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Sample GSM2561538 Query DataSets for GSM2561538
Status Public on Jul 13, 2017
Title JQ1-PA click-seq Rep 2
Sample type SRA
 
Source name MV4;11 cell line
Organism Homo sapiens
Characteristics tissue: peripheral blood
cell line: MV4;11
clickable molecule: JQ1–PA
Growth protocol Cell lines were grown in RPMI-1640 supplemented with 20% fetal calf serum, penicillin (100 units/mL) and streptomycin (100 ug/mL)
Extracted molecule genomic DNA
Extraction protocol Lysate were isolated from formaldehybe cross-linked cells and sonicated to release the chromatin, then chem-precipitation was performed with pre-clicked JQ1 biotin conjugated beads
ThruPLEXTM-FD Prep Kit protocol (Rubicon Genomics)
 
Library strategy ChIP-Seq
Library source genomic
Library selection ChIP
Instrument model Illumina NextSeq 500
 
Data processing Illumina Casava1.8.2 software was used for basecalling.
Reads were aligned to the human genome (G1k V37) using bwa 0.6.2-r126
Peak-calling was performed using MACS2
Genome_build: hg19
Supplementary_files_format_and_content: bed files from MACS2 for each sample
 
Submission date Apr 03, 2017
Last update date May 15, 2019
Contact name Mark Dawson
E-mail(s) mark.dawson@petermac.org
Organization name Peter MacCallum Cancer Centre
Street address 305 Grattan Street
City Melbourne
State/province VIC
ZIP/Postal code 3000
Country Australia
 
Platform ID GPL18573
Series (2)
GSE88748 Click chemistry enables comprehensive preclinical evaluation of targeted epigenetic therapies [Click-Seq 1]
GSE88751 Click chemistry enables comprehensive preclinical evaluation of targeted epigenetic therapies
Relations
BioSample SAMN06675651
SRA SRX2700460

Supplementary file Size Download File type/resource
GSM2561538_JQ1PA-2_peaks.bed.gz 1.2 Mb (ftp)(http) BED
SRA Run SelectorHelp
Processed data provided as supplementary file
Raw data are available in SRA

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