NDLI: Pipeline for Large-Scale Microdroplet Bisulfite PCR-Based Sequencing Allows the Tracking of Hepitype Evolution in Tumors

Content Provider	PubMed Central
Author	Herrmann, Alexander Haake, Andrea Ole, Ammerpohl Martin-guerrero, Idoia Szafranski, Karol Stemshorn, Kathryn Nothnagel, Michael Kotsopoulos, Steve K. Richter, Julia Warner, Jason Olson, Jeff Link, Darren R. Schreiber, Stefan Krawczak, Michael Platzer, Matthias Nürnberg, Peter Siebert, Reiner Hampe, Jochen
Editor	Tao, Qian
Copyright Year	2011
Abstract	Cytosine methylation provides an epigenetic level of cellular plasticity that is important for development, differentiation and cancerogenesis. We adopted microdroplet PCR to bisulfite treated target DNA in combination with second generation sequencing to simultaneously assess DNA sequence and methylation. We show measurement of methylation status in a wide range of target sequences (total 34 kb) with an average coverage of 95% (median 100%) and good correlation to the opposite strand (rho = 0.96) and to pyrosequencing (rho = 0.87). Data from lymphoma and colorectal cancer samples for SNRPN (imprinted gene), FGF6 (demethylated in the cancer samples) and HS3ST2 (methylated in the cancer samples) serve as a proof of principle showing the integration of SNP data and phased DNA-methylation information into “hepitypes” and thus the analysis of DNA methylation phylogeny in the somatic evolution of cancer.
Related Links	http://dx.doi.org/10.1371/journal.pone.0021332
Starting Page	21332
File Format	PDF
ISSN	19326203
e-ISSN	19326203
Journal	PLoS ONE
Issue Number	7
Volume Number	6
Language	English
Publisher	Public Library of Science
Publisher Date	2011-07-01
Access Restriction	Open
Rights Holder	Public Library of Science
Subject Keyword	Biochemistry, Genetics and Molecular Biology(all) Agricultural and Biological Sciences(all) Medicine(all) Research in Higher Education
Content Type	Text
Resource Type	Article
Subject	Multidisciplinary

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