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Sample GSM1581946 Query DataSets for GSM1581946
Status Public on Jun 22, 2016
Title HepG2 control detection of p53 binding sites
Sample type SRA
Source name Human liver carcinoma cell line
Organism Homo sapiens
Characteristics cell line: HepG2
transduction: Control
antibody: p53 FL-393 antibody
antibody vendor: Santa Cruz Biotechnology
antibody catalog number: sc-6243
Treatment protocol The cells were transduced with HBx-expressing or control adenovirus, treated with UVC (254nm) irradiation 48 h post-transduction and harvested 24 h after UV irradiation
Growth protocol HepG2 cells were cultured in Dulbecco’s modified Eagle’s medium (DMEM) containing 10% foetal calf serum.
Extracted molecule genomic DNA
Extraction protocol Lysates were clarified from sonicated nuclei and p53-DNA complexes were isolated with p53 antibody.
Libraries were prepared according to Illumina's instructions accompanying the DNA Sample Kit.
Library strategy ChIP-Seq
Library source genomic
Library selection ChIP
Instrument model Illumina Genome Analyzer
Data processing Alignment to human genome through BWA
SAM to BAM conversion using samtools
Peak-calling using MACS (version 2.0.9)
Genome_build: GRCh37/hg19
Supplementary_files_format_and_content: peaks.bed
Submission date Jan 12, 2015
Last update date May 15, 2019
Contact name Thomas Thurnherr
Organization name NCCS
Street address 11 Hospital Drive
City Singapore
ZIP/Postal code 169610
Country Singapore
Platform ID GPL9052
Series (2)
GSE64877 Global re-wiring of p53 transcription regulation by the hepatitis B virus X (HBx) protein [ChIP-Seq]
GSE64878 Global re-wiring of p53 transcription regulation by the hepatitis B virus X (HBx) protein
BioSample SAMN03281205
SRA SRX838191

Supplementary file Size Download File type/resource
GSM1581946_HepG2-control_peaks.bed.gz 173.4 Kb (ftp)(http) BED
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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