Chromatin Protocols

Preparation of Chromatin Assembly Extracts from Preblastoderm Drosophila Embryos.- Analysis of Reconstituted Chromatin Using a Solid-Phase Approach.- In Vivo Chromatin Decondensation Assays: Molecular Genetic Analysis of Chromatin Unfolding Characteristics of Selected Proteins.- DNA Methyltransferase Probing of Chromatin Structure Within Populations and on Single Molecules.- Visualization of the Expression of HMGN Nucleosomal Binding Proteins in the Developing Mouse Embryo and in Adult Mouse Tissues.- Drug-Induced Premature Chromosome Condensation (PCC) Protocols: Cytogenetic Approaches in Mitotic Chromosome and Interphase Chromatin.- Analysis of DNA Topology in Yeast Chromatin.- Preparation and Analysis of Uniquely Positioned Mononucleosomes.- Monitoring DNA Breaks in Optically Highlighted Chromatin in Living Cells by Laser Scanning Confocal Microscopy.- Methods to Study Transcription-Coupled Repair in Chromatin.- Cytometric Analysis of DNA Damage: Phosphorylation of Histone H2AX as a Marker of DNA Double-Strand Breaks (DSBs).- Detection of DNA Damage Induced by Topoisomerase II Inhibitors, Gamma Radiation and Crosslinking Agents Using the Comet Assay.- Analysis of Genomic Aberrations Using Comparative Genomic Hybridization of Metaphase Chromosomes.- In Vitro Replication Assay with Mammalian Cell Extracts.- Investigation of Genomic Methylation Status Using Methylation-Specific and Bisulfite Sequencing Polymerase Chain Reaction.- Biochemical Analysis of Arginine Methylation in Transcription.- In Vitro Histone Demethylase Assays.- Histone Chaperone as Coactivator of Chromatin Transcription: Role of Acetylation.- Histone Deacetylase Activity Assay.- In Vitro and In Vivo Assays for Studying Histone Ubiquitination and Deubiquitination.- Detection of Histone H3 Phosphorylation in Cultured Cells and Tissue Sections by Immunostaining.- Chromatin Immunoprecipitation Assays: Analyzing Transcription Factor Binding and Histone Modifications In Vivo.- ChIP on Chip Assays: Genome-Wide Analysis of Transcription Factor Binding and Histone Modifications.- ChIP-on-Chip Analysis Methods for Affymetrix Tiling Arrays.- Non-Radioactive Assay Methods for the Assessment of Telomerase Activity and Telomere Length.- Detecting ATM-Dependent Chromatin Modification in DNA Damage and Heat Shock Response.

From the reviews of the second edition:

“This book contains a collection of detailed and useful procedures concerning chromatin analysis. It includes methods for the isolation and assembly of nucleosomes, the analysis of basic chromatin structure, the covalent modification of histones and the analysis of chromatin function. … In summary, this is a very useful text, with lots of strengths … .” (Ray Waters, Human Genetics, Vol. 126, 2009)