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Quantitative Region-Specific DNA Methylation Analysis by the EpiTYPER™ Technology

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DNA Methylation Protocols

Part of the book series: Methods in Molecular Biology ((MIMB,volume 1708))

Abstract

DNA methylation plays a profound role in development and health as well as development and progression of disease. High-throughput quantitative DNA methylation analysis is therefore crucial for the study of the normal physiology of the epigenome and its dysregulation in disease. Many target areas are identified by a range of emerging genome-wide cytosine methylation techniques, but these whole genome scans usually only provide methylation data for a few individual CpG sites (CpGs) within a region. The EpiTYPER™ assay is a region-specific method for the detection and quantitative analysis of DNA methylation that allows performing a high-resolution scan of selected regions. It thus enables a more detailed analysis of single CpGs and the surrounding area and can, in addition to candidate gene methylation analysis, be used to validate CpGs detected by genome wide techniques. The EpiTYPER™ assay allows a fast and reproducible targeted quantification of individual CpGs in a high throughput manner and is based on base-specific cleavage of bisulfite-converted genomic DNA and matrix-assisted laser desorption/ionization time-of-flight mass spectrometry (MALDI-TOF MS). Up to 85% of the CpGs within a target region can be analyzed and the detection precision allows quantifying methylation differences as low as 5–7%.

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Author information

Authors and Affiliations

  1. Research Unit of Molecular Epidemiology/Institute of Epidemiology II, Helmholtz Zentrum München, Deutsches Forschungszentrum für Gesundheit und Umwelt (GmbH), Ingolstädter Landstr. 1, 85764, Neuherberg, Germany

    Sonja Kunze

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  1. Sonja Kunze
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Correspondence to Sonja Kunze .

Editor information

Editors and Affiliations

  1. Laboratory for Epigenetics and Environment, Centre National de Recherche en Génomique Humaine, CEA—Institut de Biologie Francois Jacob, Evry, France

    Jörg Tost

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Kunze, S. (2018). Quantitative Region-Specific DNA Methylation Analysis by the EpiTYPER™ Technology. In: Tost, J. (eds) DNA Methylation Protocols. Methods in Molecular Biology, vol 1708. Humana Press, New York, NY. https://doi.org/10.1007/978-1-4939-7481-8_26

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  • DOI: https://doi.org/10.1007/978-1-4939-7481-8_26

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  • Publisher Name: Humana Press, New York, NY

  • Print ISBN: 978-1-4939-7479-5

  • Online ISBN: 978-1-4939-7481-8

  • eBook Packages: Springer Protocols

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