Semiconductor-based DNA sequencing of histone modification states

Christine S. Cheng; Kunal Rai; Manuel Garber; Andrew Hollinger; Dana Robbins; Scott Anderson; Alyssa Macbeth; Austin Tzou; Mauricio O. Carneiro; Raktima Raychowdhury; Carsten Russ; Nir Hacohen; Jeffrey E. Gershenwald; Niall Lennon; Chad Nusbaum; Lynda Chin; Aviv Regev; Ido Amit

doi:10.1038/ncomms3672

Semiconductor-based DNA sequencing of histone modification states

Christine S. Cheng, Kunal Rai, Manuel Garber, Andrew Hollinger, Dana Robbins, Scott Anderson, Alyssa Macbeth, Austin Tzou, Mauricio O. Carneiro, Raktima Raychowdhury, Carsten Russ, Nir Hacohen, Jeffrey E. Gershenwald, Niall Lennon, Chad Nusbaum, Lynda Chin, Aviv Regev, Ido Amit

Department of Systems Immunology

Weizmann Institute of Science

Research output: Contribution to journal › Article › peer-review

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.

Original language	English
Article number	2672
Journal	Nature Communications
Volume	4
DOIs	https://doi.org/10.1038/ncomms3672
State	Published - 25 Oct 2013

All Science Journal Classification (ASJC) codes

General Chemistry
General Biochemistry,Genetics and Molecular Biology
General Physics and Astronomy

UN SDGs

This output contributes to the following UN Sustainable Development Goals (SDGs)

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10.1038/ncomms3672

Cite this

Cheng, C. S., Rai, K., Garber, M., Hollinger, A., Robbins, D., Anderson, S., Macbeth, A., Tzou, A., Carneiro, M. O., Raychowdhury, R., Russ, C., Hacohen, N., Gershenwald, J. E., Lennon, N., Nusbaum, C., Chin, L., Regev, A., & Amit, I. (2013). Semiconductor-based DNA sequencing of histone modification states. Nature Communications, 4, Article 2672. https://doi.org/10.1038/ncomms3672

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title = "Semiconductor-based DNA sequencing of histone modification states",

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.",

author = "Cheng, {Christine S.} and Kunal Rai and Manuel Garber and Andrew Hollinger and Dana Robbins and Scott Anderson and Alyssa Macbeth and Austin Tzou and Carneiro, {Mauricio O.} and Raktima Raychowdhury and Carsten Russ and Nir Hacohen and Gershenwald, {Jeffrey E.} and Niall Lennon and Chad Nusbaum and Lynda Chin and Aviv Regev and Ido Amit",

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doi = "10.1038/ncomms3672",

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T1 - Semiconductor-based DNA sequencing of histone modification states

AU - Cheng, Christine S.

AU - Rai, Kunal

AU - Garber, Manuel

AU - Hollinger, Andrew

AU - Robbins, Dana

AU - Anderson, Scott

AU - Macbeth, Alyssa

AU - Tzou, Austin

AU - Carneiro, Mauricio O.

AU - Raychowdhury, Raktima

AU - Russ, Carsten

AU - Hacohen, Nir

AU - Gershenwald, Jeffrey E.

AU - Lennon, Niall

AU - Nusbaum, Chad

AU - Chin, Lynda

AU - Regev, Aviv

AU - Amit, Ido

PY - 2013/10/25

Y1 - 2013/10/25

N2 - 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.

AB - 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.

UR - http://www.scopus.com/inward/record.url?scp=84901836907&partnerID=8YFLogxK

U2 - 10.1038/ncomms3672

DO - 10.1038/ncomms3672

M3 - مقالة

C2 - 24157732

SN - 2041-1723

VL - 4

JO - Nature Communications

JF - Nature Communications

M1 - 2672

ER -

Semiconductor-based DNA sequencing of histone modification states

Abstract

All Science Journal Classification (ASJC) codes

UN SDGs

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