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Sample GSM1555174 Query DataSets for GSM1555174
Status Public on Sep 15, 2015
Title 600 Resistant 5.3S line BRD3 ChIP
Sample type SRA
 
Source name 600 Resistant 5.3S line
Organism Mus musculus
Characteristics strain: C57BL/6
tissue: haematopoietic progenitors
cell line: 5.3S
cultured in: 600nM I-BET151
phenotype: BET inhibitor resistant
chip antibody: anti-BRD3
chip antibody vendor: Bethyl Labs
chip antibody cat. #: A302-368A
chip antibody lot #: A302-368A-1
Treatment protocol Cell lines were grown in 0.1% DMSO or 600nM of I-BET151
Growth protocol Cell lines were grown in RPMI-1640 supplemented with murine IL-3 (10 ng/mL), 20% fetal calf serum, penicillin (100 units/mL), streptomycin (100 ug/mL), amphotericin B (250ng/mL) and gentamycin (50 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
 
Description 600-5-3S-BRD3
Data processing Illumina Casava1.8.2 software was used for basecalling.
Reads were aligned to the mm10 mouse genome using bwa 0.6.2-r126
Peak-calling was performed using MACS2
Genome_build: mm10
Supplementary_files_format_and_content: bed files from MACS2 for each sample
 
Submission date Nov 26, 2014
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 GPL13112
Series (2)
GSE63682 ChIP of BET proteins in iBET resistance [ChIP-seq]
GSE63683 iBET resistance
Relations
SRA SRX747325
BioSample SAMN03145738

Supplementary file Size Download File type/resource
GSM1555174_600BRD3peaks.bed.gz 5.6 Kb (ftp)(http) BED
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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