeler, Dirk. Friedrich Miescher Institute for Biomedical Research, Maulbeerstrasse 66, 4058 Basel, Switzerland, Swiss Institute of Bioinformatics, Maulbeerstrasse 66, 4058 Basel, Switzerland and University of Basel, Petersplatz 1, 4003 Basel, Switzerland
    • Stadler, Michael B.. Friedrich Miescher Institute for Biomedical Research, Maulbeerstrasse 66, 4058 Basel, Switzerland, Swiss Institute of Bioinformatics, Maulbeerstrasse 66, 4058 Basel, Switzerland and University of Basel, Petersplatz 1, 4003 Basel, Switzerland
    Type de document
    • Postprint
    Langue
    • Anglais
    Publié dans
    • Nucleic Acids Research, 2013, vol. 41, no. 16, p. e155-e155. Oxford University Press
    Autre version électronique
    Identifiant OAI-PMH
    • oai:doc.rero.ch:299425
    Summary
    We have recently shown that transcription factor binding leads to defined reduction in DNA methylation, allowing for the identification of active regulatory regions from high-resolution methylomes. Here, we present MethylSeekR, a computational tool to accurately identify such footprints from bisulfite-sequencing data. Applying our method to a large number of published human methylomes, we demonstrate its broad applicability and generalize our previous findings from a neuronal differentiation system to many cell types and tissues. MethylSeekR is available as an R package at www.bioconductor.org