Chromatin protocols / edited by Srikumar P. Chellappan. — 2nd ed. — Totowa, N.J. : Humana, c2009. – (58.17/M592/v.523)

Contents

    Contents
    
    1 Preparation of Chromatin Assembly Extracts from Preblastoderm Drosophila Embryos
    2 Analysis of Reconstituted Chromatin Using a Solid-Phase Approach
    3 In Vivo Chromatin Decondensation Assays: Molecular Genetic Analysis of Chromatin Unfolding Characteristics of Selected Proteins 27
    4 DNA Methyltransferase Probing of Chromatin Structure Within Populations and on Single Molecules 41
    5 Visualization of the Expression of HMGN Nucleosomal Binding Proteins in the Developing Mouse Embryo and in Adult Mouse Tissues 67
    6 Drug-Induced Premature Chromosome Condensation (PCC) Protocols: Cytogenetic Approaches in Mitotic Chromosome and Interphase Chromatin
    7 Analysis of DNA Topology in Yeast Chromatin
    8 Preparation and Analysis of Uniquely Positioned Mononucleosomes 109
    9 Monitoring DNA Breaks in Optically Highlighted Chromatin in Living Cells by Laser Scanning Confocal Microscopy 125
    10 Methods to Study Transcription-Coupled Repair in Chromatin 141
    11 Cytometric Analysis of DNA Damage: Phosphorylation of Histone H2AX as a Marker of DNA Double-Strand Breaks (DSBs)
    12 Detection of DNA Damage Induccd by Topoisomerase II Inhibitors， Gamma Radiation and Crosslinking Agents Using the Comet Assay ? 69
    13 Analysis of Genomic Aberrations Using Comparative Genomic Hybridization of Metaphase Chromosomes
    14 In Vitro Replication Assay with Mammalian Cell Extracts
    15 Investigation of Genomic Methylation Status Using Methylation-Specific and Bisulfite Sequencing Polymerase Chain Reaction 217
    16 Biochemical Analysis of Arginine Methylation in Transcription
    17 In Vitro Histone Demethylase Assays
    18 Histone Chaperone as Coactivator of Chromatin Transcription: Role of Acetylation 263
    19 Histone Deacetylase Activity Assay
    20 In Vitro and In Vivo Assays for Studying Histone Ubiquitination and Deubiquitination
    21 Detection of Histone H3 Phosphorylation in Cultured Cells and Tissue Sections by Immunostaining
    22 Chromatin Immunoprecipitation Assays: Analyzing Transcription Factor Binding and Histone Modifications In Vivo 323
    23 ChIP on Chip Assays: Genome-Wide Analysis of Transcription Factor Binding and Histone Modifications 341
    24 ChiP-on-Chip Analysis Methods for Affymetrix Tiling Arrays
    25 Non-Radioactive Assay Methods for the Assessment of Telomerase Activity and Telomere Length 383
    26 Detecting ATM-Dependent Chromatin Modification in DNA Damage and Heat Shock Response 395
    Index