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Sample GSM525266 Query DataSets for GSM525266
Status Public on Mar 30, 2010
Title SRS009478.1_p300_T0.fq
Sample type SRA
 
Source name Human glioblastoma T98G cells
Organism Homo sapiens
Characteristics time after stimulation: T0 (minutes)
cell line: T98G
antibody: p300
Treatment protocol stimulation with serum (20%) and Tetradecanoyl phorbol acetate (TPA 100 ng/ml; Sigma)
Growth protocol Human glioblastoma T98G cells were maintained in Dulbecco's modified Eagle's medium (DMEM) supplemented with 10% fetal bovine serum (FBS), penicillin (100 ug/ml), and streptomycin (100 ug/ml). Then serum starved for 2-3 days (DMEM supplemented with 0.1% FBS).
Extracted molecule genomic DNA
Extraction protocol Chromatin was prepared and ChIPs were carried out as previously described, including fragmentation by sonication (Denissov et al. 2007) (fragment size around 500 bp). For ChIP-seq all samples were prepared with Illumina's DNA sampleprep Kit (FC-102-1001) according to the manufacturer's protocol. Single ends of each sample were then sequenced on a single lane of the Illumina Genome Analyzer for 36 cycles.
 
Library strategy ChIP-Seq
Library source genomic
Library selection ChIP
Instrument model Illumina Genome Analyzer
 
Description Chromatin IP against p300
Data processing Alignment (also enrichment): We ran the Illumina GAPipeline, ran GAPSS (www.lgtc.nl/GAPSS to remove first bps, aligned with Rmap to human NCBI build 36, and construct UCSC wiggle files) and to make wiggle file size manageable and reduce background base pairs with only a single tag aligning were not reported.
 
Submission date Mar 23, 2010
Last update date May 15, 2019
Contact name Peter A.C. 't Hoen
E-mail(s) p.a.c.hoen@lumc.nl
Phone +31 71 5269421
Fax +31 71 5268285
URL http://www.humgen.nl
Organization name Leiden University Medical Center
Department Center for Human and Clinical Genetics
Street address PO Box 9600
City Leiden
ZIP/Postal code 2300 RC
Country Netherlands
 
Platform ID GPL9052
Series (1)
GSE21026 Genome-wide assessment of differential roles for p300 and CBP in transcription regulation
Relations
SRA SRX018278
BioSample SAMN00010214

Supplementary file Size Download File type/resource
GSM525266_p300_T0.wig.gz 26.5 Mb (ftp)(http) WIG
SRA Run SelectorHelp
Processed data provided as supplementary file
Raw data are available in SRA

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