The state-of-the-art methods collected here are designed to analyze the relationship between chromatin structure and function, and to elucidate the molecular mechanisms that control such vital cellular functions as transcription, replication, recombination, and DNA repair. These proven methods cover a wide range of topics, from powerful cell-free systems for the reconstitution of chromatin heterogeneity in vitro, to both classical and cutting-edge techniques for in vivo analysis of protein-DNA interactions. Each method includes detailed step-by-step instructions to ensure successful replication along with helpful notes about how to avoid pitfalls. All authors are leading scientists, well known for their methodological expertise in the chromatin research.
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"Laboratories working with chromatin or concerned with mammalian gene expression in context will profit from the focus in this volume."-Doody's Health Science Book Review Journal
"Chromatin Protocols represents an exhaustive collection (over 500 pages) of back-ground information and protocols to investigate various aspects of chromatin structure and function....The breadth of the topics covered makes Chromatin Protocols appealing to most cell biologists and a must for specialists in the field....the range and richness of the protocols treated make this volume a valuable reference...Your lab should definitely get it and your library should get it, as the book will certainly remain up to date in the years to come."-Cell Biology International
Expression and Purification of Recombinant Histones and Nucleosome Reconstitution, Karolin Luger, Thomas J. Rechsteiner, and Timothy J. Richmond. Preparation and Analysis of Positioned Nucleosomes, Vasily M. Studitsky. Site-Directed Chemical Probing of Histone-DNA Interactions, David R. Chafin, Kyu-Min Lee, and Jeffrey J. Hayes. Base-Pair Resolution Mapping of Nucleosomes In Vitro, Andrew Flaus and Timothy J. Richmond. Equilibrium and Dynamic Nucleosome Stability, Jonathan Widom. Nucleosome Structure and Dynamics: The DNA Minicircle Approach, Ariel Prunell, Mohamed Alilat, and Filomena De Lucia. Analysis of Linker Histone Binding to Mono- and Dinucleosomes, Simon Chandler and Alan P. Wolffe. Quantitative Analysis of Chromatin Higher-Order Organization Using Agarose Gel Electrophoresis, Jeffrey C. Hansen, Terace M. Fletcher, and J. Isabelle Kreider. Analytical Ultracentrifugation of Chromatin, Jeffrey C. Hansen and Cynthia L. Turgeon. Analysis of Chromatin by Scanning Force Microscopy, Sanford H. Leuba and Carlos Bustamante. In Vivo Mapping of Nucleosomes Using Psoralen-DNA Crosslinking and Primer Extension, Ralf Erik Wellinger, Renzo Lucchini, Reinhard Dammann, and José M. Sogo. Preparation of Chromatin Assembly Extracts from Xenopus Oocytes, David John Tremethick. Preparation of Chromatin Assembly Extracts from Preblastoderm Drosophila Embryos, Edgar Bonte and Peter B. Becker. A Solid-Phase Approach for the Analysis of Reconstituted Chromatin, Raphael Sandaltzopoulos and Peter B. Becker. Reconstitution and Analysis of Hyperacetylated Chromatin, Wladyslaw A. Krajewski and Peter B. Becker. Assembly of Mitotic Chromosomes in Xenopus Egg Extract, Anne-Elisabeth De la Barre, Michel Robert-Nicoud, and Stefan Dimitrov. Nucleotide Excision Repair Coupled to Chromatin Assembly, Pierre-Henri Gaillard, Danièle Roche, and Geneviève Almouzni. Photolyase: A Molecular Tool To Characterize Chromatin Structure in Yeast, Magdalena Livingstone-Zatchej, Bernhard Suter, and Fritz Thoma. Transcriptional and Structural Analyses of Isolated SV40 Chromatin, Ulla Hansen. In Vitro Replication of Chromatin Templates, Claudia Gruss. Analysis of HMG-14/-17-Containing Chromatin, Yuri V. Postnikov and Michael Bustin. Identification and Analysis of Native Nucleosomal Histone Acetyltransferase Complexes, Patrick A. Grant, Shelley L. Berger, and Jerry L. Workman. Analysis of Nucleosome Disruption by ATP-Driven Chromatin Remodeling Complexes, Tom Owen-Hughes, Rhea T. Utley, David J. Steger, Joshua M. West, Sam John, Jacques Côté, Kristina M. Havas, and Jerry L. Workman. Nucleosome Remodeling Factor NURF and In Vitro Transcription of Chromatin, Gaku Mizuguchi and Carl Wu. An SDS-PAGE-Based Enzyme Activity Assay for the Detection and Identification of Histone Acetyltransferases, James E. Brownell, Craig A. Mizzen, and C. David Allis. Analysis of DNaseI Hypersensitive Sites in Chromatin by Cleavage in Permeabilized Cells, Rein Aasland and A. Francis Stewart. Mapping of Nucleosome Positions in Yeast, Magdalena Livingstone-Zatchej and Fritz Thoma. Analysis of DNA Topology in Yeast Chromatin, Randall H. Morse. DNA Methyltransferases as Probes for Chromatin Structure in Yeast, Michael P. Kladde, Mai Xu, and Robert T. Simpson. Restriction Nucleases as Probes for Chromatin Structure, Philip D. Gregory, Slobodan Barbaric, and Wolfram Hörz. Genomic Footprinting Using Nucleases, Luca Cappabianca, Hélène Thomassin, Raymond Pictet, and Thierry Grange. In Situ Analysis of Chromatin Proteins During Development and Cell Differentiation Using Flow Cytometry, Didier Grunwald, Claude Gorka, Sandrine Curtet, and Saadi Khochbin. Mapping DNA Target Sites of Chromatin Proteins in Vivo by Formaldehyde Crosslinking, Helen Strutt and Renato Paro. Mapping DNA Interaction Sites of Chromosomal Proteins: Crosslinking Studies in Yeast, Andreas Hecht, Sabine Strahl-Bolsinger, and Michael Grunstein. UV Laser Footprinting and Protein-DNA Crosslinking: Application to Chromatin, Dimitri Angelov, Saadi Khochbin, and Stefan Dimitrov. An In Vivo Crosslinking Assay That Detects DNA Binding by Sequence-Specific Transcription Factors, Alan Carr and Mark D. Biggin. Index.
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