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