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Series GSE47843 Query DataSets for GSE47843
Status Public on Jul 08, 2014
Title Sequencing and genome-wide mapping of 146 bp mono-nucleosomal DNA from human and bovine sperm
Organisms Homo sapiens; Bos taurus
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary The phenomenon of nucleosome retention in mammalian sperm chromatin is still not clarified yet. The goal of our study was to characterize the binding sites of sperm nucleosomes in the human and bovine genomes, and through this, to clarify whether nucleosome retention in sperm underlies rules of great generality and has a biological function. Comparing two mammalian systems we found that nucleosomes remain mainly in centromeres and in non-coding intergenic and intron regions. In contrast, coding DNA, promoter regions and transcription start and end sites, especially in homeobox genes and in the majority of genes with relevance for organ development and morphogenesis, were nucleosome-free.
Overall design 146 bp mono-nucleosomal DNA was isolated and purified from sperm samples of two fertile bulls (bos taurus), one fertile man and a pool of four fertile donors; each DNA sample was deep sequenced using Illumina GAIIx and genome-wide mapped on respective genome; nucleosome-binding sites were analyzed in a genome-wide comparative manner.
Contributor(s) Schagdarsurengin U, Samans B
Citation(s) 24998597
Submission date Jun 11, 2013
Last update date May 15, 2019
Contact name Birgit Samans
Organization name University of Giessen
Street address Heinrich-Buff-Ring 26-28
City Giessen
ZIP/Postal code 35392
Country Germany
Platforms (2)
GPL10999 Illumina Genome Analyzer IIx (Homo sapiens)
GPL15750 Illumina Genome Analyzer IIx (Bos taurus)
Samples (4)
GSM1160359 s_1_1_human
GSM1160360 s_1_1_bovine
GSM1160361 s_5_1_bovine
BioProject PRJNA208076
SRA SRP025289

Download family Format
SOFT formatted family file(s) SOFTHelp
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Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE47843_RAW.tar 2.1 Mb (http)(custom) TAR (of BED)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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