Epigenetics protocols / edited by Trygve O. Tollefsbol. — 2nd ed. — New York : Humana Press, c2011. – (58.17/M592/v.791) |
Contents
CONTENTS
Preface
Contributors
1 Advances in Epigenetic Technology
2 DNA Methylation Detection: Bisulfite Genomic Sequencing Analysis 11
3 Methylation-Specific PCR 23
4 Analysing DNA Methylation Using Bisulphite Pyrosequencing 33
5 Closed-Tube PCR Methods for Locus-Specific DNA Methylation Analysis 55
6 A Combined Bisulfite Restriction Analysis Bioinformatics Tool: Methyl-Typing
7 SIRPH: An HPLC-Based SNuPE for Quantitative Methylation Measurement at Specific CpG Sites 89
8 Restriction Landmark Genome Scanning 101
9 Methylated DNA Immunoprecipitation Genome-Wide Analysis 113
10 Methylated-CpG Island Recovery Assay 125
11 Global DNA Methylation Analysis Using the Luminometric Methylation Assay 135
12 Inhibition of DNA Methylation in Somatic Cells
13 DNA Methyltransferase Assays
14 A Chromatin Immunoprecipitation Protocol for Small Cell Numbers
15 Native Chromatin Immunoprecipitation
16 Q-PCR in Combination with ChIP Assays to Detect Changes in Chromatin Acetylation
17 Sequential Chromatin Immunoprecipitation Assay and Analysis
18 Combined Chromatin Immunoprecipitation and Bisulfite Methylation Sequencing Analysis
19 Studying RNA-Protein Interactions In Vivo By RNA Immunoprecipitation
20 Using ChIP-Seq Technology to Generate High-Resolution Profiles of Histone Modifications
21 Mapping Open Chromatin with Formaldehyde-Assisted Isolation of Regulatory Elements
22 Inhibition of Histone Deacetylases
23 Computational Methods for Epigenetic Analysis: The Protocol of Computational Analysis for Modified Methylation-Specific Digital Karyotyping Based on Massively Parallel Sequencing 313
Index 329