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Chromatin Immunoprecipitation

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Cover of 'Chromatin Immunoprecipitation'

Table of Contents

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    Book Overview
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    Chapter 1 ChIP and ChIP-Related Techniques: Expanding the Fields of Application and Improving ChIP Performance
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    Chapter 2 Considerations on Experimental Design and Data Analysis of Chromatin Immunoprecipitation Experiments
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    Chapter 3 How to Combine ChIP with qPCR
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    Chapter 4 Analysis of Protein–DNA Interaction by Chromatin Immunoprecipitation and DNA Tiling Microarray (ChIP-on-chip)
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    Chapter 5 Chromatin Immunoprecipitation from Mouse Embryonic Tissue or Adherent Cells in Culture, Followed by Next-Generation Sequencing
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    Chapter 6 Chromatin RNA Immunoprecipitation (ChRIP)
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    Chapter 7 DNA Accessibility by MNase Digestions
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    Chapter 8 Characterization of the Nucleosome Landscape by Micrococcal Nuclease-Sequencing (MNase-seq)
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    Chapter 9 ChIP-re-ChIP: Co-occupancy Analysis by Sequential Chromatin Immunoprecipitation
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    Chapter 10 Sm-ChIPi: Single-Molecule Chromatin Immunoprecipitation Imaging
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    Chapter 11 Chromatin Immunoprecipitation of Skeletal Muscle Tissue
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    Chapter 12 Chromatin Immunoprecipitation Assay in the Hyperthermoacidophilic Crenarchaeon, Sulfolobus acidocaldarius
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    Chapter 13 Using Intra-ChIP to Measure Protein–DNA Interactions in Intracellular Pathogens
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    Chapter 14 Native Chromatin Immunoprecipitation-Sequencing (ChIP-Seq) from Low Cell Numbers
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    Chapter 15 MOBE-ChIP: Probing Cell Type-Specific Binding Through Large-Scale Chromatin Immunoprecipitation
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    Chapter 16 Multiplexed ChIP-Seq Using Direct Nucleosome Barcoding: A Tool for High-Throughput Chromatin Analysis
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    Chapter 17 Analysis of ChIP-seq Data in R/Bioconductor
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    Chapter 18 Spike-In Normalization of ChIP Data Using DNA–DIG–Antibody Complex
Attention for Chapter 11: Chromatin Immunoprecipitation of Skeletal Muscle Tissue
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Chapter title
Chromatin Immunoprecipitation of Skeletal Muscle Tissue
Chapter number 11
Book title
Chromatin Immunoprecipitation
Published in
Methods in molecular biology, January 2018
DOI 10.1007/978-1-4939-7380-4_11
Pubmed ID
Book ISBNs
978-1-4939-7379-8, 978-1-4939-7380-4
Authors

Amarjit Saini, Carl Johan Sundberg

Abstract

Chromatin immunoprecipitation (ChIP) is an invaluable method for studying interactions between histone proteins and genomic DNA regions and transcriptional regulation using antibodies to enrich genomic regions associated with these epitopes. Either to monitor the presence of histones with post-translational modifications at specific genomic locations or to measure transcription factor interactions with a candidate target gene, protein-DNA complexes are most commonly crosslinked using formaldehyde, which stabilizes these transient interactions. Chromatin is then fragmented to allow separation of genomic fragments bound by the histone or transcription factor of interest away from those that are unbound. Following immunoprecipitation, formaldehyde crosslinks are reversed and enriched DNA fragments are purified. While some investigators have successfully performed ChIP experiments from crosslinked skeletal muscle in cell culture, the process is relatively inefficient compared to whole tissue. This chapter provides protocols specifically designed for the crosslinking and immunoprecipitation of human skeletal muscle biopsy samples in preparation for chromatin immunoprecipitation-sequencing (ChIP-seq).

Mendeley readers

Mendeley readers

The data shown below were compiled from readership statistics for 8 Mendeley readers of this research output. Click here to see the associated Mendeley record.

Geographical breakdown

Country Count As %
Unknown 8 100%

Demographic breakdown

Readers by professional status Count As %
Student > Ph. D. Student 2 25%
Professor > Associate Professor 2 25%
Unspecified 1 13%
Student > Bachelor 1 13%
Unknown 2 25%
Readers by discipline Count As %
Biochemistry, Genetics and Molecular Biology 3 38%
Unspecified 1 13%
Chemistry 1 13%
Engineering 1 13%
Unknown 2 25%