DNA-Protein Interactions (4th Ed., Softcover reprint of the original 4th ed. 2015) Principles and Protocols Methods in Molecular Biology Series, Vol. 1334
Coordonnateurs : Leblanc Benoît P., Rodrigue Sébastien
This fourth edition reflects the most recent technical advances in DNA-protein interaction research. With fully updated chapters that describe techniques proven by their continuous value, the volume also many new chapters have been added that mostly deal with larger-scale experiments, reflecting recent advances in "big biology", combining to offer a very useful compendium of protocols allowing readers to delve into the intricacies of protein-DNA interaction at levels ranging from the very small (as in the case of single-molecule FRET) to the very complex (as with circular chromatin conformation capture or 4C). Written for the highly successful Methods in Molecular Biology series, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step, readily reproducible laboratory protocols and tips on troubleshooting and avoiding known pitfalls.
Authoritative and up-to-date, DNA-Protein Interactions: Principles and Protocols, Fourth Edition will aid researchers in continuing the incredible progress made in this vital area of study.
1. Electrophoretic Mobility Shift Assay Using Radiolabeled DNA Probes
Dominic Poulin-Laprade and Vincent Burrus
2. In Vitro DNase I Footprinting
Benoît P. Leblanc and Tom Moss
3. Determining the Architecture of a Protein/DNA Complex by Combining FeBABE Cleavage Analyses, 3-D Printed Structures, and the ICM Molsoft Program
Tamara James, Meng-Lun Hsieh, Leslie Knipling, and Deborah Hinton
4. In Cellulo DNA Analysis: LMPCR Footprinting
Régen Drouin, Nathalie Bastien, Jean-François Millau, François Vigneault, and Isabelle Paradis
5. Southwestern Blotting Assay
Yinshan Jia, Linda Nagore, and Harry Jarrett
6. Single-Molecule Approaches for the Characterization of Riboswitch Folding Mechanisms
Julien Boudreault, D. Cibran Perez-Gonzalez, J. Carlos Penedo, and Daniel A. Lafontaine
7. Probing of Nascent Riboswitch Transcripts
Adrien Chauvier and Daniel A. Lafontaine
8. Functional Studies of DNA-Protein Interactions Using FRET Techniques
Simon Blouin, Timothy D. Craggs, Daniel A. Lafontaine, and J. Carlos Penedo
9. Precise Identification of Genome-Wide Transcription Start Sites in Bacteria by 5' Rapid Amplification of cDNA Ends (5'-RACE)
Dominick Matteau and Sébastien Rodrigue
10. Analysis of DNA Supercoiling Induced by DNA-Protein Interactions
David J. Clark and Benoît P. Leblanc
11. Precise Identification of DNA-Binding Proteins Genomic Location by Exonuclease Coupled Chromatin Immunoprecipitation (ChIP-exo)
Dominick Matteau and Sébastien Rodrigue
12. The Cruciform DNA Mobility Shift Assay: A Tool to Study Proteins that Recognize Bent DNA
Victor Y. Stefanovsky and Tom Moss
13. Individual and Sequential Chromatin Immunoprecipitation Protocols
Mayra Furlan-Magaril and Félix Recillas-Targa
14. Chromatin Endogenous Cleavage (ChEC) as a Method to Quantify Protein Interaction with Genomic DNA in Saccharomyces cerevisiae
Virginia Babl, Ulrike Stöckl, Herbert Tschochner, Philipp Milkereit, and Joachim Griesenbeck
15. Selection and Validation of Spacer Sequences for CRISPR-Cas9 Genome Editing and Transcription Regulation in Bacteria
Frédéric Grenier, Jean-François Lucier, and Sébastien Rodrigue
16. Detection of Short-Range DNA Interactions in Mammalian Cells Using High-Resolution Circular Chromosome Conformation Capture Coupled to Deep Sequencing
Jean-François Millau and Luc Gaudreau
17. Global Mapping of Open Chromatin Regulatory Elements by Formaldehyde-Assisted Isolation of Regulatory Elements Followed by Sequencing (FAIRE-seq)
Stéphanie Bianco, Sébastien Rodrigue, Bruce D. Murphy, and Nicolas Gévry
18. Aggregate and Heatmap Representations of Genome-Wide Localization Data Using VAP, a Versatile Aggregate Profiler
Mylène Brunelle, Charles Coulombe, Christian Poitras, Marc-Antoine Robert, Alexei Nordell Markovits, François Robert, and Pierre-Étienne Jacques
19. Circular Dichroism for the Analysis of Protein-DNA Interactions
Garry Scarlett, Giuliano Siligardi, and Geoffrey G. Kneale
20. Quantitative Investigation of Protein-Nucleic Acid Interactions by Biosensor Surface Plasmon Resonance
Shuo Wang, Gregory M.K. Poon, and W. David Wilson
21. Identification of Nucleic Acid High Affinity Binding Sequences of Proteins by SELEX
Philippe Bouvet
Includes fully updated, cutting-edge methods and protocols for studying protein-DNA interactions
Provides step-by-step detail essential for reproducible results
Contains key notes and implementation advice from the experts
Ouvrage de 347 p.
17.8x25.4 cm
Ouvrage de 347 p.
17.8x25.4 cm