Analysis of distant communication on defined chromatin templates in vitro.
Regulation of many biological processes in eukaryotes involves distant communication between the regulatory DNA sequences (e.g., enhancers) and their targets over the DNA regions organized in chromatin. However previously developed methods for analysis of communication in chromatin in vitro are artifact-prone and/or do not allow analysis of communication on physiologically relevant, saturated arrays of nucleosomes. Here we describe a method for quantitative analysis of the rate of distant communication in cis on saturated arrays of nucleosomes capable of forming the 30-nm chromatin fibers in vitro.
Polikanov
Yury S
YS
Department of Pharmacology, UMDNJ-Robert Wood Johnson Medical School, 675 Hoes Lane, Piscataway, NJ 08854, USA.
Studitsky
Vasily M
VM
D000818:Animals; D002021:Buffers; D002645:Chickens; D002843:Chromatin / Q000378:metabolism*; D042002:Chromatin Assembly and Disassembly; D004247:DNA / Q000302:isolation & purification; D017931:DNA Primers / Q000378:metabolism; D004262:DNA Restriction Enzymes / Q000378:metabolism; D004586:Electrophoresis; D004742:Enhancer Elements, Genetic / Q000235:genetics; D007202:Indicators and Reagents; D008967:Molecular Biology / Q000379:methods*; D009707:Nucleosomes / Q000378:metabolism; D011401:Promoter Regions, Genetic / Q000235:genetics; D012313:RNA / Q000302:isolation & purification; D013698:Templates, Genetic; D014158:Transcription, Genetic
D002021:Buffers; D002843:Chromatin; D017931:DNA Primers; D007202:Indicators and Reagents; D009707:Nucleosomes; D012313:RNA; D004247:DNA; D004262:DNA Restriction Enzymes