DNA-Protein Interactions : Principles and Protocols - Leblanc, Benoît P.; Rodrigue, Sébastien.; SpringerLink (Online service) (New York, NY : Springer New York : Imprint: Humana, 2015)
Electrophoretic Mobility Shift Assay Using Radiolabeled DNA Probes -- In Vitro DNase I Footprinting -- Determining the Architecture of a Protein/DNA Complex by Combining FeBABE Cleavage Analyses, 3-D Printed Structures, and the ICM Molsoft Program -- In Cellulo DNA Analysis: LMPCR Footprinting -- Southwestern Blotting Assay -- Single-Molecule Approaches for the Characterization of Riboswitch Folding Mechanisms -- Probing of Nascent Riboswitch Transcripts -- Functional Studies of DNA-Protein Interactions Using FRET Techniques -- Precise Identification of Genome-Wide Transcription Start Sites in Bacteria by 5' Rapid Amplification of cDNA Ends (5'-RACE) -- Analysis of DNA Supercoiling Induced by DNA-Protein Interactions -- Precise Identification of DNA-Binding Proteins Genomic Location by Exonuclease Coupled Chromatin Immunoprecipitation (ChIP-exo) -- The Cruciform DNA Mobility Shift Assay: A Tool to Study Proteins that Recognize Bent DNA -- Individual and Sequential Chromatin Immunoprecipitation Protocols -- Chromatin Endogenous Cleavage (ChEC) as a Method to Quantify Protein Interaction with Genomic DNA in Saccharomyces cerevisiae -- Selection and Validation of Spacer Sequences for CRISPR-Cas9 Genome Editing and Transcription Regulation in Bacteria -- Detection of Short-Range DNA Interactions in Mammalian Cells Using High-Resolution Circular Chromosome Conformation Capture Coupled to Deep Sequencing -- Global Mapping of Open Chromatin Regulatory Elements by Formaldehyde-Assisted Isolation of Regulatory Elements Followed by Sequencing (FAIRE-seq) -- Aggregate and Heatmap Representations of Genome-Wide Localization Data Using VAP, a Versatile Aggregate Profiler -- Circular Dichroism for the Analysis of Protein-DNA Interactions -- Quantitative Investigation of Protein-Nucleic Acid Interactions by Biosensor Surface Plasmon Resonance -- Identification of Nucleic Acid High Affinity Binding Sequences of Proteins by SELEX.
Keywords: Human genetics; Proteomics; Human Genetics; Proteomics