Design, measurement and processing of region-specific DNA methylation assays: the mass spectrometry-based method EpiTYPER

Design, measurement and processing of region-specific DNA methylation assays: the mass spectrometry-based method EpiTYPER

EpiTYPER® is a mass spectrometry-based bisulfite sequencing method that enables region-specific DNA methylation analysis in a quantitative and high-throughput fashion. The technology targets genomic regions of 100-600 base pairs and results in the quantitative measurement of DNA methylation levels l...

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Bibliographic Details
Main Authors: H. Eka D. Suchiman, Roderick C. Slieker, Dennis eKremer, P. Eline eSlagboom, Bastiaan T Heijmans, Elmar Wouter Tobi
Format: Article
Language:English
Published: Frontiers Media S.A. 2015-09-01
Series:Frontiers in Genetics
Subjects:
DNA Methylation
Mass Spectrometry
Quality control
MALDI-TOF MS
protocol
Data handling
Online Access:http://journal.frontiersin.org/Journal/10.3389/fgene.2015.00287/full
Description
Summary:EpiTYPER® is a mass spectrometry-based bisulfite sequencing method that enables region-specific DNA methylation analysis in a quantitative and high-throughput fashion. The technology targets genomic regions of 100-600 base pairs and results in the quantitative measurement of DNA methylation levels largely at single-nucleotide resolution. It is particularly suitable for larger scale efforts to study candidate regions or to validate regions from genome-wide DNA methylation studies. Here, we describe in detail how to design and perform EpiTYPER measurements and preprocess the data, providing details for high quality measurements not provided in the standard EpiTYPER protocol.
ISSN:1664-8021

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