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Sample GSM1845161 Query DataSets for GSM1845161
Status Public on Jun 12, 2016
Title DMSO_BRD4_ChIP2
Sample type SRA
 
Source name MV4;11_DMSO_ChIP
Organism Homo sapiens
Characteristics tissue: peripheral blood
cell line: MV4;11
cell type: Mixed lineage leukemia (MLL) fusion protein (FP) leukemia cell line
treatment: 0.1% DMSO
chip antibody: anti-BRD4 (E2A7X, cell signalling, lot 1)
Treatment protocol Cell lines were grown in 0.1% DMSO, 500nM of I-BET151 and/or 5uM of SGC0946
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 immunoprecipitated with antibody
ThruPLEXTM-FD Prep Kit protocol (Rubicon Genomics)
 
Library strategy ChIP-Seq
Library source genomic
Library selection ChIP
Instrument model Illumina HiSeq 2000
 
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 Aug 06, 2015
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 GPL11154
Series (2)
GSE71779 ChIPSeq of MV4;11 cell treated with SGC0946 for 8 hours and washout
GSE71780 Functional interdependency of BRD4 and DOT1L in MLL leukaemia
Relations
SRA SRX1134763
BioSample SAMN03979600

Supplementary file Size Download File type/resource
GSM1845161_DMSOwBRD4_peaks.bed.gz 742.7 Kb (ftp)(http) BED
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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