Zhang 2009, In-vitro assembled nucleosomes on fragmented yeast genome.
Nucleosome from Drosophila embryos were purified using salt
in-vitro assembled with sonicated yeast genome alone
(salt dialysis sample) or with the help on the ACF assembly
factor (ACF sample). The resulting chromatin was digested with
micrococcal nuclease to release core particles and
sequenced. The control sample derive from sonicated genome.
- Raw data was downloaded from GEO: GSE15188
- Input file format: SRA
- Download date: 29-03-2016
From Yeast Apr 2011 (NCBI3.1/sacCer3) Assembly.
FASTQ files were extracted from SRA files using fastq-dump
v2.5.0) and mapped to the genome
files were then converted into bam
and to bed using bamToBed v2.12.0
conversion was carried out using bed2sga.pl
Zhang Y, Moqtaderi Z, Rattner BP, Euskirchen G, Snyder M, Kadonaga JT, Liu XS, Struhl K
Intrinsic histone-DNA interactions are not the major determinant of nucleosome positions in vivo.
Nat Struct Mol Biol. 2009 Aug;16(8):847-52. doi: 10.1038/nsmb.1636. Epub 2009 Jul 20.
Intrinsic histone-DNA interactions are not the major determinant of nucleosome positions in vivo