An integrated and semi-automated micro-scaled approach to profile cis-regulatory elements by histone modification ChIP-Seq for large-scale epigenetic studies
An integrated and semi-automated micro-scaled approach to profile cis-regulatory elements by histone modification ChIP-Seq for large-scale epigenetic studies
Chromatin immunoprecipitation followed by sequencing (ChIP-Seq) is the preferred approach to map histone modifications and identify cis-regulatory DNA elements throughout the genome. Multiple methods have been described to increase the efficiency of library preparation and to reduce hands-on time as well as costs. This review describes detailed steps to perform cell fixation, chromatin shearing, immunoprecipitation, and sequencing library preparation for a batch of 48-96 samples with small cell numbers. The protocol implements a semiautomated platform to reduce technical variability and improve signal-to-noise ratio as well as reduce hands-on time, thus allowing large-scale epigenetic studies of clinical samples with limited cell numbers.
Journal Article
303-326
Youhanna Jankeel, Diana
42b41b49-9285-4638-9d90-623676bc2d7f
Cayford, Justin
11060511-cd03-4dc0-b450-ff711200f4ef
Schmiedel, Benjamin Joachim
ba8ead04-6642-48b4-b4a6-b96910e17fab
Vijayanand, Pandurangan
79514f33-66cf-47cc-a8fa-46bbfc21b7d1
Seumois, Grégory
0be7d3d6-5526-458c-aa5c-cce52410a2ed
2018
Youhanna Jankeel, Diana
42b41b49-9285-4638-9d90-623676bc2d7f
Cayford, Justin
11060511-cd03-4dc0-b450-ff711200f4ef
Schmiedel, Benjamin Joachim
ba8ead04-6642-48b4-b4a6-b96910e17fab
Vijayanand, Pandurangan
79514f33-66cf-47cc-a8fa-46bbfc21b7d1
Seumois, Grégory
0be7d3d6-5526-458c-aa5c-cce52410a2ed
Youhanna Jankeel, Diana, Cayford, Justin, Schmiedel, Benjamin Joachim, Vijayanand, Pandurangan and Seumois, Grégory
(2018)
An integrated and semi-automated micro-scaled approach to profile cis-regulatory elements by histone modification ChIP-Seq for large-scale epigenetic studies.
In,
Reinhardt, R.
(ed.)
Type 2 Immunity.
(Methods in Molecular Biology, 1799)
New York, NY.
Humana Press, .
(doi:10.1007/978-1-4939-7896-0_22).
Record type:
Book Section
Abstract
Chromatin immunoprecipitation followed by sequencing (ChIP-Seq) is the preferred approach to map histone modifications and identify cis-regulatory DNA elements throughout the genome. Multiple methods have been described to increase the efficiency of library preparation and to reduce hands-on time as well as costs. This review describes detailed steps to perform cell fixation, chromatin shearing, immunoprecipitation, and sequencing library preparation for a batch of 48-96 samples with small cell numbers. The protocol implements a semiautomated platform to reduce technical variability and improve signal-to-noise ratio as well as reduce hands-on time, thus allowing large-scale epigenetic studies of clinical samples with limited cell numbers.
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Seumois EDIT #2_final_19SEP17
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e-pub ahead of print date: 29 June 2018
Published date: 2018
Keywords:
Journal Article
Identifiers
Local EPrints ID: 424692
URI: http://eprints.soton.ac.uk/id/eprint/424692
ISSN: 1064-3745
PURE UUID: d5173cc9-4459-4cc3-a45c-2a08354ffdc6
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Date deposited: 05 Oct 2018 11:40
Last modified: 16 Mar 2024 07:00
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Contributors
Author:
Diana Youhanna Jankeel
Author:
Justin Cayford
Author:
Benjamin Joachim Schmiedel
Author:
Pandurangan Vijayanand
Author:
Grégory Seumois
Editor:
R. Reinhardt
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