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Sample GSM1557057 Query DataSets for GSM1557057
Status Public on Sep 08, 2015
Title JQ1_H3K27me3
Sample type SRA
 
Source name Cell line
Organism Mus musculus
Characteristics treatment: 3d JQ1 25 nM
diagnosis: Leukemia
Extracted molecule genomic DNA
Extraction protocol Lysates were clarified from sonicated nuclei and histone-DNA complexes were isolated with antibody.
ChIP-seq libraries were prepared for sequencing using standard Illumina protocols
 
Library strategy ChIP-Seq
Library source genomic
Library selection ChIP
Instrument model Illumina HiSeq 2000
 
Description Sample 24
processed_data file: mouse_JQ1_H3K27me3.bw
Data processing Adaptors of the single-read fragments were removed using cutadapt v1.4.25 and reads with a length of less than 18bp in any read of the pair were discarded.
The remaining reads were aligned to the genome (mouse: mm10) using Bowtie v1.0.0.
Reads with same start and end position on the same strand were removed from the alignment.
Remaining reads were normalized to total mapped reads.
genome build: mm10
processed data files format and content: bigWig files were generated for each individual IP.
 
Submission date Dec 02, 2014
Last update date May 15, 2019
Contact name Philipp Rathert
E-mail(s) philipp.rathert@ibtb.uni-stuttgart.de
Organization name University Stuttgart
Department Biochemistry
Street address Allmandring 31
City Stuttgart
State/province Germany
ZIP/Postal code 70569
Country Germany
 
Platform ID GPL13112
Series (1)
GSE63782 Transcriptional plasticity promotes primary and acquired resistance to BET bromodomain inhibition
Relations
BioSample SAMN03248180
SRA SRX793196

Supplementary file Size Download File type/resource
GSM1557057_mouse_JQ1_H3K27me3.bw 280.1 Mb (ftp)(http) BW
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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