Genome-scale DNA methylation mapping of clinical samples at single-nucleotide resolution.

Nat Methods

Authors	Hongcang Gu Christoph Bock Tarjei Mikkelsen Natalie Jäger Zachary Smith Eleni Tomazou Andreas Gnirke Eric Lander Alexander Meissner
Keywords	Humans Base Sequence Reproducibility of Results Sensitivity and Specificity Molecular Sequence Data DNA Methylation Chromosome Mapping Genetic Testing DNA, Neoplasm Colonic Neoplasms Nucleotides
Abstract	Bisulfite sequencing measures absolute levels of DNA methylation at single-nucleotide resolution, providing a robust platform for molecular diagnostics. We optimized bisulfite sequencing for genome-scale analysis of clinical samples: here we outline how restriction digestion targets bisulfite sequencing to hotspots of epigenetic regulation and describe a statistical method for assessing significance of altered DNA methylation patterns. Thirty nanograms of DNA was sufficient for genome-scale analysis and our protocol worked well on formalin-fixed, paraffin-embedded samples.
Year of Publication	2010
Journal	Nat Methods
Volume	7
Issue	2
Pages	133-6
Date Published	2010 Feb
ISSN	1548-7105
URL	http://dx.doi.org/10.1038/nmeth.1414
DOI	10.1038/nmeth.1414
PubMed ID	20062050
PubMed Central ID	PMC2860480
Links	PubMed DOI Google Scholar
Grant list	R01 HG004401 / HG / NHGRI NIH HHS / United States U54 HG003067 / HG / NHGRI NIH HHS / United States R01 HG004401-03 / HG / NHGRI NIH HHS / United States U01ES017155 / ES / NIEHS NIH HHS / United States R01HG004401 / HG / NHGRI NIH HHS / United States U54HG03067 / HG / NHGRI NIH HHS / United States U01 ES017155-02 / ES / NIEHS NIH HHS / United States U01 ES017155 / ES / NIEHS NIH HHS / United States U54 HG003067-08 / HG / NHGRI NIH HHS / United States