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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Autores principales: Suchiman, H. Eka D., Slieker, Roderick C., Kremer, Dennis, Slagboom, P. Eline, Heijmans, Bastiaan T., Tobi, Elmar W.
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Frontiers Media S.A. 2015
Materias:
Genetics
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4585020/
https://www.ncbi.nlm.nih.gov/pubmed/26442105
http://dx.doi.org/10.3389/fgene.2015.00287
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author Suchiman, H. Eka D.
Slieker, Roderick C.
Kremer, Dennis
Slagboom, P. Eline
Heijmans, Bastiaan T.
Tobi, Elmar W.
author_facet Suchiman, H. Eka D.
Slieker, Roderick C.
Kremer, Dennis
Slagboom, P. Eline
Heijmans, Bastiaan T.
Tobi, Elmar W.
author_sort Suchiman, H. Eka D.
collection PubMed
description 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.
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spelling pubmed-45850202015-10-05 Design, measurement and processing of region-specific DNA methylation assays: the mass spectrometry-based method EpiTYPER Suchiman, H. Eka D. Slieker, Roderick C. Kremer, Dennis Slagboom, P. Eline Heijmans, Bastiaan T. Tobi, Elmar W. Front Genet Genetics 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. Frontiers Media S.A. 2015-09-17 /pmc/articles/PMC4585020/ /pubmed/26442105 http://dx.doi.org/10.3389/fgene.2015.00287 Text en Copyright © 2015 Suchiman, Slieker, Kremer, Slagboom, Heijmans and Tobi. http://creativecommons.org/licenses/by/4.0/ This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) or licensor are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.
spellingShingle Genetics
Suchiman, H. Eka D.
Slieker, Roderick C.
Kremer, Dennis
Slagboom, P. Eline
Heijmans, Bastiaan T.
Tobi, Elmar W.
Design, measurement and processing of region-specific DNA methylation assays: the mass spectrometry-based method EpiTYPER
title Design, measurement and processing of region-specific DNA methylation assays: the mass spectrometry-based method EpiTYPER
title_full Design, measurement and processing of region-specific DNA methylation assays: the mass spectrometry-based method EpiTYPER
title_fullStr Design, measurement and processing of region-specific DNA methylation assays: the mass spectrometry-based method EpiTYPER
title_full_unstemmed Design, measurement and processing of region-specific DNA methylation assays: the mass spectrometry-based method EpiTYPER
title_short Design, measurement and processing of region-specific DNA methylation assays: the mass spectrometry-based method EpiTYPER
title_sort design, measurement and processing of region-specific dna methylation assays: the mass spectrometry-based method epityper
topic Genetics
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4585020/
https://www.ncbi.nlm.nih.gov/pubmed/26442105
http://dx.doi.org/10.3389/fgene.2015.00287
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