Genome-Wide Analysis of Nucleosome Positions, Occupancy, and Accessibility in Yeast: Nucleosome Mapping, High-Resolution Histone ChIP, and NCAM.

Publication Type:

Journal Article

Source:

Current protocols in molecular biology / edited by Frederick M. Ausubel ... [et al.], Volume 108, p.21.28.1-21.28.16 (2014)

Keywords:

2014, Basic Sciences Division, Center-Authored Paper, Genomics Core Facility

Abstract:

Because histones bind DNA very tightly, the location on DNA and the level of occupancy of a given DNA sequence by nucleosomes can profoundly affect accessibility of non-histone proteins to chromatin, affecting virtually all DNA-dependent processes, such as transcription, DNA repair, DNA replication and recombination. Therefore, it is often necessary to determine positions and occupancy of nucleosomes to understand how DNA-dependent processes are regulated. Recent technological advances made such analyses feasible on a genome-wide scale at high resolution. In addition, we have recently developed a method to measure nuclease accessibility of nucleosomes on a global scale. This unit describes methods to map nucleosome positions, to determine nucleosome density, and to determine nuclease accessibility of nucleosomes using deep sequencing. Curr. Protoc. Mol. Biol. 108:21.28.1-21.28.16. © 2014 by John Wiley & Sons, Inc.