Gene Regulation

Methods and Protocols

Editors:

ISBN: 978-1-62703-283-4 (Print) 978-1-62703-284-1 (Online)

Table of contents (31 protocols)

previous Page of 2
  1. Front Matter

    Pages i-xv

  2. No Access

    Book Protocol

    Pages 1-11

    Gene Regulation

  3. No Access

    Book Protocol

    Pages 13-19

    Isolation of Nuclei for Use in Genome-Wide DNase Hypersensitivity Assays to Probe Chromatin Structure

  4. No Access

    Book Protocol

    Pages 21-33

    DNase I Digestion of Isolated Nulcei for Genome-Wide Mapping of DNase Hypersensitivity Sites in Chromatin

  5. No Access

    Book Protocol

    Pages 35-51

    Isolation and Analysis of DNA Derived from Nucleosome-Free Regions

  6. No Access

    Book Protocol

    Pages 53-64

    Acquisition of High Quality DNA for Massive Parallel Sequencing by In Vivo Chromatin Immunoprecipitation

  7. No Access

    Book Protocol

    Pages 65-78

    Luciferase Assay to Study the Activity of a Cloned Promoter DNA Fragment

  8. No Access

    Book Protocol

    Pages 79-93

    Promoter Deletion Analysis Using a Dual-Luciferase Reporter System

  9. No Access

    Book Protocol

    Pages 95-109

    Application of mRNA Display for In Vitro Selection of DNA-Binding Transcription Factor Complexes

  10. No Access

    Book Protocol

    Pages 111-124

    Isolation of Intracellular Protein – DNA Complexes Using HaloCHIP, an Antibody-Free Alternative to Chromatin Immunoprecipitation

  11. No Access

    Book Protocol

    Pages 125-136

    A Modified Yeast One-Hybrid System for Genome-Wide Identification of Transcription Factor Binding Sites

  12. No Access

    Book Protocol

    Pages 137-157

    Identifying Specific Protein–DNA Interactions Using SILAC-Based Quantitative Proteomics

  13. No Access

    Book Protocol

    Pages 159-167

    Electrophoretic Mobility-Shift and Super-Shift Assays for Studies and Characterization of Protein–DNA Complexes

  14. No Access

    Book Protocol

    Pages 169-181

    Combination of Native and Denaturing PAGE for the Detection of Protein Binding Regions in Long Fragments of Genomic DNA

  15. No Access

    Book Protocol

    Pages 183-192

    Quantitative NanoProteomics Approach for Protein Complex (QNanoPX) Using Gold Nanoparticle-Based DNA Probe

  16. No Access

    Book Protocol

    Pages 193-202

    Chromatin Assembly and In Vitro Transcription Analyses for Evaluation of Individual Protein Activities in Multicomponent Transcriptional Complexes

  17. No Access

    Book Protocol

    Pages 203-215

    Using FRET to Monitor Protein-Induced DNA Bending: The TBP-TATA Complex as a Model System

  18. No Access

    Book Protocol

    Pages 217-227

    Promoter Independent Abortive Transcription Assays Unravel Functional Interactions Between TFIIB and RNA Polymerase

  19. No Access

    Book Protocol

    Pages 229-241

    Fluorescence Cross-correlation Spectroscopy (FCCS) to Observe Dimerization of Transcription Factors in Living Cells

  20. No Access

    Book Protocol

    Pages 243-248

    Nuclear Recruitment Assay as a Tool to Validate Transcription Factor Interactions in Mammalian Cells

  21. No Access

    Book Protocol

    Pages 249-258

    Preparation of Cell Lines for Single-Cell Analysis of Transcriptional Activation Dynamics

previous Page of 2