Chromatin and chromatin remodeling enzymes. Part B /

Other Authors: Allis, C. David, Wu, Carl.
Format: Book
Language: English
Published: San Diego : Elsevier/ Academic Press, 2004
Series: Methods in Enzymology, v. 376
Online Access: Get full text
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Table of Contents:
  • 1. Fluorescence anisotrophy assays for analysis of ISWI-DNA and ISWI-nucleosome interactions
  • 2. Biophysical analysis of specific genomic loci assembled as chromatin in vivo
  • 3. Visualization and 3D structure determination of defined sequence chromatin and chromatin remodeling complexes
  • 4. Electron microscopic analysis of the RSC chromatin remodeling complex
  • 5. Use of optical trapping techniques to study single-nucleosome dynamics
  • 6. Single-molecule analysis of chromatin
  • 7. Biochemical and structural characterization of recombinant histone acetyltransferase proteins
  • 8. Use of nuclear magnetic resonance spectroscopy to study structure-function of bromodomains
  • 9. Assays for the determination of structure and dynamics of the interaction of the chromodomain with histone peptides
  • 10. Expression, purification, and biophysical studies of chromodomain proteins
  • 11. Quantitative assays for characterization of the Sir2 family of NAD+-dependent deacetylases
  • 12. Selective HAT inhibitors as mechanistic tools for protein acetylation
  • 13. Histone deacetylase inhibitors: assays to assess effectiveness in vitro and in vivo
  • 14. Immunochemical analysis of chromatin
  • 15. Generation and characterization of antibodies directed against di-modified histones, and comments on antibody and epitope recognition
  • 16. Generation and characterization of methyl-lysine histone antibodies
  • 17. Tips in analyzing antibodies directed against specific histone tail modifications
  • 18. Histone methylation: recognizing the methyl mark
  • 19. Analysis of genome-wide histone acetylation state and enzyme binding using dna microarrays
  • 20. Use of chromatin immunoprecipitation assays in genome-wide location analysis of mammalian transcription factors
  • 21. High-throughput screening of chromatin immunoprecipitates using CpG-island microarrays
  • 22. Chromatin immunoprecipitate in the analysis of large chromatin domains across murine antigen receptor loci
  • 23. The use of chromatin immunoprecipitation assays in genome-wide analyses of histone modifications
  • 24. Sequential chromatin immunoprecipitation from animal tissues
  • 25. Immunofluorescent staining of polytene chromosomes: exploiting genetic tools
  • 26. Indirect immunofluorescent labeling of Drosophila polytene chromosomes: visualizing protein interactions with chromatin in vivo
  • 27. X-chromosome inactivation in mouse embryonic stem cells: analysis of histone modifications and transcriptional activity using immunofluorescence and FISH
  • 28. X inactivation in mouse ES cells: histone modifications and FISH.