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Nat Commun DOI:10.1038/ncomms3672

Semiconductor-based DNA sequencing of histone modification states.

Publication TypeJournal Article
Year of Publication2013
AuthorsCheng, CS, Rai, K, Garber, M, Hollinger, A, Robbins, D, Anderson, S, Macbeth, A, Tzou, A, Carneiro, MO, Raychowdhury, R, Russ, C, Hacohen, N, Gershenwald, JE, Lennon, N, Nusbaum, C, Chin, L, Regev, A, Amit, I
JournalNat Commun
Volume4
Pages2672
Date Published2013
ISSN2041-1723
KeywordsAnimals, Chromatin, Chromatin Immunoprecipitation, Dendritic Cells, Epigenesis, Genetic, Female, Genome, Human, Histones, Humans, Melanoma, Mice, Mice, Inbred C57BL, Protein Processing, Post-Translational, Semiconductors, Sequence Analysis, DNA, Skin Neoplasms
Abstract

The recent development of a semiconductor-based, non-optical DNA sequencing technology promises scalable, low-cost and rapid sequence data production. The technology has previously been applied mainly to genomic sequencing and targeted re-sequencing. Here we demonstrate the utility of Ion Torrent semiconductor-based sequencing for sensitive, efficient and rapid chromatin immunoprecipitation followed by sequencing (ChIP-seq) through the application of sample preparation methods that are optimized for ChIP-seq on the Ion Torrent platform. We leverage this method for epigenetic profiling of tumour tissues.

URLhttp://dx.doi.org/10.1038/ncomms3672
DOI10.1038/ncomms3672
Pubmed

http://www.ncbi.nlm.nih.gov/pubmed/24157732?dopt=Abstract

Alternate JournalNat Commun
PubMed ID24157732
PubMed Central IDPMC3917140
Grant ListU54 HG003067 / HG / NHGRI NIH HHS / United States
P30 DK043351 / DK / NIDDK NIH HHS / United States
U01 CA1411508 / CA / NCI NIH HHS / United States
F32 CA168253 / CA / NCI NIH HHS / United States
U54HG003067 / HG / NHGRI NIH HHS / United States
DP1OD003958-01 / OD / NIH HHS / United States
R01 CA093947 / CA / NCI NIH HHS / United States
/ / Howard Hughes Medical Institute / United States
P50 HG006193 / HG / NHGRI NIH HHS / United States
1P50HG006193-01 / HG / NHGRI NIH HHS / United States
P50 CA093459 / CA / NCI NIH HHS / United States
U01 CA141508 / CA / NCI NIH HHS / United States
R01 CA93947 / CA / NCI NIH HHS / United States
DP1 OD003958 / OD / NIH HHS / United States