In this book, researchers deeply involved in the development and improvement of chromatin immunoprecipitation assays (ChIP) provid...
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In this book, researchers deeply involved in the development and improvement of chromatin immunoprecipitation assays (ChIP) provide cutting-edge protocols devoted to the most recent progress in ChIP and related subjects.
Over the past twenty years, the development of chromatin immunoprecipitation, or ChIP, assays has immensely enhanced the biological significance of the multifaceted DNA-binding proteins. In Chromatin Immunoprecipitation Assays: Methods and Protocols, researchers deeply involved in the development and improvement of the field provide cutting-edge protocols devoted to the most recent progress in ChIP and related subjects. The thorough chapters involve topics such as the characterization of ChIP antibodies, ChIP methods for small cell numbers, fast ChIP protocols, assays adapted to various species and cell types, as well as several strategies for the analysis of genome-wide datasets, while also extending a bit beyond ChIP assays to cover immunoprecipitation-based DNA methylation analyses, determination of spatial chromatin organization of large genomic regions, and RNA immunoprecipitation. Written in the highly successful Methods in Molecular Biology™ series format, chapters contain brief introductions to their respective subjects, lists of the necessary materials and reagents, step-by-step, readily reproducible laboratory protocols, and notes on troubleshooting and avoiding known pitfalls. Authoritative and easy-to-use, Chromatin Immunoprecipitation Assays: Methods and Protocols is a timely guide for all those who wish to further the development of this powerful tool and continue delving into the incredible complexity of the cell's biology.
Provides an up-to-date reference volume for chromatin immunoprecipitation assays written by leading researchers in the field Delivers easily accessible and thoroughly tested bench protocols Covers a wide range of biological systems, species and state-of-the-art approaches to analyses A comprehensive guide to developing, running and analyzing chromatin immunoprecipitation-based assays for the study of protein-DNA interactions Includes supplementary material: sn.pub/extras Inhalt 1. The State-of-the-Art of Chromatin Immunoprecipitation Philippe Collas 2. Characterization and Quality Control of Antibodies Used in ChIP Assays Géraldine Goens, Dorina Rusu, Laurent Bultot, Jean-Jacques Goval, and Juana Magdalena 3. The Fast Chromatin Immunoprecipitation Method Joel Nelson, Oleg Denisenko, and Karol Bomsztyk 4. µChIP: Chromatin Immunoprecipitation for Small Cell Numbers John Arne Dahl and Philippe Collas 5. Fish'n ChIPs: Chromatin Immunoprecipitation in the Zebrafish Embryo Leif C. Lindeman, Linn T. Vogt-Kielland, Peter Aleström, and Philippe Collas 6. Epitope Tagging of Endogenous Proteins for Genome-Wide Chromatin Immunoprecipitation Analysis Zhenghe Wang 7. Flow Cytometric and Laser Scanning Microscopic Approaches in Epigenetics Research Lorant Szekvolgyi, Laszlo Imre, Doan Xuan Quang Minh, Eva Hegedus, Zsolt Bacso, and Gabor Szabo 8. Serial Analysis of Binding Elements for Transcription Factors Jiguo Chen 9. Modeling and Analysis of ChIP-Chip Experiments Raphael Gottardo 10. Use of SNP Arrays for ChIP Assays: Computational Aspects Enrique M. Muro, Jennifer A. McCann Michael A. Rudnicki, and Miguel A. Andrade-Navarro 11. DamID: A Methylation-Based Chromatin Profiling Approach Mona Abed, Dorit Kenyagin-Karsenti, Olga Boico, and Amir Orian 12. Chromosome Conformation Capture (from 3C to 5C) and Its ChIP-Based Modification Alexey Gavrilov, Elvira Eivazova, Iryna Priozhkova, Marc Lipinski, Sergey Razin, and Yegor Vassetzky 13. Determining Spatial Chromatin Organization of Large Genomic Regions Using 5C Technology Nynke L. van Berkum and Job Dekker 14. Analysis of Nascent RNA Transcripts by Chromatin RNA Immunoprecipitation Ales Obrdlik andPiergiorgio Percipalle 15. Methyl DNA Immunoprecipitation Jean Jacques Goval and Juana Magdalena 16. Immunoprecipitation of Methylated DNA Anita L. Sørensen and Philippe Collas